Citrus Sinensis ID: 003295

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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---
Protein Sequence
MDLRRLSIPKPCSLSIAVSRPLTHVTSTAQQQQELHNRNQQQQPPPPQSSNQSLLKWVSSVLSKQSLDPSKCKLFLPNLSPQEFDTLFFSIRSNVNPKTALKFFYFASQSCNFRFTVRSYCLLIRLLLFSNLLSPARLLLIRLIDGKMPVLYASNPSIRHIEIASQMVDLNVTSEPALGVQIADLLVHVYCTQFKNLGFGYAIDVFSIFSSKGIFPSLKTCNFLLNSLVKANEVQKGIEVFETMCRGVSPDVFLFSTAINAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIHGLCRNGRLYEAFHLKEKMVLREVEPSLITYSILINGLIKLEKFDDANFVLKEMSVRGFVPNYVVYNTLIDGYCKKGNISEALKIRDDMVSKGMSPNSVTFNSLIHGFCKSGQMDNAENALEEMLSRGLSINQGAYTSVIKWLCINSRFNSALHFTKEMLLRNLRPGDGLLTLLVSGLCKNGKQAEATELCFRLFEKGFTVNTVTSNALIHGMCEAGNLKEAGKLLMEMLQRGLILDKVTYNTLILGCCKDGKPEEGFKLKEDMIKRGIQPDNYTYNLLLHGLCSLGKMEEAIELWEECKRTVFGPDIYTYGVMIDGFCKADKIEEGETLFNEMISKKMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISPDSITYNVFMDGHCKGGNVEEAFKVCDRMLSEGLSLDEITYTTLIDGWQSSTITNQDNH
Secondary Structure (PSIPRED)
cccccccccccccccccccccccccccccHHHHHHcccccccccccccccHHHHHHHHHHHccccccccHHHHcccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHccccHHHHHHHHHHHccccccccccHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHcccccccccHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHccccccccHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHccccccccc
Secondary Structure Prediction (SSPRO)
cccHHcccccccccccccccccccccHHHHHHHHHHHcccccccccccccHHHHHHHHHHHccHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHcccHHHHHHHHccccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHcccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHcccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEHHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEHHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEHHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEHHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHcccccccEHHHHHHHHHHHcccHHHHHHHHHHHHHccccccEHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHcc
Coil and Loop (DISEMBL)
mdlrrlsipkpcslsiavsrplthvtsTAQQQQELHnrnqqqqppppqssnqslLKWVSSVLskqsldpskcklflpnlspqefDTLFFSIRSNVNPKTALKFFYFAsqscnfrfTVRSYCLLIRLLLFSNLLSPARLLLIRLIdgkmpvlyasnpsirHIEIASQMvdlnvtsepalgVQIADLLVHVYCTQFKNLGFGYAIDVFSifsskgifpslkTCNFLLNSLVKANEVQKGIEVFETMcrgvspdvfLFSTAINAFCKRGRIEDAIGLFTKMeelgiapnvvtynniihglcrngrlyeafhlKEKMVLREVEPSLITYSILINGLIklekfddanfvlkemsvrgfvpnYVVYNTLIDGyckkgnisEALKIRDdmvskgmspnsvtfnSLIHgfcksgqmdNAENALEEMLSRglsinqgaYTSVIKWLCINSRFNSALHFTKEMLLrnlrpgdgLLTLLVSGLCKNGKQAEATELCFRLFEKGFTVNTVTSNALIHGMCEAGNLKEAGKLLMEMLQRGLILDKVTYNTLILgcckdgkpeegfKLKEDMIkrgiqpdnytYNLLLHGLCSLGKMEEAIELWEECKrtvfgpdiytyGVMIDGFCKADKIEEGETLFNEMISKKMELNPVVYNTLIRAYCKIGnttaafrlsndmksrgilptsvtySSLIHGLCNIGLIEDAKCLFDEMrkegllpnvaCYTALIGGYCKLGQMDEAESVLQEMASinihpnkiTYTIMIGGYCKLGDMKEAAKLLNVMAekgispdsitynvfmdghckggnveEAFKVCDRMLseglsldeiTYTTLIdgwqsstitnqdnh
Flexible Loop (DISEMBL)
mdlrrlsipkpcslsiavsrplTHVTSTAQQQQELHNRNQQQQPPPPQSSNQSLLKWVSSVLSKQSLDPSKCKLFLPNLSPQEFDTLFFSIRSNVNPKTALKFFYFASQSCNFRFTVRSYCLLIRLLLFSNLLSPARLLLIRLIDGKMPVLYASNPSIRHIEIASQMVDLNVTSEPALGVQIADLLVHVYCTQFKNLGFGYAIDVFSIFSSKGIFPSLKTCNFLLNSLVKANEVQKGIEVFETMCRGVSPDVFLFSTAINAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIHGLCRNGRLYEAFHLKEKMVLREVEPSLITYSILINGLIKLEKFDDANFVLKEMSVRGFVPNYVVYNTLIDGYCKKGNISEALKIRDDMVSKGMSPNSVTFNSLIHGFCKSGQMDNAENALEEMLSRGLSINQGAYTSVIKWLCINSRFNSALHFTKEMLLRNLRPGDGLLTLLVSGLCKNGKQAEATELCFRLFEKGFTVNTVTSNALIHGMCEAGNLKEAGKLLMEMLQRGLILDKVTYNTLILGCCKDGKPEEGFKLKEDMIKRGIQPDNYTYNLLLHGLCSLGKMEEAIELWEECKRTVFGPDIYTYGVMIDGFCKADKIEEGETLFNEMISKKMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISPDSITYNVFMDGHCKGGNVEEAFKVCDRMLSEGLSLDEITYTtlidgwqsstitnqdnh
Low Complexity Region (SEG)
MDLRRLSIPKPCSLSIAVSRPLTHVTSTAqqqqelhnrnqqqqppppqssnqsllkwvssvlskqslDPSKCKLFLPNLSPQEFDTLFFSIRSNVNPKTALKFFYFASQSCNFRFTVRSYCllirlllfsnllsparlllirliDGKMPVLYASNPSIRHIEIASQMVDLNVTSEPALGVQIADLLVHVYCTQFKNLGFGYAIDVFSIFSSKGIFPSLKTCNFLLNSLVKANEVQKGIEVFETMCRGVSPDVFLFSTAINAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIHGLCRNGRLYEAFHLKEKMVLREVEPSLITYSILINGLIKLEKFDDANFVLKEMSVRGFVPNYVVYNTLIDGYCKKGNISEALKIRDDMVSKGMSPNSVTFNSLIHGFCKSGQMDNAENALEEMLSRGLSINQGAYTSVIKWLCINSRFNSALHFTKEMLLRNLRPGDGLLTLLVSGLCKNGKQAEATELCFRLFEKGFTVNTVTSNALIHGMCEAGNLKEAGKLLMEMLQRGLILDKVTYNTLILGCCKDGKPEEGFKLKEDMIKRGIQPDNYTYNLLLHGLCSLGKMEEAIELWEECKRTVFGPDIYTYGVMIDGFCKADKIEEGETLFNEMISKKMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISPDSITYNVFMDGHCKGGNVEEAFKVCDRMLSEGLSLDEITYTTLIDGWQSSTITNQDNH
Disordered region (IsUnstruct)
********************************************************WVS*V*********KCKLFLPNLSPQEFDTLFFSIRSNVNPKTALKFFYFASQSCNFRFTVRSYCLLIRLLLFSNLLSPARLLLIRLIDGKMPVLYASNPSIRHIEIASQMVDLNVTSEPALGVQIADLLVHVYCTQFKNLGFGYAIDVFSIFSSKGIFPSLKTCNFLLNSLVKANEVQKGIEVFETMCRGVSPDVFLFSTAINAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIHGLCRNGRLYEAFHLKEKMVLREVEPSLITYSILINGLIKLEKFDDANFVLKEMSVRGFVPNYVVYNTLIDGYCKKGNISEALKIRDDMV*******SVTFNSLIHGFCKSG********LEEMLSRGLSINQGAYTSVIKWLCINSRFNSALHFTKEMLLRNLRPGDGLLTLLVSGLCKNGKQAEATELCFRLFEKGFTVNTVTSNALIHGMCEAGNLKEAGKLLMEMLQRGLILDKVTYNTLILGCCKDGKPEEGFKLKEDMIKRGIQPDNYTYNLLLHGLCSLGKMEEAIELWEECKRTVFGPDIYTYGVMIDGFCKADKIEEGETLFNEMISKKMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISPDSITYNVFMDGHCKGGNVEEAFKVCDRMLSEGLSLDEITYTTLIDGWQ**********
Disordered Region (DISOPRED)
*****************************************************LLKWVSSVL****************LSPQEFDTLFFSIRSNVNPKTALKFFYFASQSCNFRFTVRSYCLLIRLLLFSNLLSPARLLLIRLIDGKMPVLYASNPSIRHIEIASQMVDLNVTSEPALGVQIADLLVHVYCTQFKNLGFGYAIDVFSIFSSKGIFPSLKTCNFLLNSLVKANEVQKGIEVFETMCRGVSPDVFLFSTAINAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIHGLCRNGRLYEAFHLKEKMVLREVEPSLITYSILINGLIKLEKFDDANFVLKEMSVRGFVPNYVVYNTLIDGYCKKGNISEALKIRDDMVSKGMSPNSVTFNSLIHGFCKSGQMDNAENALEEMLSRGLSINQGAYTSVIKWLCINSRFNSALHFTKEMLLRNLRPGDGLLTLLVSGLCKNGKQAEATELCFRLFEKGFTVNTVTSNALIHGMCEAGNLKEAGKLLMEMLQRGLILDKVTYNTLILGCCKDGKPEEGFKLKEDMIKRGIQPDNYTYNLLLHGLCSLGKMEEAIELWEECKRTVFGPDIYTYGVMIDGFCKADKIEEGETLFNEMISKKMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISPDSITYNVFMDGHCKGGNVEEAFKVCDRMLSEGLSLDEITYTTLIDGWQSSTITNQDNH
Disordered Region (DISEMBL)
MDLRRLSIPKPCSLSIAVSRPL*******************************LLKWVSSVLSKQSLDPSKCKLFLPNLSPQEFDTLFFSIRSNVNPKTALKFFYFASQSCNFRFTVRSYCLLIRLLLFSNLLSPARLLLIRLIDGKMPVLYASNPSIRHIEIASQMVDLNVTSEPALGVQIADLLVHVYCTQFKNLGFGYAIDVFSIFSSKGIFPSLKTCNFLLNSLVKANEVQKGIEVFETMCRGVSPDVFLFSTAINAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIHGLCRNGRLYEAFHLKEKMVLREVEPSLITYSILINGLIKLEKFDDANFVLKEMSVRGFVPNYVVYNTLIDGYCKKGNISEALKIRDDMVSKGMSPNSVTFNSLIHGFCKSGQMDNAENALEEMLSRGLSINQGAYTSVIKWLCINSRFNSALHFTKEMLLRNLRPGDGLLTLLVSGLCKNGKQAEATELCFRLFEKGFTVNTVTSNALIHGMCEAGNLKEAGKLLMEMLQRGLILDKVTYNTLILGCCKDGKPEEGFKLKEDMIKRGIQPDNYTYNLLLHGLCSLGKMEEAIELWEECKRTVFGPDIYTYGVMIDGFCKADKIEEGETLFNEMISKKMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISPDSITYNVFMDGHCKGGNVEEAFKVCDRMLSEGLSLDEITYTTLIDGWQSS********
Disordered Region (DISPRO)
*****LSIPKPCSLSIAVSRPLTHVTSTAQQQQELHNRNQQQQPPPPQSSNQSLLKWVSSVLSKQSLDPSKCKLFLPNLSPQEFDTLFFSIRSNVNPKTALKFFYFASQSCNFRFTVRSYCLLIRLLLFSNLLSPARLLLIRLIDGKMPVLYASNPSIRHIEIASQMVDLNVTSEPALGVQIADLLVHVYCTQFKNLGFGYAIDVFSIFSSKGIFPSLKTCNFLLNSLVKANEVQKGIEVFETMCRGVSPDVFLFSTAINAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIHGLCRNGRLYEAFHLKEKMVLREVEPSLITYSILINGLIKLEKFDDANFVLKEMSVRGFVPNYVVYNTLIDGYCKKGNISEALKIRDDMVSKGMSPNSVTFNSLIHGFCKSGQMDNAENALEEMLSRGLSINQGAYTSVIKWLCINSRFNSALHFTKEMLLRNLRPGDGLLTLLVSGLCKNGKQAEATELCFRLFEKGFTVNTVTSNALIHGMCEAGNLKEAGKLLMEMLQRGLILDKVTYNTLILGCCKDGKPEEGFKLKEDMIKRGIQPDNYTYNLLLHGLCSLGKMEEAIELWEECKRTVFGPDIYTYGVMIDGFCKADKIEEGETLFNEMISKKMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISPDSITYNVFMDGHCKGGNVEEAFKVCDRMLSEGLSLDEITYTTLIDGWQSSTIT*****
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MDLRRLSIPKPCSLSIAVSRPLTHVTSTAQQQQELHNRNQQQQPPPPQSSNQSLLKWVSSVLSKQSLDPSKCKLFLPNLSPQEFDTLFFSIRSNVNPKTALKFFYFASQSCNFRFTVRSYCLLIRLLLFSNLLSPARLLLIRLIDGKMPVLYASNPSIRHIEIASQMVDLNVTSEPALGVQIADLLVHVYCTQFKNLGFGYAIDVFSIFSSKGIFPSLKTCNFLLNSLVKANEVQKGIEVFETMCRGVSPDVFLFSTAINAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIHGLCRNGRLYEAFHLKEKMVLREVEPSLITYSILINGLIKLEKFDDANFVLKEMSVRGFVPNYVVYNTLIDGYCKKGNISEALKIRDDMVSKGMSPNSVTFNSLIHGFCKSGQMDNAENALEEMLSRGLSINQGAYTSVIKWLCINSRFNSALHFTKEMLLRNLRPGDGLLTLLVSGLCKNGKQAEATELCFRLFEKGFTVNTVTSNALIHGMCEAGNLKEAGKLLMEMLQRGLILDKVTYNTLILGCCKDGKPEEGFKLKEDMIKRGIQPDNYTYNLLLHGLCSLGKMEEAIELWEECKRTVFGPDIYTYGVMIDGFCKADKIEEGETLFNEMISKKMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISPDSITYNVFMDGHCKGGNVEEAFKVCDRMLSEGLSLDEITYTTLIDGWQSSTITNQDNH
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	833	2.2.26 [Sep-21-2011]
Q940A6	838	Pentatricopeptide repeat-	yes	no	0.966	0.960	0.541	0.0
Q9FJE6	907	Putative pentatricopeptid	no	no	0.852	0.782	0.309	4e-94
Q9LVQ5	1096	Pentatricopeptide repeat-	no	no	0.848	0.645	0.297	2e-92
Q9LSL9	915	Pentatricopeptide repeat-	no	no	0.918	0.836	0.273	1e-87
Q9FIX3	747	Pentatricopeptide repeat-	no	no	0.834	0.930	0.291	2e-87
Q6NQ83	619	Pentatricopeptide repeat-	no	no	0.651	0.877	0.321	3e-85
Q0WKV3	637	Pentatricopeptide repeat-	no	no	0.661	0.864	0.319	1e-83
Q9FIT7	974	Pentatricopeptide repeat-	no	no	0.752	0.643	0.283	2e-82
Q9SXD1	630	Pentatricopeptide repeat-	no	no	0.641	0.847	0.315	3e-82
Q9ASZ8	621	Pentatricopeptide repeat-	no	no	0.661	0.887	0.309	5e-82

>sp|Q940A6|PP325_ARATH Pentatricopeptide repeat-containing protein At4g19440, chloroplastic OS=Arabidopsis thaliana GN=At4g19440 PE=2 SV=2

 Score =  859 bits (2219), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 447/826 (54%), Positives = 587/826 (71%), Gaps = 21/826 (2%)

Query: 1   MDLRRLSIPKPCSLS----IAVSRPLTHVTSTAQQQQELHNRNQQQQPPPPQSSNQSLLK 56
           MDLRRLS            IA SR   H +   QQ   +H  ++ ++     SS++ L +
Sbjct: 25  MDLRRLSRASYLFTRRLKFIAKSRKCFHTSRYLQQC--VHRPDKSEE----TSSDRHLHE 78

Query: 57  WVSSVLSKQSLDPSKCKLFLPNLSPQEFDTLFFSIRSNVNPKTALKFFYFASQSCNFRFT 116
            +SSVLSK+SLD  +CK  +  LSP EFD LF   RS VNPKTAL FF  AS S +F F+
Sbjct: 79  RLSSVLSKRSLDYEQCKQLITVLSPLEFDRLFPEFRSKVNPKTALDFFRLASDSFSFSFS 138

Query: 117 VRSYCLLIRLLLFSNLLSPARLLLIRLIDGKMPVLYASNPSIRHIEIASQMVDLNVTSEP 176
           +RSYCLLI LLL +NLLS AR++LIRLI+G +PVL       R + IA  M  L++  + 
Sbjct: 139 LRSYCLLIGLLLDANLLSAARVVLIRLINGNVPVLPCGLRDSR-VAIADAMASLSLCFDE 197

Query: 177 ALGVQIADLLVHVYCTQFKNLGFGYAIDVFSIFSSKGIFPSLKTCNFLLNSLVKANEVQK 236
            +  +++DLL+ VYCTQFK  G   A+DVF + ++KG+FPS  TCN LL SLV+ANE QK
Sbjct: 198 EIRRKMSDLLIEVYCTQFKRDGCYLALDVFPVLANKGMFPSKTTCNILLTSLVRANEFQK 257

Query: 237 GIEVFETMCRGVSPDVFLFSTAINAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIHG 296
             E F+ +C+GVSPDV+LF+TAINAFCK G++E+A+ LF+KMEE G+APNVVT+N +I G
Sbjct: 258 CCEAFDVVCKGVSPDVYLFTTAINAFCKGGKVEEAVKLFSKMEEAGVAPNVVTFNTVIDG 317

Query: 297 LCRNGRLYEAFHLKEKMVLREVEPSLITYSILINGLIKLEKFDDANFVLKEMSVRGFVPN 356
           L   GR  EAF  KEKMV R +EP+LITYSIL+ GL + ++  DA FVLKEM+ +GF PN
Sbjct: 318 LGMCGRYDEAFMFKEKMVERGMEPTLITYSILVKGLTRAKRIGDAYFVLKEMTKKGFPPN 377

Query: 357 YVVYNTLIDGYCKKGNISEALKIRDDMVSKGMSPNSVTFNSLIHGFCKSGQMDNAENALE 416
            +VYN LID + + G++++A++I+D MVSKG+S  S T+N+LI G+CK+GQ DNAE  L+
Sbjct: 378 VIVYNNLIDSFIEAGSLNKAIEIKDLMVSKGLSLTSSTYNTLIKGYCKNGQADNAERLLK 437

Query: 417 EMLSRGLSINQGAYTSVIKWLCINSRFNSALHFTKEMLLRNLRPGDGLLTLLVSGLCKNG 476
           EMLS G ++NQG++TSVI  LC +  F+SAL F  EMLLRN+ PG GLLT L+SGLCK+G
Sbjct: 438 EMLSIGFNVNQGSFTSVICLLCSHLMFDSALRFVGEMLLRNMSPGGGLLTTLISGLCKHG 497

Query: 477 KQAEATELCFRLFEKGFTVNTVTSNALIHGMCEAGNLKEAGKLLMEMLQRGLILDKVTYN 536
           K ++A EL F+   KGF V+T TSNAL+HG+CEAG L EA ++  E+L RG ++D+V+YN
Sbjct: 498 KHSKALELWFQFLNKGFVVDTRTSNALLHGLCEAGKLDEAFRIQKEILGRGCVMDRVSYN 557

Query: 537 TLILGCCKDGKPEEGFKLKEDMIKRGIQPDNYTYNLLLHGLCSLGKMEEAIELWEECKRT 596
           TLI GCC   K +E F   ++M+KRG++PDNYTY++L+ GL ++ K+EEAI+ W++CKR 
Sbjct: 558 TLISGCCGKKKLDEAFMFLDEMVKRGLKPDNYTYSILICGLFNMNKVEEAIQFWDDCKRN 617

Query: 597 VFGPDIYTYGVMIDGFCKADKIEEGETLFNEMISKKMELNPVVYNTLIRAYCKIGNTTAA 656
              PD+YTY VMIDG CKA++ EEG+  F+EM+SK ++ N VVYN LIRAYC+ G  + A
Sbjct: 618 GMLPDVYTYSVMIDGCCKAERTEEGQEFFDEMMSKNVQPNTVVYNHLIRAYCRSGRLSMA 677

Query: 657 FRLSNDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGG 716
             L  DMK +GI P S TY+SLI G+  I  +E+AK LF+EMR EGL PNV  YTALI G
Sbjct: 678 LELREDMKHKGISPNSATYTSLIKGMSIISRVEEAKLLFEEMRMEGLEPNVFHYTALIDG 737

Query: 717 YCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISPD 776
           Y KLGQM + E +L+EM S N+HPNKITYT+MIGGY + G++ EA++LLN M EKGI PD
Sbjct: 738 YGKLGQMVKVECLLREMHSKNVHPNKITYTVMIGGYARDGNVTEASRLLNEMREKGIVPD 797

Query: 777 SITYNVFMDGHCKGGNVEEAFKVCDRMLSEGLSLDEITYTTLIDGW 822
           SITY  F+ G+ K G V EAFK            DE  Y  +I+GW
Sbjct: 798 SITYKEFIYGYLKQGGVLEAFK----------GSDEENYAAIIEGW 833

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FJE6|PP437_ARATH Putative pentatricopeptide repeat-containing protein At5g59900 OS=Arabidopsis thaliana GN=At5g59900 PE=3 SV=1

 Score =  346 bits (888), Expect = 4e-94,   Method: Compositional matrix adjust.
 Identities = 236/763 (30%), Positives = 387/763 (50%), Gaps = 53/763 (6%)

Query: 96  NPKTALKFFYFASQSCNFRFTVRSYCLLIRLLLFSNLLSPARLLLIRLIDGKMPVLYASN 155
           +PK  L+FF F      F  +  S+C+LI  L+ +NL  PA  LL      +  +L A  
Sbjct: 83  DPKLGLRFFNFLGLHRGFDHSTASFCILIHALVKANLFWPASSLL------QTLLLRALK 136

Query: 156 PSIRHIEIASQMVDLNVTSEPALGVQIADLLVHVYCTQFKNLGFGYAIDVFSIFSSK-GI 214
           PS     + S      ++S  +      DLL+  Y    + L     + VF +  +K  +
Sbjct: 137 PSDVFNVLFSCYEKCKLSSSSSF-----DLLIQHYVRSRRVLD---GVLVFKMMITKVSL 188

Query: 215 FPSLKTCNFLLNSLVKANEVQKGIEVFETMCR-GVSPDVFLFSTAINAFCKRGRIEDAIG 273
            P ++T + LL+ LVK       +E+F  M   G+ PDV++++  I + C+   +  A  
Sbjct: 189 LPEVRTLSALLHGLVKFRHFGLAMELFNDMVSVGIRPDVYIYTGVIRSLCELKDLSRAKE 248

Query: 274 LFTKMEELGIAPNVVTYNNIIHGLCRNGRLYEAFHLKEKMVLREVEPSLITYSILINGLI 333
           +   ME  G   N+V YN +I GLC+  +++EA  +K+ +  ++++P ++TY  L+ GL 
Sbjct: 249 MIAHMEATGCDVNIVPYNVLIDGLCKKQKVWEAVGIKKDLAGKDLKPDVVTYCTLVYGLC 308

Query: 334 KLEKFD-----------------------------------DANFVLKEMSVRGFVPNYV 358
           K+++F+                                   +A  ++K +   G  PN  
Sbjct: 309 KVQEFEIGLEMMDEMLCLRFSPSEAAVSSLVEGLRKRGKIEEALNLVKRVVDFGVSPNLF 368

Query: 359 VYNTLIDGYCKKGNISEALKIRDDMVSKGMSPNSVTFNSLIHGFCKSGQMDNAENALEEM 418
           VYN LID  CK     EA  + D M   G+ PN VT++ LI  FC+ G++D A + L EM
Sbjct: 369 VYNALIDSLCKGRKFHEAELLFDRMGKIGLRPNDVTYSILIDMFCRRGKLDTALSFLGEM 428

Query: 419 LSRGLSINQGAYTSVIKWLCINSRFNSALHFTKEMLLRNLRPGDGLLTLLVSGLCKNGKQ 478
           +  GL ++   Y S+I   C     ++A  F  EM+ + L P     T L+ G C  GK 
Sbjct: 429 VDTGLKLSVYPYNSLINGHCKFGDISAAEGFMAEMINKKLEPTVVTYTSLMGGYCSKGKI 488

Query: 479 AEATELCFRLFEKGFTVNTVTSNALIHGMCEAGNLKEAGKLLMEMLQRGLILDKVTYNTL 538
            +A  L   +  KG   +  T   L+ G+  AG +++A KL  EM +  +  ++VTYN +
Sbjct: 489 NKALRLYHEMTGKGIAPSIYTFTTLLSGLFRAGLIRDAVKLFNEMAEWNVKPNRVTYNVM 548

Query: 539 ILGCCKDGKPEEGFKLKEDMIKRGIQPDNYTYNLLLHGLCSLGKMEEAIELWEECKRTVF 598
           I G C++G   + F+  ++M ++GI PD Y+Y  L+HGLC  G+  EA    +   +   
Sbjct: 549 IEGYCEEGDMSKAFEFLKEMTEKGIVPDTYSYRPLIHGLCLTGQASEAKVFVDGLHKGNC 608

Query: 599 GPDIYTYGVMIDGFCKADKIEEGETLFNEMISKKMELNPVVYNTLIRAYCKIGNTTAAFR 658
             +   Y  ++ GFC+  K+EE  ++  EM+ + ++L+ V Y  LI    K  +    F 
Sbjct: 609 ELNEICYTGLLHGFCREGKLEEALSVCQEMVQRGVDLDLVCYGVLIDGSLKHKDRKLFFG 668

Query: 659 LSNDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYC 718
           L  +M  RG+ P  V Y+S+I      G  ++A  ++D M  EG +PN   YTA+I G C
Sbjct: 669 LLKEMHDRGLKPDDVIYTSMIDAKSKTGDFKEAFGIWDLMINEGCVPNEVTYTAVINGLC 728

Query: 719 KLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLG-DMKEAAKLLNVMAEKGISPDS 777
           K G ++EAE +  +M  ++  PN++TY   +    K   DM++A +L N +  KG+  ++
Sbjct: 729 KAGFVNEAEVLCSKMQPVSSVPNQVTYGCFLDILTKGEVDMQKAVELHNAIL-KGLLANT 787

Query: 778 ITYNVFMDGHCKGGNVEEAFKVCDRMLSEGLSLDEITYTTLID 820
            TYN+ + G C+ G +EEA ++  RM+ +G+S D ITYTT+I+
Sbjct: 788 ATYNMLIRGFCRQGRIEEASELITRMIGDGVSPDCITYTTMIN 830

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LVQ5|PP432_ARATH Pentatricopeptide repeat-containing protein At5g55840 OS=Arabidopsis thaliana GN=At5g55840 PE=2 SV=2

 Score =  340 bits (873), Expect = 2e-92,   Method: Compositional matrix adjust.
 Identities = 229/771 (29%), Positives = 366/771 (47%), Gaps = 64/771 (8%)

Query: 95  VNPKTALKFFYFASQSCNFR--FTVRSYCLLIRLLLFSNLLSPARLLL--IRLIDGKMPV 150
           V+ K ALKF  +  +         V+  C+   +L+ + +  PAR +L  + L+ GK   
Sbjct: 48  VHGKLALKFLKWVVKQPGLETDHIVQLVCITTHILVRARMYDPARHILKELSLMSGKSSF 107

Query: 151 LYASNPSIRHIEIASQMVDLNVTSEPALGVQIADLLVHVYCTQFKNLGFGYAIDVFSIFS 210
           ++ +  +   +            S P+    + D+L+ VY  +      G   D   IF 
Sbjct: 108 VFGALMTTYRL----------CNSNPS----VYDILIRVYLRE------GMIQDSLEIFR 147

Query: 211 SKGIF---PSLKTCNFLLNSLVKANE-VQKGIEVFETMCRGVSPDVFLFSTAINAFCKRG 266
             G++   PS+ TCN +L S+VK+ E V     + E + R + PDV  F+  IN  C  G
Sbjct: 148 LMGLYGFNPSVYTCNAILGSVVKSGEDVSVWSFLKEMLKRKICPDVATFNILINVLCAEG 207

Query: 267 RIEDAIGLFTKMEELGIAPNVVTYNNI--------------------------------- 293
             E +  L  KME+ G AP +VTYN +                                 
Sbjct: 208 SFEKSSYLMQKMEKSGYAPTIVTYNTVLHWYCKKGRFKAAIELLDHMKSKGVDADVCTYN 267

Query: 294 --IHGLCRNGRLYEAFHLKEKMVLREVEPSLITYSILINGLIKLEKFDDANFVLKEMSVR 351
             IH LCR+ R+ + + L   M  R + P+ +TY+ LING     K   A+ +L EM   
Sbjct: 268 MLIHDLCRSNRIAKGYLLLRDMRKRMIHPNEVTYNTLINGFSNEGKVLIASQLLNEMLSF 327

Query: 352 GFVPNYVVYNTLIDGYCKKGNISEALKIRDDMVSKGMSPNSVTFNSLIHGFCKSGQMDNA 411
           G  PN+V +N LIDG+  +GN  EALK+   M +KG++P+ V++  L+ G CK+ + D A
Sbjct: 328 GLSPNHVTFNALIDGHISEGNFKEALKMFYMMEAKGLTPSEVSYGVLLDGLCKNAEFDLA 387

Query: 412 ENALEEMLSRGLSINQGAYTSVIKWLCINSRFNSALHFTKEMLLRNLRPGDGLLTLLVSG 471
                 M   G+ + +  YT +I  LC N   + A+    EM    + P     + L++G
Sbjct: 388 RGFYMRMKRNGVCVGRITYTGMIDGLCKNGFLDEAVVLLNEMSKDGIDPDIVTYSALING 447

Query: 472 LCKNGKQAEATELCFRLFEKGFTVNTVTSNALIHGMCEAGNLKEAGKLLMEMLQRGLILD 531
            CK G+   A E+  R++  G + N +  + LI+  C  G LKEA ++   M+  G   D
Sbjct: 448 FCKVGRFKTAKEIVCRIYRVGLSPNGIIYSTLIYNCCRMGCLKEAIRIYEAMILEGHTRD 507

Query: 532 KVTYNTLILGCCKDGKPEEGFKLKEDMIKRGIQPDNYTYNLLLHGLCSLGKMEEAIELWE 591
             T+N L+   CK GK  E  +    M   GI P+  +++ L++G  + G+  +A  +++
Sbjct: 508 HFTFNVLVTSLCKAGKVAEAEEFMRCMTSDGILPNTVSFDCLINGYGNSGEGLKAFSVFD 567

Query: 592 ECKRTVFGPDIYTYGVMIDGFCKADKIEEGETLFNEMISKKMELNPVVYNTLIRAYCKIG 651
           E  +    P  +TYG ++ G CK   + E E     + +    ++ V+YNTL+ A CK G
Sbjct: 568 EMTKVGHHPTFFTYGSLLKGLCKGGHLREAEKFLKSLHAVPAAVDTVMYNTLLTAMCKSG 627

Query: 652 NTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEG-LLPNVACY 710
           N   A  L  +M  R ILP S TY+SLI GLC  G    A     E    G +LPN   Y
Sbjct: 628 NLAKAVSLFGEMVQRSILPDSYTYTSLISGLCRKGKTVIAILFAKEAEARGNVLPNKVMY 687

Query: 711 TALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAE 770
           T  + G  K GQ        ++M ++   P+ +T   MI GY ++G +++   LL  M  
Sbjct: 688 TCFVDGMFKAGQWKAGIYFREQMDNLGHTPDIVTTNAMIDGYSRMGKIEKTNDLLPEMGN 747

Query: 771 KGISPDSITYNVFMDGHCKGGNVEEAFKVCDRMLSEGLSLDEITYTTLIDG 821
           +   P+  TYN+ + G+ K  +V  +F +   ++  G+  D++T  +L+ G
Sbjct: 748 QNGGPNLTTYNILLHGYSKRKDVSTSFLLYRSIILNGILPDKLTCHSLVLG 798

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LSL9|PP445_ARATH Pentatricopeptide repeat-containing protein At5g65560 OS=Arabidopsis thaliana GN=At5g65560 PE=2 SV=1

 Score =  325 bits (832), Expect = 1e-87,   Method: Compositional matrix adjust.
 Identities = 241/880 (27%), Positives = 410/880 (46%), Gaps = 115/880 (13%)

Query: 45  PPPQSSNQSLLKWVSSVLSKQSLDPS-KCKLFLPNLSPQEFDTLFFSIRSNVNPKTALKF 103
           P  +S + S+   + S+LSK +   S   K  +  +SP    +LF     +++PKTAL F
Sbjct: 53  PEEESDSMSVPHRLLSILSKPNWHKSPSLKSMVSAISPSHVSSLF---SLDLDPKTALNF 109

Query: 104 FYFASQSCNFRFTVRSYCLLIRLLL---FSNLLSPARLLLIRLIDGKMPVLYASNPSIRH 160
            ++ SQ+  ++ +V SY  L+ LL+   +  ++   RLL+I+  D     LY        
Sbjct: 110 SHWISQNPRYKHSVYSYASLLTLLINNGYVGVVFKIRLLMIKSCDSVGDALYV------- 162

Query: 161 IEIASQMVDLNVTSEPALGVQIADLLVHVYCTQFKNLG-FGYAIDVFSIFSS---KGIFP 216
           +++  +M   N      L  +   L++  Y T   +L  FG   ++  ++       + P
Sbjct: 163 LDLCRKM---NKDERFELKYK---LIIGCYNTLLNSLARFGLVDEMKQVYMEMLEDKVCP 216

Query: 217 SLKTCNFLLNSLVKANEVQKGIEVFETMCR-GVSPDVFLFSTAINAFCKRGRIEDAIGLF 275
           ++ T N ++N   K   V++  +    +   G+ PD F +++ I  +C+R  ++ A  +F
Sbjct: 217 NIYTYNKMVNGYCKLGNVEEANQYVSKIVEAGLDPDFFTYTSLIMGYCQRKDLDSAFKVF 276

Query: 276 TKMEELGIAPNVVTYNNIIHGLCRNGRLYEAFHLKEKM---------------------- 313
            +M   G   N V Y ++IHGLC   R+ EA  L  KM                      
Sbjct: 277 NEMPLKGCRRNEVAYTHLIHGLCVARRIDEAMDLFVKMKDDECFPTVRTYTVLIKSLCGS 336

Query: 314 --------VLREVE-----PSLITYSILINGLIKLEKFDDANFVLKEMSVRGFVPNYVVY 360
                   +++E+E     P++ TY++LI+ L    KF+ A  +L +M  +G +PN + Y
Sbjct: 337 ERKSEALNLVKEMEETGIKPNIHTYTVLIDSLCSQCKFEKARELLGQMLEKGLMPNVITY 396

Query: 361 NTLIDGYCKKGNISEALKIRDDMVSKGMSPNSVTFNSLIHGFCKSGQMDNAENALEEMLS 420
           N LI+GYCK+G I +A+ + + M S+ +SPN+ T+N LI G+CKS  +  A   L +ML 
Sbjct: 397 NALINGYCKRGMIEDAVDVVELMESRKLSPNTRTYNELIKGYCKS-NVHKAMGVLNKMLE 455

Query: 421 RGLSINQGAYTSVIKWLCINSRFNSALHFTKEMLLRNLRPGDGLLTLLVSGLCKNGKQAE 480
           R +  +   Y S+I   C +  F+SA      M  R L P     T ++  LCK+ +  E
Sbjct: 456 RKVLPDVVTYNSLIDGQCRSGNFDSAYRLLSLMNDRGLVPDQWTYTSMIDSLCKSKRVEE 515

Query: 481 ATELCFRLFEKGFTVNTVTSNALIHGMCEAGNLKEAGKLLMEMLQRGLILDKVTYNTLIL 540
           A +L   L +KG   N V   ALI G C+AG + EA  +L +ML +  + + +T+N LI 
Sbjct: 516 ACDLFDSLEQKGVNPNVVMYTALIDGYCKAGKVDEAHLMLEKMLSKNCLPNSLTFNALIH 575

Query: 541 GCCKDGKPEEGFKLKEDMIKRGIQPDNYTYNLLLHGLCSLGKMEEAIELWEECKRTVFGP 600
           G C DGK +E   L+E M+K G+QP   T  +L+H L   G  + A   +++   +   P
Sbjct: 576 GLCADGKLKEATLLEEKMVKIGLQPTVSTDTILIHRLLKDGDFDHAYSRFQQMLSSGTKP 635

Query: 601 DIYTYGVMIDGFCKADKIEEGETLFNEMISKKMELNPVVYNTLIRAYCKIGNTTAAFRLS 660
           D +TY   I  +C+  ++ + E +  +M    +  +   Y++LI+ Y  +G T  AF + 
Sbjct: 636 DAHTYTTFIQTYCREGRLLDAEDMMAKMRENGVSPDLFTYSSLIKGYGDLGQTNFAFDVL 695

Query: 661 NDMKSRG----------------------------------------------------- 667
             M+  G                                                     
Sbjct: 696 KRMRDTGCEPSQHTFLSLIKHLLEMKYGKQKGSEPELCAMSNMMEFDTVVELLEKMVEHS 755

Query: 668 ILPTSVTYSSLIHGLCNIGLIEDAKCLFDEM-RKEGLLPNVACYTALIGGYCKLGQMDEA 726
           + P + +Y  LI G+C +G +  A+ +FD M R EG+ P+   + AL+   CKL + +EA
Sbjct: 756 VTPNAKSYEKLILGICEVGNLRVAEKVFDHMQRNEGISPSELVFNALLSCCCKLKKHNEA 815

Query: 727 ESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISPDSITYNVFMDG 786
             V+ +M  +   P   +  ++I G  K G+ +    +   + + G   D + + + +DG
Sbjct: 816 AKVVDDMICVGHLPQLESCKVLICGLYKKGEKERGTSVFQNLLQCGYYEDELAWKIIIDG 875

Query: 787 HCKGGNVEEAFKVCDRMLSEGLSLDEITYTTLIDGWQSST 826
             K G VE  +++ + M   G      TY+ LI+G   ST
Sbjct: 876 VGKQGLVEAFYELFNVMEKNGCKFSSQTYSLLIEGPPDST 915

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FIX3|PP407_ARATH Pentatricopeptide repeat-containing protein At5g39710 OS=Arabidopsis thaliana GN=EMB2745 PE=2 SV=1

 Score =  324 bits (830), Expect = 2e-87,   Method: Compositional matrix adjust.
 Identities = 212/728 (29%), Positives = 364/728 (50%), Gaps = 33/728 (4%)

Query: 69  PSKCKLFLPNLSPQEFDTLFFSIRSNVNPKTALKFFYFASQSCNFRFTVRSYCLLIRLLL 128
           P +      N +P+    L   ++S  +    LKF  +A+    F FT+R  C+ + +L 
Sbjct: 36  PYQLHHLSANFTPEAASNLL--LKSQNDQALILKFLNWANPH-QF-FTLRCKCITLHILT 91

Query: 129 FSNLLSPARLLLIRLIDGKMPVLYASNPSIRHIEIASQMVDLNVTSEPALGVQIADLLVH 188
              L   A++L   +    +   YAS       +   +  DL  ++       + DL+V 
Sbjct: 92  KFKLYKTAQILAEDVAAKTLDDEYASLV----FKSLQETYDLCYSTS-----SVFDLVVK 142

Query: 189 VYCTQFKNLGFGYAIDVFSIFSSKGIFPSLKTCNFLLNSLVKANE-VQKGIEVFETMCRG 247
            Y    +      A+ +  +  + G  P + + N +L++ +++   +     VF+ M   
Sbjct: 143 SYS---RLSLIDKALSIVHLAQAHGFMPGVLSYNAVLDATIRSKRNISFAENVFKEMLES 199

Query: 248 -VSPDVFLFSTAINAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIHGLCRNGRLYEA 306
            VSP+VF ++  I  FC  G I+ A+ LF KME  G  PNVVTYN +I G C+  ++ + 
Sbjct: 200 QVSPNVFTYNILIRGFCFAGNIDVALTLFDKMETKGCLPNVVTYNTLIDGYCKLRKIDDG 259

Query: 307 FHLKEKMVLREVEPSLITYSILINGLIKLEKFDDANFVLKEMSVRGFVPNYVVYNTLIDG 366
           F L   M L+ +EP+LI+Y+++INGL +  +  + +FVL EM+ RG+  + V YNTLI G
Sbjct: 260 FKLLRSMALKGLEPNLISYNVVINGLCREGRMKEVSFVLTEMNRRGYSLDEVTYNTLIKG 319

Query: 367 YCKKGNISEALKIRDDMVSKGMSPNSVTFNSLIHGFCKSGQMDNAENALEEMLSRGLSIN 426
           YCK+GN  +AL +  +M+  G++P+ +T+ SLIH  CK+G M+ A   L++M  RGL  N
Sbjct: 320 YCKEGNFHQALVMHAEMLRHGLTPSVITYTSLIHSMCKAGNMNRAMEFLDQMRVRGLCPN 379

Query: 427 QGAYTSVIKWLCINSRFNSALHFTKEMLLRNLRPGDGLLTLLVSGLCKNGKQAEATELCF 486
           +  YT+++         N A    +EM      P       L++G C  GK  +A  +  
Sbjct: 380 ERTYTTLVDGFSQKGYMNEAYRVLREMNDNGFSPSVVTYNALINGHCVTGKMEDAIAVLE 439

Query: 487 RLFEKGFTVNTVTSNALIHGMCEAGNLKEAGKLLMEMLQRGLILDKVTYNTLILGCCKDG 546
            + EKG + + V+ + ++ G C + ++ EA ++  EM+++G+  D +TY++LI G C+  
Sbjct: 440 DMKEKGLSPDVVSYSTVLSGFCRSYDVDEALRVKREMVEKGIKPDTITYSSLIQGFCEQR 499

Query: 547 KPEEGFKLKEDMIKRGIQPDNYTYNLLLHGLCSLGKMEEAIELWEECKRTVFGPDIYTYG 606
           + +E   L E+M++ G+ PD +TY  L++  C  G +E+A++L  E       PD+ TY 
Sbjct: 500 RTKEACDLYEEMLRVGLPPDEFTYTALINAYCMEGDLEKALQLHNEMVEKGVLPDVVTYS 559

Query: 607 VMIDGFCKADKIEEGETLFNEMISKKMELNPVVYNT---------------LIRAYCKIG 651
           V+I+G  K  +  E + L  ++  ++   + V Y+T               LI+ +C  G
Sbjct: 560 VLINGLNKQSRTREAKRLLLKLFYEESVPSDVTYHTLIENCSNIEFKSVVSLIKGFCMKG 619

Query: 652 NTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYT 711
             T A ++   M  +   P    Y+ +IHG C  G I  A  L+ EM K G L +     
Sbjct: 620 MMTEADQVFESMLGKNHKPDGTAYNIMIHGHCRAGDIRKAYTLYKEMVKSGFLLHTVTVI 679

Query: 712 ALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAEK 771
           AL+    K G+++E  SV+  +             +++    + G+M     +L  MA+ 
Sbjct: 680 ALVKALHKEGKVNELNSVIVHVLRSCELSEAEQAKVLVEINHREGNMDVVLDVLAEMAKD 739

Query: 772 GISPDSIT 779
           G  P+ I+
Sbjct: 740 GFLPNGIS 747

Arabidopsis thaliana (taxid: 3702)

>sp|Q6NQ83|PP247_ARATH Pentatricopeptide repeat-containing protein At3g22470, mitochondrial OS=Arabidopsis thaliana GN=At3g22470 PE=2 SV=1

 Score =  317 bits (812), Expect = 3e-85,   Method: Compositional matrix adjust.
 Identities = 178/554 (32%), Positives = 295/554 (53%)

Query: 267 RIEDAIGLFTKMEELGIAPNVVTYNNIIHGLCRNGRLYEAFHLKEKMVLREVEPSLITYS 326
           ++ DAI LF  M +    P  + +N +   + R  +        + M L  +E  + T +
Sbjct: 50  KVNDAIDLFESMIQSRPLPTPIDFNRLCSAVARTKQYDLVLGFCKGMELNGIEHDMYTMT 109

Query: 327 ILINGLIKLEKFDDANFVLKEMSVRGFVPNYVVYNTLIDGYCKKGNISEALKIRDDMVSK 386
           I+IN   + +K   A  VL      G+ P+ + ++TL++G+C +G +SEA+ + D MV  
Sbjct: 110 IMINCYCRKKKLLFAFSVLGRAWKLGYEPDTITFSTLVNGFCLEGRVSEAVALVDRMVEM 169

Query: 387 GMSPNSVTFNSLIHGFCKSGQMDNAENALEEMLSRGLSINQGAYTSVIKWLCINSRFNSA 446
              P+ VT ++LI+G C  G++  A   ++ M+  G   ++  Y  V+  LC +     A
Sbjct: 170 KQRPDLVTVSTLINGLCLKGRVSEALVLIDRMVEYGFQPDEVTYGPVLNRLCKSGNSALA 229

Query: 447 LHFTKEMLLRNLRPGDGLLTLLVSGLCKNGKQAEATELCFRLFEKGFTVNTVTSNALIHG 506
           L   ++M  RN++      ++++  LCK+G   +A  L   +  KG   + VT ++LI G
Sbjct: 230 LDLFRKMEERNIKASVVQYSIVIDSLCKDGSFDDALSLFNEMEMKGIKADVVTYSSLIGG 289

Query: 507 MCEAGNLKEAGKLLMEMLQRGLILDKVTYNTLILGCCKDGKPEEGFKLKEDMIKRGIQPD 566
           +C  G   +  K+L EM+ R +I D VT++ LI    K+GK  E  +L  +MI RGI PD
Sbjct: 290 LCNDGKWDDGAKMLREMIGRNIIPDVVTFSALIDVFVKEGKLLEAKELYNEMITRGIAPD 349

Query: 567 NYTYNLLLHGLCSLGKMEEAIELWEECKRTVFGPDIYTYGVMIDGFCKADKIEEGETLFN 626
             TYN L+ G C    + EA ++++        PDI TY ++I+ +CKA ++++G  LF 
Sbjct: 350 TITYNSLIDGFCKENCLHEANQMFDLMVSKGCEPDIVTYSILINSYCKAKRVDDGMRLFR 409

Query: 627 EMISKKMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIG 686
           E+ SK +  N + YNTL+  +C+ G   AA  L  +M SRG+ P+ VTY  L+ GLC+ G
Sbjct: 410 EISSKGLIPNTITYNTLVLGFCQSGKLNAAKELFQEMVSRGVPPSVVTYGILLDGLCDNG 469

Query: 687 LIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYT 746
            +  A  +F++M+K  +   +  Y  +I G C   ++D+A S+   ++   + P+ +TY 
Sbjct: 470 ELNKALEIFEKMQKSRMTLGIGIYNIIIHGMCNASKVDDAWSLFCSLSDKGVKPDVVTYN 529

Query: 747 IMIGGYCKLGDMKEAAKLLNVMAEKGISPDSITYNVFMDGHCKGGNVEEAFKVCDRMLSE 806
           +MIGG CK G + EA  L   M E G +PD  TYN+ +  H  G  +  + ++ + M   
Sbjct: 530 VMIGGLCKKGSLSEADMLFRKMKEDGCTPDDFTYNILIRAHLGGSGLISSVELIEEMKVC 589

Query: 807 GLSLDEITYTTLID 820
           G S D  T   +ID
Sbjct: 590 GFSADSSTIKMVID 603

Arabidopsis thaliana (taxid: 3702)

>sp|Q0WKV3|PPR36_ARATH Pentatricopeptide repeat-containing protein At1g12300, mitochondrial OS=Arabidopsis thaliana GN=At1g12300 PE=2 SV=1

 Score =  311 bits (798), Expect = 1e-83,   Method: Compositional matrix adjust.
 Identities = 177/554 (31%), Positives = 298/554 (53%)

Query: 267 RIEDAIGLFTKMEELGIAPNVVTYNNIIHGLCRNGRLYEAFHLKEKMVLREVEPSLITYS 326
           + +DAI LF  M      P V+ ++ +   + +  +      L ++M L+ +  +L T S
Sbjct: 68  KADDAIDLFRDMIHSRPLPTVIDFSRLFSAIAKTKQYDLVLALCKQMELKGIAHNLYTLS 127

Query: 327 ILINGLIKLEKFDDANFVLKEMSVRGFVPNYVVYNTLIDGYCKKGNISEALKIRDDMVSK 386
           I+IN   +  K   A   + ++   G+ PN + ++TLI+G C +G +SEAL++ D MV  
Sbjct: 128 IMINCFCRCRKLCLAFSAMGKIIKLGYEPNTITFSTLINGLCLEGRVSEALELVDRMVEM 187

Query: 387 GMSPNSVTFNSLIHGFCKSGQMDNAENALEEMLSRGLSINQGAYTSVIKWLCINSRFNSA 446
           G  P+ +T N+L++G C SG+   A   +++M+  G   N   Y  V+  +C + +   A
Sbjct: 188 GHKPDLITINTLVNGLCLSGKEAEAMLLIDKMVEYGCQPNAVTYGPVLNVMCKSGQTALA 247

Query: 447 LHFTKEMLLRNLRPGDGLLTLLVSGLCKNGKQAEATELCFRLFEKGFTVNTVTSNALIHG 506
           +   ++M  RN++      ++++ GLCK+G    A  L   +  KG T N +T N LI G
Sbjct: 248 MELLRKMEERNIKLDAVKYSIIIDGLCKHGSLDNAFNLFNEMEMKGITTNIITYNILIGG 307

Query: 507 MCEAGNLKEAGKLLMEMLQRGLILDKVTYNTLILGCCKDGKPEEGFKLKEDMIKRGIQPD 566
            C AG   +  KLL +M++R +  + VT++ LI    K+GK  E  +L ++MI RGI PD
Sbjct: 308 FCNAGRWDDGAKLLRDMIKRKINPNVVTFSVLIDSFVKEGKLREAEELHKEMIHRGIAPD 367

Query: 567 NYTYNLLLHGLCSLGKMEEAIELWEECKRTVFGPDIYTYGVMIDGFCKADKIEEGETLFN 626
             TY  L+ G C    +++A ++ +        P+I T+ ++I+G+CKA++I++G  LF 
Sbjct: 368 TITYTSLIDGFCKENHLDKANQMVDLMVSKGCDPNIRTFNILINGYCKANRIDDGLELFR 427

Query: 627 EMISKKMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIG 686
           +M  + +  + V YNTLI+ +C++G    A  L  +M SR + P  VTY  L+ GLC+ G
Sbjct: 428 KMSLRGVVADTVTYNTLIQGFCELGKLNVAKELFQEMVSRKVPPNIVTYKILLDGLCDNG 487

Query: 687 LIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYT 746
             E A  +F+++ K  +  ++  Y  +I G C   ++D+A  +   +    + P   TY 
Sbjct: 488 ESEKALEIFEKIEKSKMELDIGIYNIIIHGMCNASKVDDAWDLFCSLPLKGVKPGVKTYN 547

Query: 747 IMIGGYCKLGDMKEAAKLLNVMAEKGISPDSITYNVFMDGHCKGGNVEEAFKVCDRMLSE 806
           IMIGG CK G + EA  L   M E G +PD  TYN+ +  H   G+  ++ K+ + +   
Sbjct: 548 IMIGGLCKKGPLSEAELLFRKMEEDGHAPDGWTYNILIRAHLGDGDATKSVKLIEELKRC 607

Query: 807 GLSLDEITYTTLID 820
           G S+D  T   +ID
Sbjct: 608 GFSVDASTIKMVID 621

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FIT7|PP442_ARATH Pentatricopeptide repeat-containing protein At5g61990, mitochondrial OS=Arabidopsis thaliana GN=At5g61990 PE=2 SV=1

 Score =  307 bits (787), Expect = 2e-82,   Method: Compositional matrix adjust.
 Identities = 195/687 (28%), Positives = 328/687 (47%), Gaps = 60/687 (8%)

Query: 204 DVFSIFSSKGIFPSLKTCNFLLNSLVKANEVQKGIEV-FET------------------- 243
           DV+     + +   +KT + L+ +  +A  VQ G +V F+T                   
Sbjct: 207 DVYKGMVERNVVFDVKTYHMLIIAHCRAGNVQLGKDVLFKTEKEFRTATLNVDGALKLKE 266

Query: 244 --MCRGVSPDVFLFSTAINAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIHGLCRNG 301
             +C+G+ P  + +   I+  CK  R+EDA  L  +M+ LG++ +  TY+ +I GL +  
Sbjct: 267 SMICKGLVPLKYTYDVLIDGLCKIKRLEDAKSLLVEMDSLGVSLDNHTYSLLIDGLLKGR 326

Query: 302 RLYEAFHLKEKMVLREVEPSLITYSILINGLIKLEKFDDANFVLKEMSVRGFVPNYVVYN 361
               A  L  +MV   +      Y   I  + K    + A  +   M   G +P    Y 
Sbjct: 327 NADAAKGLVHEMVSHGINIKPYMYDCCICVMSKEGVMEKAKALFDGMIASGLIPQAQAYA 386

Query: 362 TLIDGYCKKGNISEALKIRDDMVSKGMSPNSVTFNSLIHGFCKSGQMDNAENALEEMLSR 421
           +LI+GYC++ N+ +  ++  +M  + +  +  T+ +++ G C SG +D A N ++EM++ 
Sbjct: 387 SLIEGYCREKNVRQGYELLVEMKKRNIVISPYTYGTVVKGMCSSGDLDGAYNIVKEMIAS 446

Query: 422 GLSINQGAYTSVIKWLCINSRFNSALHFTKEMLLRNLRPGDGLLTLLVSGLCKNGKQAEA 481
           G   N   YT++IK    NSRF  A+   KEM  + + P       L+ GL K  +  EA
Sbjct: 447 GCRPNVVIYTTLIKTFLQNSRFGDAMRVLKEMKEQGIAPDIFCYNSLIIGLSKAKRMDEA 506

Query: 482 TELCFRLFEKGFTVNTVTSNALIHGMCEAGNLKEAGKLLMEMLQRGLILDKVTYNTLILG 541
                 + E G   N  T  A I G  EA     A K + EM + G++ +KV    LI  
Sbjct: 507 RSFLVEMVENGLKPNAFTYGAFISGYIEASEFASADKYVKEMRECGVLPNKVLCTGLINE 566

Query: 542 CCKDGKPEEGFKLKEDMIKRGIQPDNYTYNLLLHGLCSLGKMEEAIELWEECKRTVFGPD 601
            CK GK  E       M+ +GI  D  TY +L++GL    K+++A E++ E +     PD
Sbjct: 567 YCKKGKVIEACSAYRSMVDQGILGDAKTYTVLMNGLFKNDKVDDAEEIFREMRGKGIAPD 626

Query: 602 IYTYGVMIDGFCKADKIEEGETLFNEMISKKMELNPVVYNTLIRAYCKIGNTTAAFRLSN 661
           +++YGV+I+GF K   +++  ++F+EM+ + +  N ++YN L+  +C+ G    A  L +
Sbjct: 627 VFSYGVLINGFSKLGNMQKASSIFDEMVEEGLTPNVIIYNMLLGGFCRSGEIEKAKELLD 686

Query: 662 DMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLG 721
           +M  +G+ P +VTY ++I G C  G + +A  LFDEM+ +GL+P+   YT L+ G C+L 
Sbjct: 687 EMSVKGLHPNAVTYCTIIDGYCKSGDLAEAFRLFDEMKLKGLVPDSFVYTTLVDGCCRLN 746

Query: 722 QMDEAESVL--------QEMASINI------------------------------HPNKI 743
            ++ A ++            A  N                                PN +
Sbjct: 747 DVERAITIFGTNKKGCASSTAPFNALINWVFKFGKTELKTEVLNRLMDGSFDRFGKPNDV 806

Query: 744 TYTIMIGGYCKLGDMKEAAKLLNVMAEKGISPDSITYNVFMDGHCKGGNVEEAFKVCDRM 803
           TY IMI   CK G+++ A +L + M    + P  ITY   ++G+ K G   E F V D  
Sbjct: 807 TYNIMIDYLCKEGNLEAAKELFHQMQNANLMPTVITYTSLLNGYDKMGRRAEMFPVFDEA 866

Query: 804 LSEGLSLDEITYTTLIDGWQSSTITNQ 830
           ++ G+  D I Y+ +I+ +    +T +
Sbjct: 867 IAAGIEPDHIMYSVIINAFLKEGMTTK 893

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SXD1|PPR91_ARATH Pentatricopeptide repeat-containing protein At1g62670, mitochondrial OS=Arabidopsis thaliana GN=At1g62670 PE=2 SV=2

 Score =  306 bits (785), Expect = 3e-82,   Method: Compositional matrix adjust.
 Identities = 169/535 (31%), Positives = 287/535 (53%), Gaps = 1/535 (0%)

Query: 202 AIDVFSIFSSKGIFPSLKTCNFLLNSLVKANEVQKGIEVFETMCR-GVSPDVFLFSTAIN 260
           A+ +F        FPS+   + LL+++ K N+    I + E M   G+  + + +S  IN
Sbjct: 65  AVALFGEMVKSRPFPSIIEFSKLLSAIAKMNKFDVVISLGEQMQNLGIPHNHYTYSILIN 124

Query: 261 AFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIHGLCRNGRLYEAFHLKEKMVLREVEP 320
            FC+R ++  A+ +  KM +LG  PN+VT +++++G C + R+ EA  L ++M +   +P
Sbjct: 125 CFCRRSQLPLALAVLGKMMKLGYEPNIVTLSSLLNGYCHSKRISEAVALVDQMFVTGYQP 184

Query: 321 SLITYSILINGLIKLEKFDDANFVLKEMSVRGFVPNYVVYNTLIDGYCKKGNISEALKIR 380
           + +T++ LI+GL    K  +A  ++  M  +G  P+ V Y  +++G CK+G+   A  + 
Sbjct: 185 NTVTFNTLIHGLFLHNKASEAMALIDRMVAKGCQPDLVTYGVVVNGLCKRGDTDLAFNLL 244

Query: 381 DDMVSKGMSPNSVTFNSLIHGFCKSGQMDNAENALEEMLSRGLSINQGAYTSVIKWLCIN 440
           + M    + P  + +N++I G CK   MD+A N  +EM ++G+  N   Y+S+I  LC  
Sbjct: 245 NKMEQGKLEPGVLIYNTIIDGLCKYKHMDDALNLFKEMETKGIRPNVVTYSSLISCLCNY 304

Query: 441 SRFNSALHFTKEMLLRNLRPGDGLLTLLVSGLCKNGKQAEATELCFRLFEKGFTVNTVTS 500
            R++ A     +M+ R + P     + L+    K GK  EA +L   + ++    + VT 
Sbjct: 305 GRWSDASRLLSDMIERKINPDVFTFSALIDAFVKEGKLVEAEKLYDEMVKRSIDPSIVTY 364

Query: 501 NALIHGMCEAGNLKEAGKLLMEMLQRGLILDKVTYNTLILGCCKDGKPEEGFKLKEDMIK 560
           ++LI+G C    L EA ++   M+ +    D VTYNTLI G CK  + EEG ++  +M +
Sbjct: 365 SSLINGFCMHDRLDEAKQMFEFMVSKHCFPDVVTYNTLIKGFCKYKRVEEGMEVFREMSQ 424

Query: 561 RGIQPDNYTYNLLLHGLCSLGKMEEAIELWEECKRTVFGPDIYTYGVMIDGFCKADKIEE 620
           RG+  +  TYN+L+ GL   G  + A E+++E       P+I TY  ++DG CK  K+E+
Sbjct: 425 RGLVGNTVTYNILIQGLFQAGDCDMAQEIFKEMVSDGVPPNIMTYNTLLDGLCKNGKLEK 484

Query: 621 GETLFNEMISKKMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIH 680
              +F  +   KME     YN +I   CK G     + L  ++  +G+ P  V Y+++I 
Sbjct: 485 AMVVFEYLQRSKMEPTIYTYNIMIEGMCKAGKVEDGWDLFCNLSLKGVKPDVVAYNTMIS 544

Query: 681 GLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESVLQEMAS 735
           G C  G  E+A  LF EM+++G LPN  CY  LI    + G  + +  +++EM S
Sbjct: 545 GFCRKGSKEEADALFKEMKEDGTLPNSGCYNTLIRARLRDGDREASAELIKEMRS 599

Arabidopsis thaliana (taxid: 3702)

>sp|Q9ASZ8|PPR37_ARATH Pentatricopeptide repeat-containing protein At1g12620 OS=Arabidopsis thaliana GN=At1g12620 PE=2 SV=1

 Score =  306 bits (784), Expect = 5e-82,   Method: Compositional matrix adjust.
 Identities = 171/552 (30%), Positives = 298/552 (53%)

Query: 269 EDAIGLFTKMEELGIAPNVVTYNNIIHGLCRNGRLYEAFHLKEKMVLREVEPSLITYSIL 328
           +DA+ LF +M      P ++ ++ +   + R  +      L ++M L+ +  +L T SI+
Sbjct: 54  DDAVDLFQEMTRSRPRPRLIDFSRLFSVVARTKQYDLVLDLCKQMELKGIAHNLYTLSIM 113

Query: 329 INGLIKLEKFDDANFVLKEMSVRGFVPNYVVYNTLIDGYCKKGNISEALKIRDDMVSKGM 388
           IN   +  K   A   + ++   G+ P+ V ++TLI+G C +G +SEAL++ D MV  G 
Sbjct: 114 INCCCRCRKLSLAFSAMGKIIKLGYEPDTVTFSTLINGLCLEGRVSEALELVDRMVEMGH 173

Query: 389 SPNSVTFNSLIHGFCKSGQMDNAENALEEMLSRGLSINQGAYTSVIKWLCINSRFNSALH 448
            P  +T N+L++G C +G++ +A   ++ M+  G   N+  Y  V+K +C + +   A+ 
Sbjct: 174 KPTLITLNALVNGLCLNGKVSDAVLLIDRMVETGFQPNEVTYGPVLKVMCKSGQTALAME 233

Query: 449 FTKEMLLRNLRPGDGLLTLLVSGLCKNGKQAEATELCFRLFEKGFTVNTVTSNALIHGMC 508
             ++M  R ++      ++++ GLCK+G    A  L   +  KGF  + +    LI G C
Sbjct: 234 LLRKMEERKIKLDAVKYSIIIDGLCKDGSLDNAFNLFNEMEIKGFKADIIIYTTLIRGFC 293

Query: 509 EAGNLKEAGKLLMEMLQRGLILDKVTYNTLILGCCKDGKPEEGFKLKEDMIKRGIQPDNY 568
            AG   +  KLL +M++R +  D V ++ LI    K+GK  E  +L ++MI+RGI PD  
Sbjct: 294 YAGRWDDGAKLLRDMIKRKITPDVVAFSALIDCFVKEGKLREAEELHKEMIQRGISPDTV 353

Query: 569 TYNLLLHGLCSLGKMEEAIELWEECKRTVFGPDIYTYGVMIDGFCKADKIEEGETLFNEM 628
           TY  L+ G C   ++++A  + +       GP+I T+ ++I+G+CKA+ I++G  LF +M
Sbjct: 354 TYTSLIDGFCKENQLDKANHMLDLMVSKGCGPNIRTFNILINGYCKANLIDDGLELFRKM 413

Query: 629 ISKKMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIGLI 688
             + +  + V YNTLI+ +C++G    A  L  +M SR + P  V+Y  L+ GLC+ G  
Sbjct: 414 SLRGVVADTVTYNTLIQGFCELGKLEVAKELFQEMVSRRVRPDIVSYKILLDGLCDNGEP 473

Query: 689 EDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIM 748
           E A  +F+++ K  +  ++  Y  +I G C   ++D+A  +   +    + P+  TY IM
Sbjct: 474 EKALEIFEKIEKSKMELDIGIYNIIIHGMCNASKVDDAWDLFCSLPLKGVKPDVKTYNIM 533

Query: 749 IGGYCKLGDMKEAAKLLNVMAEKGISPDSITYNVFMDGHCKGGNVEEAFKVCDRMLSEGL 808
           IGG CK G + EA  L   M E G SP+  TYN+ +  H   G+  ++ K+ + +   G 
Sbjct: 534 IGGLCKKGSLSEADLLFRKMEEDGHSPNGCTYNILIRAHLGEGDATKSAKLIEEIKRCGF 593

Query: 809 SLDEITYTTLID 820
           S+D  T   ++D
Sbjct: 594 SVDASTVKMVVD 605

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	833
224071479	836	predicted protein [Populus trichocarpa]	0.995	0.991	0.674	0.0
296085490	826	unnamed protein product [Vitis vinifera]	0.990	0.998	0.655	0.0
359474768	1022	PREDICTED: pentatricopeptide repeat-cont	0.948	0.772	0.654	0.0
449462543	822	PREDICTED: pentatricopeptide repeat-cont	0.986	1.0	0.601	0.0
255557743	777	pentatricopeptide repeat-containing prot	0.779	0.835	0.689	0.0
449519270	799	PREDICTED: LOW QUALITY PROTEIN: pentatri	0.959	1.0	0.574	0.0
223635621	838	RecName: Full=Pentatricopeptide repeat-c	0.966	0.960	0.541	0.0
356560499	836	PREDICTED: pentatricopeptide repeat-cont	0.990	0.986	0.534	0.0
3080374	814	putative protein [Arabidopsis thaliana]	0.966	0.988	0.541	0.0
18415314	825	pentatricopeptide repeat-containing prot	0.966	0.975	0.541	0.0

>gi|224071479|ref|XP_002303480.1| predicted protein [Populus trichocarpa] gi|222840912|gb|EEE78459.1| predicted protein [Populus trichocarpa]

 Score = 1154 bits (2984), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 564/836 (67%), Positives = 672/836 (80%), Gaps = 7/836 (0%)

Query: 3   LRRLSIPKPCSLSIAVSRPLTHVTSTAQQQQELHNRNQQQQPPP-----PQSSNQSLLKW 57
           +RRL+I KP  +   + RPLT +T+T Q+Q ++H +     P       PQ+ NQSLLK 
Sbjct: 1   MRRLTITKPIFIQSPLKRPLTCITTTLQKQHQIHPQAPPPPPLLQTQTNPQALNQSLLKR 60

Query: 58  VSSVLSKQSLDPSKCKLFLPNLSPQEFDTLFFSIRSNVNPKTALKFFYFASQSCNFRFTV 117
           VS +LS  SLD +KCK  +P+LSPQEFD+ F +++SNVNPKTAL FF+F S++C FRFT 
Sbjct: 61  VSLILSNPSLDCAKCKELVPHLSPQEFDSCFLALKSNVNPKTALNFFHFVSETCKFRFTA 120

Query: 118 RSYCLLIRLLLFSNLLSPARLLLIRLIDGKMPVLYASNPSIRHIEIASQMVDLNVTSEPA 177
           RSYC+LI LL+ ++LLSPARLLLIRLIDGK+P  YA N   RH EIA  M D N+  EP 
Sbjct: 121 RSYCVLIHLLVGNDLLSPARLLLIRLIDGKVPAFYARNFESRHFEIAQIMADFNLVFEPV 180

Query: 178 LGVQIADLLVHVYCTQFKNLGFGYAIDVFSIFSSKGIFPSLKTCNFLLNSLVKANEVQKG 237
           +GV+IADLLVHVY TQFK+LGFG+A DVFS+ + KG+FPSLKTC FLL+SLVKANE++K 
Sbjct: 181 IGVKIADLLVHVYSTQFKHLGFGFAADVFSLLAKKGLFPSLKTCTFLLSSLVKANELKKS 240

Query: 238 IEVFETMC-RGVSPDVFLFSTAINAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIHG 296
            EV++ +C  G+ PDV LFST INAFCK  R +DAIGLF+KME+LG+APNVVTYNNIIHG
Sbjct: 241 YEVYDFICLGGIIPDVHLFSTMINAFCKGHREDDAIGLFSKMEKLGVAPNVVTYNNIIHG 300

Query: 297 LCRNGRLYEAFHLKEKMVLREVEPSLITYSILINGLIKLEKFDDANFVLKEMSVRGFVPN 356
           LC++GRL EA+  KEKMV  +V PSLITYS+ INGLIKLEK D+AN VLKEMS  GFVPN
Sbjct: 301 LCKSGRLDEAYRFKEKMVKEKVSPSLITYSVFINGLIKLEKIDEANCVLKEMSELGFVPN 360

Query: 357 YVVYNTLIDGYCKKGNISEALKIRDDMVSKGMSPNSVTFNSLIHGFCKSGQMDNAENALE 416
            VVYNTLIDGYCK GNISEALKIRDDM+SKG+SPNSVT NSLI GFCKS Q+  AEN LE
Sbjct: 361 EVVYNTLIDGYCKMGNISEALKIRDDMLSKGISPNSVTLNSLIQGFCKSDQIGQAENVLE 420

Query: 417 EMLSRGLSINQGAYTSVIKWLCINSRFNSALHFTKEMLLRNLRPGDGLLTLLVSGLCKNG 476
           EM+ RGL INQG+++ VI WLC+  RF +ALHF +EMLLRNLRP DGLLT LVSGLCK G
Sbjct: 421 EMIGRGLPINQGSFSMVINWLCLKFRFVTALHFIREMLLRNLRPNDGLLTTLVSGLCKAG 480

Query: 477 KQAEATELCFRLFEKGFTVNTVTSNALIHGMCEAGNLKEAGKLLMEMLQRGLILDKVTYN 536
           KQ EA EL  RL  KGF  N VTSNALIHG+C+AGN++E  KLL +ML+RGL+ D++TYN
Sbjct: 481 KQGEAVELWCRLLGKGFVPNIVTSNALIHGLCKAGNMQETLKLLRDMLERGLVFDRITYN 540

Query: 537 TLILGCCKDGKPEEGFKLKEDMIKRGIQPDNYTYNLLLHGLCSLGKMEEAIELWEECKRT 596
           TLI GCCK+GK +EGF+LKE+M+K+GIQPD YT+NLLLHGLC+  K++EA  LW ECK+ 
Sbjct: 541 TLISGCCKEGKVKEGFELKEEMVKKGIQPDIYTFNLLLHGLCNADKIDEASRLWHECKKN 600

Query: 597 VFGPDIYTYGVMIDGFCKADKIEEGETLFNEMISKKMELNPVVYNTLIRAYCKIGNTTAA 656
            + P++YTYGVMIDG+CKA+K+EEGE L NE++SKK+ELN VVYN+LIRAYC  GN  AA
Sbjct: 601 GYVPNVYTYGVMIDGYCKANKVEEGENLLNELVSKKLELNSVVYNSLIRAYCINGNMNAA 660

Query: 657 FRLSNDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGG 716
           FRL +DMKSRG+L +  TYSSL+HGLCNIGL++DAK L DEMRKEGLLPNV CYT +IGG
Sbjct: 661 FRLRDDMKSRGVLLSCATYSSLMHGLCNIGLVDDAKHLLDEMRKEGLLPNVVCYTTIIGG 720

Query: 717 YCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISPD 776
           Y KLGQM++   VLQEM+S NIHPNK TYTIMI G+CKLG  KEAAKLLN M EKGI PD
Sbjct: 721 YSKLGQMNKVNIVLQEMSSHNIHPNKFTYTIMIDGFCKLGKTKEAAKLLNEMTEKGILPD 780

Query: 777 SITYNVFMDGHCKGGNVEEAFKVCDRMLSEGLSLDEITYTTLIDG-WQSSTITNQD 831
           ++TYN F +G CK G VEEAFKVCD M S  + LDEITYTTLIDG  Q ST TNQ+
Sbjct: 781 AVTYNAFTNGLCKEGKVEEAFKVCDEMSSGAVCLDEITYTTLIDGCHQPSTATNQE 836

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|296085490|emb|CBI29222.3| unnamed protein product [Vitis vinifera]

 Score = 1141 bits (2952), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 545/832 (65%), Positives = 665/832 (79%), Gaps = 7/832 (0%)

Query: 1   MDLRRLSIPKPCSLSIAVSRPLTHVTSTAQQQQELHNRNQQQQPPPPQSSNQSLLKWVSS 60
           MDLR   +PKP  +   ++RPLT VTS A           Q QPP   SS+ +LLK V+S
Sbjct: 1   MDLRITLLPKPTPIFCPIARPLTCVTSAAPHPPS--PLPSQNQPP---SSDHALLKSVTS 55

Query: 61  VLSKQSLDPSKCKLFLPNLSPQEFDTLFFSIRSNVNPKTALKFFYFASQSCNFRFTVRSY 120
           +LS  SLD ++CK  +P+LSP +FD++FFS+R NVNPKTAL FFYFAS SC FRFT+RSY
Sbjct: 56  ILSNPSLDSTQCKQLIPHLSPHQFDSVFFSVRRNVNPKTALNFFYFASDSCGFRFTLRSY 115

Query: 121 CLLIRLLLFSNLLSPARLLLIRLIDGKMPVLYASNPSIRHIEIASQMVDLNVTSEPALGV 180
           C+L+R L+ S  +SPARLLLIRLID K+PVL+  +P  RHIEIAS M DLN   E  + V
Sbjct: 116 CVLMRSLIVSGFVSPARLLLIRLIDRKLPVLFG-DPKNRHIEIASAMADLNEVGESGVAV 174

Query: 181 QIADLLVHVYCTQFKNLGFGYAIDVFSIFSSKGIFPSLKTCNFLLNSLVKANEVQKGIEV 240
              DLL+HVYCTQF+N+GF  AI VF   ++KG+FP++KTC FLL+SLVKANE++K   V
Sbjct: 175 AAVDLLIHVYCTQFRNVGFRNAIGVFRFLANKGVFPTVKTCTFLLSSLVKANELEKSYWV 234

Query: 241 FETMCRGVSPDVFLFSTAINAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIHGLCRN 300
           FETM +GVSPDV+LFSTAINAFCK G++EDAI LF  ME+LG++PNVVTYNN+IHGLC++
Sbjct: 235 FETMRQGVSPDVYLFSTAINAFCKGGKVEDAIQLFFDMEKLGVSPNVVTYNNLIHGLCKH 294

Query: 301 GRLYEAFHLKEKMVLREVEPSLITYSILINGLIKLEKFDDANFVLKEMSVRGFVPNYVVY 360
           G L EAF  KEKMV   V  +LITYS+LINGL+KLEKF++AN VLKE   +GF PN VVY
Sbjct: 295 GNLDEAFRFKEKMVKDGVNATLITYSVLINGLMKLEKFNEANSVLKETLEKGFTPNEVVY 354

Query: 361 NTLIDGYCKKGNISEALKIRDDMVSKGMSPNSVTFNSLIHGFCKSGQMDNAENALEEMLS 420
           NTLIDGYCK GN+ +AL+IR DMVSKG++PNSVT NS+I GFCK GQM+ AE  LEEMLS
Sbjct: 355 NTLIDGYCKMGNLGDALRIRGDMVSKGINPNSVTLNSIIQGFCKIGQMEQAECILEEMLS 414

Query: 421 RGLSINQGAYTSVIKWLCINSRFNSALHFTKEMLLRNLRPGDGLLTLLVSGLCKNGKQAE 480
           RG SIN GA+T++I WLC+NSRF SAL F +EMLLRN+RP DGLLT LV GLCK GK ++
Sbjct: 415 RGFSINPGAFTTIIHWLCMNSRFESALRFLREMLLRNMRPNDGLLTTLVGGLCKEGKHSD 474

Query: 481 ATELCFRLFEKGFTVNTVTSNALIHGMCEAGNLKEAGKLLMEMLQRGLILDKVTYNTLIL 540
           A EL FRL EKGF  N VT+NALIHG+C+ GN++EA +LL +ML+RG +LDK+TYNTLI 
Sbjct: 475 AVELWFRLLEKGFGANLVTTNALIHGLCKTGNMQEAVRLLKKMLERGFVLDKITYNTLIS 534

Query: 541 GCCKDGKPEEGFKLKEDMIKRGIQPDNYTYNLLLHGLCSLGKMEEAIELWEECKRTVFGP 600
           GCCK+GK EEGFKL+ +M+K+GI+PD +TYNLL+HG+C +GK++EA+ LW ECK     P
Sbjct: 535 GCCKEGKVEEGFKLRGEMVKQGIEPDTFTYNLLIHGMCRIGKLDEAVNLWNECKSRDLVP 594

Query: 601 DIYTYGVMIDGFCKADKIEEGETLFNEMISKKMELNPVVYNTLIRAYCKIGNTTAAFRLS 660
           ++YTYGVMIDG+CKADKIEEGE LF E++++ +ELN VVYNTLIRAYC+ GNT  AF+L 
Sbjct: 595 NVYTYGVMIDGYCKADKIEEGEKLFTELLTQNLELNSVVYNTLIRAYCRNGNTVEAFKLH 654

Query: 661 NDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKL 720
           +DM+S+GI PT+ TYSSLIHG+CNIG +EDAKCL DEMRKEGLLPNV CYTALIGGYCKL
Sbjct: 655 DDMRSKGIPPTTATYSSLIHGMCNIGRMEDAKCLIDEMRKEGLLPNVVCYTALIGGYCKL 714

Query: 721 GQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISPDSITY 780
           GQMD+  +VLQEM+S +IHPNKITYT+MI GY K GDMK AAKLL+ M  KGI PD++TY
Sbjct: 715 GQMDKVVNVLQEMSSYDIHPNKITYTVMIDGYSKSGDMKTAAKLLHEMVGKGIVPDTVTY 774

Query: 781 NVFMDGHCKGGNVEEAFKVCDRMLSEGLSLDEITYTTLIDGWQS-STITNQD 831
           NV  +G CK G +EE FK+CD M  EGL LDEITYTTL+ GWQ  S +TNQ+
Sbjct: 775 NVLTNGFCKEGKIEEGFKICDYMSQEGLPLDEITYTTLVHGWQQPSALTNQE 826

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359474768|ref|XP_002270963.2| PREDICTED: pentatricopeptide repeat-containing protein At4g19440, chloroplastic [Vitis vinifera]

 Score = 1093 bits (2826), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 521/796 (65%), Positives = 637/796 (80%), Gaps = 6/796 (0%)

Query: 1   MDLRRLSIPKPCSLSIAVSRPLTHVTSTAQQQQELHNRNQQQQPPPPQSSNQSLLKWVSS 60
           MDLR   +PKP  +   ++RPLT VTS A           Q QPP   SS+ +LLK V+S
Sbjct: 68  MDLRITLLPKPTPIFCPIARPLTCVTSAAPHPPS--PLPSQNQPP---SSDHALLKSVTS 122

Query: 61  VLSKQSLDPSKCKLFLPNLSPQEFDTLFFSIRSNVNPKTALKFFYFASQSCNFRFTVRSY 120
           +LS  SLD ++CK  +P+LSP +FD++FFS+R NVNPKTAL FFYFAS SC FRFT+RSY
Sbjct: 123 ILSNPSLDSTQCKQLIPHLSPHQFDSVFFSVRRNVNPKTALNFFYFASDSCGFRFTLRSY 182

Query: 121 CLLIRLLLFSNLLSPARLLLIRLIDGKMPVLYASNPSIRHIEIASQMVDLNVTSEPALGV 180
           C+L+R L+ S  +SPARLLLIRLID K+PVL+  +P  RHIEIAS M DLN   E  + V
Sbjct: 183 CVLMRSLIVSGFVSPARLLLIRLIDRKLPVLFG-DPKNRHIEIASAMADLNEVGESGVAV 241

Query: 181 QIADLLVHVYCTQFKNLGFGYAIDVFSIFSSKGIFPSLKTCNFLLNSLVKANEVQKGIEV 240
              DLL+HVYCTQF+N+GF  AI VF   ++KG+FP++KTC FLL+SLVKANE++K   V
Sbjct: 242 AAVDLLIHVYCTQFRNVGFRNAIGVFRFLANKGVFPTVKTCTFLLSSLVKANELEKSYWV 301

Query: 241 FETMCRGVSPDVFLFSTAINAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIHGLCRN 300
           FETM +GVSPDV+LFSTAINAFCK G++EDAI LF  ME+LG++PNVVTYNN+IHGLC++
Sbjct: 302 FETMRQGVSPDVYLFSTAINAFCKGGKVEDAIQLFFDMEKLGVSPNVVTYNNLIHGLCKH 361

Query: 301 GRLYEAFHLKEKMVLREVEPSLITYSILINGLIKLEKFDDANFVLKEMSVRGFVPNYVVY 360
           G L EAF  KEKMV   V  +LITYS+LINGL+KLEKF++AN VLKE   +GF PN VVY
Sbjct: 362 GNLDEAFRFKEKMVKDGVNATLITYSVLINGLMKLEKFNEANSVLKETLEKGFTPNEVVY 421

Query: 361 NTLIDGYCKKGNISEALKIRDDMVSKGMSPNSVTFNSLIHGFCKSGQMDNAENALEEMLS 420
           NTLIDGYCK GN+ +AL+IR DMVSKG++PNSVT NS+I GFCK GQM+ AE  LEEMLS
Sbjct: 422 NTLIDGYCKMGNLGDALRIRGDMVSKGINPNSVTLNSIIQGFCKIGQMEQAECILEEMLS 481

Query: 421 RGLSINQGAYTSVIKWLCINSRFNSALHFTKEMLLRNLRPGDGLLTLLVSGLCKNGKQAE 480
           RG SIN GA+T++I WLC+NSRF SAL F +EMLLRN+RP DGLLT LV GLCK GK ++
Sbjct: 482 RGFSINPGAFTTIIHWLCMNSRFESALRFLREMLLRNMRPNDGLLTTLVGGLCKEGKHSD 541

Query: 481 ATELCFRLFEKGFTVNTVTSNALIHGMCEAGNLKEAGKLLMEMLQRGLILDKVTYNTLIL 540
           A EL FRL EKGF  N VT+NALIHG+C+ GN++EA +LL +ML+RG +LDK+TYNTLI 
Sbjct: 542 AVELWFRLLEKGFGANLVTTNALIHGLCKTGNMQEAVRLLKKMLERGFVLDKITYNTLIS 601

Query: 541 GCCKDGKPEEGFKLKEDMIKRGIQPDNYTYNLLLHGLCSLGKMEEAIELWEECKRTVFGP 600
           GCCK+GK EEGFKL+ +M+K+GI+PD +TYNLL+HG+C +GK++EA+ LW ECK     P
Sbjct: 602 GCCKEGKVEEGFKLRGEMVKQGIEPDTFTYNLLIHGMCRIGKLDEAVNLWNECKSRDLVP 661

Query: 601 DIYTYGVMIDGFCKADKIEEGETLFNEMISKKMELNPVVYNTLIRAYCKIGNTTAAFRLS 660
           ++YTYGVMIDG+CKADKIEEGE LF E++++ +ELN VVYNTLIRAYC+ GNT  AF+L 
Sbjct: 662 NVYTYGVMIDGYCKADKIEEGEKLFTELLTQNLELNSVVYNTLIRAYCRNGNTVEAFKLH 721

Query: 661 NDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKL 720
           +DM+S+GI PT+ TYSSLIHG+CNIG +EDAKCL DEMRKEGLLPNV CYTALIGGYCKL
Sbjct: 722 DDMRSKGIPPTTATYSSLIHGMCNIGRMEDAKCLIDEMRKEGLLPNVVCYTALIGGYCKL 781

Query: 721 GQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISPDSITY 780
           GQMD+  +VLQEM+S +IHPNKITYT+MI GY K GDMK AAKLL+ M  KGI PD++TY
Sbjct: 782 GQMDKVVNVLQEMSSYDIHPNKITYTVMIDGYSKSGDMKTAAKLLHEMVGKGIVPDTVTY 841

Query: 781 NVFMDGHCKGGNVEEA 796
           NV  +G CK G +EE 
Sbjct: 842 NVLTNGFCKEGKIEEG 857

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449462543|ref|XP_004149000.1| PREDICTED: pentatricopeptide repeat-containing protein At4g19440, chloroplastic-like [Cucumis sativus]

 Score =  967 bits (2500), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 500/831 (60%), Positives = 604/831 (72%), Gaps = 9/831 (1%)

Query: 1   MDLRRLSIPKPCSLSIAVSRPLTHVTSTAQQQQELHNRNQQQQPPPPQSSNQSLLKWVSS 60
           M L R  I K   +    SR L  V+ST Q  +E H      Q PP QS +Q  L WVSS
Sbjct: 1   MHLTRFKISKTTPVLFPFSRRLVCVSST-QPHKEHH------QDPPWQSQDQLHL-WVSS 52

Query: 61  VLSKQSLDPSKCKLFLPNLSPQEFDTLFFSIRSNVNPKTALKFFYFASQSCNFRFTVRSY 120
           VLS  SLD SKC   LP+LSP +FD LFFSI    NP T L FFYFAS S  FRFT+ SY
Sbjct: 53  VLSHSSLDSSKCSALLPHLSPSQFDQLFFSIGLKANPMTCLNFFYFASNSFKFRFTIHSY 112

Query: 121 CLLIRLLLFSNLLSPARLLLIRLIDGKMPVLYASNPSIRHIEIASQMVDLNVTSEPALGV 180
           C LI LL+ S  + PARLLLIRLIDG +PVL   +    HIEIA+ +  L          
Sbjct: 113 CTLILLLIRSKFIPPARLLLIRLIDGNLPVLNLDSEKF-HIEIANALFGLTSVVGRFEWT 171

Query: 181 QIADLLVHVYCTQFKNLGFGYAIDVFSIFSSKGIFPSLKTCNFLLNSLVKANEVQKGIEV 240
           Q  DLL+HVY TQF+NLGF  A+DVF + + KG FPSLKTCNFLL+SLVKANE +K  EV
Sbjct: 172 QAFDLLIHVYSTQFRNLGFSCAVDVFYLLARKGTFPSLKTCNFLLSSLVKANEFEKCCEV 231

Query: 241 FETMCRGVSPDVFLFSTAINAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIHGLCRN 300
           F  M  G  PDVF F+  INA CK G++E+AI LF KME+LGI+PNVVTYN II+GLC+N
Sbjct: 232 FRVMSEGACPDVFSFTNVINALCKGGKMENAIELFMKMEKLGISPNVVTYNCIINGLCQN 291

Query: 301 GRLYEAFHLKEKMVLREVEPSLITYSILINGLIKLEKFDDANFVLKEMSVRGFVPNYVVY 360
           GRL  AF LKEKM ++ V+P+L TY  LINGLIKL  FD  N VL EM   GF PN VV+
Sbjct: 292 GRLDNAFELKEKMTVKGVQPNLKTYGALINGLIKLNFFDKVNHVLDEMIGSGFNPNVVVF 351

Query: 361 NTLIDGYCKKGNISEALKIRDDMVSKGMSPNSVTFNSLIHGFCKSGQMDNAENALEEMLS 420
           N LIDGYCK GNI  ALKI+D M+SK ++P SVT  SL+ GFCKS Q+++AENALEE+LS
Sbjct: 352 NNLIDGYCKMGNIEGALKIKDVMISKNITPTSVTLYSLMQGFCKSDQIEHAENALEEILS 411

Query: 421 RGLSINQGAYTSVIKWLCINSRFNSALHFTKEMLLRNLRPGDGLLTLLVSGLCKNGKQAE 480
            GLSI+     SV+ WLC   R++SA  FTK ML RN RP D LLT+LV GLCK+GK  E
Sbjct: 412 SGLSIHPDNCYSVVHWLCKKFRYHSAFRFTKMMLSRNFRPSDLLLTMLVCGLCKDGKHLE 471

Query: 481 ATELCFRLFEKGFTVNTVTSNALIHGMCEAGNLKEAGKLLMEMLQRGLILDKVTYNTLIL 540
           ATEL FRL EKG   + VTSNALIHG+C AG L EA +++ EML+RGL +D++TYN LIL
Sbjct: 472 ATELWFRLLEKGSPASKVTSNALIHGLCGAGKLPEASRIVKEMLERGLPMDRITYNALIL 531

Query: 541 GCCKDGKPEEGFKLKEDMIKRGIQPDNYTYNLLLHGLCSLGKMEEAIELWEECKRTVFGP 600
           G C +GK E  F+L+E+M KRGIQPD YTYN LL GLC++GK+++AI+LW+E K +    
Sbjct: 532 GFCNEGKVEGCFRLREEMTKRGIQPDIYTYNFLLRGLCNVGKLDDAIKLWDEFKASGLIS 591

Query: 601 DIYTYGVMIDGFCKADKIEEGETLFNEMISKKMELNPVVYNTLIRAYCKIGNTTAAFRLS 660
           +I+TYG+M++G+CKA++IE+ E LFNE++SKKMELN +VYN +I+A+C+ GN  AA +L 
Sbjct: 592 NIHTYGIMMEGYCKANRIEDVENLFNELLSKKMELNSIVYNIIIKAHCQNGNVAAALQLL 651

Query: 661 NDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKL 720
            +MKS+GILP   TYSSLIHG+CNIGL+EDAK L DEMRKEG +PNV CYTALIGGYCKL
Sbjct: 652 ENMKSKGILPNCATYSSLIHGVCNIGLVEDAKHLIDEMRKEGFVPNVVCYTALIGGYCKL 711

Query: 721 GQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISPDSITY 780
           GQMD AES   EM S NIHPNK TYT+MI GYCKLG+M++A  LL  M E GI PD +TY
Sbjct: 712 GQMDTAESTWLEMISFNIHPNKFTYTVMIDGYCKLGNMEKANNLLIKMKESGIVPDVVTY 771

Query: 781 NVFMDGHCKGGNVEEAFKVCDRMLSEGLSLDEITYTTLIDGWQSSTITNQD 831
           NV  +G CK  +++ AFKVCD+M +EGL +DEITYTTL+ GW   TIT QD
Sbjct: 772 NVLTNGFCKANDMDNAFKVCDQMATEGLPVDEITYTTLVHGWNPPTITGQD 822

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255557743|ref|XP_002519901.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis] gi|223540947|gb|EEF42505.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis]

 Score =  948 bits (2450), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 448/650 (68%), Positives = 539/650 (82%), Gaps = 1/650 (0%)

Query: 175 EPALGVQIADLLVHVYCTQFKNLGFGYAIDVFSIFSSKGIFPSLKTCNFLLNSLVKANEV 234
           EPA+ V + DLL+HVY TQFK+LGFG   ++FS+ ++KG+FPSLKTCNFLL+SLVKANEV
Sbjct: 119 EPAVAVTVVDLLIHVYSTQFKHLGFGVVFELFSLLANKGLFPSLKTCNFLLSSLVKANEV 178

Query: 235 QKGIEVFETMCR-GVSPDVFLFSTAINAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNI 293
           +   +VF+ MC  GV+PDV+LFST +NAFC  GR++DAI LF KME++G+APNVVTYNNI
Sbjct: 179 KMSYQVFDIMCHCGVTPDVYLFSTMVNAFCTGGRVDDAIELFRKMEKVGVAPNVVTYNNI 238

Query: 294 IHGLCRNGRLYEAFHLKEKMVLREVEPSLITYSILINGLIKLEKFDDANFVLKEMSVRGF 353
           IHGLC+NGRL EAF  KEKM    V+PSL+TY +LINGL+KLE+FD+AN +LKEMS RG+
Sbjct: 239 IHGLCKNGRLDEAFQFKEKMEKERVKPSLVTYGVLINGLVKLERFDEANCILKEMSDRGY 298

Query: 354 VPNYVVYNTLIDGYCKKGNISEALKIRDDMVSKGMSPNSVTFNSLIHGFCKSGQMDNAEN 413
            PN VVYNTLIDGYC+ GNIS AL+IRDDM+S G+SPNSVT NSLI G+CKS QM++AE+
Sbjct: 299 APNNVVYNTLIDGYCRIGNISTALQIRDDMISNGISPNSVTCNSLIQGYCKSNQMEHAEH 358

Query: 414 ALEEMLSRGLSINQGAYTSVIKWLCINSRFNSALHFTKEMLLRNLRPGDGLLTLLVSGLC 473
            LEEML+ G  INQG +TSVI  LC+  RF+SAL F  EMLLRN +P DGLLTLLVSGLC
Sbjct: 359 LLEEMLTGGGVINQGTFTSVIHRLCLKCRFDSALLFIMEMLLRNFKPNDGLLTLLVSGLC 418

Query: 474 KNGKQAEATELCFRLFEKGFTVNTVTSNALIHGMCEAGNLKEAGKLLMEMLQRGLILDKV 533
           +NGKQ+EA EL +RL EKGF  NTVTSNALIHG+CEAG+ +EA KLL EML+RGL+LD +
Sbjct: 419 QNGKQSEAIELWYRLLEKGFAANTVTSNALIHGLCEAGSKEEAAKLLKEMLERGLVLDSI 478

Query: 534 TYNTLILGCCKDGKPEEGFKLKEDMIKRGIQPDNYTYNLLLHGLCSLGKMEEAIELWEEC 593
           +YNTLIL CCK+GK EEGFKLKE+M++RGIQPD YTYN+LLHGLC++GK+EEA  LW EC
Sbjct: 479 SYNTLILACCKEGKVEEGFKLKEEMVRRGIQPDMYTYNMLLHGLCNMGKIEEAGGLWHEC 538

Query: 594 KRTVFGPDIYTYGVMIDGFCKADKIEEGETLFNEMISKKMELNPVVYNTLIRAYCKIGNT 653
           K+    PD YTYG+MIDG+CKA+++EEGE LF EM++ K+E N VVY TLIRAYC+ GN 
Sbjct: 539 KKNGNFPDAYTYGIMIDGYCKANRVEEGEKLFQEMVTMKIEQNAVVYGTLIRAYCENGNM 598

Query: 654 TAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTAL 713
             AFRL +DM+SRGI  TS TYSSLIHGL NIGL++ A  L DEMRKEGL PNV CYTAL
Sbjct: 599 REAFRLRDDMRSRGIPQTSATYSSLIHGLSNIGLVDSANQLLDEMRKEGLSPNVVCYTAL 658

Query: 714 IGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAEKGI 773
           IGGYCKLGQM + +S+LQEM+  N+HPNKITYTIMI G+CKLG+MK AAKLLN MA+KGI
Sbjct: 659 IGGYCKLGQMHKVDSILQEMSINNVHPNKITYTIMINGHCKLGNMKAAAKLLNEMAQKGI 718

Query: 774 SPDSITYNVFMDGHCKGGNVEEAFKVCDRMLSEGLSLDEITYTTLIDGWQ 823
            PD++TYN   +G CK G +EEA KVCD M + G+SLD+ITYTTLIDGW 
Sbjct: 719 VPDAVTYNALTNGFCKEGKMEEALKVCDLMSTGGISLDDITYTTLIDGWH 768

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449519270|ref|XP_004166658.1| PREDICTED: LOW QUALITY PROTEIN: pentatricopeptide repeat-containing protein At4g19440, chloroplastic-like [Cucumis sativus]

 Score =  902 bits (2332), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 477/831 (57%), Positives = 584/831 (70%), Gaps = 32/831 (3%)

Query: 1   MDLRRLSIPKPCSLSIAVSRPLTHVTSTAQQQQELHNRNQQQQPPPPQSSNQSLLKWVSS 60
           M L R  I K   +    SR L  V+ST Q  +E H      Q PP QS +Q  L WVSS
Sbjct: 1   MHLTRFKISKTTPVLFPFSRRLVCVSST-QPHKEHH------QDPPWQSQDQLHL-WVSS 52

Query: 61  VLSKQSLDPSKCKLFLPNLSPQEFDTLFFSIRSNVNPKTALKFFYFASQSCNFRFTVRSY 120
           VLS  SLD SKC   LP+LSP +FD LFFSI    NP T L FF           T+R  
Sbjct: 53  VLSHSSLDSSKCSALLPHLSPSQFDQLFFSIGLKANPMTCLNFF-----------TLR-- 99

Query: 121 CLLIRLLLFSNLLSPARLLLIRLIDGKMPVLYASNPSIRHIEIASQMVDLNVTSEPALGV 180
                 L+ SN   P+    I ++ G +PVL   +    HIEIA+ +  L          
Sbjct: 100 ------LILSNFDLPS----ILIVYGNLPVLNLDSEKF-HIEIANALFGLTSVVGRFEWT 148

Query: 181 QIADLLVHVYCTQFKNLGFGYAIDVFSIFSSKGIFPSLKTCNFLLNSLVKANEVQKGIEV 240
           Q  DLL+HVY TQF+NLGF  A+DVF + + KG FPSLKTCNF L+SLVKANE +K  EV
Sbjct: 149 QAFDLLIHVYSTQFRNLGFSCAVDVFYLLARKGTFPSLKTCNFXLSSLVKANEFEKCCEV 208

Query: 241 FETMCRGVSPDVFLFSTAINAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIHGLCRN 300
           F  M  G  PDVF F+  INA CK G++E+AI LF KME+LGI+PNVVTYN II+GLC+N
Sbjct: 209 FRVMSEGACPDVFSFTNVINALCKGGKMENAIELFMKMEKLGISPNVVTYNCIINGLCQN 268

Query: 301 GRLYEAFHLKEKMVLREVEPSLITYSILINGLIKLEKFDDANFVLKEMSVRGFVPNYVVY 360
           GRL  AF LKEKM ++ V+P+L TY  LINGLIKL  FD  N +L EM   GF PN VV+
Sbjct: 269 GRLDNAFELKEKMTVKGVQPNLKTYGALINGLIKLNFFDKVNHILDEMIGAGFNPNVVVF 328

Query: 361 NTLIDGYCKKGNISEALKIRDDMVSKGMSPNSVTFNSLIHGFCKSGQMDNAENALEEMLS 420
           N LIDGYCK GNI  ALKI+D M+SK ++P SVT  SL+ GFCKS Q+++AENALEE+LS
Sbjct: 329 NNLIDGYCKMGNIEGALKIKDVMISKNITPTSVTLYSLMQGFCKSDQIEHAENALEEILS 388

Query: 421 RGLSINQGAYTSVIKWLCINSRFNSALHFTKEMLLRNLRPGDGLLTLLVSGLCKNGKQAE 480
            GLSI+     SV+ WLC   R++SA  FTK ML RN RP D LLT+LV GLCK+GK  E
Sbjct: 389 SGLSIHPDNCYSVVHWLCKKFRYHSAFRFTKMMLSRNFRPSDLLLTMLVCGLCKDGKHLE 448

Query: 481 ATELCFRLFEKGFTVNTVTSNALIHGMCEAGNLKEAGKLLMEMLQRGLILDKVTYNTLIL 540
           ATEL FRL EKG   + VTSNALIHG+C AG L EA +++ EML+RGL +D++TYN LIL
Sbjct: 449 ATELWFRLLEKGSPASKVTSNALIHGLCGAGKLPEASRIVKEMLERGLPMDRITYNALIL 508

Query: 541 GCCKDGKPEEGFKLKEDMIKRGIQPDNYTYNLLLHGLCSLGKMEEAIELWEECKRTVFGP 600
           G C +GK E  F+L+E+M KRGIQPD YTYN LL GLC++GK+++AI+LW+E K +    
Sbjct: 509 GFCNEGKVEGCFRLREEMTKRGIQPDIYTYNFLLRGLCNVGKLDDAIKLWDEFKASGLIS 568

Query: 601 DIYTYGVMIDGFCKADKIEEGETLFNEMISKKMELNPVVYNTLIRAYCKIGNTTAAFRLS 660
           +I+TYG+M++G+CKA++IE+ E LFNE++SKKMELN +VYN +I+A+C+ GN  AA +L 
Sbjct: 569 NIHTYGIMMEGYCKANRIEDVENLFNELLSKKMELNSIVYNIIIKAHCQNGNVAAALQLL 628

Query: 661 NDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKL 720
            +MKS+GILP   TYSSLIHG+CNIGL+EDAK L DEMRKEG +PNV CYTALIGGYCKL
Sbjct: 629 ENMKSKGILPNCATYSSLIHGVCNIGLVEDAKHLIDEMRKEGFVPNVVCYTALIGGYCKL 688

Query: 721 GQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISPDSITY 780
           GQMD AES   EM S NIHPNK TYT+MI GYCKLG+M++A  LL  M E GI PD +TY
Sbjct: 689 GQMDTAESTWLEMISFNIHPNKFTYTVMIDGYCKLGNMEKANNLLIKMKESGIVPDVVTY 748

Query: 781 NVFMDGHCKGGNVEEAFKVCDRMLSEGLSLDEITYTTLIDGWQSSTITNQD 831
           NV  +G CK  +++ AFKVCD+M +EGL +DEITYTTL+ GW   TIT QD
Sbjct: 749 NVLTNGFCKANDMDNAFKVCDQMATEGLPVDEITYTTLVHGWNPPTITGQD 799

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|223635621|sp|Q940A6.2|PP325_ARATH RecName: Full=Pentatricopeptide repeat-containing protein At4g19440, chloroplastic; Flags: Precursor

 Score =  859 bits (2219), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 447/826 (54%), Positives = 587/826 (71%), Gaps = 21/826 (2%)

Query: 1   MDLRRLSIPKPCSLS----IAVSRPLTHVTSTAQQQQELHNRNQQQQPPPPQSSNQSLLK 56
           MDLRRLS            IA SR   H +   QQ   +H  ++ ++     SS++ L +
Sbjct: 25  MDLRRLSRASYLFTRRLKFIAKSRKCFHTSRYLQQC--VHRPDKSEE----TSSDRHLHE 78

Query: 57  WVSSVLSKQSLDPSKCKLFLPNLSPQEFDTLFFSIRSNVNPKTALKFFYFASQSCNFRFT 116
            +SSVLSK+SLD  +CK  +  LSP EFD LF   RS VNPKTAL FF  AS S +F F+
Sbjct: 79  RLSSVLSKRSLDYEQCKQLITVLSPLEFDRLFPEFRSKVNPKTALDFFRLASDSFSFSFS 138

Query: 117 VRSYCLLIRLLLFSNLLSPARLLLIRLIDGKMPVLYASNPSIRHIEIASQMVDLNVTSEP 176
           +RSYCLLI LLL +NLLS AR++LIRLI+G +PVL       R + IA  M  L++  + 
Sbjct: 139 LRSYCLLIGLLLDANLLSAARVVLIRLINGNVPVLPCGLRDSR-VAIADAMASLSLCFDE 197

Query: 177 ALGVQIADLLVHVYCTQFKNLGFGYAIDVFSIFSSKGIFPSLKTCNFLLNSLVKANEVQK 236
            +  +++DLL+ VYCTQFK  G   A+DVF + ++KG+FPS  TCN LL SLV+ANE QK
Sbjct: 198 EIRRKMSDLLIEVYCTQFKRDGCYLALDVFPVLANKGMFPSKTTCNILLTSLVRANEFQK 257

Query: 237 GIEVFETMCRGVSPDVFLFSTAINAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIHG 296
             E F+ +C+GVSPDV+LF+TAINAFCK G++E+A+ LF+KMEE G+APNVVT+N +I G
Sbjct: 258 CCEAFDVVCKGVSPDVYLFTTAINAFCKGGKVEEAVKLFSKMEEAGVAPNVVTFNTVIDG 317

Query: 297 LCRNGRLYEAFHLKEKMVLREVEPSLITYSILINGLIKLEKFDDANFVLKEMSVRGFVPN 356
           L   GR  EAF  KEKMV R +EP+LITYSIL+ GL + ++  DA FVLKEM+ +GF PN
Sbjct: 318 LGMCGRYDEAFMFKEKMVERGMEPTLITYSILVKGLTRAKRIGDAYFVLKEMTKKGFPPN 377

Query: 357 YVVYNTLIDGYCKKGNISEALKIRDDMVSKGMSPNSVTFNSLIHGFCKSGQMDNAENALE 416
            +VYN LID + + G++++A++I+D MVSKG+S  S T+N+LI G+CK+GQ DNAE  L+
Sbjct: 378 VIVYNNLIDSFIEAGSLNKAIEIKDLMVSKGLSLTSSTYNTLIKGYCKNGQADNAERLLK 437

Query: 417 EMLSRGLSINQGAYTSVIKWLCINSRFNSALHFTKEMLLRNLRPGDGLLTLLVSGLCKNG 476
           EMLS G ++NQG++TSVI  LC +  F+SAL F  EMLLRN+ PG GLLT L+SGLCK+G
Sbjct: 438 EMLSIGFNVNQGSFTSVICLLCSHLMFDSALRFVGEMLLRNMSPGGGLLTTLISGLCKHG 497

Query: 477 KQAEATELCFRLFEKGFTVNTVTSNALIHGMCEAGNLKEAGKLLMEMLQRGLILDKVTYN 536
           K ++A EL F+   KGF V+T TSNAL+HG+CEAG L EA ++  E+L RG ++D+V+YN
Sbjct: 498 KHSKALELWFQFLNKGFVVDTRTSNALLHGLCEAGKLDEAFRIQKEILGRGCVMDRVSYN 557

Query: 537 TLILGCCKDGKPEEGFKLKEDMIKRGIQPDNYTYNLLLHGLCSLGKMEEAIELWEECKRT 596
           TLI GCC   K +E F   ++M+KRG++PDNYTY++L+ GL ++ K+EEAI+ W++CKR 
Sbjct: 558 TLISGCCGKKKLDEAFMFLDEMVKRGLKPDNYTYSILICGLFNMNKVEEAIQFWDDCKRN 617

Query: 597 VFGPDIYTYGVMIDGFCKADKIEEGETLFNEMISKKMELNPVVYNTLIRAYCKIGNTTAA 656
              PD+YTY VMIDG CKA++ EEG+  F+EM+SK ++ N VVYN LIRAYC+ G  + A
Sbjct: 618 GMLPDVYTYSVMIDGCCKAERTEEGQEFFDEMMSKNVQPNTVVYNHLIRAYCRSGRLSMA 677

Query: 657 FRLSNDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGG 716
             L  DMK +GI P S TY+SLI G+  I  +E+AK LF+EMR EGL PNV  YTALI G
Sbjct: 678 LELREDMKHKGISPNSATYTSLIKGMSIISRVEEAKLLFEEMRMEGLEPNVFHYTALIDG 737

Query: 717 YCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISPD 776
           Y KLGQM + E +L+EM S N+HPNKITYT+MIGGY + G++ EA++LLN M EKGI PD
Sbjct: 738 YGKLGQMVKVECLLREMHSKNVHPNKITYTVMIGGYARDGNVTEASRLLNEMREKGIVPD 797

Query: 777 SITYNVFMDGHCKGGNVEEAFKVCDRMLSEGLSLDEITYTTLIDGW 822
           SITY  F+ G+ K G V EAFK            DE  Y  +I+GW
Sbjct: 798 SITYKEFIYGYLKQGGVLEAFK----------GSDEENYAAIIEGW 833

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356560499|ref|XP_003548529.1| PREDICTED: pentatricopeptide repeat-containing protein At4g19440, chloroplastic-like [Glycine max]

 Score =  859 bits (2219), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 450/842 (53%), Positives = 582/842 (69%), Gaps = 17/842 (2%)

Query: 1   MDLRRLSIPKPCSLSIAVSRPLTHVTSTA----QQQQELHNRNQQQQPPPPQSSNQSLLK 56
           MD  RL+ PKP  +    +RPLT VTSTA    ++Q           P PP       L 
Sbjct: 1   MDFARLNTPKPPPI---FTRPLTWVTSTALRLHRRQLSPPPPPPLPPPSPPPPPPHPSLS 57

Query: 57  WVSSVLSKQSLDPSKCKLFLPNLSPQEFDTLFFSIRSNVNPKTALKFFYFASQSCNFRFT 116
            + S+L+ ++LD SKCK  LP+L+P  FD LF S+   VNPKT  +FF FA++ CNFRFT
Sbjct: 58  SIPSILTSKTLDSSKCKSILPHLTPHHFDRLFLSLHRTVNPKTTHEFFRFATRHCNFRFT 117

Query: 117 VRSYCLLIRLLLFSNLLSPARLLLIRLIDGKMPVLYASNPSIRH---IEIASQMVDLNVT 173
           VRSYCLL+R LL  + +  AR LL RLIDG +P   +   +  H    EIAS M++LN  
Sbjct: 118 VRSYCLLLRSLLADSFVPRARFLLARLIDGHVPTWSSKTTTSFHDRLREIASSMLELNQG 177

Query: 174 S-EPALGVQIADLLVHVYCTQFKNLGFGYAIDVFSIFSSKGIFPSLKTCNFLLNSLVKAN 232
           S E  LG    DLL+H+ C+QFK LG   A D+F +FS +G+FP LKTCN LL+SLVKAN
Sbjct: 178 SDEQRLGE--LDLLLHILCSQFKCLGSRCAFDIFVMFSKRGVFPCLKTCNLLLSSLVKAN 235

Query: 233 EVQKGIEVFETMCRGVSPDVFLFSTAINAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNN 292
           E+ K  EVF+  C+GV+PDVF F+TAINAFCK GR+ DA+ LF KME LG+ PNVVTYNN
Sbjct: 236 ELHKSYEVFDLACQGVAPDVFTFTTAINAFCKGGRVGDAVDLFCKMEGLGVFPNVVTYNN 295

Query: 293 IIHGLCRNGRLYEAFHLKEKMVLREVEPSLITYSILINGLIKLEKFDDANFVLKEMSVRG 352
           +I GL ++GR  EA   K++MV  +V PS++TY +LI+GL+KLE F++AN VL EM   G
Sbjct: 296 VIDGLFKSGRFEEALRFKDRMVRSKVNPSVVTYGVLISGLMKLEMFEEANEVLVEMYSMG 355

Query: 353 FVPNYVVYNTLIDGYCKKGNISEALKIRDDMVSKGMSPNSVTFNSLIHGFCKSGQMDNAE 412
           F PN VV+N LIDGYC+KG++ EAL++RD+M  KGM PN VTFN+L+ GFC+S QM+ AE
Sbjct: 356 FAPNEVVFNALIDGYCRKGDMGEALRVRDEMAMKGMKPNFVTFNTLLQGFCRSNQMEQAE 415

Query: 413 NALEEMLSRGLSINQGAYTSVIKWLCINSRFNSALHFTKEMLLRNLRPGDGLLTLLVSGL 472
             L  +LS GLS+N    + VI  L   S F SAL    ++L  N+R  D LLT LV GL
Sbjct: 416 QVLVYILSSGLSVNMDVCSYVIHRLMERSGFVSALKIVTKLLSGNIRVSDSLLTPLVVGL 475

Query: 473 CKNGKQAEATELCFRLFE-KGFTVNTVTSNALIHGMCEAGNLKEAGKLLMEMLQRGLILD 531
           CK    +EA EL F+L   KG   NTVTSNAL+HG+CE GN++E  ++L +ML++GL+LD
Sbjct: 476 CKCEGHSEAIELWFKLAAVKGLAANTVTSNALLHGLCERGNMEEVFEVLKQMLEKGLLLD 535

Query: 532 KVTYNTLILGCCKDGKPEEGFKLKEDMIKRGIQPDNYTYNLLLHGLCSLGKMEEAIELWE 591
           +++YNTLI GCCK GK EE FKLKE+M+++  QPD YTYN L+ GL  +GK+++   L  
Sbjct: 536 RISYNTLIFGCCKWGKIEEAFKLKEEMVQQEFQPDTYTYNFLMKGLADMGKIDDVHRLLH 595

Query: 592 ECKRTVFGPDIYTYGVMIDGFCKADKIEEGETLFNEMISKKMELNPVVYNTLIRAYCKIG 651
           E K   F P++YTY ++++G+CKAD+IE+    F  +  +K+EL+ VVYN LI AYC+IG
Sbjct: 596 EAKEYGFVPNVYTYALLLEGYCKADRIEDAVKFFKNLDYEKVELSSVVYNILIAAYCRIG 655

Query: 652 NTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYT 711
           N T AF+L + MKSRGILPT  TYSSLIHG+C IG +++AK +F+EMR EGLLPNV CYT
Sbjct: 656 NVTEAFKLRDAMKSRGILPTCATYSSLIHGMCCIGRVDEAKEIFEEMRNEGLLPNVFCYT 715

Query: 712 ALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAEK 771
           ALIGG+CKLGQMD   S+L EM+S  I PNKITYTIMI GYCKLG+MKEA +LLN M   
Sbjct: 716 ALIGGHCKLGQMDIVGSILLEMSSNGIRPNKITYTIMIDGYCKLGNMKEARELLNEMIRN 775

Query: 772 GISPDSITYNVFMDGHCKGGNVEEAFKVCDRMLSEGLSL-DEITYTTLIDGWQSST-ITN 829
           GI+PD++TYN    G+CK   +    +  D   + GL L +EITY TLI      T I+N
Sbjct: 776 GIAPDTVTYNALQKGYCKERELTVTLQ-SDHKSNIGLPLEEEITYNTLIHKLHPHTAISN 834

Query: 830 QD 831
           ++
Sbjct: 835 RE 836

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|3080374|emb|CAA18631.1| putative protein [Arabidopsis thaliana] gi|7268739|emb|CAB78946.1| putative protein [Arabidopsis thaliana]

 Score =  858 bits (2218), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 447/826 (54%), Positives = 587/826 (71%), Gaps = 21/826 (2%)

Query: 1   MDLRRLSIPKPCSLS----IAVSRPLTHVTSTAQQQQELHNRNQQQQPPPPQSSNQSLLK 56
           MDLRRLS            IA SR   H +   QQ   +H  ++ ++     SS++ L +
Sbjct: 1   MDLRRLSRASYLFTRRLKFIAKSRKCFHTSRYLQQC--VHRPDKSEET----SSDRHLHE 54

Query: 57  WVSSVLSKQSLDPSKCKLFLPNLSPQEFDTLFFSIRSNVNPKTALKFFYFASQSCNFRFT 116
            +SSVLSK+SLD  +CK  +  LSP EFD LF   RS VNPKTAL FF  AS S +F F+
Sbjct: 55  RLSSVLSKRSLDYEQCKQLITVLSPLEFDRLFPEFRSKVNPKTALDFFRLASDSFSFSFS 114

Query: 117 VRSYCLLIRLLLFSNLLSPARLLLIRLIDGKMPVLYASNPSIRHIEIASQMVDLNVTSEP 176
           +RSYCLLI LLL +NLLS AR++LIRLI+G +PVL       R + IA  M  L++  + 
Sbjct: 115 LRSYCLLIGLLLDANLLSAARVVLIRLINGNVPVLPCGLRDSR-VAIADAMASLSLCFDE 173

Query: 177 ALGVQIADLLVHVYCTQFKNLGFGYAIDVFSIFSSKGIFPSLKTCNFLLNSLVKANEVQK 236
            +  +++DLL+ VYCTQFK  G   A+DVF + ++KG+FPS  TCN LL SLV+ANE QK
Sbjct: 174 EIRRKMSDLLIEVYCTQFKRDGCYLALDVFPVLANKGMFPSKTTCNILLTSLVRANEFQK 233

Query: 237 GIEVFETMCRGVSPDVFLFSTAINAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIHG 296
             E F+ +C+GVSPDV+LF+TAINAFCK G++E+A+ LF+KMEE G+APNVVT+N +I G
Sbjct: 234 CCEAFDVVCKGVSPDVYLFTTAINAFCKGGKVEEAVKLFSKMEEAGVAPNVVTFNTVIDG 293

Query: 297 LCRNGRLYEAFHLKEKMVLREVEPSLITYSILINGLIKLEKFDDANFVLKEMSVRGFVPN 356
           L   GR  EAF  KEKMV R +EP+LITYSIL+ GL + ++  DA FVLKEM+ +GF PN
Sbjct: 294 LGMCGRYDEAFMFKEKMVERGMEPTLITYSILVKGLTRAKRIGDAYFVLKEMTKKGFPPN 353

Query: 357 YVVYNTLIDGYCKKGNISEALKIRDDMVSKGMSPNSVTFNSLIHGFCKSGQMDNAENALE 416
            +VYN LID + + G++++A++I+D MVSKG+S  S T+N+LI G+CK+GQ DNAE  L+
Sbjct: 354 VIVYNNLIDSFIEAGSLNKAIEIKDLMVSKGLSLTSSTYNTLIKGYCKNGQADNAERLLK 413

Query: 417 EMLSRGLSINQGAYTSVIKWLCINSRFNSALHFTKEMLLRNLRPGDGLLTLLVSGLCKNG 476
           EMLS G ++NQG++TSVI  LC +  F+SAL F  EMLLRN+ PG GLLT L+SGLCK+G
Sbjct: 414 EMLSIGFNVNQGSFTSVICLLCSHLMFDSALRFVGEMLLRNMSPGGGLLTTLISGLCKHG 473

Query: 477 KQAEATELCFRLFEKGFTVNTVTSNALIHGMCEAGNLKEAGKLLMEMLQRGLILDKVTYN 536
           K ++A EL F+   KGF V+T TSNAL+HG+CEAG L EA ++  E+L RG ++D+V+YN
Sbjct: 474 KHSKALELWFQFLNKGFVVDTRTSNALLHGLCEAGKLDEAFRIQKEILGRGCVMDRVSYN 533

Query: 537 TLILGCCKDGKPEEGFKLKEDMIKRGIQPDNYTYNLLLHGLCSLGKMEEAIELWEECKRT 596
           TLI GCC   K +E F   ++M+KRG++PDNYTY++L+ GL ++ K+EEAI+ W++CKR 
Sbjct: 534 TLISGCCGKKKLDEAFMFLDEMVKRGLKPDNYTYSILICGLFNMNKVEEAIQFWDDCKRN 593

Query: 597 VFGPDIYTYGVMIDGFCKADKIEEGETLFNEMISKKMELNPVVYNTLIRAYCKIGNTTAA 656
              PD+YTY VMIDG CKA++ EEG+  F+EM+SK ++ N VVYN LIRAYC+ G  + A
Sbjct: 594 GMLPDVYTYSVMIDGCCKAERTEEGQEFFDEMMSKNVQPNTVVYNHLIRAYCRSGRLSMA 653

Query: 657 FRLSNDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGG 716
             L  DMK +GI P S TY+SLI G+  I  +E+AK LF+EMR EGL PNV  YTALI G
Sbjct: 654 LELREDMKHKGISPNSATYTSLIKGMSIISRVEEAKLLFEEMRMEGLEPNVFHYTALIDG 713

Query: 717 YCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISPD 776
           Y KLGQM + E +L+EM S N+HPNKITYT+MIGGY + G++ EA++LLN M EKGI PD
Sbjct: 714 YGKLGQMVKVECLLREMHSKNVHPNKITYTVMIGGYARDGNVTEASRLLNEMREKGIVPD 773

Query: 777 SITYNVFMDGHCKGGNVEEAFKVCDRMLSEGLSLDEITYTTLIDGW 822
           SITY  F+ G+ K G V EAFK            DE  Y  +I+GW
Sbjct: 774 SITYKEFIYGYLKQGGVLEAFK----------GSDEENYAAIIEGW 809

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|18415314|ref|NP_567587.1| pentatricopeptide repeat-containing protein [Arabidopsis thaliana] gi|334186696|ref|NP_001190771.1| pentatricopeptide repeat-containing protein [Arabidopsis thaliana] gi|15810161|gb|AAL07224.1| unknown protein [Arabidopsis thaliana] gi|332658782|gb|AEE84182.1| pentatricopeptide repeat-containing protein [Arabidopsis thaliana] gi|332658783|gb|AEE84183.1| pentatricopeptide repeat-containing protein [Arabidopsis thaliana]

 Score =  858 bits (2218), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 447/826 (54%), Positives = 587/826 (71%), Gaps = 21/826 (2%)

Query: 1   MDLRRLSIPKPCSLS----IAVSRPLTHVTSTAQQQQELHNRNQQQQPPPPQSSNQSLLK 56
           MDLRRLS            IA SR   H +   QQ   +H  ++ ++     SS++ L +
Sbjct: 12  MDLRRLSRASYLFTRRLKFIAKSRKCFHTSRYLQQC--VHRPDKSEE----TSSDRHLHE 65

Query: 57  WVSSVLSKQSLDPSKCKLFLPNLSPQEFDTLFFSIRSNVNPKTALKFFYFASQSCNFRFT 116
            +SSVLSK+SLD  +CK  +  LSP EFD LF   RS VNPKTAL FF  AS S +F F+
Sbjct: 66  RLSSVLSKRSLDYEQCKQLITVLSPLEFDRLFPEFRSKVNPKTALDFFRLASDSFSFSFS 125

Query: 117 VRSYCLLIRLLLFSNLLSPARLLLIRLIDGKMPVLYASNPSIRHIEIASQMVDLNVTSEP 176
           +RSYCLLI LLL +NLLS AR++LIRLI+G +PVL       R + IA  M  L++  + 
Sbjct: 126 LRSYCLLIGLLLDANLLSAARVVLIRLINGNVPVLPCGLRDSR-VAIADAMASLSLCFDE 184

Query: 177 ALGVQIADLLVHVYCTQFKNLGFGYAIDVFSIFSSKGIFPSLKTCNFLLNSLVKANEVQK 236
            +  +++DLL+ VYCTQFK  G   A+DVF + ++KG+FPS  TCN LL SLV+ANE QK
Sbjct: 185 EIRRKMSDLLIEVYCTQFKRDGCYLALDVFPVLANKGMFPSKTTCNILLTSLVRANEFQK 244

Query: 237 GIEVFETMCRGVSPDVFLFSTAINAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIHG 296
             E F+ +C+GVSPDV+LF+TAINAFCK G++E+A+ LF+KMEE G+APNVVT+N +I G
Sbjct: 245 CCEAFDVVCKGVSPDVYLFTTAINAFCKGGKVEEAVKLFSKMEEAGVAPNVVTFNTVIDG 304

Query: 297 LCRNGRLYEAFHLKEKMVLREVEPSLITYSILINGLIKLEKFDDANFVLKEMSVRGFVPN 356
           L   GR  EAF  KEKMV R +EP+LITYSIL+ GL + ++  DA FVLKEM+ +GF PN
Sbjct: 305 LGMCGRYDEAFMFKEKMVERGMEPTLITYSILVKGLTRAKRIGDAYFVLKEMTKKGFPPN 364

Query: 357 YVVYNTLIDGYCKKGNISEALKIRDDMVSKGMSPNSVTFNSLIHGFCKSGQMDNAENALE 416
            +VYN LID + + G++++A++I+D MVSKG+S  S T+N+LI G+CK+GQ DNAE  L+
Sbjct: 365 VIVYNNLIDSFIEAGSLNKAIEIKDLMVSKGLSLTSSTYNTLIKGYCKNGQADNAERLLK 424

Query: 417 EMLSRGLSINQGAYTSVIKWLCINSRFNSALHFTKEMLLRNLRPGDGLLTLLVSGLCKNG 476
           EMLS G ++NQG++TSVI  LC +  F+SAL F  EMLLRN+ PG GLLT L+SGLCK+G
Sbjct: 425 EMLSIGFNVNQGSFTSVICLLCSHLMFDSALRFVGEMLLRNMSPGGGLLTTLISGLCKHG 484

Query: 477 KQAEATELCFRLFEKGFTVNTVTSNALIHGMCEAGNLKEAGKLLMEMLQRGLILDKVTYN 536
           K ++A EL F+   KGF V+T TSNAL+HG+CEAG L EA ++  E+L RG ++D+V+YN
Sbjct: 485 KHSKALELWFQFLNKGFVVDTRTSNALLHGLCEAGKLDEAFRIQKEILGRGCVMDRVSYN 544

Query: 537 TLILGCCKDGKPEEGFKLKEDMIKRGIQPDNYTYNLLLHGLCSLGKMEEAIELWEECKRT 596
           TLI GCC   K +E F   ++M+KRG++PDNYTY++L+ GL ++ K+EEAI+ W++CKR 
Sbjct: 545 TLISGCCGKKKLDEAFMFLDEMVKRGLKPDNYTYSILICGLFNMNKVEEAIQFWDDCKRN 604

Query: 597 VFGPDIYTYGVMIDGFCKADKIEEGETLFNEMISKKMELNPVVYNTLIRAYCKIGNTTAA 656
              PD+YTY VMIDG CKA++ EEG+  F+EM+SK ++ N VVYN LIRAYC+ G  + A
Sbjct: 605 GMLPDVYTYSVMIDGCCKAERTEEGQEFFDEMMSKNVQPNTVVYNHLIRAYCRSGRLSMA 664

Query: 657 FRLSNDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGG 716
             L  DMK +GI P S TY+SLI G+  I  +E+AK LF+EMR EGL PNV  YTALI G
Sbjct: 665 LELREDMKHKGISPNSATYTSLIKGMSIISRVEEAKLLFEEMRMEGLEPNVFHYTALIDG 724

Query: 717 YCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISPD 776
           Y KLGQM + E +L+EM S N+HPNKITYT+MIGGY + G++ EA++LLN M EKGI PD
Sbjct: 725 YGKLGQMVKVECLLREMHSKNVHPNKITYTVMIGGYARDGNVTEASRLLNEMREKGIVPD 784

Query: 777 SITYNVFMDGHCKGGNVEEAFKVCDRMLSEGLSLDEITYTTLIDGW 822
           SITY  F+ G+ K G V EAFK            DE  Y  +I+GW
Sbjct: 785 SITYKEFIYGYLKQGGVLEAFK----------GSDEENYAAIIEGW 820

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

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	833
TAIR|locus:2168078	907	AT5G59900 "AT5G59900" [Arabido	0.763	0.701	0.318	2.1e-90
TAIR|locus:2155730	915	AT5G65560 "AT5G65560" [Arabido	0.635	0.578	0.343	7.3e-84
TAIR|locus:2077061	619	AT3G22470 "AT3G22470" [Arabido	0.665	0.894	0.321	8.2e-83
TAIR|locus:2164910	747	EMB2745 "EMBRYO DEFECTIVE 2745	0.692	0.772	0.312	2.2e-82
TAIR|locus:2034760	637	AT1G12300 [Arabidopsis thalian	0.665	0.869	0.319	9.4e-82
TAIR|locus:2195047	621	AT1G12620 [Arabidopsis thalian	0.662	0.888	0.309	7.6e-80
TAIR|locus:1009023134	644	AT1G12775 [Arabidopsis thalian	0.663	0.858	0.306	2e-79
TAIR|locus:2026192	630	RPF2 "rna processing factor 2"	0.641	0.847	0.315	3.3e-79
TAIR|locus:2015494	629	RPF3 "RNA processing factor 3"	0.663	0.879	0.320	4.2e-79
TAIR|locus:2083976	754	MEE40 "maternal effect embryo	0.631	0.697	0.318	6.6e-79

TAIR|locus:2168078 AT5G59900 "AT5G59900" [Arabidopsis thaliana (taxid:3702)]

 Score = 875 (313.1 bits), Expect = 2.1e-90, Sum P(2) = 2.1e-90
 Identities = 205/644 (31%), Positives = 343/644 (53%)

Query:   180 VQIADLLVHVYCTQFKNLGFGYAIDVFSIFSSKGIFPSLKTCNFLLNSLVKANEVQKGIE 239
             V+    L+H    +F++  FG A+++F+   S GI P +     ++ SL +  ++ +  E
Sbjct:   192 VRTLSALLHGL-VKFRH--FGLAMELFNDMVSVGIRPDVYIYTGVIRSLCELKDLSRAKE 248

Query:   240 VFETM-CRGVSPDVFLFSTAINAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIHGLC 298
             +   M   G   ++  ++  I+  CK+ ++ +A+G+   +    + P+VVTY  +++GLC
Sbjct:   249 MIAHMEATGCDVNIVPYNVLIDGLCKKQKVWEAVGIKKDLAGKDLKPDVVTYCTLVYGLC 308

Query:   299 RNGRLYEAFHLKEKMVLREVEPSLITYSILINGLIKLEKFDDANFVLKEMSVRGFVPNYV 358
             +         + ++M+     PS    S L+ GL K  K ++A  ++K +   G  PN  
Sbjct:   309 KVQEFEIGLEMMDEMLCLRFSPSEAAVSSLVEGLRKRGKIEEALNLVKRVVDFGVSPNLF 368

Query:   359 VYNTLIDGYCKKGNISEALKIRDDMVSKGMSPNSVTFNSLIHGFCKSGQMDNAENALEEM 418
             VYN LID  CK     EA  + D M   G+ PN VT++ LI  FC+ G++D A + L EM
Sbjct:   369 VYNALIDSLCKGRKFHEAELLFDRMGKIGLRPNDVTYSILIDMFCRRGKLDTALSFLGEM 428

Query:   419 LSRGLSINQGAYTSVIKWLCINSRFNSALHFTKEMLLRNLRPGDGLLTLLVSGLCKNGKQ 478
             +  GL ++   Y S+I   C     ++A  F  EM+ + L P     T L+ G C  GK 
Sbjct:   429 VDTGLKLSVYPYNSLINGHCKFGDISAAEGFMAEMINKKLEPTVVTYTSLMGGYCSKGKI 488

Query:   479 AEATELCFRLFEKGFTVNTVTSNALIHGMCEAGNLKEAGKLLMEMLQRGLILDKVTYNTL 538
              +A  L   +  KG   +  T   L+ G+  AG +++A KL  EM +  +  ++VTYN +
Sbjct:   489 NKALRLYHEMTGKGIAPSIYTFTTLLSGLFRAGLIRDAVKLFNEMAEWNVKPNRVTYNVM 548

Query:   539 ILGCCKDGKPEEGFKLKEDMIKRGIQPDNYTYNLLLHGLCSLGKMEEAIELWEECKRTVF 598
             I G C++G   + F+  ++M ++GI PD Y+Y  L+HGLC  G+  EA    +   +   
Sbjct:   549 IEGYCEEGDMSKAFEFLKEMTEKGIVPDTYSYRPLIHGLCLTGQASEAKVFVDGLHKGNC 608

Query:   599 GPDIYTYGVMIDGFCKADKIEEGETLFNEMISKKMELNPVVYNTLIRAYCKIGNTTAAFR 658
               +   Y  ++ GFC+  K+EE  ++  EM+ + ++L+ V Y  LI    K  +    F 
Sbjct:   609 ELNEICYTGLLHGFCREGKLEEALSVCQEMVQRGVDLDLVCYGVLIDGSLKHKDRKLFFG 668

Query:   659 LSNDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYC 718
             L  +M  RG+ P  V Y+S+I      G  ++A  ++D M  EG +PN   YTA+I G C
Sbjct:   669 LLKEMHDRGLKPDDVIYTSMIDAKSKTGDFKEAFGIWDLMINEGCVPNEVTYTAVINGLC 728

Query:   719 KLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLG--DMKEAAKLLNVMAEKGISPD 776
             K G ++EAE +  +M  ++  PN++TY   +    K G  DM++A +L N +  KG+  +
Sbjct:   729 KAGFVNEAEVLCSKMQPVSSVPNQVTYGCFLDILTK-GEVDMQKAVELHNAIL-KGLLAN 786

Query:   777 SITYNVFMDGHCKGGNVEEAFKVCDRMLSEGLSLDEITYTTLID 820
             + TYN+ + G C+ G +EEA ++  RM+ +G+S D ITYTT+I+
Sbjct:   787 TATYNMLIRGFCRQGRIEEASELITRMIGDGVSPDCITYTTMIN 830

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2155730 AT5G65560 "AT5G65560" [Arabidopsis thaliana (taxid:3702)]

 Score = 789 (282.8 bits), Expect = 7.3e-84, Sum P(2) = 7.3e-84
 Identities = 182/530 (34%), Positives = 277/530 (52%)

Query:   290 YNNIIHGLCRNGRLYEAFHLKEKMVLREVEPSLITYSILINGLIKLEKFDDANFVLKEMS 349
             YN +++ L R G + E   +  +M+  +V P++ TY+ ++NG  KL   ++AN  + ++ 
Sbjct:   186 YNTLLNSLARFGLVDEMKQVYMEMLEDKVCPNIYTYNKMVNGYCKLGNVEEANQYVSKIV 245

Query:   350 VRGFVPNYVVYNTLIDGYCKKGNISEALKIRDDMVSKGMSPNSVTFNSLIHGFCKSGQMD 409
               G  P++  Y +LI GYC++ ++  A K+ ++M  KG   N V +  LIHG C + ++D
Sbjct:   246 EAGLDPDFFTYTSLIMGYCQRKDLDSAFKVFNEMPLKGCRRNEVAYTHLIHGLCVARRID 305

Query:   410 NAENALEEMLSRGLSINQGAYTSVIKWLCINSRFNSALHFTKEMLLRNLRPGDGLLTLLV 469
              A +   +M           YT +IK LC + R + AL+  KEM    ++P     T+L+
Sbjct:   306 EAMDLFVKMKDDECFPTVRTYTVLIKSLCGSERKSEALNLVKEMEETGIKPNIHTYTVLI 365

Query:   470 SGLCKNGKQAEATELCFRLFEKGFTVNTVTSNALIHGMCEAGNLKEAGKLLMEMLQRGLI 529
               LC   K  +A EL  ++ EKG   N +T NALI+G C+ G +++A  ++  M  R L 
Sbjct:   366 DSLCSQCKFEKARELLGQMLEKGLMPNVITYNALINGYCKRGMIEDAVDVVELMESRKLS 425

Query:   530 LDKVTYNTLILGCCKDGKPEEGFKLKEDMIKRGIQPDNYTYNLLLHGLCSLGKMEEAIEL 589
              +  TYN LI G CK     +   +   M++R + PD  TYN L+ G C  G  + A  L
Sbjct:   426 PNTRTYNELIKGYCKSNV-HKAMGVLNKMLERKVLPDVVTYNSLIDGQCRSGNFDSAYRL 484

Query:   590 WEECKRTVFGPDIYTYGVMIDGFCKADKIEEGETLFNEMISKKMELNPVVYNTLIRAYCK 649
                       PD +TY  MID  CK+ ++EE   LF+ +  K +  N V+Y  LI  YCK
Sbjct:   485 LSLMNDRGLVPDQWTYTSMIDSLCKSKRVEEACDLFDSLEQKGVNPNVVMYTALIDGYCK 544

Query:   650 IGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVAC 709
              G    A  +   M S+  LP S+T+++LIHGLC  G +++A  L ++M K GL P V+ 
Sbjct:   545 AGKVDEAHLMLEKMLSKNCLPNSLTFNALIHGLCADGKLKEATLLEEKMVKIGLQPTVST 604

Query:   710 YTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMA 769
              T LI    K G  D A S  Q+M S    P+  TYT  I  YC+ G + +A  ++  M 
Sbjct:   605 DTILIHRLLKDGDFDHAYSRFQQMLSSGTKPDAHTYTTFIQTYCREGRLLDAEDMMAKMR 664

Query:   770 EKGISPDSITYNVFMDGHCKGGNVEEAFKVCDRMLSEGLSLDEITYTTLI 819
             E G+SPD  TY+  + G+   G    AF V  RM   G    + T+ +LI
Sbjct:   665 ENGVSPDLFTYSSLIKGYGDLGQTNFAFDVLKRMRDTGCEPSQHTFLSLI 714

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2077061 AT3G22470 "AT3G22470" [Arabidopsis thaliana (taxid:3702)]

 Score = 830 (297.2 bits), Expect = 8.2e-83, P = 8.2e-83
 Identities = 178/554 (32%), Positives = 295/554 (53%)

Query:   267 RIEDAIGLFTKMEELGIAPNVVTYNNIIHGLCRNGRLYEAFHLKEKMVLREVEPSLITYS 326
             ++ DAI LF  M +    P  + +N +   + R  +        + M L  +E  + T +
Sbjct:    50 KVNDAIDLFESMIQSRPLPTPIDFNRLCSAVARTKQYDLVLGFCKGMELNGIEHDMYTMT 109

Query:   327 ILINGLIKLEKFDDANFVLKEMSVRGFVPNYVVYNTLIDGYCKKGNISEALKIRDDMVSK 386
             I+IN   + +K   A  VL      G+ P+ + ++TL++G+C +G +SEA+ + D MV  
Sbjct:   110 IMINCYCRKKKLLFAFSVLGRAWKLGYEPDTITFSTLVNGFCLEGRVSEAVALVDRMVEM 169

Query:   387 GMSPNSVTFNSLIHGFCKSGQMDNAENALEEMLSRGLSINQGAYTSVIKWLCINSRFNSA 446
                P+ VT ++LI+G C  G++  A   ++ M+  G   ++  Y  V+  LC +     A
Sbjct:   170 KQRPDLVTVSTLINGLCLKGRVSEALVLIDRMVEYGFQPDEVTYGPVLNRLCKSGNSALA 229

Query:   447 LHFTKEMLLRNLRPGDGLLTLLVSGLCKNGKQAEATELCFRLFEKGFTVNTVTSNALIHG 506
             L   ++M  RN++      ++++  LCK+G   +A  L   +  KG   + VT ++LI G
Sbjct:   230 LDLFRKMEERNIKASVVQYSIVIDSLCKDGSFDDALSLFNEMEMKGIKADVVTYSSLIGG 289

Query:   507 MCEAGNLKEAGKLLMEMLQRGLILDKVTYNTLILGCCKDGKPEEGFKLKEDMIKRGIQPD 566
             +C  G   +  K+L EM+ R +I D VT++ LI    K+GK  E  +L  +MI RGI PD
Sbjct:   290 LCNDGKWDDGAKMLREMIGRNIIPDVVTFSALIDVFVKEGKLLEAKELYNEMITRGIAPD 349

Query:   567 NYTYNLLLHGLCSLGKMEEAIELWEECKRTVFGPDIYTYGVMIDGFCKADKIEEGETLFN 626
               TYN L+ G C    + EA ++++        PDI TY ++I+ +CKA ++++G  LF 
Sbjct:   350 TITYNSLIDGFCKENCLHEANQMFDLMVSKGCEPDIVTYSILINSYCKAKRVDDGMRLFR 409

Query:   627 EMISKKMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIG 686
             E+ SK +  N + YNTL+  +C+ G   AA  L  +M SRG+ P+ VTY  L+ GLC+ G
Sbjct:   410 EISSKGLIPNTITYNTLVLGFCQSGKLNAAKELFQEMVSRGVPPSVVTYGILLDGLCDNG 469

Query:   687 LIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYT 746
              +  A  +F++M+K  +   +  Y  +I G C   ++D+A S+   ++   + P+ +TY 
Sbjct:   470 ELNKALEIFEKMQKSRMTLGIGIYNIIIHGMCNASKVDDAWSLFCSLSDKGVKPDVVTYN 529

Query:   747 IMIGGYCKLGDMKEAAKLLNVMAEKGISPDSITYNVFMDGHCKGGNVEEAFKVCDRMLSE 806
             +MIGG CK G + EA  L   M E G +PD  TYN+ +  H  G  +  + ++ + M   
Sbjct:   530 VMIGGLCKKGSLSEADMLFRKMKEDGCTPDDFTYNILIRAHLGGSGLISSVELIEEMKVC 589

Query:   807 GLSLDEITYTTLID 820
             G S D  T   +ID
Sbjct:   590 GFSADSSTIKMVID 603

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2164910 EMB2745 "EMBRYO DEFECTIVE 2745" [Arabidopsis thaliana (taxid:3702)]

 Score = 826 (295.8 bits), Expect = 2.2e-82, P = 2.2e-82
 Identities = 186/596 (31%), Positives = 317/596 (53%)

Query:   202 AIDVFSIFSSKGIFPSLKTCNFLLNSLVKANE-VQKGIEVFETMCRG-VSPDVFLFSTAI 259
             A+ +  +  + G  P + + N +L++ +++   +     VF+ M    VSP+VF ++  I
Sbjct:   153 ALSIVHLAQAHGFMPGVLSYNAVLDATIRSKRNISFAENVFKEMLESQVSPNVFTYNILI 212

Query:   260 NAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIHGLCRNGRLYEAFHLKEKMVLREVE 319
               FC  G I+ A+ LF KME  G  PNVVTYN +I G C+  ++ + F L   M L+ +E
Sbjct:   213 RGFCFAGNIDVALTLFDKMETKGCLPNVVTYNTLIDGYCKLRKIDDGFKLLRSMALKGLE 272

Query:   320 PSLITYSILINGLIKLEKFDDANFVLKEMSVRGFVPNYVVYNTLIDGYCKKGNISEALKI 379
             P+LI+Y+++INGL +  +  + +FVL EM+ RG+  + V YNTLI GYCK+GN  +AL +
Sbjct:   273 PNLISYNVVINGLCREGRMKEVSFVLTEMNRRGYSLDEVTYNTLIKGYCKEGNFHQALVM 332

Query:   380 RDDMVSKGMSPNSVTFNSLIHGFCKSGQMDNAENALEEMLSRGLSINQGAYTSVIKWLCI 439
               +M+  G++P+ +T+ SLIH  CK+G M+ A   L++M  RGL  N+  YT+++     
Sbjct:   333 HAEMLRHGLTPSVITYTSLIHSMCKAGNMNRAMEFLDQMRVRGLCPNERTYTTLVDGFSQ 392

Query:   440 NSRFNSALHFTKEMLLRNLRPGDGLLTLLVSGLCKNGKQAEATELCFRLFEKGFTVNTVT 499
                 N A    +EM      P       L++G C  GK  +A  +   + EKG + + V+
Sbjct:   393 KGYMNEAYRVLREMNDNGFSPSVVTYNALINGHCVTGKMEDAIAVLEDMKEKGLSPDVVS 452

Query:   500 SNALIHGMCEAGNLKEAGKLLMEMLQRGLILDKVTYNTLILGCCKDGKPEEGFKLKEDMI 559
              + ++ G C + ++ EA ++  EM+++G+  D +TY++LI G C+  + +E   L E+M+
Sbjct:   453 YSTVLSGFCRSYDVDEALRVKREMVEKGIKPDTITYSSLIQGFCEQRRTKEACDLYEEML 512

Query:   560 KRGIQPDNYTYNLLLHGLCSLGKMEEAIELWEECKRTVFGPDIYTYGVMIDGFCKADKIE 619
             + G+ PD +TY  L++  C  G +E+A++L  E       PD+ TY V+I+G  K  +  
Sbjct:   513 RVGLPPDEFTYTALINAYCMEGDLEKALQLHNEMVEKGVLPDVVTYSVLINGLNKQSRTR 572

Query:   620 EGETLFNEMISKKMELNPVVYNTLI---------------RAYCKIGNTTAAFRLSNDMK 664
             E + L  ++  ++   + V Y+TLI               + +C  G  T A ++   M 
Sbjct:   573 EAKRLLLKLFYEESVPSDVTYHTLIENCSNIEFKSVVSLIKGFCMKGMMTEADQVFESML 632

Query:   665 SRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMD 724
              +   P    Y+ +IHG C  G I  A  L+ EM K G L +     AL+    K G+++
Sbjct:   633 GKNHKPDGTAYNIMIHGHCRAGDIRKAYTLYKEMVKSGFLLHTVTVIALVKALHKEGKVN 692

Query:   725 EAESVLQE-MASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISPDSIT 779
             E  SV+   + S  +   +    ++   + + G+M     +L  MA+ G  P+ I+
Sbjct:   693 ELNSVIVHVLRSCELSEAEQAKVLVEINH-REGNMDVVLDVLAEMAKDGFLPNGIS 747

GO:0005739 "mitochondrion" evidence=ISM;IDA

GO:0009793 "embryo development ending in seed dormancy" evidence=NAS

TAIR|locus:2034760 AT1G12300 [Arabidopsis thaliana (taxid:3702)]

 Score = 820 (293.7 bits), Expect = 9.4e-82, P = 9.4e-82
 Identities = 177/554 (31%), Positives = 298/554 (53%)

Query:   267 RIEDAIGLFTKMEELGIAPNVVTYNNIIHGLCRNGRLYEAFHLKEKMVLREVEPSLITYS 326
             + +DAI LF  M      P V+ ++ +   + +  +      L ++M L+ +  +L T S
Sbjct:    68 KADDAIDLFRDMIHSRPLPTVIDFSRLFSAIAKTKQYDLVLALCKQMELKGIAHNLYTLS 127

Query:   327 ILINGLIKLEKFDDANFVLKEMSVRGFVPNYVVYNTLIDGYCKKGNISEALKIRDDMVSK 386
             I+IN   +  K   A   + ++   G+ PN + ++TLI+G C +G +SEAL++ D MV  
Sbjct:   128 IMINCFCRCRKLCLAFSAMGKIIKLGYEPNTITFSTLINGLCLEGRVSEALELVDRMVEM 187

Query:   387 GMSPNSVTFNSLIHGFCKSGQMDNAENALEEMLSRGLSINQGAYTSVIKWLCINSRFNSA 446
             G  P+ +T N+L++G C SG+   A   +++M+  G   N   Y  V+  +C + +   A
Sbjct:   188 GHKPDLITINTLVNGLCLSGKEAEAMLLIDKMVEYGCQPNAVTYGPVLNVMCKSGQTALA 247

Query:   447 LHFTKEMLLRNLRPGDGLLTLLVSGLCKNGKQAEATELCFRLFEKGFTVNTVTSNALIHG 506
             +   ++M  RN++      ++++ GLCK+G    A  L   +  KG T N +T N LI G
Sbjct:   248 MELLRKMEERNIKLDAVKYSIIIDGLCKHGSLDNAFNLFNEMEMKGITTNIITYNILIGG 307

Query:   507 MCEAGNLKEAGKLLMEMLQRGLILDKVTYNTLILGCCKDGKPEEGFKLKEDMIKRGIQPD 566
              C AG   +  KLL +M++R +  + VT++ LI    K+GK  E  +L ++MI RGI PD
Sbjct:   308 FCNAGRWDDGAKLLRDMIKRKINPNVVTFSVLIDSFVKEGKLREAEELHKEMIHRGIAPD 367

Query:   567 NYTYNLLLHGLCSLGKMEEAIELWEECKRTVFGPDIYTYGVMIDGFCKADKIEEGETLFN 626
               TY  L+ G C    +++A ++ +        P+I T+ ++I+G+CKA++I++G  LF 
Sbjct:   368 TITYTSLIDGFCKENHLDKANQMVDLMVSKGCDPNIRTFNILINGYCKANRIDDGLELFR 427

Query:   627 EMISKKMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIG 686
             +M  + +  + V YNTLI+ +C++G    A  L  +M SR + P  VTY  L+ GLC+ G
Sbjct:   428 KMSLRGVVADTVTYNTLIQGFCELGKLNVAKELFQEMVSRKVPPNIVTYKILLDGLCDNG 487

Query:   687 LIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYT 746
               E A  +F+++ K  +  ++  Y  +I G C   ++D+A  +   +    + P   TY 
Sbjct:   488 ESEKALEIFEKIEKSKMELDIGIYNIIIHGMCNASKVDDAWDLFCSLPLKGVKPGVKTYN 547

Query:   747 IMIGGYCKLGDMKEAAKLLNVMAEKGISPDSITYNVFMDGHCKGGNVEEAFKVCDRMLSE 806
             IMIGG CK G + EA  L   M E G +PD  TYN+ +  H   G+  ++ K+ + +   
Sbjct:   548 IMIGGLCKKGPLSEAELLFRKMEEDGHAPDGWTYNILIRAHLGDGDATKSVKLIEELKRC 607

Query:   807 GLSLDEITYTTLID 820
             G S+D  T   +ID
Sbjct:   608 GFSVDASTIKMVID 621

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2195047 AT1G12620 [Arabidopsis thaliana (taxid:3702)]

 Score = 802 (287.4 bits), Expect = 7.6e-80, P = 7.6e-80
 Identities = 171/552 (30%), Positives = 298/552 (53%)

Query:   269 EDAIGLFTKMEELGIAPNVVTYNNIIHGLCRNGRLYEAFHLKEKMVLREVEPSLITYSIL 328
             +DA+ LF +M      P ++ ++ +   + R  +      L ++M L+ +  +L T SI+
Sbjct:    54 DDAVDLFQEMTRSRPRPRLIDFSRLFSVVARTKQYDLVLDLCKQMELKGIAHNLYTLSIM 113

Query:   329 INGLIKLEKFDDANFVLKEMSVRGFVPNYVVYNTLIDGYCKKGNISEALKIRDDMVSKGM 388
             IN   +  K   A   + ++   G+ P+ V ++TLI+G C +G +SEAL++ D MV  G 
Sbjct:   114 INCCCRCRKLSLAFSAMGKIIKLGYEPDTVTFSTLINGLCLEGRVSEALELVDRMVEMGH 173

Query:   389 SPNSVTFNSLIHGFCKSGQMDNAENALEEMLSRGLSINQGAYTSVIKWLCINSRFNSALH 448
              P  +T N+L++G C +G++ +A   ++ M+  G   N+  Y  V+K +C + +   A+ 
Sbjct:   174 KPTLITLNALVNGLCLNGKVSDAVLLIDRMVETGFQPNEVTYGPVLKVMCKSGQTALAME 233

Query:   449 FTKEMLLRNLRPGDGLLTLLVSGLCKNGKQAEATELCFRLFEKGFTVNTVTSNALIHGMC 508
               ++M  R ++      ++++ GLCK+G    A  L   +  KGF  + +    LI G C
Sbjct:   234 LLRKMEERKIKLDAVKYSIIIDGLCKDGSLDNAFNLFNEMEIKGFKADIIIYTTLIRGFC 293

Query:   509 EAGNLKEAGKLLMEMLQRGLILDKVTYNTLILGCCKDGKPEEGFKLKEDMIKRGIQPDNY 568
              AG   +  KLL +M++R +  D V ++ LI    K+GK  E  +L ++MI+RGI PD  
Sbjct:   294 YAGRWDDGAKLLRDMIKRKITPDVVAFSALIDCFVKEGKLREAEELHKEMIQRGISPDTV 353

Query:   569 TYNLLLHGLCSLGKMEEAIELWEECKRTVFGPDIYTYGVMIDGFCKADKIEEGETLFNEM 628
             TY  L+ G C   ++++A  + +       GP+I T+ ++I+G+CKA+ I++G  LF +M
Sbjct:   354 TYTSLIDGFCKENQLDKANHMLDLMVSKGCGPNIRTFNILINGYCKANLIDDGLELFRKM 413

Query:   629 ISKKMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIGLI 688
               + +  + V YNTLI+ +C++G    A  L  +M SR + P  V+Y  L+ GLC+ G  
Sbjct:   414 SLRGVVADTVTYNTLIQGFCELGKLEVAKELFQEMVSRRVRPDIVSYKILLDGLCDNGEP 473

Query:   689 EDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIM 748
             E A  +F+++ K  +  ++  Y  +I G C   ++D+A  +   +    + P+  TY IM
Sbjct:   474 EKALEIFEKIEKSKMELDIGIYNIIIHGMCNASKVDDAWDLFCSLPLKGVKPDVKTYNIM 533

Query:   749 IGGYCKLGDMKEAAKLLNVMAEKGISPDSITYNVFMDGHCKGGNVEEAFKVCDRMLSEGL 808
             IGG CK G + EA  L   M E G SP+  TYN+ +  H   G+  ++ K+ + +   G 
Sbjct:   534 IGGLCKKGSLSEADLLFRKMEEDGHSPNGCTYNILIRAHLGEGDATKSAKLIEEIKRCGF 593

Query:   809 SLDEITYTTLID 820
             S+D  T   ++D
Sbjct:   594 SVDASTVKMVVD 605

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:1009023134 AT1G12775 [Arabidopsis thaliana (taxid:3702)]

 Score = 798 (286.0 bits), Expect = 2.0e-79, P = 2.0e-79
 Identities = 170/555 (30%), Positives = 300/555 (54%)

Query:   267 RIEDAIGLFTKMEELGIAPNVVTYNNIIHGLCRNGRLYE-AFHLKEKMVLREVEPSLITY 325
             + +DA+ LF  M +    P V+ +N +   + +  + YE    L ++M  + +  S+ T 
Sbjct:    68 KADDAVDLFRDMIQSRPLPTVIDFNRLFSAIAKT-KQYELVLALCKQMESKGIAHSIYTL 126

Query:   326 SILINGLIKLEKFDDANFVLKEMSVRGFVPNYVVYNTLIDGYCKKGNISEALKIRDDMVS 385
             SI+IN   +  K   A   + ++   G+ P+ V++NTL++G C +  +SEAL++ D MV 
Sbjct:   127 SIMINCFCRCRKLSYAFSTMGKIMKLGYEPDTVIFNTLLNGLCLECRVSEALELVDRMVE 186

Query:   386 KGMSPNSVTFNSLIHGFCKSGQMDNAENALEEMLSRGLSINQGAYTSVIKWLCINSRFNS 445
              G  P  +T N+L++G C +G++ +A   ++ M+  G   N+  Y  V+  +C + +   
Sbjct:   187 MGHKPTLITLNTLVNGLCLNGKVSDAVVLIDRMVETGFQPNEVTYGPVLNVMCKSGQTAL 246

Query:   446 ALHFTKEMLLRNLRPGDGLLTLLVSGLCKNGKQAEATELCFRLFEKGFTVNTVTSNALIH 505
             A+   ++M  RN++      ++++ GLCK+G    A  L   +  KGF  + +T N LI 
Sbjct:   247 AMELLRKMEERNIKLDAVKYSIIIDGLCKDGSLDNAFNLFNEMEIKGFKADIITYNTLIG 306

Query:   506 GMCEAGNLKEAGKLLMEMLQRGLILDKVTYNTLILGCCKDGKPEEGFKLKEDMIKRGIQP 565
             G C AG   +  KLL +M++R +  + VT++ LI    K+GK  E  +L ++M++RGI P
Sbjct:   307 GFCNAGRWDDGAKLLRDMIKRKISPNVVTFSVLIDSFVKEGKLREADQLLKEMMQRGIAP 366

Query:   566 DNYTYNLLLHGLCSLGKMEEAIELWEECKRTVFGPDIYTYGVMIDGFCKADKIEEGETLF 625
             +  TYN L+ G C   ++EEAI++ +        PDI T+ ++I+G+CKA++I++G  LF
Sbjct:   367 NTITYNSLIDGFCKENRLEEAIQMVDLMISKGCDPDIMTFNILINGYCKANRIDDGLELF 426

Query:   626 NEMISKKMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNI 685
              EM  + +  N V YNTL++ +C+ G    A +L  +M SR + P  V+Y  L+ GLC+ 
Sbjct:   427 REMSLRGVIANTVTYNTLVQGFCQSGKLEVAKKLFQEMVSRRVRPDIVSYKILLDGLCDN 486

Query:   686 GLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITY 745
             G +E A  +F ++ K  +  ++  Y  +I G C   ++D+A  +   +    +  +   Y
Sbjct:   487 GELEKALEIFGKIEKSKMELDIGIYMIIIHGMCNASKVDDAWDLFCSLPLKGVKLDARAY 546

Query:   746 TIMIGGYCKLGDMKEAAKLLNVMAEKGISPDSITYNVFMDGHCKGGNVEEAFKVCDRMLS 805
              IMI   C+   + +A  L   M E+G +PD +TYN+ +  H    +   A ++ + M S
Sbjct:   547 NIMISELCRKDSLSKADILFRKMTEEGHAPDELTYNILIRAHLGDDDATTAAELIEEMKS 606

Query:   806 EGLSLDEITYTTLID 820
              G   D  T   +I+
Sbjct:   607 SGFPADVSTVKMVIN 621

GO:0005739 "mitochondrion" evidence=ISM

TAIR|locus:2026192 RPF2 "rna processing factor 2" [Arabidopsis thaliana (taxid:3702)]

 Score = 796 (285.3 bits), Expect = 3.3e-79, P = 3.3e-79
 Identities = 169/535 (31%), Positives = 287/535 (53%)

Query:   202 AIDVFSIFSSKGIFPSLKTCNFLLNSLVKANEVQKGIEVFETMCR-GVSPDVFLFSTAIN 260
             A+ +F        FPS+   + LL+++ K N+    I + E M   G+  + + +S  IN
Sbjct:    65 AVALFGEMVKSRPFPSIIEFSKLLSAIAKMNKFDVVISLGEQMQNLGIPHNHYTYSILIN 124

Query:   261 AFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIHGLCRNGRLYEAFHLKEKMVLREVEP 320
              FC+R ++  A+ +  KM +LG  PN+VT +++++G C + R+ EA  L ++M +   +P
Sbjct:   125 CFCRRSQLPLALAVLGKMMKLGYEPNIVTLSSLLNGYCHSKRISEAVALVDQMFVTGYQP 184

Query:   321 SLITYSILINGLIKLEKFDDANFVLKEMSVRGFVPNYVVYNTLIDGYCKKGNISEALKIR 380
             + +T++ LI+GL    K  +A  ++  M  +G  P+ V Y  +++G CK+G+   A  + 
Sbjct:   185 NTVTFNTLIHGLFLHNKASEAMALIDRMVAKGCQPDLVTYGVVVNGLCKRGDTDLAFNLL 244

Query:   381 DDMVSKGMSPNSVTFNSLIHGFCKSGQMDNAENALEEMLSRGLSINQGAYTSVIKWLCIN 440
             + M    + P  + +N++I G CK   MD+A N  +EM ++G+  N   Y+S+I  LC  
Sbjct:   245 NKMEQGKLEPGVLIYNTIIDGLCKYKHMDDALNLFKEMETKGIRPNVVTYSSLISCLCNY 304

Query:   441 SRFNSALHFTKEMLLRNLRPGDGLLTLLVSGLCKNGKQAEATELCFRLFEKGFTVNTVTS 500
              R++ A     +M+ R + P     + L+    K GK  EA +L   + ++    + VT 
Sbjct:   305 GRWSDASRLLSDMIERKINPDVFTFSALIDAFVKEGKLVEAEKLYDEMVKRSIDPSIVTY 364

Query:   501 NALIHGMCEAGNLKEAGKLLMEMLQRGLILDKVTYNTLILGCCKDGKPEEGFKLKEDMIK 560
             ++LI+G C    L EA ++   M+ +    D VTYNTLI G CK  + EEG ++  +M +
Sbjct:   365 SSLINGFCMHDRLDEAKQMFEFMVSKHCFPDVVTYNTLIKGFCKYKRVEEGMEVFREMSQ 424

Query:   561 RGIQPDNYTYNLLLHGLCSLGKMEEAIELWEECKRTVFGPDIYTYGVMIDGFCKADKIEE 620
             RG+  +  TYN+L+ GL   G  + A E+++E       P+I TY  ++DG CK  K+E+
Sbjct:   425 RGLVGNTVTYNILIQGLFQAGDCDMAQEIFKEMVSDGVPPNIMTYNTLLDGLCKNGKLEK 484

Query:   621 GETLFNEMISKKMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIH 680
                +F  +   KME     YN +I   CK G     + L  ++  +G+ P  V Y+++I 
Sbjct:   485 AMVVFEYLQRSKMEPTIYTYNIMIEGMCKAGKVEDGWDLFCNLSLKGVKPDVVAYNTMIS 544

Query:   681 GLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESVLQEMAS 735
             G C  G  E+A  LF EM+++G LPN  CY  LI    + G  + +  +++EM S
Sbjct:   545 GFCRKGSKEEADALFKEMKEDGTLPNSGCYNTLIRARLRDGDREASAELIKEMRS 599

GO:0005739 "mitochondrion" evidence=ISM;IDA

GO:0000966 "RNA 5'-end processing" evidence=IMP

GO:0003723 "RNA binding" evidence=IDA

TAIR|locus:2015494 RPF3 "RNA processing factor 3" [Arabidopsis thaliana (taxid:3702)]

 Score = 795 (284.9 bits), Expect = 4.2e-79, P = 4.2e-79
 Identities = 178/555 (32%), Positives = 294/555 (52%)

Query:   267 RIEDAIGLFTKMEELGIAPNVVTYNNIIHGLCRNGRLYEAFHLKEKMVLREVEPSLITYS 326
             +++DA+ LF +M +    P++V +N ++  + +  +      L E+M    +   L +Y+
Sbjct:    60 KLDDAVDLFGEMVQSRPLPSIVEFNKLLSAIAKMNKFDLVISLGERMQNLRISYDLYSYN 119

Query:   327 ILINGLIKLEKFDDANFVLKEMSVRGFVPNYVVYNTLIDGYCKKGNISEALKIRDDMVSK 386
             ILIN   +  +   A  VL +M   G+ P+ V  ++L++GYC    ISEA+ + D M   
Sbjct:   120 ILINCFCRRSQLPLALAVLGKMMKLGYEPDIVTLSSLLNGYCHGKRISEAVALVDQMFVM 179

Query:   387 GMSPNSVTFNSLIHGFCKSGQMDNAENALEEMLSRGLSINQGAYTSVIKWLCINSRFNSA 446
                PN+VTFN+LIHG     +   A   ++ M++RG   +   Y +V+  LC     + A
Sbjct:   180 EYQPNTVTFNTLIHGLFLHNKASEAVALIDRMVARGCQPDLFTYGTVVNGLCKRGDIDLA 239

Query:   447 LHFTKEMLLRNLRPGDGLLTLLVSGLCKNGKQAEATELCFRLFEKGFTVNTVTSNALIHG 506
             L   K+M    +     + T ++  LC      +A  L   +  KG   N VT N+LI  
Sbjct:   240 LSLLKKMEKGKIEADVVIYTTIIDALCNYKNVNDALNLFTEMDNKGIRPNVVTYNSLIRC 299

Query:   507 MCEAGNLKEAGKLLMEMLQRGLILDKVTYNTLILGCCKDGKPEEGFKLKEDMIKRGIQPD 566
             +C  G   +A +LL +M++R +  + VT++ LI    K+GK  E  KL ++MIKR I PD
Sbjct:   300 LCNYGRWSDASRLLSDMIERKINPNVVTFSALIDAFVKEGKLVEAEKLYDEMIKRSIDPD 359

Query:   567 NYTYNLLLHGLCSLGKMEEAIELWE-ECKRTVFGPDIYTYGVMIDGFCKADKIEEGETLF 625
              +TY+ L++G C   +++EA  ++E    +  F P++ TY  +I GFCKA ++EEG  LF
Sbjct:   360 IFTYSSLINGFCMHDRLDEAKHMFELMISKDCF-PNVVTYNTLIKGFCKAKRVEEGMELF 418

Query:   626 NEMISKKMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNI 685
              EM  + +  N V YNTLI+   + G+   A ++   M S G+ P  +TYS L+ GLC  
Sbjct:   419 REMSQRGLVGNTVTYNTLIQGLFQAGDCDMAQKIFKKMVSDGVPPDIITYSILLDGLCKY 478

Query:   686 GLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITY 745
             G +E A  +F+ ++K  + P++  Y  +I G CK G++++   +   ++   + PN I Y
Sbjct:   479 GKLEKALVVFEYLQKSKMEPDIYTYNIMIEGMCKAGKVEDGWDLFCSLSLKGVKPNVIIY 538

Query:   746 TIMIGGYCKLGDMKEAAKLLNVMAEKGISPDSITYNVFMDGHCKGGNVEEAFKVCDRMLS 805
             T MI G+C+ G  +EA  L   M E G  P+S TYN  +    + G+   + ++   M S
Sbjct:   539 TTMISGFCRKGLKEEADALFREMKEDGTLPNSGTYNTLIRARLRDGDKAASAELIKEMRS 598

Query:   806 EGLSLDEITYTTLID 820
              G   D  T + +I+
Sbjct:   599 CGFVGDASTISMVIN 613

GO:0005739 "mitochondrion" evidence=ISM;IDA

GO:0006397 "mRNA processing" evidence=IMP

TAIR|locus:2083976 MEE40 "maternal effect embryo arrest 40" [Arabidopsis thaliana (taxid:3702)]

 Score = 766 (274.7 bits), Expect = 6.6e-79, Sum P(2) = 6.6e-79
 Identities = 171/537 (31%), Positives = 287/537 (53%)

Query:   278 MEELGIAPNVVTYNNIIHGLCRNG--RLYEAFHLKEKMVLREVEPSLITYSILINGLIKL 335
             ++E G+ P+   YN +++ L      +L E  H K  M +  ++P + T+++LI  L + 
Sbjct:   145 IDEFGLKPDTHFYNRMLNLLVDGNSLKLVEISHAK--MSVWGIKPDVSTFNVLIKALCRA 202

Query:   336 EKFDDANFVLKEMSVRGFVPNYVVYNTLIDGYCKKGNISEALKIRDDMVSKGMSPNSVTF 395
              +   A  +L++M   G VP+   + T++ GY ++G++  AL+IR+ MV  G S ++V+ 
Sbjct:   203 HQLRPAILMLEDMPSYGLVPDEKTFTTVMQGYIEEGDLDGALRIREQMVEFGCSWSNVSV 262

Query:   396 NSLIHGFCKSGQMDNAENALEEMLSR-GLSINQGAYTSVIKWLCINSRFNSALHFTKEML 454
             N ++HGFCK G++++A N ++EM ++ G   +Q  + +++  LC       A+     ML
Sbjct:   263 NVIVHGFCKEGRVEDALNFIQEMSNQDGFFPDQYTFNTLVNGLCKAGHVKHAIEIMDVML 322

Query:   455 LRNLRPGDGLLTLLVSGLCKNGKQAEATELCFRLFEKGFTVNTVTSNALIHGMCEAGNLK 514
                  P       ++SGLCK G+  EA E+  ++  +  + NTVT N LI  +C+   ++
Sbjct:   323 QEGYDPDVYTYNSVISGLCKLGEVKEAVEVLDQMITRDCSPNTVTYNTLISTLCKENQVE 382

Query:   515 EAGKLLMEMLQRGLILDKVTYNTLILGCCKDGKPEEGFKLKEDMIKRGIQPDNYTYNLLL 574
             EA +L   +  +G++ D  T+N+LI G C         +L E+M  +G +PD +TYN+L+
Sbjct:   383 EATELARVLTSKGILPDVCTFNSLIQGLCLTRNHRVAMELFEEMRSKGCEPDEFTYNMLI 442

Query:   575 HGLCSLGKMEEAIELWEECKRTVFGPDIYTYGVMIDGFCKADKIEEGETLFNEMISKKME 634
               LCS GK++EA+ + ++ + +     + TY  +IDGFCKA+K  E E +F+EM    + 
Sbjct:   443 DSLCSKGKLDEALNMLKQMELSGCARSVITYNTLIDGFCKANKTREAEEIFDEMEVHGVS 502

Query:   635 LNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCL 694
              N V YNTLI   CK      A +L + M   G  P   TY+SL+   C  G I+ A  +
Sbjct:   503 RNSVTYNTLIDGLCKSRRVEDAAQLMDQMIMEGQKPDKYTYNSLLTHFCRGGDIKKAADI 562

Query:   695 FDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESVLQ--EMASINIHPNKITYTIMIGGY 752
                M   G  P++  Y  LI G CK G+++ A  +L+  +M  IN+ P+   Y  +I G 
Sbjct:   563 VQAMTSNGCEPDIVTYGTLISGLCKAGRVEVASKLLRSIQMKGINLTPH--AYNPVIQGL 620

Query:   753 CKLGDMKEAAKLLNVMAEKGISP-DSITYNVFMDGHCKGGN-VEEAFKVCDRMLSEG 807
              +     EA  L   M E+  +P D+++Y +   G C GG  + EA      +L +G
Sbjct:   621 FRKRKTTEAINLFREMLEQNEAPPDAVSYRIVFRGLCNGGGPIREAVDFLVELLEKG 677

GO:0005739 "mitochondrion" evidence=ISM

GO:0009793 "embryo development ending in seed dormancy" evidence=RCA;IMP

GO:0009507 "chloroplast" evidence=IDA

GO:0010027 "thylakoid membrane organization" evidence=RCA

GO:0010228 "vegetative to reproductive phase transition of meristem" evidence=RCA

GO:0016226 "iron-sulfur cluster assembly" evidence=RCA

GO:0048481 "ovule development" evidence=RCA

---

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)
Q940A6	PP325_ARATH	No assigned EC number	0.5411	0.9663	0.9606	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

Your Input: GSVIVG00001217001 SubName- Full=Chromosome chr2 scaffold_113, whole genome shotgun sequence; (893 aa) (Vitis vinifera)

Predicted Functional Partners:

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

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	833
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	1e-29
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	2e-28
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	6e-28
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	1e-22
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	3e-22
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	3e-20
pfam13041	50	pfam13041, PPR_2, PPR repeat family	6e-20
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	2e-19
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	3e-19
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	6e-19
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	3e-18
pfam13041	50	pfam13041, PPR_2, PPR repeat family	8e-18
pfam13041	50	pfam13041, PPR_2, PPR repeat family	4e-17
pfam13041	50	pfam13041, PPR_2, PPR repeat family	5e-17
pfam13041	50	pfam13041, PPR_2, PPR repeat family	6e-17
pfam13041	50	pfam13041, PPR_2, PPR repeat family	2e-16
pfam13041	50	pfam13041, PPR_2, PPR repeat family	4e-16
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	2e-15
pfam13041	50	pfam13041, PPR_2, PPR repeat family	2e-15
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	4e-15
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	4e-14
pfam13041	50	pfam13041, PPR_2, PPR repeat family	6e-14
pfam13041	50	pfam13041, PPR_2, PPR repeat family	7e-14
pfam13041	50	pfam13041, PPR_2, PPR repeat family	8e-14
pfam13041	50	pfam13041, PPR_2, PPR repeat family	3e-13
pfam13041	50	pfam13041, PPR_2, PPR repeat family	4e-13
pfam13041	50	pfam13041, PPR_2, PPR repeat family	8e-12
pfam12854	34	pfam12854, PPR_1, PPR repeat	2e-10
pfam12854	34	pfam12854, PPR_1, PPR repeat	3e-10
pfam12854	34	pfam12854, PPR_1, PPR repeat	4e-10
pfam12854	34	pfam12854, PPR_1, PPR repeat	3e-09
pfam12854	34	pfam12854, PPR_1, PPR repeat	7e-09
pfam12854	34	pfam12854, PPR_1, PPR repeat	1e-08
pfam12854	34	pfam12854, PPR_1, PPR repeat	2e-08
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	2e-08
pfam12854	34	pfam12854, PPR_1, PPR repeat	6e-08
pfam12854	34	pfam12854, PPR_1, PPR repeat	9e-08
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	2e-07
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	3e-07
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	3e-07
pfam01535	31	pfam01535, PPR, PPR repeat	4e-07
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	8e-07
pfam01535	31	pfam01535, PPR, PPR repeat	1e-06
pfam01535	31	pfam01535, PPR, PPR repeat	1e-06
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	2e-06
pfam01535	31	pfam01535, PPR, PPR repeat	2e-06
pfam01535	31	pfam01535, PPR, PPR repeat	3e-06
pfam12854	34	pfam12854, PPR_1, PPR repeat	4e-06
pfam12854	34	pfam12854, PPR_1, PPR repeat	5e-06
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	5e-06
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	6e-06
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	9e-06
pfam12854	34	pfam12854, PPR_1, PPR repeat	2e-05
pfam01535	31	pfam01535, PPR, PPR repeat	2e-05
pfam01535	31	pfam01535, PPR, PPR repeat	2e-05
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	3e-05
pfam01535	31	pfam01535, PPR, PPR repeat	3e-05
pfam13812	34	pfam13812, PPR_3, Pentatricopeptide repeat domain	3e-05
COG0457	291	COG0457, NrfG, FOG: TPR repeat [General function p	8e-05
pfam12854	34	pfam12854, PPR_1, PPR repeat	1e-04
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	1e-04
pfam01535	31	pfam01535, PPR, PPR repeat	1e-04
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	2e-04
pfam13812	34	pfam13812, PPR_3, Pentatricopeptide repeat domain	3e-04
pfam13812	34	pfam13812, PPR_3, Pentatricopeptide repeat domain	4e-04
pfam13812	34	pfam13812, PPR_3, Pentatricopeptide repeat domain	4e-04
pfam01535	31	pfam01535, PPR, PPR repeat	5e-04
pfam01535	31	pfam01535, PPR, PPR repeat	5e-04
pfam01535	31	pfam01535, PPR, PPR repeat	5e-04
pfam13812	34	pfam13812, PPR_3, Pentatricopeptide repeat domain	6e-04
pfam12854	34	pfam12854, PPR_1, PPR repeat	8e-04
pfam01535	31	pfam01535, PPR, PPR repeat	8e-04
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	0.001
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	0.001
pfam13812	34	pfam13812, PPR_3, Pentatricopeptide repeat domain	0.001
pfam13812	34	pfam13812, PPR_3, Pentatricopeptide repeat domain	0.001
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	0.002
pfam13041	50	pfam13041, PPR_2, PPR repeat family	0.002
pfam13812	34	pfam13812, PPR_3, Pentatricopeptide repeat domain	0.002
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	0.003
COG0457	291	COG0457, NrfG, FOG: TPR repeat [General function p	0.004

>gnl|CDD|215561 PLN03077, PLN03077, Protein ECB2; Provisional

 Score =  126 bits (317), Expect = 1e-29
 Identities = 123/594 (20%), Positives = 226/594 (38%), Gaps = 79/594 (13%)

Query: 256 STAINAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIHGLCRNGRLYEAFHLKEKMVL 315
           ++ + A C  G++E A+ L   M+EL +  +   Y  +   LC   R  E        V 
Sbjct: 55  NSQLRALCSHGQLEQALKLLESMQELRVPVDEDAYVALFR-LCEWKRAVEE----GSRVC 109

Query: 316 REVEPSLITYSI-----LINGLIKLEKFDDANFVLKEMSVRGFVPNYVVYNTLIDGYCKK 370
                S  +  +     +++  ++  +   A +V  +M  R    +   +N L+ GY K 
Sbjct: 110 SRALSSHPSLGVRLGNAMLSMFVRFGELVHAWYVFGKMPER----DLFSWNVLVGGYAKA 165

Query: 371 GNISEALKIRDDMVSKGMSPNSVTF----------------------------------- 395
           G   EAL +   M+  G+ P+  TF                                   
Sbjct: 166 GYFDEALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDVDVV 225

Query: 396 NSLIHGFCKSGQMDNAENALEEMLSRGLSINQGAYTSVIKWLCINSRFNSALHFTKEMLL 455
           N+LI  + K G + +A    + M  R    +  ++ ++I     N      L     M  
Sbjct: 226 NALITMYVKCGDVVSARLVFDRMPRR----DCISWNAMISGYFENGECLEGLELFFTMRE 281

Query: 456 RNLRPGDGLLTLLVSGLCKNGKQAEATELCFRLFEKGFTVNTVTSNALIHGMCEAGNLKE 515
            ++ P    +T ++S     G +    E+   + + GF V+    N+LI      G+  E
Sbjct: 282 LSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGE 341

Query: 516 AGKLLMEMLQRGLILDKVTYNTLILGCCKDGKPEEGFKLKEDMIKRGIQPDNYTYNLLLH 575
           A K+   M  +    D V++  +I G  K+G P++  +    M +  + PD  T   +L 
Sbjct: 342 AEKVFSRMETK----DAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLS 397

Query: 576 GLCSLGKMEEAIELWEECKRTVFGPDIYTYGVMIDGFCKADKIEEGETLFNEMISKKMEL 635
               LG ++  ++L E  +R      +     +I+ + K   I++   +F+ +  K    
Sbjct: 398 ACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEK---- 453

Query: 636 NPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIGLIEDAK--- 692
           + + + ++I           A      M    + P SVT  + +     IG +   K   
Sbjct: 454 DVISWTSIIAGLRLNNRCFEALIFFRQMLLT-LKPNSVTLIAALSACARIGALMCGKEIH 512

Query: 693 --CLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKIT-YTIMI 749
              L   +  +G LPN     AL+  Y + G+M+ A          N H   +  + I++
Sbjct: 513 AHVLRTGIGFDGFLPN-----ALLDLYVRCGRMNYA------WNQFNSHEKDVVSWNILL 561

Query: 750 GGYCKLGDMKEAAKLLNVMAEKGISPDSITYNVFMDGHCKGGNVEEAFKVCDRM 803
            GY   G    A +L N M E G++PD +T+   +    + G V +  +    M
Sbjct: 562 TGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSM 615

Length = 857

>gnl|CDD|215636 PLN03218, PLN03218, maturation of RBCL 1; Provisional

 Score =  122 bits (308), Expect = 2e-28
 Identities = 88/429 (20%), Positives = 190/429 (44%), Gaps = 13/429 (3%)

Query: 395 FNSLIHGFCKSGQMDNAENALEEMLSRG-LSINQGAYTSVIKWLCINSRFNSALHFTKEM 453
           +N L+    + G++ +  + LE+M  RG L +++  +    K          A  F K  
Sbjct: 377 YNRLL----RDGRIKDCIDLLEDMEKRGLLDMDKIYHAKFFKACKKQRAVKEAFRFAK-- 430

Query: 454 LLRNLRPGDGLLTLLVSGLCKNGKQAEATELCFRLF-EKGFTVNTVTSNALIHGMCEAGN 512
           L+RN  P      +L+S +C + +  +      RL  E G   +      LI    ++G 
Sbjct: 431 LIRN--PTLSTFNMLMS-VCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGK 487

Query: 513 LKEAGKLLMEMLQRGLILDKVTYNTLILGCCKDGKPEEGFKLKEDMIKRGIQPDNYTYNL 572
           +    ++  EM+  G+  +  T+  LI GC + G+  + F     M  + ++PD   +N 
Sbjct: 488 VDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNA 547

Query: 573 LLHGLCSLGKMEEAIELWEECK--RTVFGPDIYTYGVMIDGFCKADKIEEGETLFNEMIS 630
           L+      G ++ A ++  E K       PD  T G ++     A +++  + ++  +  
Sbjct: 548 LISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHE 607

Query: 631 KKMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIGLIED 690
             ++  P VY   + +  + G+   A  + +DMK +G+ P  V +S+L+    + G ++ 
Sbjct: 608 YNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDK 667

Query: 691 AKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIG 750
           A  +  + RK+G+      Y++L+G         +A  + +++ SI + P   T   +I 
Sbjct: 668 AFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALIT 727

Query: 751 GYCKLGDMKEAAKLLNVMAEKGISPDSITYNVFMDGHCKGGNVEEAFKVCDRMLSEGLSL 810
             C+   + +A ++L+ M   G+ P++ITY++ +    +  + +    +  +   +G+  
Sbjct: 728 ALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLDLLSQAKEDGIKP 787

Query: 811 DEITYTTLI 819
           + +    + 
Sbjct: 788 NLVMCRCIT 796

Length = 1060

>gnl|CDD|215636 PLN03218, PLN03218, maturation of RBCL 1; Provisional

 Score =  121 bits (304), Expect = 6e-28
 Identities = 128/558 (22%), Positives = 227/558 (40%), Gaps = 69/558 (12%)

Query: 246 RGVSP--DVFLFSTAINAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIHGLCRNGR- 302
            GVS       +  A N   + GRI+D I L   ME+ G+      Y+      C+  R 
Sbjct: 362 GGVSGKRKSPEYIDAYNRLLRDGRIKDCIDLLEDMEKRGLLDMDKIYHAKFFKACKKQRA 421

Query: 303 LYEAFHLKEKM--------------------------VLREVEPSLIT-----YSILING 331
           + EAF   + +                          VLR V+ + +      Y+ LI+ 
Sbjct: 422 VKEAFRFAKLIRNPTLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLIST 481

Query: 332 LIKLEKFDDANFVLKEMSVRGFVPNYVVYNTLIDGYCKKGNISEALKIRDDMVSKGMSPN 391
             K  K D    V  EM   G   N   +  LIDG  + G +++A      M SK + P+
Sbjct: 482 CAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPD 541

Query: 392 SVTFNSLIHGFCKSGQMDNAENALEEMLSRGLSI--NQGAYTSVIKWLCINSRFNSALHF 449
            V FN+LI    +SG +D A + L EM +    I  +     +++K      + + A   
Sbjct: 542 RVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEV 601

Query: 450 TKEMLLRNLRPGDGLLTLLVSGLCKNGKQAEATELCFRLFEKGFTVNTVTSNALIHGMCE 509
            + +   N++    + T+ V+   + G    A  +   + +KG   + V  +AL+     
Sbjct: 602 YQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGH 661

Query: 510 AGNLKEAGKLLMEMLQRGLILDKVTYNTLILGCCKDGKPEEGFKLKEDMIKRGIQPDNYT 569
           AG+L +A ++L +  ++G+ L  V+Y++L+  C      ++  +L ED+    ++P   T
Sbjct: 662 AGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVST 721

Query: 570 YNLLLHGLCSLGKMEEAIELWEECKRTVFGPDIYTYGVMIDGFCKADKIEEGETLFNEMI 629
            N L+  LC   ++ +A+E+  E KR    P+  TY +++    + D  + G  L ++  
Sbjct: 722 MNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLDLLSQAK 781

Query: 630 SKKMELNPVVYNTLI-------RAYCKIGNTTAAFRLSN----------------DMKSR 666
              ++ N V+   +           C +G    +F                    +  S 
Sbjct: 782 EDGIKPNLVMCRCITGLCLRRFEKACALGEPVVSFDSGRPQIENKWTSWALMVYRETISA 841

Query: 667 GILPTSVTYSSLIHGLCNIGLIEDAKC---LFDEMRKEGLLPNVACYTALIGGYCKLGQM 723
           G LPT    S ++  L    L  DA     L + +         +  + L+ G+   G+ 
Sbjct: 842 GTLPTMEVLSQVLGCL---QLPHDATLRNRLIENLGISADSQKQSNLSTLVDGF---GEY 895

Query: 724 D-EAESVLQEMASINIHP 740
           D  A S+L+E AS+ + P
Sbjct: 896 DPRAFSLLEEAASLGVVP 913

Length = 1060

>gnl|CDD|215563 PLN03081, PLN03081, pentatricopeptide (PPR) repeat-containing protein; Provisional

 Score =  103 bits (257), Expect = 1e-22
 Identities = 75/312 (24%), Positives = 137/312 (43%), Gaps = 12/312 (3%)

Query: 492 GFTVNTVTSNALIHGMCEAGNLKEAGKLLMEMLQRGLILDKVTYNTLILGCCKDGKPEEG 551
           GF  +    N ++    + G L +A +L  EM +R L     ++ T+I G    G   E 
Sbjct: 153 GFEPDQYMMNRVLLMHVKCGMLIDARRLFDEMPERNL----ASWGTIIGGLVDAGNYREA 208

Query: 552 FKLKEDMIKRGIQPDNYTYNLLLHGLCSLGKMEEAIELWEECKRTVFGPDIYTYGVMIDG 611
           F L  +M + G   +  T+ ++L     LG      +L     +T    D +    +ID 
Sbjct: 209 FALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDM 268

Query: 612 FCKADKIEEGETLFNEMISKKMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPT 671
           + K   IE+   +F+ M  K      V +N+++  Y   G +  A  L  +M+  G+   
Sbjct: 269 YSKCGDIEDARCVFDGMPEKTT----VAWNSMLAGYALHGYSEEALCLYYEMRDSGVSID 324

Query: 672 SVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESVLQ 731
             T+S +I     + L+E AK     + + G   ++   TAL+  Y K G+M++A +V  
Sbjct: 325 QFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFD 384

Query: 732 EMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISPDSITYNVFMDGHCKGG 791
            M       N I++  +I GY   G   +A ++   M  +G++P+ +T+   +      G
Sbjct: 385 RMP----RKNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSG 440

Query: 792 NVEEAFKVCDRM 803
             E+ +++   M
Sbjct: 441 LSEQGWEIFQSM 452

Length = 697

>gnl|CDD|215636 PLN03218, PLN03218, maturation of RBCL 1; Provisional

 Score =  102 bits (256), Expect = 3e-22
 Identities = 94/428 (21%), Positives = 179/428 (41%), Gaps = 12/428 (2%)

Query: 326 SILINGLIKLEKFDDANFVLKEMSVRGFVPNYVVYNTLIDGYCKK-GNISEALKIRDDMV 384
            +L +G IK     D   +L++M  RG +    +Y+      CKK   + EA +    + 
Sbjct: 379 RLLRDGRIK-----DCIDLLEDMEKRGLLDMDKIYHAKFFKACKKQRAVKEAFRFAKLIR 433

Query: 385 SKGMSPNSVTFNSLIHGFCKSGQMDNAENALEEMLSRGLSINQGAYTSVIKWLCINSRFN 444
           +  +S    TFN L+     S  +D A   L  +   GL  +   YT++I     + + +
Sbjct: 434 NPTLS----TFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVD 489

Query: 445 SALHFTKEMLLRNLRPGDGLLTLLVSGLCKNGKQAEATELCFRLFEKGFTVNTVTSNALI 504
           +      EM+   +         L+ G  + G+ A+A      +  K    + V  NALI
Sbjct: 490 AMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALI 549

Query: 505 HGMCEAGNLKEAGKLLMEMLQRG--LILDKVTYNTLILGCCKDGKPEEGFKLKEDMIKRG 562
               ++G +  A  +L EM      +  D +T   L+  C   G+ +   ++ + + +  
Sbjct: 550 SACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYN 609

Query: 563 IQPDNYTYNLLLHGLCSLGKMEEAIELWEECKRTVFGPDIYTYGVMIDGFCKADKIEEGE 622
           I+     Y + ++     G  + A+ ++++ K+    PD   +  ++D    A  +++  
Sbjct: 610 IKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAF 669

Query: 623 TLFNEMISKKMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGL 682
            +  +   + ++L  V Y++L+ A     N   A  L  D+KS  + PT  T ++LI  L
Sbjct: 670 EILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITAL 729

Query: 683 CNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESVLQEMASINIHPNK 742
           C    +  A  +  EM++ GL PN   Y+ L+    +    D    +L +     I PN 
Sbjct: 730 CEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLDLLSQAKEDGIKPNL 789

Query: 743 ITYTIMIG 750
           +    + G
Sbjct: 790 VMCRCITG 797

Length = 1060

>gnl|CDD|215563 PLN03081, PLN03081, pentatricopeptide (PPR) repeat-containing protein; Provisional

 Score = 95.3 bits (237), Expect = 3e-20
 Identities = 76/340 (22%), Positives = 143/340 (42%), Gaps = 55/340 (16%)

Query: 530 LDKVTYNTLILGCCKDGKPEEGFKLKEDMIKRGIQPDNYTYN--LLLHGLCSLGKMEEAI 587
           L   TY+ L+  C           +   +   G +PD Y  N  LL+H  C  G + +A 
Sbjct: 121 LPASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRVLLMHVKC--GMLIDAR 178

Query: 588 ELWEECKRTVFGPD--IYTYGVMIDGFCKADKIEEGETLFNEMISKKMELNPVVYNTLIR 645
            L++E       P+  + ++G +I G   A    E   LF EM     +  P  +  ++R
Sbjct: 179 RLFDEM------PERNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLR 232

Query: 646 AYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLP 705
           A   +G+  A  +L   +   G++  +    +LI      G IEDA+C+FD M ++    
Sbjct: 233 ASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPEK---- 288

Query: 706 NVACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIG--------------- 750
               + +++ GY   G  +EA  +  EM    +  ++ T++IMI                
Sbjct: 289 TTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAH 348

Query: 751 --------------------GYCKLGDMKEAAKLLNVMAEKGISPDSITYNVFMDGHCKG 790
                                Y K G M++A  + + M  K +    I++N  + G+   
Sbjct: 349 AGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPRKNL----ISWNALIAGYGNH 404

Query: 791 GNVEEAFKVCDRMLSEGLSLDEITYTTLIDGWQSSTITNQ 830
           G   +A ++ +RM++EG++ + +T+  ++   + S ++ Q
Sbjct: 405 GRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQ 444

Length = 697

>gnl|CDD|205222 pfam13041, PPR_2, PPR repeat family

 Score = 83.2 bits (207), Expect = 6e-20
 Identities = 28/50 (56%), Positives = 37/50 (74%)

Query: 355 PNYVVYNTLIDGYCKKGNISEALKIRDDMVSKGMSPNSVTFNSLIHGFCK 404
           P+ V YNTLIDGYCKKG + EALK+ ++M  +G+ PN  T++ LI G CK
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 50

This repeat has no known function. It is about 35 amino acids long and is found in up to 18 copies in some proteins. The family appears to be greatly expanded in plants and fungi. The repeat has been called PPR. Length = 50

>gnl|CDD|215561 PLN03077, PLN03077, Protein ECB2; Provisional

 Score = 93.8 bits (233), Expect = 2e-19
 Identities = 96/433 (22%), Positives = 183/433 (42%), Gaps = 30/433 (6%)

Query: 396 NSLIHGFCKSGQMDNAENALEEMLSRGLSINQGAYTSVIKWLCINSRFNSA-----LHFT 450
           NS +   C  GQ++ A   LE M    + +++ AY ++ + LC   R             
Sbjct: 55  NSQLRALCSHGQLEQALKLLESMQELRVPVDEDAYVALFR-LCEWKRAVEEGSRVCSRAL 113

Query: 451 KEMLLRNLRPGDGLLTLLVSGLCKNGKQAEATELCFRLFEKGFTVNTVTSNALIHGMCEA 510
                  +R G+ +L++ V    + G+   A    + +F K    +  + N L+ G  +A
Sbjct: 114 SSHPSLGVRLGNAMLSMFV----RFGELVHA----WYVFGKMPERDLFSWNVLVGGYAKA 165

Query: 511 GNLKEAGKLLMEMLQRGLILDKVTYNTLILGCCKDGKPE--EGFKLKEDMIKRGIQPDNY 568
           G   EA  L   ML  G+  D  T+  ++  C   G P+   G ++   +++ G + D  
Sbjct: 166 GYFDEALCLYHRMLWAGVRPDVYTFPCVLRTC--GGIPDLARGREVHAHVVRFGFELDVD 223

Query: 569 TYNLLLHGLCSLGKMEEAIELWEECKRTVFGPDIYTYGVMIDGFCKADKIEEGETLFNEM 628
             N L+      G +  A  +++   R     D  ++  MI G+ +  +  EG  LF  M
Sbjct: 224 VVNALITMYVKCGDVVSARLVFDRMPRR----DCISWNAMISGYFENGECLEGLELFFTM 279

Query: 629 ISKKMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIGLI 688
               ++ + +   ++I A   +G+      +   +   G        +SLI    ++G  
Sbjct: 280 RELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSW 339

Query: 689 EDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIM 748
            +A+ +F  M  +    +   +TA+I GY K G  D+A      M   N+ P++IT   +
Sbjct: 340 GEAEKVFSRMETK----DAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASV 395

Query: 749 IGGYCKLGDMKEAAKLLNVMAEKGISPDSITYNVFMDGHCKGGNVEEAFKVCDRMLSEGL 808
           +     LGD+    KL  +   KG+    +  N  ++ + K   +++A +V   +  +  
Sbjct: 396 LSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEK-- 453

Query: 809 SLDEITYTTLIDG 821
             D I++T++I G
Sbjct: 454 --DVISWTSIIAG 464

Length = 857

>gnl|CDD|215563 PLN03081, PLN03081, pentatricopeptide (PPR) repeat-containing protein; Provisional

 Score = 92.2 bits (229), Expect = 3e-19
 Identities = 121/579 (20%), Positives = 218/579 (37%), Gaps = 119/579 (20%)

Query: 267 RIEDAIGLFTKMEELGIAPNVVTYNNIIHGLCRNGRLYEAFHLKEKMVLR---EVEPSLI 323
           RIE +     ++++  I  + V+  + I  L   GR  EA  L E +       +  S  
Sbjct: 67  RIEVSESKDARLDDTQIRKSGVSLCSQIEKLVACGRHREALELFEILEAGCPFTLPAS-- 124

Query: 324 TYSILINGLIKLEKFDDANFVLKEMSVRGFVPNYVVYNTLIDGYCKKGNISEALKIRDDM 383
           TY  L+   I L+       V   +   GF P+  + N ++  + K G + +A ++ D+M
Sbjct: 125 TYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRVLLMHVKCGMLIDARRLFDEM 184

Query: 384 VSKGMSPNSVTFNSLIHGFCKSGQMDNAENALEEMLSRGLSINQGAYTSVIKWLCINSRF 443
             +    N  ++ ++I G   +G    A     EM   G                     
Sbjct: 185 PER----NLASWGTIIGGLVDAGNYREAFALFREMWEDG--------------------S 220

Query: 444 NSALHFTKEMLLRNLRPGDGLLTLLVSGLCKNGKQAEATELCFRLFEKGFTVNTVTSNAL 503
           ++         +  LR   GL      G  + G+Q     L     + G   +T  S AL
Sbjct: 221 DAEPR----TFVVMLRASAGL------GSARAGQQLHCCVL-----KTGVVGDTFVSCAL 265

Query: 504 IHGMCEAGNLKEAGKLLMEMLQRGLILDKVTYNTLILGCCKDGKPEEGFKLKEDMIKRGI 563
           I    + G++++A  +   M ++      V +N+++ G    G  EE   L  +M   G+
Sbjct: 266 IDMYSKCGDIEDARCVFDGMPEKTT----VAWNSMLAGYALHGYSEEALCLYYEMRDSGV 321

Query: 564 QPDNYTYNLLLHGLCSLGKMEEAIELWEECKRTVFGPDIYTYGVMIDGFCKADKIEEGET 623
             D +T+++++     L  +E A +      RT F  DI     ++D + K  ++E+   
Sbjct: 322 SIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARN 381

Query: 624 LFNEMISKKMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLC 683
           +F+ M  K +                                       +++++LI G  
Sbjct: 382 VFDRMPRKNL---------------------------------------ISWNALIAGYG 402

Query: 684 NIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESVLQEMASIN-IHPNK 742
           N G    A  +F+ M  EG+ PN   + A++      G  ++   + Q M+  + I P  
Sbjct: 403 NHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRA 462

Query: 743 ITYTIMIGGYCKLGDMKEA----------------AKLLN------------VMAEK--G 772
           + Y  MI    + G + EA                A LL             + AEK  G
Sbjct: 463 MHYACMIELLGREGLLDEAYAMIRRAPFKPTVNMWAALLTACRIHKNLELGRLAAEKLYG 522

Query: 773 ISPDSI-TYNVFMDGHCKGGNVEEAFKVCDRMLSEGLSL 810
           + P+ +  Y V ++ +   G   EA KV + +  +GLS+
Sbjct: 523 MGPEKLNNYVVLLNLYNSSGRQAEAAKVVETLKRKGLSM 561

Length = 697

>gnl|CDD|215561 PLN03077, PLN03077, Protein ECB2; Provisional

 Score = 91.8 bits (228), Expect = 6e-19
 Identities = 130/616 (21%), Positives = 241/616 (39%), Gaps = 94/616 (15%)

Query: 199 FGYAIDVFSIFSSKGIFPSLKTCNFLLNSLVKANEVQKGIEVFETMCR-GVSPDVFLFST 257
           F  A+ ++      G+ P + T   +L +     ++ +G EV   + R G   DV + + 
Sbjct: 168 FDEALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDVDVVNA 227

Query: 258 AINAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIHGLCRNGRLYEAFHLKEKMVLRE 317
            I  + K G +  A  +F +M       + +++N +I G   NG   E   L   M    
Sbjct: 228 LITMYVKCGDVVSARLVFDRMPRR----DCISWNAMISGYFENGECLEGLELFFTMRELS 283

Query: 318 VEPSLITYSILIN--GLIKLEKF--DDANFVLKEMSVRGFVPNYVVYNTLIDGYCKKGNI 373
           V+P L+T + +I+   L+  E+   +   +V+K     GF  +  V N+LI  Y   G+ 
Sbjct: 284 VDPDLMTITSVISACELLGDERLGREMHGYVVK----TGFAVDVSVCNSLIQMYLSLGSW 339

Query: 374 SEALKIRDDMVSKGMSPNSVTFNSLIHGFCKSGQMDNAENALEEMLSRGLSINQGAYTSV 433
            EA K+   M +K    ++V++ ++I G+ K+G  D A                      
Sbjct: 340 GEAEKVFSRMETK----DAVSWTAMISGYEKNGLPDKA---------------------- 373

Query: 434 IKWLCINSRFNSALHFTKEMLLRNLRPGDGLLTLLVSGLCKNGKQAEATELCFRLFEKGF 493
                        L     M   N+ P +  +  ++S     G      +L      KG 
Sbjct: 374 -------------LETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGL 420

Query: 494 TVNTVTSNALIHGMCEAGNLKEAGKLLMEMLQRGLILDKVTYNTLILGCCKDGKPEEGFK 553
               V +NALI    +   + +A ++   + ++    D +++ ++I G   + +  E   
Sbjct: 421 ISYVVVANALIEMYSKCKCIDKALEVFHNIPEK----DVISWTSIIAGLRLNNRCFEALI 476

Query: 554 LKEDMIKRGIQPDNYTYNLLLHGLCSLGKMEEAIELWEECKRTVFGPDIYTYGVMIDGFC 613
               M+   ++P++ T    L     +G +    E+     RT  G D +    ++D + 
Sbjct: 477 FFRQMLLT-LKPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYV 535

Query: 614 KADKIEEGETLFNEMISKKMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSV 673
           +  ++      FN       E + V +N L+  Y   G  + A  L N M   G+ P  V
Sbjct: 536 RCGRMNYAWNQFN-----SHEKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEV 590

Query: 674 TYSSLIHGLCNIGLIEDAKCLFDEMRKE-GLLPNVACYTALIGGYCKLGQMDEAESVLQE 732
           T+ SL+      G++      F  M ++  + PN+  Y  ++    + G++ EA + + +
Sbjct: 591 TFISLLCACSRSGMVTQGLEYFHSMEEKYSITPNLKHYACVVDLLGRAGKLTEAYNFINK 650

Query: 733 M----------ASIN---IH-----------------PNKITYTIMIGG-YCKLGDMKEA 761
           M          A +N   IH                 PN + Y I++   Y   G   E 
Sbjct: 651 MPITPDPAVWGALLNACRIHRHVELGELAAQHIFELDPNSVGYYILLCNLYADAGKWDEV 710

Query: 762 AKLLNVMAEKGISPDS 777
           A++   M E G++ D 
Sbjct: 711 ARVRKTMRENGLTVDP 726

Length = 857

>gnl|CDD|215636 PLN03218, PLN03218, maturation of RBCL 1; Provisional

 Score = 89.9 bits (223), Expect = 3e-18
 Identities = 69/317 (21%), Positives = 129/317 (40%), Gaps = 42/317 (13%)

Query: 507 MCEAGNLKEAGKLLMEMLQRGLI-LDKVTYNTLILGCCKDGKPEEGFKLKEDMIKRGIQP 565
           +   G +K+   LL +M +RGL+ +DK+ +      C K    +E F+  + +    +  
Sbjct: 380 LLRDGRIKDCIDLLEDMEKRGLLDMDKIYHAKFFKACKKQRAVKEAFRFAKLIRNPTLS- 438

Query: 566 DNYTYNLLLHGLCSLGKMEEAIELWEECKRTVFGPDIYTYGVMIDGFCKADKIEEGETLF 625
              T+N+L+    S   ++ A+ +    +      D           CK           
Sbjct: 439 ---TFNMLMSVCASSQDIDGALRVLRLVQEAGLKAD-----------CK----------- 473

Query: 626 NEMISKKMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNI 685
                        +Y TLI    K G   A F + ++M + G+     T+ +LI G    
Sbjct: 474 -------------LYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARA 520

Query: 686 GLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESVLQEMASIN--IHPNKI 743
           G +  A   +  MR + + P+   + ALI    + G +D A  VL EM +    I P+ I
Sbjct: 521 GQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHI 580

Query: 744 TYTIMIGGYCKLGDMKEAAKLLNVMAEKGISPDSITYNVFMDGHCKGGNVEEAFKVCDRM 803
           T   ++      G +  A ++  ++ E  I      Y + ++   + G+ + A  + D M
Sbjct: 581 TVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDM 640

Query: 804 LSEGLSLDEITYTTLID 820
             +G+  DE+ ++ L+D
Sbjct: 641 KKKGVKPDEVFFSALVD 657

Length = 1060

>gnl|CDD|205222 pfam13041, PPR_2, PPR repeat family

 Score = 77.1 bits (191), Expect = 8e-18
 Identities = 29/46 (63%), Positives = 35/46 (76%)

Query: 533 VTYNTLILGCCKDGKPEEGFKLKEDMIKRGIQPDNYTYNLLLHGLC 578
           VTYNTLI G CK GK EE  KL  +M KRGI+P+ YTY++L+ GLC
Sbjct: 4   VTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLC 49

This repeat has no known function. It is about 35 amino acids long and is found in up to 18 copies in some proteins. The family appears to be greatly expanded in plants and fungi. The repeat has been called PPR. Length = 50

>gnl|CDD|205222 pfam13041, PPR_2, PPR repeat family

 Score = 75.1 bits (186), Expect = 4e-17
 Identities = 24/50 (48%), Positives = 31/50 (62%)

Query: 705 PNVACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCK 754
           P+V  Y  LI GYCK G+++EA  +  EM    I PN  TY+I+I G CK
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 50

This repeat has no known function. It is about 35 amino acids long and is found in up to 18 copies in some proteins. The family appears to be greatly expanded in plants and fungi. The repeat has been called PPR. Length = 50

>gnl|CDD|205222 pfam13041, PPR_2, PPR repeat family

 Score = 75.1 bits (186), Expect = 5e-17
 Identities = 27/49 (55%), Positives = 30/49 (61%)

Query: 636 NPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCN 684
           + V YNTLI  YCK G    A +L N+MK RGI P   TYS LI GLC 
Sbjct: 2   DVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 50

This repeat has no known function. It is about 35 amino acids long and is found in up to 18 copies in some proteins. The family appears to be greatly expanded in plants and fungi. The repeat has been called PPR. Length = 50

>gnl|CDD|205222 pfam13041, PPR_2, PPR repeat family

 Score = 74.7 bits (185), Expect = 6e-17
 Identities = 24/50 (48%), Positives = 35/50 (70%)

Query: 740 PNKITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISPDSITYNVFMDGHCK 789
           P+ +TY  +I GYCK G ++EA KL N M ++GI P+  TY++ +DG CK
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 50

This repeat has no known function. It is about 35 amino acids long and is found in up to 18 copies in some proteins. The family appears to be greatly expanded in plants and fungi. The repeat has been called PPR. Length = 50

>gnl|CDD|205222 pfam13041, PPR_2, PPR repeat family

 Score = 73.2 bits (181), Expect = 2e-16
 Identities = 25/50 (50%), Positives = 36/50 (72%)

Query: 285 PNVVTYNNIIHGLCRNGRLYEAFHLKEKMVLREVEPSLITYSILINGLIK 334
           P+VVTYN +I G C+ G++ EA  L  +M  R ++P++ TYSILI+GL K
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 50

This repeat has no known function. It is about 35 amino acids long and is found in up to 18 copies in some proteins. The family appears to be greatly expanded in plants and fungi. The repeat has been called PPR. Length = 50

>gnl|CDD|205222 pfam13041, PPR_2, PPR repeat family

 Score = 72.4 bits (179), Expect = 4e-16
 Identities = 26/50 (52%), Positives = 34/50 (68%)

Query: 670 PTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCK 719
           P  VTY++LI G C  G +E+A  LF+EM+K G+ PNV  Y+ LI G CK
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 50

This repeat has no known function. It is about 35 amino acids long and is found in up to 18 copies in some proteins. The family appears to be greatly expanded in plants and fungi. The repeat has been called PPR. Length = 50

>gnl|CDD|215636 PLN03218, PLN03218, maturation of RBCL 1; Provisional

 Score = 80.7 bits (199), Expect = 2e-15
 Identities = 67/293 (22%), Positives = 119/293 (40%), Gaps = 16/293 (5%)

Query: 202 AIDVFSIFSSKGIFPSLKTCNFLLNSLVKANEVQKGIEVFETM---CRGVSPDVFLFSTA 258
           A   + I  SK + P     N L+++  ++  V +  +V   M      + PD       
Sbjct: 526 AFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGAL 585

Query: 259 INAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIHGLCRNGRLYEAFHLKEKMVLREV 318
           + A    G+++ A  ++  + E  I      Y   ++   + G    A  + + M  + V
Sbjct: 586 MKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGV 645

Query: 319 EPSLITYSILINGLIKLEKFDDANFVLKEMSVRGFVPNYVVYNTLIDGYCKKGNISEALK 378
           +P  + +S L++        D A  +L++   +G     V Y++L+       N  +AL+
Sbjct: 646 KPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALE 705

Query: 379 IRDDMVSKGMSPNSVTFNSLIHGFCKSGQMDNAENALEEMLSRGLSINQGAYTSVIKWLC 438
           + +D+ S  + P   T N+LI   C+  Q+  A   L EM   GL  N   Y+ ++    
Sbjct: 706 LYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASE 765

Query: 439 INSRFNSALHFTKEMLLRNLRPGDGLLTLLVSGLCKNGKQAEATELCFRLFEK 491
                +  L      LL   +  DG+   LV  +C+       T LC R FEK
Sbjct: 766 RKDDADVGL-----DLLSQAK-EDGIKPNLV--MCRC-----ITGLCLRRFEK 805

Length = 1060

>gnl|CDD|205222 pfam13041, PPR_2, PPR repeat family

 Score = 70.5 bits (174), Expect = 2e-15
 Identities = 24/50 (48%), Positives = 39/50 (78%)

Query: 250 PDVFLFSTAINAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIHGLCR 299
           PDV  ++T I+ +CK+G++E+A+ LF +M++ GI PNV TY+ +I GLC+
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 50

This repeat has no known function. It is about 35 amino acids long and is found in up to 18 copies in some proteins. The family appears to be greatly expanded in plants and fungi. The repeat has been called PPR. Length = 50

>gnl|CDD|215563 PLN03081, PLN03081, pentatricopeptide (PPR) repeat-containing protein; Provisional

 Score = 79.5 bits (196), Expect = 4e-15
 Identities = 104/523 (19%), Positives = 193/523 (36%), Gaps = 99/523 (18%)

Query: 191 CTQFKNLG----FGYAIDVFSIFSSKGIFP-SLKTCNFLLNSLVKANEVQKGIEVF-ETM 244
           C+Q + L        A+++F I  +   F     T + L+ + +    ++    V+    
Sbjct: 91  CSQIEKLVACGRHREALELFEILEAGCPFTLPASTYDALVEACIALKSIRCVKAVYWHVE 150

Query: 245 CRGVSPDVFLFSTAINAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIHGLCRNGRLY 304
             G  PD ++ +  +    K G + DA  LF +M E     N+ ++  II GL   G   
Sbjct: 151 SSGFEPDQYMMNRVLLMHVKCGMLIDARRLFDEMPE----RNLASWGTIIGGLVDAGNYR 206

Query: 305 EAFHLKEKM--VLREVEPSLITYSI---------------------------------LI 329
           EAF L  +M     + EP      +                                 LI
Sbjct: 207 EAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALI 266

Query: 330 NGLIKLEKFDDANFVLKEMSVRGFVPNYVVYNTLIDGYCKKGNISEALKIRDDMVSKGMS 389
           +   K    +DA  V   M  +      V +N+++ GY   G   EAL +  +M   G+S
Sbjct: 267 DMYSKCGDIEDARCVFDGMPEK----TTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVS 322

Query: 390 PNSVTFNSLIHGFCKSGQMDNAENALEEMLSRGLSINQGAYTSVIKWLCINSRFNSALHF 449
            +  TF+ +I  F +   +++A+ A   ++  G  ++  A T+++       R   A + 
Sbjct: 323 IDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNV 382

Query: 450 TKEMLLRNLRPGDGLLTLLVSGLCKNGKQAEATELCFRLFEKGFTVNTVTSNALIHGMCE 509
              M  +NL                                       ++ NALI G   
Sbjct: 383 FDRMPRKNL---------------------------------------ISWNALIAGYGN 403

Query: 510 AGNLKEAGKLLMEMLQRGLILDKVTYNTLILGCCKDGKPEEGFKLKEDMIK-RGIQPDNY 568
            G   +A ++   M+  G+  + VT+  ++  C   G  E+G+++ + M +   I+P   
Sbjct: 404 HGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAM 463

Query: 569 TYNLLLHGLCSLGKMEEAIELWEECKRTVFGPDIYTYGVMIDGFCKADKIEEGETLFNEM 628
            Y  ++  L   G ++EA  +    +R  F P +  +  ++     A +I +   L    
Sbjct: 464 HYACMIELLGREGLLDEAYAM---IRRAPFKPTVNMWAALLT----ACRIHKNLELGRLA 516

Query: 629 ISKKMELNPVV---YNTLIRAYCKIGNTTAAFRLSNDMKSRGI 668
             K   + P     Y  L+  Y   G    A ++   +K +G+
Sbjct: 517 AEKLYGMGPEKLNNYVVLLNLYNSSGRQAEAAKVVETLKRKGL 559

Length = 697

>gnl|CDD|215561 PLN03077, PLN03077, Protein ECB2; Provisional

 Score = 76.4 bits (188), Expect = 4e-14
 Identities = 78/352 (22%), Positives = 134/352 (38%), Gaps = 74/352 (21%)

Query: 494 TVNTVTSNALIHGMCEAGNLKEAGKLLMEMLQRGLILDKVTYNTLILGCCKDGKPEEGFK 553
           + +T  SN+ +  +C  G L++A KLL  M +  + +D+  Y  L   C      EEG +
Sbjct: 48  SSSTHDSNSQLRALCSHGQLEQALKLLESMQELRVPVDEDAYVALFRLCEWKRAVEEGSR 107

Query: 554 L----KEDMIKRGIQPDN---------------------------YTYNLLLHGLCSLGK 582
           +           G++  N                           +++N+L+ G    G 
Sbjct: 108 VCSRALSSHPSLGVRLGNAMLSMFVRFGELVHAWYVFGKMPERDLFSWNVLVGGYAKAGY 167

Query: 583 MEEAIELWEECKRTVFGPDIYTYGVMIDGFCKADKIEEGETLFNEMISKKMELNPVVYNT 642
            +EA+ L+         PD+YT+  ++        +  G  +   ++    EL+  V N 
Sbjct: 168 FDEALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDVDVVNA 227

Query: 643 LIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMR--- 699
           LI  Y K G+  +A  + + M  R      ++++++I G    G   +   LF  MR   
Sbjct: 228 LITMYVKCGDVVSARLVFDRMPRRDC----ISWNAMISGYFENGECLEGLELFFTMRELS 283

Query: 700 --------------------------------KEGLLPNVACYTALIGGYCKLGQMDEAE 727
                                           K G   +V+   +LI  Y  LG   EAE
Sbjct: 284 VDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAE 343

Query: 728 SVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISPDSIT 779
            V   M + +     +++T MI GY K G   +A +   +M +  +SPD IT
Sbjct: 344 KVFSRMETKDA----VSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEIT 391

Length = 857

>gnl|CDD|205222 pfam13041, PPR_2, PPR repeat family

 Score = 66.3 bits (163), Expect = 6e-14
 Identities = 23/49 (46%), Positives = 31/49 (63%)

Query: 496 NTVTSNALIHGMCEAGNLKEAGKLLMEMLQRGLILDKVTYNTLILGCCK 544
           + VT N LI G C+ G ++EA KL  EM +RG+  +  TY+ LI G CK
Sbjct: 2   DVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 50

This repeat has no known function. It is about 35 amino acids long and is found in up to 18 copies in some proteins. The family appears to be greatly expanded in plants and fungi. The repeat has been called PPR. Length = 50

>gnl|CDD|205222 pfam13041, PPR_2, PPR repeat family

 Score = 66.3 bits (163), Expect = 7e-14
 Identities = 25/50 (50%), Positives = 35/50 (70%)

Query: 565 PDNYTYNLLLHGLCSLGKMEEAIELWEECKRTVFGPDIYTYGVMIDGFCK 614
           PD  TYN L+ G C  GK+EEA++L+ E K+    P++YTY ++IDG CK
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 50

This repeat has no known function. It is about 35 amino acids long and is found in up to 18 copies in some proteins. The family appears to be greatly expanded in plants and fungi. The repeat has been called PPR. Length = 50

>gnl|CDD|205222 pfam13041, PPR_2, PPR repeat family

 Score = 65.9 bits (162), Expect = 8e-14
 Identities = 23/47 (48%), Positives = 31/47 (65%)

Query: 775 PDSITYNVFMDGHCKGGNVEEAFKVCDRMLSEGLSLDEITYTTLIDG 821
           PD +TYN  +DG+CK G VEEA K+ + M   G+  +  TY+ LIDG
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDG 47

This repeat has no known function. It is about 35 amino acids long and is found in up to 18 copies in some proteins. The family appears to be greatly expanded in plants and fungi. The repeat has been called PPR. Length = 50

>gnl|CDD|205222 pfam13041, PPR_2, PPR repeat family

 Score = 64.3 bits (158), Expect = 3e-13
 Identities = 23/50 (46%), Positives = 31/50 (62%)

Query: 600 PDIYTYGVMIDGFCKADKIEEGETLFNEMISKKMELNPVVYNTLIRAYCK 649
           PD+ TY  +IDG+CK  K+EE   LFNEM  + ++ N   Y+ LI   CK
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 50

This repeat has no known function. It is about 35 amino acids long and is found in up to 18 copies in some proteins. The family appears to be greatly expanded in plants and fungi. The repeat has been called PPR. Length = 50

>gnl|CDD|205222 pfam13041, PPR_2, PPR repeat family

 Score = 64.0 bits (157), Expect = 4e-13
 Identities = 20/49 (40%), Positives = 30/49 (61%)

Query: 390 PNSVTFNSLIHGFCKSGQMDNAENALEEMLSRGLSINQGAYTSVIKWLC 438
           P+ VT+N+LI G+CK G+++ A     EM  RG+  N   Y+ +I  LC
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLC 49

This repeat has no known function. It is about 35 amino acids long and is found in up to 18 copies in some proteins. The family appears to be greatly expanded in plants and fungi. The repeat has been called PPR. Length = 50

>gnl|CDD|205222 pfam13041, PPR_2, PPR repeat family

 Score = 60.5 bits (148), Expect = 8e-12
 Identities = 22/50 (44%), Positives = 30/50 (60%)

Query: 320 PSLITYSILINGLIKLEKFDDANFVLKEMSVRGFVPNYVVYNTLIDGYCK 369
           P ++TY+ LI+G  K  K ++A  +  EM  RG  PN   Y+ LIDG CK
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 50

This repeat has no known function. It is about 35 amino acids long and is found in up to 18 copies in some proteins. The family appears to be greatly expanded in plants and fungi. The repeat has been called PPR. Length = 50

>gnl|CDD|205109 pfam12854, PPR_1, PPR repeat

 Score = 56.2 bits (137), Expect = 2e-10
 Identities = 16/33 (48%), Positives = 25/33 (75%)

Query: 386 KGMSPNSVTFNSLIHGFCKSGQMDNAENALEEM 418
           KG+ P+ VT+N+LI G C++G++D A   L+EM
Sbjct: 1   KGLKPDVVTYNTLIDGLCRAGRVDEAVELLDEM 33

This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. The exact function is not known. Length = 34

>gnl|CDD|205109 pfam12854, PPR_1, PPR repeat

 Score = 55.4 bits (135), Expect = 3e-10
 Identities = 18/33 (54%), Positives = 24/33 (72%)

Query: 282 GIAPNVVTYNNIIHGLCRNGRLYEAFHLKEKMV 314
           G+ P+VVTYN +I GLCR GR+ EA  L ++M 
Sbjct: 2   GLKPDVVTYNTLIDGLCRAGRVDEAVELLDEME 34

This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. The exact function is not known. Length = 34

>gnl|CDD|205109 pfam12854, PPR_1, PPR repeat

 Score = 55.0 bits (134), Expect = 4e-10
 Identities = 16/34 (47%), Positives = 24/34 (70%)

Query: 351 RGFVPNYVVYNTLIDGYCKKGNISEALKIRDDMV 384
           +G  P+ V YNTLIDG C+ G + EA+++ D+M 
Sbjct: 1   KGLKPDVVTYNTLIDGLCRAGRVDEAVELLDEME 34

This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. The exact function is not known. Length = 34

>gnl|CDD|205109 pfam12854, PPR_1, PPR repeat

 Score = 52.4 bits (127), Expect = 3e-09
 Identities = 16/34 (47%), Positives = 23/34 (67%)

Query: 666 RGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMR 699
           +G+ P  VTY++LI GLC  G +++A  L DEM 
Sbjct: 1   KGLKPDVVTYNTLIDGLCRAGRVDEAVELLDEME 34

This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. The exact function is not known. Length = 34

>gnl|CDD|205109 pfam12854, PPR_1, PPR repeat

 Score = 51.6 bits (125), Expect = 7e-09
 Identities = 16/33 (48%), Positives = 23/33 (69%)

Query: 771 KGISPDSITYNVFMDGHCKGGNVEEAFKVCDRM 803
           KG+ PD +TYN  +DG C+ G V+EA ++ D M
Sbjct: 1   KGLKPDVVTYNTLIDGLCRAGRVDEAVELLDEM 33

This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. The exact function is not known. Length = 34

>gnl|CDD|205109 pfam12854, PPR_1, PPR repeat

 Score = 50.8 bits (123), Expect = 1e-08
 Identities = 13/34 (38%), Positives = 24/34 (70%)

Query: 246 RGVSPDVFLFSTAINAFCKRGRIEDAIGLFTKME 279
           +G+ PDV  ++T I+  C+ GR+++A+ L  +ME
Sbjct: 1   KGLKPDVVTYNTLIDGLCRAGRVDEAVELLDEME 34

This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. The exact function is not known. Length = 34

>gnl|CDD|205109 pfam12854, PPR_1, PPR repeat

 Score = 50.0 bits (121), Expect = 2e-08
 Identities = 16/32 (50%), Positives = 21/32 (65%)

Query: 702 GLLPNVACYTALIGGYCKLGQMDEAESVLQEM 733
           GL P+V  Y  LI G C+ G++DEA  +L EM
Sbjct: 2   GLKPDVVTYNTLIDGLCRAGRVDEAVELLDEM 33

This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. The exact function is not known. Length = 34

>gnl|CDD|213555 TIGR00756, PPR, pentatricopeptide repeat domain (PPR motif)

 Score = 50.2 bits (121), Expect = 2e-08
 Identities = 17/35 (48%), Positives = 24/35 (68%)

Query: 358 VVYNTLIDGYCKKGNISEALKIRDDMVSKGMSPNS 392
           V YNTLIDG CK G + EAL++  +M  +G+ P+ 
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35

This model describes a domain called the PPR motif, or pentatricopeptide repeat. Its consensus sequence is 35 positions long and typically is found in four or more tandem copies. This family is strongly represented in plant proteins, particularly those sorted to chloroplasts or mitochondria. The pfam model pfam01535, domain of unknown function DUF17, consists of 6 copies of this repeat. This family has a similar consensus to the TPR domain (tetratricopeptide), pfam pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR. Length = 35

>gnl|CDD|205109 pfam12854, PPR_1, PPR repeat

 Score = 48.9 bits (118), Expect = 6e-08
 Identities = 16/32 (50%), Positives = 25/32 (78%)

Query: 561 RGIQPDNYTYNLLLHGLCSLGKMEEAIELWEE 592
           +G++PD  TYN L+ GLC  G+++EA+EL +E
Sbjct: 1   KGLKPDVVTYNTLIDGLCRAGRVDEAVELLDE 32

This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. The exact function is not known. Length = 34

>gnl|CDD|205109 pfam12854, PPR_1, PPR repeat

 Score = 48.5 bits (117), Expect = 9e-08
 Identities = 12/32 (37%), Positives = 20/32 (62%)

Query: 737 NIHPNKITYTIMIGGYCKLGDMKEAAKLLNVM 768
            + P+ +TY  +I G C+ G + EA +LL+ M
Sbjct: 2   GLKPDVVTYNTLIDGLCRAGRVDEAVELLDEM 33

This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. The exact function is not known. Length = 34

>gnl|CDD|213555 TIGR00756, PPR, pentatricopeptide repeat domain (PPR motif)

 Score = 47.8 bits (115), Expect = 2e-07
 Identities = 18/35 (51%), Positives = 26/35 (74%)

Query: 673 VTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNV 707
           VTY++LI GLC  G +E+A  LF EM++ G+ P+V
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35

This model describes a domain called the PPR motif, or pentatricopeptide repeat. Its consensus sequence is 35 positions long and typically is found in four or more tandem copies. This family is strongly represented in plant proteins, particularly those sorted to chloroplasts or mitochondria. The pfam model pfam01535, domain of unknown function DUF17, consists of 6 copies of this repeat. This family has a similar consensus to the TPR domain (tetratricopeptide), pfam pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR. Length = 35

>gnl|CDD|213555 TIGR00756, PPR, pentatricopeptide repeat domain (PPR motif)

 Score = 47.1 bits (113), Expect = 3e-07
 Identities = 20/34 (58%), Positives = 26/34 (76%)

Query: 533 VTYNTLILGCCKDGKPEEGFKLKEDMIKRGIQPD 566
           VTYNTLI G CK G+ EE  +L ++M +RGI+PD
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPD 34

This model describes a domain called the PPR motif, or pentatricopeptide repeat. Its consensus sequence is 35 positions long and typically is found in four or more tandem copies. This family is strongly represented in plant proteins, particularly those sorted to chloroplasts or mitochondria. The pfam model pfam01535, domain of unknown function DUF17, consists of 6 copies of this repeat. This family has a similar consensus to the TPR domain (tetratricopeptide), pfam pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR. Length = 35

>gnl|CDD|213555 TIGR00756, PPR, pentatricopeptide repeat domain (PPR motif)

 Score = 46.7 bits (112), Expect = 3e-07
 Identities = 16/35 (45%), Positives = 22/35 (62%)

Query: 743 ITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISPDS 777
           +TY  +I G CK G ++EA +L   M E+GI PD 
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35

This model describes a domain called the PPR motif, or pentatricopeptide repeat. Its consensus sequence is 35 positions long and typically is found in four or more tandem copies. This family is strongly represented in plant proteins, particularly those sorted to chloroplasts or mitochondria. The pfam model pfam01535, domain of unknown function DUF17, consists of 6 copies of this repeat. This family has a similar consensus to the TPR domain (tetratricopeptide), pfam pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR. Length = 35

>gnl|CDD|144943 pfam01535, PPR, PPR repeat

 Score = 46.3 bits (111), Expect = 4e-07
 Identities = 16/31 (51%), Positives = 22/31 (70%)

Query: 358 VVYNTLIDGYCKKGNISEALKIRDDMVSKGM 388
           V YN+LI GYCK G + EAL++  +M  KG+
Sbjct: 1   VTYNSLISGYCKAGKLEEALELFKEMKEKGV 31

This repeat has no known function. It is about 35 amino acids long and found in up to 18 copies in some proteins. This family appears to be greatly expanded in plants. This repeat occurs in PET309, which may be involved in RNA stabilisation. This domain occurs in crp1 that is involved in RNA processing. This repeat is associated with a predicted plant protein that has a domain organisation similar to the human BRCA1 protein. The repeat has been called PPR. Length = 31

>gnl|CDD|213555 TIGR00756, PPR, pentatricopeptide repeat domain (PPR motif)

 Score = 45.9 bits (110), Expect = 8e-07
 Identities = 15/35 (42%), Positives = 20/35 (57%)

Query: 778 ITYNVFMDGHCKGGNVEEAFKVCDRMLSEGLSLDE 812
           +TYN  +DG CK G VEEA ++   M   G+  D 
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35

This model describes a domain called the PPR motif, or pentatricopeptide repeat. Its consensus sequence is 35 positions long and typically is found in four or more tandem copies. This family is strongly represented in plant proteins, particularly those sorted to chloroplasts or mitochondria. The pfam model pfam01535, domain of unknown function DUF17, consists of 6 copies of this repeat. This family has a similar consensus to the TPR domain (tetratricopeptide), pfam pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR. Length = 35

>gnl|CDD|144943 pfam01535, PPR, PPR repeat

 Score = 45.1 bits (108), Expect = 1e-06
 Identities = 15/31 (48%), Positives = 21/31 (67%)

Query: 743 ITYTIMIGGYCKLGDMKEAAKLLNVMAEKGI 773
           +TY  +I GYCK G ++EA +L   M EKG+
Sbjct: 1   VTYNSLISGYCKAGKLEEALELFKEMKEKGV 31

This repeat has no known function. It is about 35 amino acids long and found in up to 18 copies in some proteins. This family appears to be greatly expanded in plants. This repeat occurs in PET309, which may be involved in RNA stabilisation. This domain occurs in crp1 that is involved in RNA processing. This repeat is associated with a predicted plant protein that has a domain organisation similar to the human BRCA1 protein. The repeat has been called PPR. Length = 31

>gnl|CDD|144943 pfam01535, PPR, PPR repeat

 Score = 44.8 bits (107), Expect = 1e-06
 Identities = 16/31 (51%), Positives = 23/31 (74%)

Query: 533 VTYNTLILGCCKDGKPEEGFKLKEDMIKRGI 563
           VTYN+LI G CK GK EE  +L ++M ++G+
Sbjct: 1   VTYNSLISGYCKAGKLEEALELFKEMKEKGV 31

This repeat has no known function. It is about 35 amino acids long and found in up to 18 copies in some proteins. This family appears to be greatly expanded in plants. This repeat occurs in PET309, which may be involved in RNA stabilisation. This domain occurs in crp1 that is involved in RNA processing. This repeat is associated with a predicted plant protein that has a domain organisation similar to the human BRCA1 protein. The repeat has been called PPR. Length = 31

>gnl|CDD|213555 TIGR00756, PPR, pentatricopeptide repeat domain (PPR motif)

 Score = 44.4 bits (106), Expect = 2e-06
 Identities = 15/34 (44%), Positives = 21/34 (61%)

Query: 603 YTYGVMIDGFCKADKIEEGETLFNEMISKKMELN 636
            TY  +IDG CKA ++EE   LF EM  + +E +
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPD 34

This model describes a domain called the PPR motif, or pentatricopeptide repeat. Its consensus sequence is 35 positions long and typically is found in four or more tandem copies. This family is strongly represented in plant proteins, particularly those sorted to chloroplasts or mitochondria. The pfam model pfam01535, domain of unknown function DUF17, consists of 6 copies of this repeat. This family has a similar consensus to the TPR domain (tetratricopeptide), pfam pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR. Length = 35

>gnl|CDD|144943 pfam01535, PPR, PPR repeat

 Score = 44.8 bits (107), Expect = 2e-06
 Identities = 14/31 (45%), Positives = 23/31 (74%)

Query: 393 VTFNSLIHGFCKSGQMDNAENALEEMLSRGL 423
           VT+NSLI G+CK+G+++ A    +EM  +G+
Sbjct: 1   VTYNSLISGYCKAGKLEEALELFKEMKEKGV 31

This repeat has no known function. It is about 35 amino acids long and found in up to 18 copies in some proteins. This family appears to be greatly expanded in plants. This repeat occurs in PET309, which may be involved in RNA stabilisation. This domain occurs in crp1 that is involved in RNA processing. This repeat is associated with a predicted plant protein that has a domain organisation similar to the human BRCA1 protein. The repeat has been called PPR. Length = 31

>gnl|CDD|144943 pfam01535, PPR, PPR repeat

 Score = 44.0 bits (105), Expect = 3e-06
 Identities = 16/31 (51%), Positives = 23/31 (74%)

Query: 673 VTYSSLIHGLCNIGLIEDAKCLFDEMRKEGL 703
           VTY+SLI G C  G +E+A  LF EM+++G+
Sbjct: 1   VTYNSLISGYCKAGKLEEALELFKEMKEKGV 31

This repeat has no known function. It is about 35 amino acids long and found in up to 18 copies in some proteins. This family appears to be greatly expanded in plants. This repeat occurs in PET309, which may be involved in RNA stabilisation. This domain occurs in crp1 that is involved in RNA processing. This repeat is associated with a predicted plant protein that has a domain organisation similar to the human BRCA1 protein. The repeat has been called PPR. Length = 31

>gnl|CDD|205109 pfam12854, PPR_1, PPR repeat

 Score = 43.9 bits (105), Expect = 4e-06
 Identities = 13/29 (44%), Positives = 20/29 (68%)

Query: 600 PDIYTYGVMIDGFCKADKIEEGETLFNEM 628
           PD+ TY  +IDG C+A +++E   L +EM
Sbjct: 5   PDVVTYNTLIDGLCRAGRVDEAVELLDEM 33

This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. The exact function is not known. Length = 34

>gnl|CDD|205109 pfam12854, PPR_1, PPR repeat

 Score = 43.5 bits (104), Expect = 5e-06
 Identities = 16/33 (48%), Positives = 23/33 (69%)

Query: 526 RGLILDKVTYNTLILGCCKDGKPEEGFKLKEDM 558
           +GL  D VTYNTLI G C+ G+ +E  +L ++M
Sbjct: 1   KGLKPDVVTYNTLIDGLCRAGRVDEAVELLDEM 33

This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. The exact function is not known. Length = 34

>gnl|CDD|213555 TIGR00756, PPR, pentatricopeptide repeat domain (PPR motif)

 Score = 43.6 bits (104), Expect = 5e-06
 Identities = 17/35 (48%), Positives = 18/35 (51%)

Query: 638 VVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTS 672
           V YNTLI   CK G    A  L  +MK RGI P  
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35

This model describes a domain called the PPR motif, or pentatricopeptide repeat. Its consensus sequence is 35 positions long and typically is found in four or more tandem copies. This family is strongly represented in plant proteins, particularly those sorted to chloroplasts or mitochondria. The pfam model pfam01535, domain of unknown function DUF17, consists of 6 copies of this repeat. This family has a similar consensus to the TPR domain (tetratricopeptide), pfam pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR. Length = 35

>gnl|CDD|213555 TIGR00756, PPR, pentatricopeptide repeat domain (PPR motif)

 Score = 43.2 bits (103), Expect = 6e-06
 Identities = 14/34 (41%), Positives = 23/34 (67%)

Query: 393 VTFNSLIHGFCKSGQMDNAENALEEMLSRGLSIN 426
           VT+N+LI G CK+G+++ A    +EM  RG+  +
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPD 34

This model describes a domain called the PPR motif, or pentatricopeptide repeat. Its consensus sequence is 35 positions long and typically is found in four or more tandem copies. This family is strongly represented in plant proteins, particularly those sorted to chloroplasts or mitochondria. The pfam model pfam01535, domain of unknown function DUF17, consists of 6 copies of this repeat. This family has a similar consensus to the TPR domain (tetratricopeptide), pfam pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR. Length = 35

>gnl|CDD|213555 TIGR00756, PPR, pentatricopeptide repeat domain (PPR motif)

 Score = 42.8 bits (102), Expect = 9e-06
 Identities = 16/35 (45%), Positives = 25/35 (71%)

Query: 253 FLFSTAINAFCKRGRIEDAIGLFTKMEELGIAPNV 287
             ++T I+  CK GR+E+A+ LF +M+E GI P+V
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35

This model describes a domain called the PPR motif, or pentatricopeptide repeat. Its consensus sequence is 35 positions long and typically is found in four or more tandem copies. This family is strongly represented in plant proteins, particularly those sorted to chloroplasts or mitochondria. The pfam model pfam01535, domain of unknown function DUF17, consists of 6 copies of this repeat. This family has a similar consensus to the TPR domain (tetratricopeptide), pfam pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR. Length = 35

>gnl|CDD|205109 pfam12854, PPR_1, PPR repeat

 Score = 42.0 bits (100), Expect = 2e-05
 Identities = 17/33 (51%), Positives = 21/33 (63%)

Query: 491 KGFTVNTVTSNALIHGMCEAGNLKEAGKLLMEM 523
           KG   + VT N LI G+C AG + EA +LL EM
Sbjct: 1   KGLKPDVVTYNTLIDGLCRAGRVDEAVELLDEM 33

This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. The exact function is not known. Length = 34

>gnl|CDD|144943 pfam01535, PPR, PPR repeat

 Score = 42.1 bits (100), Expect = 2e-05
 Identities = 12/29 (41%), Positives = 19/29 (65%)

Query: 710 YTALIGGYCKLGQMDEAESVLQEMASINI 738
           Y +LI GYCK G+++EA  + +EM    +
Sbjct: 3   YNSLISGYCKAGKLEEALELFKEMKEKGV 31

This repeat has no known function. It is about 35 amino acids long and found in up to 18 copies in some proteins. This family appears to be greatly expanded in plants. This repeat occurs in PET309, which may be involved in RNA stabilisation. This domain occurs in crp1 that is involved in RNA processing. This repeat is associated with a predicted plant protein that has a domain organisation similar to the human BRCA1 protein. The repeat has been called PPR. Length = 31

>gnl|CDD|144943 pfam01535, PPR, PPR repeat

 Score = 41.3 bits (98), Expect = 2e-05
 Identities = 12/31 (38%), Positives = 20/31 (64%)

Query: 778 ITYNVFMDGHCKGGNVEEAFKVCDRMLSEGL 808
           +TYN  + G+CK G +EEA ++   M  +G+
Sbjct: 1   VTYNSLISGYCKAGKLEEALELFKEMKEKGV 31

This repeat has no known function. It is about 35 amino acids long and found in up to 18 copies in some proteins. This family appears to be greatly expanded in plants. This repeat occurs in PET309, which may be involved in RNA stabilisation. This domain occurs in crp1 that is involved in RNA processing. This repeat is associated with a predicted plant protein that has a domain organisation similar to the human BRCA1 protein. The repeat has been called PPR. Length = 31

>gnl|CDD|213555 TIGR00756, PPR, pentatricopeptide repeat domain (PPR motif)

 Score = 41.3 bits (98), Expect = 3e-05
 Identities = 17/34 (50%), Positives = 23/34 (67%)

Query: 288 VTYNNIIHGLCRNGRLYEAFHLKEKMVLREVEPS 321
           VTYN +I GLC+ GR+ EA  L ++M  R +EP 
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPD 34

This model describes a domain called the PPR motif, or pentatricopeptide repeat. Its consensus sequence is 35 positions long and typically is found in four or more tandem copies. This family is strongly represented in plant proteins, particularly those sorted to chloroplasts or mitochondria. The pfam model pfam01535, domain of unknown function DUF17, consists of 6 copies of this repeat. This family has a similar consensus to the TPR domain (tetratricopeptide), pfam pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR. Length = 35

>gnl|CDD|144943 pfam01535, PPR, PPR repeat

 Score = 40.9 bits (97), Expect = 3e-05
 Identities = 15/29 (51%), Positives = 18/29 (62%)

Query: 603 YTYGVMIDGFCKADKIEEGETLFNEMISK 631
            TY  +I G+CKA K+EE   LF EM  K
Sbjct: 1   VTYNSLISGYCKAGKLEEALELFKEMKEK 29

This repeat has no known function. It is about 35 amino acids long and found in up to 18 copies in some proteins. This family appears to be greatly expanded in plants. This repeat occurs in PET309, which may be involved in RNA stabilisation. This domain occurs in crp1 that is involved in RNA processing. This repeat is associated with a predicted plant protein that has a domain organisation similar to the human BRCA1 protein. The repeat has been called PPR. Length = 31

>gnl|CDD|205985 pfam13812, PPR_3, Pentatricopeptide repeat domain

 Score = 41.0 bits (97), Expect = 3e-05
 Identities = 13/31 (41%), Positives = 18/31 (58%)

Query: 393 VTFNSLIHGFCKSGQMDNAENALEEMLSRGL 423
            T+N+L+    K+G  D A   LEEM + GL
Sbjct: 2   ETYNALLLALAKAGDPDLALAVLEEMKASGL 32

This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. The exact function is not known. Length = 34

>gnl|CDD|223533 COG0457, NrfG, FOG: TPR repeat [General function prediction only]

 Score = 45.2 bits (105), Expect = 8e-05
 Identities = 48/239 (20%), Positives = 85/239 (35%), Gaps = 5/239 (2%)

Query: 570 YNLLLHGLCSLGKMEEAIELWEEC-KRTVFGPDIYTYGVMIDGFCKADKIEEGETLFNEM 628
               L  L  LG++ EA+EL EE  +            ++     K  ++EE   L  + 
Sbjct: 26  LEAGLALLELLGELAEALELLEEALELLPNSDLAGLLLLLALALLKLGRLEEALELLEKA 85

Query: 629 ISKKMELN-PVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIGL 687
           +  ++  N       L      +G    A  L     +    P        +  L  +G 
Sbjct: 86  LELELLPNLAEALLNLGLLLEALGKYEEALELLEKALALDPDPDLAEALLALGALYELGD 145

Query: 688 IEDAKCLFDEMRK--EGLLPNVACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITY 745
            E+A  L+++  +    L        AL      LG+ +EA  +L++   +N   +    
Sbjct: 146 YEEALELYEKALELDPELNELAEALLALGALLEALGRYEEALELLEKALKLNPDDDAEAL 205

Query: 746 TIMIGGYCKLGDMKEAAKLLNVMAEKGISPDSITYNVFMDGHCKGGNVEEAFKVCDRML 804
             +   Y KLG  +EA +      E         YN+ +    + G  EEA +  ++ L
Sbjct: 206 LNLGLLYLKLGKYEEALEYYEKALELDPDNAEALYNLALL-LLELGRYEEALEALEKAL 263

Length = 291

>gnl|CDD|205109 pfam12854, PPR_1, PPR repeat

 Score = 39.6 bits (94), Expect = 1e-04
 Identities = 12/34 (35%), Positives = 19/34 (55%)

Query: 631 KKMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMK 664
           K ++ + V YNTLI   C+ G    A  L ++M+
Sbjct: 1   KGLKPDVVTYNTLIDGLCRAGRVDEAVELLDEME 34

This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. The exact function is not known. Length = 34

>gnl|CDD|213555 TIGR00756, PPR, pentatricopeptide repeat domain (PPR motif)

 Score = 39.8 bits (94), Expect = 1e-04
 Identities = 13/33 (39%), Positives = 19/33 (57%)

Query: 709 CYTALIGGYCKLGQMDEAESVLQEMASINIHPN 741
            Y  LI G CK G+++EA  + +EM    I P+
Sbjct: 2   TYNTLIDGLCKAGRVEEALELFKEMKERGIEPD 34

This model describes a domain called the PPR motif, or pentatricopeptide repeat. Its consensus sequence is 35 positions long and typically is found in four or more tandem copies. This family is strongly represented in plant proteins, particularly those sorted to chloroplasts or mitochondria. The pfam model pfam01535, domain of unknown function DUF17, consists of 6 copies of this repeat. This family has a similar consensus to the TPR domain (tetratricopeptide), pfam pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR. Length = 35

>gnl|CDD|144943 pfam01535, PPR, PPR repeat

 Score = 39.4 bits (93), Expect = 1e-04
 Identities = 15/28 (53%), Positives = 20/28 (71%)

Query: 568 YTYNLLLHGLCSLGKMEEAIELWEECKR 595
            TYN L+ G C  GK+EEA+EL++E K 
Sbjct: 1   VTYNSLISGYCKAGKLEEALELFKEMKE 28

This repeat has no known function. It is about 35 amino acids long and found in up to 18 copies in some proteins. This family appears to be greatly expanded in plants. This repeat occurs in PET309, which may be involved in RNA stabilisation. This domain occurs in crp1 that is involved in RNA processing. This repeat is associated with a predicted plant protein that has a domain organisation similar to the human BRCA1 protein. The repeat has been called PPR. Length = 31

>gnl|CDD|213555 TIGR00756, PPR, pentatricopeptide repeat domain (PPR motif)

 Score = 39.0 bits (92), Expect = 2e-04
 Identities = 14/34 (41%), Positives = 22/34 (64%)

Query: 323 ITYSILINGLIKLEKFDDANFVLKEMSVRGFVPN 356
           +TY+ LI+GL K  + ++A  + KEM  RG  P+
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPD 34

This model describes a domain called the PPR motif, or pentatricopeptide repeat. Its consensus sequence is 35 positions long and typically is found in four or more tandem copies. This family is strongly represented in plant proteins, particularly those sorted to chloroplasts or mitochondria. The pfam model pfam01535, domain of unknown function DUF17, consists of 6 copies of this repeat. This family has a similar consensus to the TPR domain (tetratricopeptide), pfam pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR. Length = 35

>gnl|CDD|205985 pfam13812, PPR_3, Pentatricopeptide repeat domain

 Score = 38.7 bits (91), Expect = 3e-04
 Identities = 10/32 (31%), Positives = 14/32 (43%)

Query: 744 TYTIMIGGYCKLGDMKEAAKLLNVMAEKGISP 775
           TY  ++    K GD   A  +L  M   G+ P
Sbjct: 3   TYNALLLALAKAGDPDLALAVLEEMKASGLKP 34

This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. The exact function is not known. Length = 34

>gnl|CDD|205985 pfam13812, PPR_3, Pentatricopeptide repeat domain

 Score = 38.3 bits (90), Expect = 4e-04
 Identities = 7/34 (20%), Positives = 17/34 (50%)

Query: 252 VFLFSTAINAFCKRGRIEDAIGLFTKMEELGIAP 285
           +  ++  + A  K G  + A+ +  +M+  G+ P
Sbjct: 1   LETYNALLLALAKAGDPDLALAVLEEMKASGLKP 34

This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. The exact function is not known. Length = 34

>gnl|CDD|205985 pfam13812, PPR_3, Pentatricopeptide repeat domain

 Score = 37.9 bits (89), Expect = 4e-04
 Identities = 12/33 (36%), Positives = 18/33 (54%)

Query: 533 VTYNTLILGCCKDGKPEEGFKLKEDMIKRGIQP 565
            TYN L+L   K G P+    + E+M   G++P
Sbjct: 2   ETYNALLLALAKAGDPDLALAVLEEMKASGLKP 34

This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. The exact function is not known. Length = 34

>gnl|CDD|144943 pfam01535, PPR, PPR repeat

 Score = 37.8 bits (89), Expect = 5e-04
 Identities = 11/31 (35%), Positives = 23/31 (74%)

Query: 253 FLFSTAINAFCKRGRIEDAIGLFTKMEELGI 283
             +++ I+ +CK G++E+A+ LF +M+E G+
Sbjct: 1   VTYNSLISGYCKAGKLEEALELFKEMKEKGV 31

This repeat has no known function. It is about 35 amino acids long and found in up to 18 copies in some proteins. This family appears to be greatly expanded in plants. This repeat occurs in PET309, which may be involved in RNA stabilisation. This domain occurs in crp1 that is involved in RNA processing. This repeat is associated with a predicted plant protein that has a domain organisation similar to the human BRCA1 protein. The repeat has been called PPR. Length = 31

>gnl|CDD|144943 pfam01535, PPR, PPR repeat

 Score = 37.8 bits (89), Expect = 5e-04
 Identities = 16/31 (51%), Positives = 23/31 (74%)

Query: 498 VTSNALIHGMCEAGNLKEAGKLLMEMLQRGL 528
           VT N+LI G C+AG L+EA +L  EM ++G+
Sbjct: 1   VTYNSLISGYCKAGKLEEALELFKEMKEKGV 31

This repeat has no known function. It is about 35 amino acids long and found in up to 18 copies in some proteins. This family appears to be greatly expanded in plants. This repeat occurs in PET309, which may be involved in RNA stabilisation. This domain occurs in crp1 that is involved in RNA processing. This repeat is associated with a predicted plant protein that has a domain organisation similar to the human BRCA1 protein. The repeat has been called PPR. Length = 31

>gnl|CDD|144943 pfam01535, PPR, PPR repeat

 Score = 37.8 bits (89), Expect = 5e-04
 Identities = 14/31 (45%), Positives = 21/31 (67%)

Query: 288 VTYNNIIHGLCRNGRLYEAFHLKEKMVLREV 318
           VTYN++I G C+ G+L EA  L ++M  + V
Sbjct: 1   VTYNSLISGYCKAGKLEEALELFKEMKEKGV 31

This repeat has no known function. It is about 35 amino acids long and found in up to 18 copies in some proteins. This family appears to be greatly expanded in plants. This repeat occurs in PET309, which may be involved in RNA stabilisation. This domain occurs in crp1 that is involved in RNA processing. This repeat is associated with a predicted plant protein that has a domain organisation similar to the human BRCA1 protein. The repeat has been called PPR. Length = 31

>gnl|CDD|205985 pfam13812, PPR_3, Pentatricopeptide repeat domain

 Score = 37.5 bits (88), Expect = 6e-04
 Identities = 12/34 (35%), Positives = 18/34 (52%)

Query: 707 VACYTALIGGYCKLGQMDEAESVLQEMASINIHP 740
           +  Y AL+    K G  D A +VL+EM +  + P
Sbjct: 1   LETYNALLLALAKAGDPDLALAVLEEMKASGLKP 34

This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. The exact function is not known. Length = 34

>gnl|CDD|205109 pfam12854, PPR_1, PPR repeat

 Score = 37.3 bits (88), Expect = 8e-04
 Identities = 12/32 (37%), Positives = 22/32 (68%)

Query: 318 VEPSLITYSILINGLIKLEKFDDANFVLKEMS 349
           ++P ++TY+ LI+GL +  + D+A  +L EM 
Sbjct: 3   LKPDVVTYNTLIDGLCRAGRVDEAVELLDEME 34

This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. The exact function is not known. Length = 34

>gnl|CDD|144943 pfam01535, PPR, PPR repeat

 Score = 37.0 bits (87), Expect = 8e-04
 Identities = 14/31 (45%), Positives = 18/31 (58%)

Query: 638 VVYNTLIRAYCKIGNTTAAFRLSNDMKSRGI 668
           V YN+LI  YCK G    A  L  +MK +G+
Sbjct: 1   VTYNSLISGYCKAGKLEEALELFKEMKEKGV 31

This repeat has no known function. It is about 35 amino acids long and found in up to 18 copies in some proteins. This family appears to be greatly expanded in plants. This repeat occurs in PET309, which may be involved in RNA stabilisation. This domain occurs in crp1 that is involved in RNA processing. This repeat is associated with a predicted plant protein that has a domain organisation similar to the human BRCA1 protein. The repeat has been called PPR. Length = 31

>gnl|CDD|215636 PLN03218, PLN03218, maturation of RBCL 1; Provisional

 Score = 42.6 bits (100), Expect = 0.001
 Identities = 39/148 (26%), Positives = 64/148 (43%), Gaps = 5/148 (3%)

Query: 675 YSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKL-GQMDEAESVLQEM 733
           Y    + L   G I+D   L ++M K GLL     Y A     CK    + EA       
Sbjct: 373 YIDAYNRLLRDGRIKDCIDLLEDMEKRGLLDMDKIYHAKFFKACKKQRAVKEAFR----F 428

Query: 734 ASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISPDSITYNVFMDGHCKGGNV 793
           A +  +P   T+ +++       D+  A ++L ++ E G+  D   Y   +    K G V
Sbjct: 429 AKLIRNPTLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKV 488

Query: 794 EEAFKVCDRMLSEGLSLDEITYTTLIDG 821
           +  F+V   M++ G+  +  T+  LIDG
Sbjct: 489 DAMFEVFHEMVNAGVEANVHTFGALIDG 516

Length = 1060

>gnl|CDD|213555 TIGR00756, PPR, pentatricopeptide repeat domain (PPR motif)

 Score = 36.7 bits (86), Expect = 0.001
 Identities = 14/25 (56%), Positives = 20/25 (80%)

Query: 568 YTYNLLLHGLCSLGKMEEAIELWEE 592
            TYN L+ GLC  G++EEA+EL++E
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFKE 25

This model describes a domain called the PPR motif, or pentatricopeptide repeat. Its consensus sequence is 35 positions long and typically is found in four or more tandem copies. This family is strongly represented in plant proteins, particularly those sorted to chloroplasts or mitochondria. The pfam model pfam01535, domain of unknown function DUF17, consists of 6 copies of this repeat. This family has a similar consensus to the TPR domain (tetratricopeptide), pfam pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR. Length = 35

>gnl|CDD|205985 pfam13812, PPR_3, Pentatricopeptide repeat domain

 Score = 36.8 bits (86), Expect = 0.001
 Identities = 10/30 (33%), Positives = 15/30 (50%)

Query: 779 TYNVFMDGHCKGGNVEEAFKVCDRMLSEGL 808
           TYN  +    K G+ + A  V + M + GL
Sbjct: 3   TYNALLLALAKAGDPDLALAVLEEMKASGL 32

This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. The exact function is not known. Length = 34

>gnl|CDD|205985 pfam13812, PPR_3, Pentatricopeptide repeat domain

 Score = 36.8 bits (86), Expect = 0.001
 Identities = 10/33 (30%), Positives = 17/33 (51%)

Query: 358 VVYNTLIDGYCKKGNISEALKIRDDMVSKGMSP 390
             YN L+    K G+   AL + ++M + G+ P
Sbjct: 2   ETYNALLLALAKAGDPDLALAVLEEMKASGLKP 34

This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. The exact function is not known. Length = 34

>gnl|CDD|215561 PLN03077, PLN03077, Protein ECB2; Provisional

 Score = 41.8 bits (98), Expect = 0.002
 Identities = 46/223 (20%), Positives = 78/223 (34%), Gaps = 55/223 (24%)

Query: 641 NTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIGLIEDA-----KCLF 695
           N+ +RA C  G    A +L   M+   +      Y +L   LC      +          
Sbjct: 55  NSQLRALCSHGQLEQALKLLESMQELRVPVDEDAYVALFR-LCEWKRAVEEGSRVCSRAL 113

Query: 696 DEMRKEGL-LPNVACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCK 754
                 G+ L N     A++  + + G++  A  V  +M   ++     ++ +++GGY K
Sbjct: 114 SSHPSLGVRLGN-----AMLSMFVRFGELVHAWYVFGKMPERDL----FSWNVLVGGYAK 164

Query: 755 LGDMKEAAKLLNVMAEKGISPDSITY---------------------------------- 780
            G   EA  L + M   G+ PD  T+                                  
Sbjct: 165 AGYFDEALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDVDV 224

Query: 781 -NVFMDGHCKGGNVEEAFKVCDRMLSEGLSLDEITYTTLIDGW 822
            N  +  + K G+V  A  V DRM       D I++  +I G+
Sbjct: 225 VNALITMYVKCGDVVSARLVFDRMPRR----DCISWNAMISGY 263

Length = 857

>gnl|CDD|205222 pfam13041, PPR_2, PPR repeat family

 Score = 36.6 bits (86), Expect = 0.002
 Identities = 14/46 (30%), Positives = 22/46 (47%)

Query: 429 AYTSVIKWLCINSRFNSALHFTKEMLLRNLRPGDGLLTLLVSGLCK 474
            Y ++I   C   +   AL    EM  R ++P     ++L+ GLCK
Sbjct: 5   TYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 50

This repeat has no known function. It is about 35 amino acids long and is found in up to 18 copies in some proteins. The family appears to be greatly expanded in plants and fungi. The repeat has been called PPR. Length = 50

>gnl|CDD|205985 pfam13812, PPR_3, Pentatricopeptide repeat domain

 Score = 36.4 bits (85), Expect = 0.002
 Identities = 11/34 (32%), Positives = 17/34 (50%)

Query: 637 PVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILP 670
              YN L+ A  K G+   A  +  +MK+ G+ P
Sbjct: 1   LETYNALLLALAKAGDPDLALAVLEEMKASGLKP 34

This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. The exact function is not known. Length = 34

>gnl|CDD|213555 TIGR00756, PPR, pentatricopeptide repeat domain (PPR motif)

 Score = 35.5 bits (83), Expect = 0.003
 Identities = 15/31 (48%), Positives = 22/31 (70%)

Query: 501 NALIHGMCEAGNLKEAGKLLMEMLQRGLILD 531
           N LI G+C+AG ++EA +L  EM +RG+  D
Sbjct: 4   NTLIDGLCKAGRVEEALELFKEMKERGIEPD 34

This model describes a domain called the PPR motif, or pentatricopeptide repeat. Its consensus sequence is 35 positions long and typically is found in four or more tandem copies. This family is strongly represented in plant proteins, particularly those sorted to chloroplasts or mitochondria. The pfam model pfam01535, domain of unknown function DUF17, consists of 6 copies of this repeat. This family has a similar consensus to the TPR domain (tetratricopeptide), pfam pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR. Length = 35

>gnl|CDD|223533 COG0457, NrfG, FOG: TPR repeat [General function prediction only]

 Score = 39.8 bits (91), Expect = 0.004
 Identities = 34/164 (20%), Positives = 65/164 (39%), Gaps = 3/164 (1%)

Query: 655 AAFRLSNDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVA-CYTAL 713
           A   L   ++       +     L   L  +G +E+A  L ++  +  LLPN+A     L
Sbjct: 42  ALELLEEALELLPNSDLAGLLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNL 101

Query: 714 IGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAE--K 771
                 LG+ +EA  +L++  +++  P+     + +G   +LGD +EA +L     E   
Sbjct: 102 GLLLEALGKYEEALELLEKALALDPDPDLAEALLALGALYELGDYEEALELYEKALELDP 161

Query: 772 GISPDSITYNVFMDGHCKGGNVEEAFKVCDRMLSEGLSLDEITY 815
            ++  +             G  EEA ++ ++ L      D    
Sbjct: 162 ELNELAEALLALGALLEALGRYEEALELLEKALKLNPDDDAEAL 205

Length = 291

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	833
PLN03077	857	Protein ECB2; Provisional	100.0
PLN03077	857	Protein ECB2; Provisional	100.0
PLN03218	1060	maturation of RBCL 1; Provisional	100.0
PLN03218	1060	maturation of RBCL 1; Provisional	100.0
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	100.0
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	100.0
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	100.0
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	100.0
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	100.0
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	100.0
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.96
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.96
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.93
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.93
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.92
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.92
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.89
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.88
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.88
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.88
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.86
KOG2076	895	consensus RNA polymerase III transcription factor	99.86
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.86
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.85
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.84
PRK14574	822	hmsH outer membrane protein; Provisional	99.83
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.83
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.82
PRK14574	822	hmsH outer membrane protein; Provisional	99.81
KOG2076	895	consensus RNA polymerase III transcription factor	99.81
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.79
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.78
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.74
KOG2003	840	consensus TPR repeat-containing protein [General f	99.73
KOG2003	840	consensus TPR repeat-containing protein [General f	99.73
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.7
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.64
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.63
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.6
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.58
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.58
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.58
KOG2047	835	consensus mRNA splicing factor [RNA processing and	99.57
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.57
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.56
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.55
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.54
KOG2047	835	consensus mRNA splicing factor [RNA processing and	99.54
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.53
KOG3785	557	consensus Uncharacterized conserved protein [Funct	99.53
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.53
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.52
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.51
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	99.51
KOG3785	557	consensus Uncharacterized conserved protein [Funct	99.47
KOG1126	638	consensus DNA-binding cell division cycle control	99.46
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	99.46
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	99.44
KOG1126	638	consensus DNA-binding cell division cycle control	99.44
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.43
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.43
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.43
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.43
KOG2376	652	consensus Signal recognition particle, subunit Srp	99.4
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	99.39
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	99.38
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	99.36
KOG2376	652	consensus Signal recognition particle, subunit Srp	99.36
PRK12370	553	invasion protein regulator; Provisional	99.35
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.31
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.3
PF13041	50	PPR_2: PPR repeat family	99.3
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	99.29
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	99.28
PF13041	50	PPR_2: PPR repeat family	99.28
PRK12370	553	invasion protein regulator; Provisional	99.28
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	99.25
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	99.25
KOG1129	478	consensus TPR repeat-containing protein [General f	99.24
KOG1129	478	consensus TPR repeat-containing protein [General f	99.24
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	99.22
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	99.22
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	99.22
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	99.18
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.18
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.16
PRK11189	296	lipoprotein NlpI; Provisional	99.12
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	99.1
KOG3616	1636	consensus Selective LIM binding factor [Transcript	99.09
KOG3616	1636	consensus Selective LIM binding factor [Transcript	99.06
PRK11189	296	lipoprotein NlpI; Provisional	99.05
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	99.04
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	99.0
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	98.99
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	98.99
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	98.97
KOG4340	459	consensus Uncharacterized conserved protein [Funct	98.94
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	98.94
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	98.92
PRK04841	903	transcriptional regulator MalT; Provisional	98.89
KOG4340	459	consensus Uncharacterized conserved protein [Funct	98.86
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	98.85
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	98.8
PRK04841	903	transcriptional regulator MalT; Provisional	98.78
PF12854	34	PPR_1: PPR repeat	98.77
KOG1125	579	consensus TPR repeat-containing protein [General f	98.76
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	98.73
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	98.7
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	98.68
PF12854	34	PPR_1: PPR repeat	98.68
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	98.68
KOG1125	579	consensus TPR repeat-containing protein [General f	98.66
PLN02789	320	farnesyltranstransferase	98.61
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.56
PLN02789	320	farnesyltranstransferase	98.56
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.55
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.48
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.46
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.46
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.44
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.4
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.4
PRK15359	144	type III secretion system chaperone protein SscB;	98.39
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.38
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.38
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.36
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.35
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.3
PRK15359	144	type III secretion system chaperone protein SscB;	98.28
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.27
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.26
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.24
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.24
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.24
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.17
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.17
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.15
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.1
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	97.99
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	97.96
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	97.94
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	97.93
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	97.88
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	97.87
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	97.79
PF13812	34	PPR_3: Pentatricopeptide repeat domain	97.78
PF13812	34	PPR_3: Pentatricopeptide repeat domain	97.75
KOG2041	1189	consensus WD40 repeat protein [General function pr	97.71
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	97.71
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	97.7
KOG0553	304	consensus TPR repeat-containing protein [General f	97.68
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	97.65
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	97.65
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	97.64
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	97.63
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	97.63
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	97.59
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	97.56
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	97.56
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	97.56
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	97.54
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	97.52
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	97.51
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	97.47
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	97.44
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	97.41
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	97.4
KOG0553	304	consensus TPR repeat-containing protein [General f	97.39
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	97.39
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	97.39
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	97.39
COG4700	251	Uncharacterized protein conserved in bacteria cont	97.39
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.37
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	97.37
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	97.36
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	97.33
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	97.33
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	97.33
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	97.31
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	97.3
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	97.29
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.29
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	97.28
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	97.23
KOG2041	1189	consensus WD40 repeat protein [General function pr	97.21
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	97.16
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.14
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.14
COG4700	251	Uncharacterized protein conserved in bacteria cont	97.08
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	97.07
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	97.07
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	97.03
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	97.03
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	97.01
KOG2796	366	consensus Uncharacterized conserved protein [Funct	97.01
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	97.01
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	96.99
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	96.99
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	96.99
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	96.97
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	96.93
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	96.92
COG3898	531	Uncharacterized membrane-bound protein [Function u	96.91
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	96.86
PF12688	120	TPR_5: Tetratrico peptide repeat	96.82
PF12688	120	TPR_5: Tetratrico peptide repeat	96.78
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	96.74
KOG2796	366	consensus Uncharacterized conserved protein [Funct	96.65
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	96.59
PRK10803	263	tol-pal system protein YbgF; Provisional	96.53
PRK15331	165	chaperone protein SicA; Provisional	96.47
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	96.44
PRK10803	263	tol-pal system protein YbgF; Provisional	96.25
PF13371	73	TPR_9: Tetratricopeptide repeat	96.22
PF13371	73	TPR_9: Tetratricopeptide repeat	96.22
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	96.22
COG3898	531	Uncharacterized membrane-bound protein [Function u	96.21
PF03704	146	BTAD: Bacterial transcriptional activator domain;	96.21
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	96.13
PRK15331	165	chaperone protein SicA; Provisional	96.11
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	96.0
PF03704	146	BTAD: Bacterial transcriptional activator domain;	95.99
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	95.95
KOG1258	577	consensus mRNA processing protein [RNA processing	95.9
PRK11906	458	transcriptional regulator; Provisional	95.85
COG0457	291	NrfG FOG: TPR repeat [General function prediction	95.78
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	95.78
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	95.73
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	95.71
KOG1258	577	consensus mRNA processing protein [RNA processing	95.62
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	95.46
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	95.45
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	95.44
KOG2610	491	consensus Uncharacterized conserved protein [Funct	95.27
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	95.16
COG3118	304	Thioredoxin domain-containing protein [Posttransla	95.13
KOG4555	175	consensus TPR repeat-containing protein [Function	95.01
COG3118	304	Thioredoxin domain-containing protein [Posttransla	94.99
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	94.95
COG0457	291	NrfG FOG: TPR repeat [General function prediction	94.95
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	94.79
KOG4555	175	consensus TPR repeat-containing protein [Function	94.72
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	94.62
smart00299	140	CLH Clathrin heavy chain repeat homology.	94.53
KOG1585	308	consensus Protein required for fusion of vesicles	94.49
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	94.43
KOG1585	308	consensus Protein required for fusion of vesicles	94.43
PRK11906	458	transcriptional regulator; Provisional	94.4
KOG3941	406	consensus Intermediate in Toll signal transduction	94.37
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	94.34
KOG1550	552	consensus Extracellular protein SEL-1 and related	94.29
PF13512	142	TPR_18: Tetratricopeptide repeat	94.21
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	94.07
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	94.04
smart00299	140	CLH Clathrin heavy chain repeat homology.	94.02
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	93.94
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	93.92
COG4105	254	ComL DNA uptake lipoprotein [General function pred	93.88
KOG2610	491	consensus Uncharacterized conserved protein [Funct	93.87
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	93.84
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	93.82
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	93.8
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	93.78
COG4105	254	ComL DNA uptake lipoprotein [General function pred	93.74
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	93.62
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	93.52
COG3629	280	DnrI DNA-binding transcriptional activator of the	93.25
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	93.16
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	93.01
KOG1550	552	consensus Extracellular protein SEL-1 and related	92.94
KOG3941	406	consensus Intermediate in Toll signal transduction	92.45
KOG1941	518	consensus Acetylcholine receptor-associated protei	92.26
KOG2062	929	consensus 26S proteasome regulatory complex, subun	92.07
PF13428	44	TPR_14: Tetratricopeptide repeat	91.66
PF13428	44	TPR_14: Tetratricopeptide repeat	91.56
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	91.11
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	91.06
PF13512	142	TPR_18: Tetratricopeptide repeat	90.88
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	90.49
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	90.45
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	90.45
COG3629	280	DnrI DNA-binding transcriptional activator of the	90.27
PF10345	608	Cohesin_load: Cohesin loading factor; InterPro: IP	90.25
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	90.17
PF04097	613	Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic9	89.88
KOG2066	846	consensus Vacuolar assembly/sorting protein VPS41	89.7
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	89.64
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	89.28
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	89.28
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	89.05
KOG2396	568	consensus HAT (Half-A-TPR) repeat-containing prote	88.69
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	88.44
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	88.33
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	88.32
KOG1941	518	consensus Acetylcholine receptor-associated protei	88.29
KOG2066	846	consensus Vacuolar assembly/sorting protein VPS41	88.29
PF13431	34	TPR_17: Tetratricopeptide repeat	88.18
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	87.94
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	87.56
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	87.39
COG1747	711	Uncharacterized N-terminal domain of the transcrip	87.38
PF04097	613	Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic9	87.03
COG0790	292	FOG: TPR repeat, SEL1 subfamily [General function	86.84
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	86.81
PF13431	34	TPR_17: Tetratricopeptide repeat	86.46
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	86.44
KOG4648	536	consensus Uncharacterized conserved protein, conta	85.91
PRK09687	280	putative lyase; Provisional	85.87
KOG4234	271	consensus TPR repeat-containing protein [General f	85.33
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	85.12
COG2976	207	Uncharacterized protein conserved in bacteria [Fun	84.65
COG2976	207	Uncharacterized protein conserved in bacteria [Fun	84.4
KOG4570	418	consensus Uncharacterized conserved protein [Funct	84.3
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	84.28
KOG4648	536	consensus Uncharacterized conserved protein, conta	84.27
PF06552	186	TOM20_plant: Plant specific mitochondrial import r	84.03
PF10345	608	Cohesin_load: Cohesin loading factor; InterPro: IP	84.02
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	83.44
KOG4234	271	consensus TPR repeat-containing protein [General f	83.19
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	83.12
COG1747	711	Uncharacterized N-terminal domain of the transcrip	82.94
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	82.01
KOG2396	568	consensus HAT (Half-A-TPR) repeat-containing prote	81.67
PF06552	186	TOM20_plant: Plant specific mitochondrial import r	80.85
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	80.76
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	80.42
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	80.32

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=3.6e-87  Score=791.98  Aligned_cols=680  Identities=19%  Similarity=0.270  Sum_probs=638.8

Q ss_pred             CCChhhHHHHHHhhhcCCChHHHHHHHHhhhhcCCCCCCHHHHHHHHHHHHhCCCchhHHHHHHHHHcCCCCccccCCCc
Q 003295           78 NLSPQEFDTLFFSIRSNVNPKTALKFFYFASQSCNFRFTVRSYCLLIRLLLFSNLLSPARLLLIRLIDGKMPVLYASNPS  157 (833)
Q Consensus        78 ~l~~~~~~~~~~~~~~~~~~~~a~~ff~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~a~~~l~~~~~~~~~~~~~~~~~  157 (833)
                      ..+++....++..+...+.+..|+.+|..+.. .++.++..+|..+++.+.+.+.+..|..++.++++.+.         
T Consensus        48 ~~~~~~~n~~i~~l~~~g~~~~A~~l~~~m~~-~g~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~---------  117 (857)
T PLN03077         48 SSSTHDSNSQLRALCSHGQLEQALKLLESMQE-LRVPVDEDAYVALFRLCEWKRAVEEGSRVCSRALSSHP---------  117 (857)
T ss_pred             ccchhhHHHHHHHHHhCCCHHHHHHHHHHHHh-cCCCCChhHHHHHHHHHhhCCCHHHHHHHHHHHHHcCC---------
Confidence            33445556666667777889999999998865 36778889999999999999999999999999887651         


Q ss_pred             chHHHHHHHHhhhhcccCCcchhhhHHHHHHHHHHhhhccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHH
Q 003295          158 IRHIEIASQMVDLNVTSEPALGVQIADLLVHVYCTQFKNLGFGYAIDVFSIFSSKGIFPSLKTCNFLLNSLVKANEVQKG  237 (833)
Q Consensus       158 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~f~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~A  237 (833)
                                         .......+.|+..|+   +.|+++.|.++|+.|.+    ||+++||.+|.+|++.|++++|
T Consensus       118 -------------------~~~~~~~n~li~~~~---~~g~~~~A~~~f~~m~~----~d~~~~n~li~~~~~~g~~~~A  171 (857)
T PLN03077        118 -------------------SLGVRLGNAMLSMFV---RFGELVHAWYVFGKMPE----RDLFSWNVLVGGYAKAGYFDEA  171 (857)
T ss_pred             -------------------CCCchHHHHHHHHHH---hCCChHHHHHHHhcCCC----CCeeEHHHHHHHHHhCCCHHHH
Confidence                               123345788899888   78999999999999964    6899999999999999999999


Q ss_pred             HHHHHHhh-cCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhC
Q 003295          238 IEVFETMC-RGVSPDVFLFSTAINAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIHGLCRNGRLYEAFHLKEKMVLR  316 (833)
Q Consensus       238 ~~~~~~~~-~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  316 (833)
                      +.+|++|. .|+.||.+||+.++++|++.++++.+.+++..|.+.|+.||+.+||+||.+|++.|++++|.++|++|.  
T Consensus       172 ~~~f~~M~~~g~~Pd~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~lf~~m~--  249 (857)
T PLN03077        172 LCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDVDVVNALITMYVKCGDVVSARLVFDRMP--  249 (857)
T ss_pred             HHHHHHHHHcCCCCChhHHHHHHHHhCCccchhhHHHHHHHHHHcCCCcccchHhHHHHHHhcCCCHHHHHHHHhcCC--
Confidence            99999999 799999999999999999999999999999999999999999999999999999999999999999997  


Q ss_pred             CCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCChhHHH
Q 003295          317 EVEPSLITYSILINGLIKLEKFDDANFVLKEMSVRGFVPNYVVYNTLIDGYCKKGNISEALKIRDDMVSKGMSPNSVTFN  396 (833)
Q Consensus       317 ~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~  396 (833)
                        .||.++||++|.+|++.|++++|.++|++|.+.|+.||..||+.++.++++.|+++.|.+++..|.+.|+.||..+|+
T Consensus       250 --~~d~~s~n~li~~~~~~g~~~eAl~lf~~M~~~g~~Pd~~ty~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~d~~~~n  327 (857)
T PLN03077        250 --RRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCN  327 (857)
T ss_pred             --CCCcchhHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHhCCccchHHHH
Confidence              479999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHHCCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcC
Q 003295          397 SLIHGFCKSGQMDNAENALEEMLSRGLSINQGAYTSVIKWLCINSRFNSALHFTKEMLLRNLRPGDGLLTLLVSGLCKNG  476 (833)
Q Consensus       397 ~li~~~~~~g~~~~A~~~l~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g  476 (833)
                      +||.+|++.|++++|.++|++|.    .||..+|+.++.+|++.|++++|+++|++|...|+.||..+|+.++.+|++.|
T Consensus       328 ~Li~~y~k~g~~~~A~~vf~~m~----~~d~~s~n~li~~~~~~g~~~~A~~lf~~M~~~g~~Pd~~t~~~ll~a~~~~g  403 (857)
T PLN03077        328 SLIQMYLSLGSWGEAEKVFSRME----TKDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLG  403 (857)
T ss_pred             HHHHHHHhcCCHHHHHHHHhhCC----CCCeeeHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCCCceeHHHHHHHHhccc
Confidence            99999999999999999999996    46899999999999999999999999999999999999999999999999999


Q ss_pred             CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHH
Q 003295          477 KQAEATELCFRLFEKGFTVNTVTSNALIHGMCEAGNLKEAGKLLMEMLQRGLILDKVTYNTLILGCCKDGKPEEGFKLKE  556 (833)
Q Consensus       477 ~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~l~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~  556 (833)
                      ++++|.++++.+.+.|+.++..+||.|+++|++.|++++|.++|++|.+.    |..+|+++|.+|++.|+.++|+.+|+
T Consensus       404 ~~~~a~~l~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~----d~vs~~~mi~~~~~~g~~~eA~~lf~  479 (857)
T PLN03077        404 DLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEK----DVISWTSIIAGLRLNNRCFEALIFFR  479 (857)
T ss_pred             hHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHHcCCHHHHHHHHHhCCCC----CeeeHHHHHHHHHHCCCHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999764    88999999999999999999999999


Q ss_pred             HHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCccC
Q 003295          557 DMIKRGIQPDNYTYNLLLHGLCSLGKMEEAIELWEECKRTVFGPDIYTYGVMIDGFCKADKIEEGETLFNEMISKKMELN  636 (833)
Q Consensus       557 ~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~  636 (833)
                      +|.. ++.||..||+.++.+|++.|+.+.+.+++..+.+.|+.+|..++++|+++|++.|++++|.++|+++     .+|
T Consensus       480 ~m~~-~~~pd~~t~~~lL~a~~~~g~l~~~~~i~~~~~~~g~~~~~~~~naLi~~y~k~G~~~~A~~~f~~~-----~~d  553 (857)
T PLN03077        480 QMLL-TLKPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQFNSH-----EKD  553 (857)
T ss_pred             HHHh-CCCCCHhHHHHHHHHHhhhchHHHhHHHHHHHHHhCCCccceechHHHHHHHHcCCHHHHHHHHHhc-----CCC
Confidence            9986 5999999999999999999999999999999999999999999999999999999999999999987     569


Q ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH-HCCCCCChhHHHHHHH
Q 003295          637 PVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMR-KEGLLPNVACYTALIG  715 (833)
Q Consensus       637 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~g~~p~~~~~~~li~  715 (833)
                      ..+||++|.+|++.|+.++|+++|++|.+.|+.||..||+.++.+|++.|.+++|.++|++|. +.|+.|+..+|+++++
T Consensus       554 ~~s~n~lI~~~~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~v~ea~~~f~~M~~~~gi~P~~~~y~~lv~  633 (857)
T PLN03077        554 VVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKYSITPNLKHYACVVD  633 (857)
T ss_pred             hhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCcccHHHHHHHHhhcChHHHHHHHHHHHHHHhCCCCchHHHHHHHH
Confidence            999999999999999999999999999999999999999999999999999999999999999 5699999999999999


Q ss_pred             HHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhcCCCHH
Q 003295          716 GYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISP-DSITYNVFMDGHCKGGNVE  794 (833)
Q Consensus       716 ~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~~~~~l~~~~~~~g~~~  794 (833)
                      +|++.|++++|.+++++|.   +.||..+|++|+.+|..+|+.+.|....+++.+  +.| +...|..|.+.|...|+|+
T Consensus       634 ~l~r~G~~~eA~~~~~~m~---~~pd~~~~~aLl~ac~~~~~~e~~e~~a~~l~~--l~p~~~~~y~ll~n~ya~~g~~~  708 (857)
T PLN03077        634 LLGRAGKLTEAYNFINKMP---ITPDPAVWGALLNACRIHRHVELGELAAQHIFE--LDPNSVGYYILLCNLYADAGKWD  708 (857)
T ss_pred             HHHhCCCHHHHHHHHHHCC---CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHh--hCCCCcchHHHHHHHHHHCCChH
Confidence            9999999999999999985   799999999999999999999999999999988  456 5677888899999999999


Q ss_pred             HHHHHHHHHHHCCCCCCH-HHHH
Q 003295          795 EAFKVCDRMLSEGLSLDE-ITYT  816 (833)
Q Consensus       795 ~A~~~~~~m~~~g~~p~~-~~~~  816 (833)
                      +|.++.+.|.+.|++++. .+|.
T Consensus       709 ~a~~vr~~M~~~g~~k~~g~s~i  731 (857)
T PLN03077        709 EVARVRKTMRENGLTVDPGCSWV  731 (857)
T ss_pred             HHHHHHHHHHHcCCCCCCCccEE
Confidence            999999999999999884 3443

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=2.8e-81  Score=741.74  Aligned_cols=661  Identities=18%  Similarity=0.233  Sum_probs=625.2

Q ss_pred             CCCHHHHHHHHHHHHhCCCchhHHHHHHHHHcCCCCccccCCCcchHHHHHHHHhhhhcccCCcchhhhHHHHHHHHHHh
Q 003295          114 RFTVRSYCLLIRLLLFSNLLSPARLLLIRLIDGKMPVLYASNPSIRHIEIASQMVDLNVTSEPALGVQIADLLVHVYCTQ  193 (833)
Q Consensus       114 ~~~~~~~~~l~~~l~~~~~~~~a~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  193 (833)
                      .++..+++.+++.|++.|.+.+|..++.+|.+.+.+                            +....+..+++.+.  
T Consensus        48 ~~~~~~~n~~i~~l~~~g~~~~A~~l~~~m~~~g~~----------------------------~~~~~~~~ll~~~~--   97 (857)
T PLN03077         48 SSSTHDSNSQLRALCSHGQLEQALKLLESMQELRVP----------------------------VDEDAYVALFRLCE--   97 (857)
T ss_pred             ccchhhHHHHHHHHHhCCCHHHHHHHHHHHHhcCCC----------------------------CChhHHHHHHHHHh--
Confidence            457788999999999999999999999999876521                            12233555666554  


Q ss_pred             hhccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHH
Q 003295          194 FKNLGFGYAIDVFSIFSSKGIFPSLKTCNFLLNSLVKANEVQKGIEVFETMCRGVSPDVFLFSTAINAFCKRGRIEDAIG  273 (833)
Q Consensus       194 ~~~~~~~~A~~~f~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~  273 (833)
                       +.+.+..|.+++..+.+.|..++...+|.|+.+|++.|+++.|+++|++|.   +||+++||.+|.+|++.|++++|.+
T Consensus        98 -~~~~~~~a~~~~~~~~~~~~~~~~~~~n~li~~~~~~g~~~~A~~~f~~m~---~~d~~~~n~li~~~~~~g~~~~A~~  173 (857)
T PLN03077         98 -WKRAVEEGSRVCSRALSSHPSLGVRLGNAMLSMFVRFGELVHAWYVFGKMP---ERDLFSWNVLVGGYAKAGYFDEALC  173 (857)
T ss_pred             -hCCCHHHHHHHHHHHHHcCCCCCchHHHHHHHHHHhCCChHHHHHHHhcCC---CCCeeEHHHHHHHHHhCCCHHHHHH
Confidence             457789999999999999999999999999999999999999999999995   5899999999999999999999999


Q ss_pred             HHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCC
Q 003295          274 LFTKMEELGIAPNVVTYNNIIHGLCRNGRLYEAFHLKEKMVLREVEPSLITYSILINGLIKLEKFDDANFVLKEMSVRGF  353 (833)
Q Consensus       274 ~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~g~  353 (833)
                      +|++|...|+.||.+||++++++|++.++++.+.+++..|.+.|+.||+.+|++||.+|++.|++++|..+|++|.    
T Consensus       174 ~f~~M~~~g~~Pd~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~lf~~m~----  249 (857)
T PLN03077        174 LYHRMLWAGVRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDVDVVNALITMYVKCGDVVSARLVFDRMP----  249 (857)
T ss_pred             HHHHHHHcCCCCChhHHHHHHHHhCCccchhhHHHHHHHHHHcCCCcccchHhHHHHHHhcCCCHHHHHHHHhcCC----
Confidence            9999999999999999999999999999999999999999999999999999999999999999999999999997    


Q ss_pred             CCChhhHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCcccHHHH
Q 003295          354 VPNYVVYNTLIDGYCKKGNISEALKIRDDMVSKGMSPNSVTFNSLIHGFCKSGQMDNAENALEEMLSRGLSINQGAYTSV  433 (833)
Q Consensus       354 ~p~~~~y~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~l~~~~~~g~~~~~~~~~~l  433 (833)
                      .||.++||++|.+|++.|++++|+++|++|.+.|+.||..||+.++.++++.|+++.|.+++..|.+.|+.||..+|+++
T Consensus       250 ~~d~~s~n~li~~~~~~g~~~eAl~lf~~M~~~g~~Pd~~ty~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~d~~~~n~L  329 (857)
T PLN03077        250 RRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSL  329 (857)
T ss_pred             CCCcchhHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHhCCccchHHHHHH
Confidence            46999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCH
Q 003295          434 IKWLCINSRFNSALHFTKEMLLRNLRPGDGLLTLLVSGLCKNGKQAEATELCFRLFEKGFTVNTVTSNALIHGMCEAGNL  513 (833)
Q Consensus       434 i~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~  513 (833)
                      +.+|++.|++++|.++|++|.    .||..+|+.++.+|++.|++++|.++|++|.+.|+.||..+|+.++.+|++.|++
T Consensus       330 i~~y~k~g~~~~A~~vf~~m~----~~d~~s~n~li~~~~~~g~~~~A~~lf~~M~~~g~~Pd~~t~~~ll~a~~~~g~~  405 (857)
T PLN03077        330 IQMYLSLGSWGEAEKVFSRME----TKDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDL  405 (857)
T ss_pred             HHHHHhcCCHHHHHHHHhhCC----CCCeeeHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCCCceeHHHHHHHHhccchH
Confidence            999999999999999999985    4688899999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 003295          514 KEAGKLLMEMLQRGLILDKVTYNTLILGCCKDGKPEEGFKLKEDMIKRGIQPDNYTYNLLLHGLCSLGKMEEAIELWEEC  593 (833)
Q Consensus       514 ~~A~~~l~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~  593 (833)
                      ++|.++++.|.+.|+.|+..+|+.||.+|++.|++++|.++|++|.+    +|..+|++++.+|++.|+.++|..+|++|
T Consensus       406 ~~a~~l~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~vf~~m~~----~d~vs~~~mi~~~~~~g~~~eA~~lf~~m  481 (857)
T PLN03077        406 DVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPE----KDVISWTSIIAGLRLNNRCFEALIFFRQM  481 (857)
T ss_pred             HHHHHHHHHHHHhCCCcchHHHHHHHHHHHHcCCHHHHHHHHHhCCC----CCeeeHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999964    58899999999999999999999999999


Q ss_pred             hhCCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHH
Q 003295          594 KRTVFGPDIYTYGVMIDGFCKADKIEEGETLFNEMISKKMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSV  673 (833)
Q Consensus       594 ~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~  673 (833)
                      .. ++.||..||+.++.+|++.|.++.+.+++..+.+.|..+|..++|++|++|++.|++++|.++|+.+     .||..
T Consensus       482 ~~-~~~pd~~t~~~lL~a~~~~g~l~~~~~i~~~~~~~g~~~~~~~~naLi~~y~k~G~~~~A~~~f~~~-----~~d~~  555 (857)
T PLN03077        482 LL-TLKPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQFNSH-----EKDVV  555 (857)
T ss_pred             Hh-CCCCCHhHHHHHHHHHhhhchHHHhHHHHHHHHHhCCCccceechHHHHHHHHcCCHHHHHHHHHhc-----CCChh
Confidence            86 5899999999999999999999999999999999999999999999999999999999999999987     57999


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHH-hCCCCCCHHHHHHHHHHH
Q 003295          674 TYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESVLQEMA-SINIHPNKITYTIMIGGY  752 (833)
Q Consensus       674 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~g~~p~~~~~~~li~~~  752 (833)
                      +|+++|.+|++.|+.++|.++|++|.+.|+.||..||+.++.+|++.|++++|.++|++|. +.|+.|+..+|+.++.+|
T Consensus       556 s~n~lI~~~~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~v~ea~~~f~~M~~~~gi~P~~~~y~~lv~~l  635 (857)
T PLN03077        556 SWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKYSITPNLKHYACVVDLL  635 (857)
T ss_pred             hHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCcccHHHHHHHHhhcChHHHHHHHHHHHHHHhCCCCchHHHHHHHHHH
Confidence            9999999999999999999999999999999999999999999999999999999999999 689999999999999999


Q ss_pred             HhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHHCCCCCC-HHHHHHHHHhhccCCCCccc
Q 003295          753 CKLGDMKEAAKLLNVMAEKGISPDSITYNVFMDGHCKGGNVEEAFKVCDRMLSEGLSLD-EITYTTLIDGWQSSTITNQD  831 (833)
Q Consensus       753 ~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~~~~~l~~~~~~~~~~~~~  831 (833)
                      ++.|++++|.+++++|.   +.||..+|.+|+.+|...|+.+.|....+++.+  +.|+ ...|..|.+.|...+.++++
T Consensus       636 ~r~G~~~eA~~~~~~m~---~~pd~~~~~aLl~ac~~~~~~e~~e~~a~~l~~--l~p~~~~~y~ll~n~ya~~g~~~~a  710 (857)
T PLN03077        636 GRAGKLTEAYNFINKMP---ITPDPAVWGALLNACRIHRHVELGELAAQHIFE--LDPNSVGYYILLCNLYADAGKWDEV  710 (857)
T ss_pred             HhCCCHHHHHHHHHHCC---CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHh--hCCCCcchHHHHHHHHHHCCChHHH
Confidence            99999999999999983   789999999999999999999999999998887  6777 67777888888887776653

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=5.2e-72  Score=646.67  Aligned_cols=548  Identities=20%  Similarity=0.268  Sum_probs=503.9

Q ss_pred             CCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCC-CCChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHH
Q 003295          248 VSPDVFLFSTAINAFCKRGRIEDAIGLFTKMEELGI-APNVVTYNNIIHGLCRNGRLYEAFHLKEKMVLREVEPSLITYS  326 (833)
Q Consensus       248 ~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~-~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~  326 (833)
                      ..++...|..++..|++.|++++|+++|++|.+.|+ .++..+++.++.+|++.|.+++|..+|+.|..    ||..+|+
T Consensus       366 ~~~~~~~~~~~y~~l~r~G~l~eAl~Lfd~M~~~gvv~~~~v~~~~li~~~~~~g~~~eAl~lf~~M~~----pd~~Tyn  441 (1060)
T PLN03218        366 GKRKSPEYIDAYNRLLRDGRIKDCIDLLEDMEKRGLLDMDKIYHAKFFKACKKQRAVKEAFRFAKLIRN----PTLSTFN  441 (1060)
T ss_pred             CCCCchHHHHHHHHHHHCcCHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHCCCHHHHHHHHHHcCC----CCHHHHH
Confidence            456778899999999999999999999999999986 46788889999999999999999999999874    8999999


Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcC
Q 003295          327 ILINGLIKLEKFDDANFVLKEMSVRGFVPNYVVYNTLIDGYCKKGNISEALKIRDDMVSKGMSPNSVTFNSLIHGFCKSG  406 (833)
Q Consensus       327 ~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g  406 (833)
                      .++.+|++.|++++|.++|++|.+.|+.||..+|++||.+|++.|++++|.++|++|.+.|+.||..+|+.+|.+|++.|
T Consensus       442 ~LL~a~~k~g~~e~A~~lf~~M~~~Gl~pD~~tynsLI~~y~k~G~vd~A~~vf~eM~~~Gv~PdvvTynaLI~gy~k~G  521 (1060)
T PLN03218        442 MLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAG  521 (1060)
T ss_pred             HHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ChhHHHHHHHHHHHCCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHH--CCCCCChhhHHHHHHHHHhcCCHHHHHHH
Q 003295          407 QMDNAENALEEMLSRGLSINQGAYTSVIKWLCINSRFNSALHFTKEMLL--RNLRPGDGLLTLLVSGLCKNGKQAEATEL  484 (833)
Q Consensus       407 ~~~~A~~~l~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~~~~li~~~~~~g~~~~A~~~  484 (833)
                      ++++|.++|++|.+.|+.||..+|+.+|.+|++.|++++|.+++.+|..  .++.||..+|+.++.+|++.|++++|.++
T Consensus       522 ~~eeAl~lf~~M~~~Gv~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k~G~ldeA~el  601 (1060)
T PLN03218        522 QVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEV  601 (1060)
T ss_pred             CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHCCCHHHHHHH
Confidence            9999999999999999999999999999999999999999999999986  67899999999999999999999999999


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCC
Q 003295          485 CFRLFEKGFTVNTVTSNALIHGMCEAGNLKEAGKLLMEMLQRGLILDKVTYNTLILGCCKDGKPEEGFKLKEDMIKRGIQ  564 (833)
Q Consensus       485 ~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~l~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~  564 (833)
                      |+.|.+.|+.|+..+|+.+|.+|++.|++++|.++|++|.+.|+.||..+|+.+|.+|++.|++++|.+++++|.+.|+.
T Consensus       602 f~~M~e~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~eeA~~l~~eM~k~G~~  681 (1060)
T PLN03218        602 YQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIK  681 (1060)
T ss_pred             HHHHHHcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCccCHHHHHHHH
Q 003295          565 PDNYTYNLLLHGLCSLGKMEEAIELWEECKRTVFGPDIYTYGVMIDGFCKADKIEEGETLFNEMISKKMELNPVVYNTLI  644 (833)
Q Consensus       565 p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li  644 (833)
                      ||..+|+.+|.+|++.|++++|.++|++|.+.|+.||..+|+.+|.+|++.|++++|.++|++|.+.|+.||..+|+.++
T Consensus       682 pd~~tynsLI~ay~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~~Gi~Pd~~Ty~sLL  761 (1060)
T PLN03218        682 LGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILL  761 (1060)
T ss_pred             CCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCChh
Q 003295          645 RAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMD  724 (833)
Q Consensus       645 ~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~  724 (833)
                      .+|++.|++++|.+++++|.+.|+.||..+|++++..|.  +++++|.++.+.+..-.  +        .......+..+
T Consensus       762 ~a~~k~G~le~A~~l~~~M~k~Gi~pd~~tynsLIglc~--~~y~ka~~l~~~v~~f~--~--------g~~~~~n~w~~  829 (1060)
T PLN03218        762 VASERKDDADVGLDLLSQAKEDGIKPNLVMCRCITGLCL--RRFEKACALGEPVVSFD--S--------GRPQIENKWTS  829 (1060)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH--HHHHHHhhhhhhhhhhh--c--------cccccccchHH
Confidence            999999999999999999999999999999999986654  24666666655444321  0        01111223446


Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHH
Q 003295          725 EAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISPDSITYNVFMDGHCKGGNVEEAFKVCDRML  804 (833)
Q Consensus       725 ~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~  804 (833)
                      +|..+|++|.+.|+.||..||+.++.++++.+..+.+..+++.|...+..|+..+|+.|++++.+.  .++|..++++|.
T Consensus       830 ~Al~lf~eM~~~Gi~Pd~~T~~~vL~cl~~~~~~~~~~~m~~~m~~~~~~~~~~~y~~Li~g~~~~--~~~A~~l~~em~  907 (1060)
T PLN03218        830 WALMVYRETISAGTLPTMEVLSQVLGCLQLPHDATLRNRLIENLGISADSQKQSNLSTLVDGFGEY--DPRAFSLLEEAA  907 (1060)
T ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHhcccccHHHHHHHHHHhccCCCCcchhhhHHHHHhhccC--hHHHHHHHHHHH
Confidence            799999999999999999999999988889999999999999998888889999999999998432  368999999999


Q ss_pred             HCCCCCCHH
Q 003295          805 SEGLSLDEI  813 (833)
Q Consensus       805 ~~g~~p~~~  813 (833)
                      ..|+.|+..
T Consensus       908 ~~Gi~p~~~  916 (1060)
T PLN03218        908 SLGVVPSVS  916 (1060)
T ss_pred             HcCCCCCcc
Confidence            999999964

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=6.3e-72  Score=645.93  Aligned_cols=541  Identities=18%  Similarity=0.262  Sum_probs=449.7

Q ss_pred             HHHHHHHHHHhhhccCHHHHHHHHHHHHhCCCC-CCHHHHHHHHHHHHhcCChhHHHHHHHHhhcCCCCCHHHHHHHHHH
Q 003295          183 ADLLVHVYCTQFKNLGFGYAIDVFSIFSSKGIF-PSLKTCNFLLNSLVKANEVQKGIEVFETMCRGVSPDVFLFSTAINA  261 (833)
Q Consensus       183 ~~~l~~~~~~~~~~~~~~~A~~~f~~~~~~~~~-p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~  261 (833)
                      +..+++.++   +.|++++|+++|+.|.+.|+. ++..+++.++.+|.+.|.+++|..+|+.|..   ||..+|+.++.+
T Consensus       373 ~~~~y~~l~---r~G~l~eAl~Lfd~M~~~gvv~~~~v~~~~li~~~~~~g~~~eAl~lf~~M~~---pd~~Tyn~LL~a  446 (1060)
T PLN03218        373 YIDAYNRLL---RDGRIKDCIDLLEDMEKRGLLDMDKIYHAKFFKACKKQRAVKEAFRFAKLIRN---PTLSTFNMLMSV  446 (1060)
T ss_pred             HHHHHHHHH---HCcCHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHCCCHHHHHHHHHHcCC---CCHHHHHHHHHH
Confidence            444444444   678888888888888888854 5677777888888888888888888888853   888888888888


Q ss_pred             HHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChhHH
Q 003295          262 FCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIHGLCRNGRLYEAFHLKEKMVLREVEPSLITYSILINGLIKLEKFDDA  341 (833)
Q Consensus       262 ~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A  341 (833)
                      |++.|++++|.++|++|.+.|+.||.++||+||.+|++.|++++|.++|++|.+.|+.||.+||+.+|.+|++.|++++|
T Consensus       447 ~~k~g~~e~A~~lf~~M~~~Gl~pD~~tynsLI~~y~k~G~vd~A~~vf~eM~~~Gv~PdvvTynaLI~gy~k~G~~eeA  526 (1060)
T PLN03218        447 CASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKA  526 (1060)
T ss_pred             HHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCcCHHHH
Confidence            88888888888888888888888888888888888888888888888888888888888888888888888888888888


Q ss_pred             HHHHHHHHHCCCCCChhhHHHHHHHHHHcCChHHHHHHHHHHHh--CCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHH
Q 003295          342 NFVLKEMSVRGFVPNYVVYNTLIDGYCKKGNISEALKIRDDMVS--KGMSPNSVTFNSLIHGFCKSGQMDNAENALEEML  419 (833)
Q Consensus       342 ~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~A~~~~~~m~~--~g~~p~~~~~~~li~~~~~~g~~~~A~~~l~~~~  419 (833)
                      .++|++|.+.|+.||.++|++||.+|++.|++++|.++|++|..  .|+.||.++|+++|.+|++.|++++|.++|++|.
T Consensus       527 l~lf~~M~~~Gv~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k~G~ldeA~elf~~M~  606 (1060)
T PLN03218        527 FGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIH  606 (1060)
T ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            88888888888888888888888888888888888888888876  5788888888888888888888888888888888


Q ss_pred             HCCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHH
Q 003295          420 SRGLSINQGAYTSVIKWLCINSRFNSALHFTKEMLLRNLRPGDGLLTLLVSGLCKNGKQAEATELCFRLFEKGFTVNTVT  499 (833)
Q Consensus       420 ~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~  499 (833)
                      +.|+.|+..+|+.+|.+|++.|++++|.++|++|...|+.||..+|+.++.+|++.|++++|.+++++|.+.|+.||..+
T Consensus       607 e~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~eeA~~l~~eM~k~G~~pd~~t  686 (1060)
T PLN03218        607 EYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVS  686 (1060)
T ss_pred             HcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHH
Confidence            88888888888888888888888888888888888888888888888888888888888888888888888888888888


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHh
Q 003295          500 SNALIHGMCEAGNLKEAGKLLMEMLQRGLILDKVTYNTLILGCCKDGKPEEGFKLKEDMIKRGIQPDNYTYNLLLHGLCS  579 (833)
Q Consensus       500 ~~~li~~~~~~g~~~~A~~~l~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~  579 (833)
                      |+.||.+|++.|++++|.++|++|.+.|+.||..+|+.||.+|++.|++++|.++|++|.+.|+.||..||+.++.+|++
T Consensus       687 ynsLI~ay~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~~Gi~Pd~~Ty~sLL~a~~k  766 (1060)
T PLN03218        687 YSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASER  766 (1060)
T ss_pred             HHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH
Confidence            88888888888888888888888888888888888888888888888888888888888888888888888888888888


Q ss_pred             cCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHH
Q 003295          580 LGKMEEAIELWEECKRTVFGPDIYTYGVMIDGFCKADKIEEGETLFNEMISKKMELNPVVYNTLIRAYCKIGNTTAAFRL  659 (833)
Q Consensus       580 ~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~  659 (833)
                      .|++++|.++|++|.+.|+.||..+|+.++..|.  +++++|..+.+.+..-         +. .......+..++|+.+
T Consensus       767 ~G~le~A~~l~~~M~k~Gi~pd~~tynsLIglc~--~~y~ka~~l~~~v~~f---------~~-g~~~~~n~w~~~Al~l  834 (1060)
T PLN03218        767 KDDADVGLDLLSQAKEDGIKPNLVMCRCITGLCL--RRFEKACALGEPVVSF---------DS-GRPQIENKWTSWALMV  834 (1060)
T ss_pred             CCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH--HHHHHHhhhhhhhhhh---------hc-cccccccchHHHHHHH
Confidence            8888888888888888888888888888886543  2455555554433321         10 0111122334668888


Q ss_pred             HHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHhCCCC
Q 003295          660 SNDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESVLQEMASINIH  739 (833)
Q Consensus       660 ~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~  739 (833)
                      |++|.+.|+.||..||+.++.++++.+..+.+..++++|...+..|+..+|+++|+++++.  .++|..++++|.+.|+.
T Consensus       835 f~eM~~~Gi~Pd~~T~~~vL~cl~~~~~~~~~~~m~~~m~~~~~~~~~~~y~~Li~g~~~~--~~~A~~l~~em~~~Gi~  912 (1060)
T PLN03218        835 YRETISAGTLPTMEVLSQVLGCLQLPHDATLRNRLIENLGISADSQKQSNLSTLVDGFGEY--DPRAFSLLEEAASLGVV  912 (1060)
T ss_pred             HHHHHHCCCCCCHHHHHHHHHHhcccccHHHHHHHHHHhccCCCCcchhhhHHHHHhhccC--hHHHHHHHHHHHHcCCC
Confidence            9999888888998899888888888888888888888888777888888899998887432  36788999999888888


Q ss_pred             CCHH
Q 003295          740 PNKI  743 (833)
Q Consensus       740 p~~~  743 (833)
                      |+..
T Consensus       913 p~~~  916 (1060)
T PLN03218        913 PSVS  916 (1060)
T ss_pred             CCcc
Confidence            8875

>PLN03081 pentatricopeptide (PPR) repeat-containing protein; Provisional

Probab=100.00  E-value=5.4e-64  Score=580.02  Aligned_cols=511  Identities=18%  Similarity=0.288  Sum_probs=458.2

Q ss_pred             CCHHHHHHHHHHHHhcCChhHHHHHHHHhh-c-CCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHH
Q 003295          216 PSLKTCNFLLNSLVKANEVQKGIEVFETMC-R-GVSPDVFLFSTAINAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNI  293 (833)
Q Consensus       216 p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~-~-~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l  293 (833)
                      ++..+|+.++.+|.+.|++++|.++|+.|. . +..||..+|+.++.+|++.|+++.|.+++..|.+.|+.||+.+||.+
T Consensus        85 ~~~~~~~~~i~~l~~~g~~~~Al~~f~~m~~~~~~~~~~~t~~~ll~a~~~~~~~~~a~~l~~~m~~~g~~~~~~~~n~L  164 (697)
T PLN03081         85 KSGVSLCSQIEKLVACGRHREALELFEILEAGCPFTLPASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRV  164 (697)
T ss_pred             CCceeHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCcchHHHHHH
Confidence            466789999999999999999999999998 3 47899999999999999999999999999999999999999999999


Q ss_pred             HHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHHcCCh
Q 003295          294 IHGLCRNGRLYEAFHLKEKMVLREVEPSLITYSILINGLIKLEKFDDANFVLKEMSVRGFVPNYVVYNTLIDGYCKKGNI  373 (833)
Q Consensus       294 i~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~  373 (833)
                      +++|++.|++++|.++|++|.    .||.++||++|.+|++.|++++|.++|++|.+.|+.||..+|+.++.++++.|+.
T Consensus       165 i~~y~k~g~~~~A~~lf~~m~----~~~~~t~n~li~~~~~~g~~~~A~~lf~~M~~~g~~p~~~t~~~ll~a~~~~~~~  240 (697)
T PLN03081        165 LLMHVKCGMLIDARRLFDEMP----ERNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSA  240 (697)
T ss_pred             HHHHhcCCCHHHHHHHHhcCC----CCCeeeHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHhcCCcH
Confidence            999999999999999999996    4799999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCcccHHHHHHHHHhcCChhHHHHHHHHH
Q 003295          374 SEALKIRDDMVSKGMSPNSVTFNSLIHGFCKSGQMDNAENALEEMLSRGLSINQGAYTSVIKWLCINSRFNSALHFTKEM  453 (833)
Q Consensus       374 ~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~l~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~  453 (833)
                      +++.+++..+.+.|+.||..+|++||++|++.|++++|.++|++|.+                                 
T Consensus       241 ~~~~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~---------------------------------  287 (697)
T PLN03081        241 RAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPE---------------------------------  287 (697)
T ss_pred             HHHHHHHHHHHHhCCCccceeHHHHHHHHHHCCCHHHHHHHHHhCCC---------------------------------
Confidence            99999999999999999999999999999999999999998887642                                 


Q ss_pred             HHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHH
Q 003295          454 LLRNLRPGDGLLTLLVSGLCKNGKQAEATELCFRLFEKGFTVNTVTSNALIHGMCEAGNLKEAGKLLMEMLQRGLILDKV  533 (833)
Q Consensus       454 ~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~l~~m~~~g~~~~~~  533 (833)
                                                               +|+++||+++.+|++.|+.++|.++|++|.+.|+.||..
T Consensus       288 -----------------------------------------~~~vt~n~li~~y~~~g~~~eA~~lf~~M~~~g~~pd~~  326 (697)
T PLN03081        288 -----------------------------------------KTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQF  326 (697)
T ss_pred             -----------------------------------------CChhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHH
Confidence                                                     377889999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHH
Q 003295          534 TYNTLILGCCKDGKPEEGFKLKEDMIKRGIQPDNYTYNLLLHGLCSLGKMEEAIELWEECKRTVFGPDIYTYGVMIDGFC  613 (833)
Q Consensus       534 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~  613 (833)
                      ||++++.+|++.|++++|.+++..|.+.|+.||..++++++++|++.|++++|.++|++|.+    ||..+||.+|.+|+
T Consensus       327 t~~~ll~a~~~~g~~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~~----~d~~t~n~lI~~y~  402 (697)
T PLN03081        327 TFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPR----KNLISWNALIAGYG  402 (697)
T ss_pred             HHHHHHHHHHhccchHHHHHHHHHHHHhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCCC----CCeeeHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999864    78999999999999


Q ss_pred             ccCCHHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHh-CCCCCCHHHHHHHHHHHHhcCCHHHHH
Q 003295          614 KADKIEEGETLFNEMISKKMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMKS-RGILPTSVTYSSLIHGLCNIGLIEDAK  692 (833)
Q Consensus       614 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~-~~~~p~~~~~~~li~~~~~~g~~~~A~  692 (833)
                      +.|+.++|.++|++|.+.|+.||..||+.++.+|++.|.+++|.++|+.|.+ .|+.|+..+|+.++++|++.|++++|.
T Consensus       403 ~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~~~g~~p~~~~y~~li~~l~r~G~~~eA~  482 (697)
T PLN03081        403 NHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEAY  482 (697)
T ss_pred             HcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCccchHhHHHHHHhcCCHHHHH
Confidence            9999999999999999999999999999999999999999999999999986 589999999999999999999999999


Q ss_pred             HHHHHHHHCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 003295          693 CLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAEKG  772 (833)
Q Consensus       693 ~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g  772 (833)
                      +++++|   ++.|+..+|++|+.+|+..|+++.|..+++++.+.+ +.+..+|..|+.+|++.|++++|.+++++|.++|
T Consensus       483 ~~~~~~---~~~p~~~~~~~Ll~a~~~~g~~~~a~~~~~~l~~~~-p~~~~~y~~L~~~y~~~G~~~~A~~v~~~m~~~g  558 (697)
T PLN03081        483 AMIRRA---PFKPTVNMWAALLTACRIHKNLELGRLAAEKLYGMG-PEKLNNYVVLLNLYNSSGRQAEAAKVVETLKRKG  558 (697)
T ss_pred             HHHHHC---CCCCCHHHHHHHHHHHHHcCCcHHHHHHHHHHhCCC-CCCCcchHHHHHHHHhCCCHHHHHHHHHHHHHcC
Confidence            998866   468999999999999999999999999999997643 3356799999999999999999999999999998


Q ss_pred             CCCCH-HHHHHHH---HHHh--------cCCCHHHHHHHHHHHHHCCCCCCH
Q 003295          773 ISPDS-ITYNVFM---DGHC--------KGGNVEEAFKVCDRMLSEGLSLDE  812 (833)
Q Consensus       773 ~~p~~-~~~~~l~---~~~~--------~~g~~~~A~~~~~~m~~~g~~p~~  812 (833)
                      +...+ .+|..+.   ..+.        ...-+++..++..+|.+.|+.||.
T Consensus       559 ~~k~~g~s~i~~~~~~~~f~~~d~~h~~~~~i~~~l~~l~~~~~~~gy~~~~  610 (697)
T PLN03081        559 LSMHPACTWIEVKKQDHSFFSGDRLHPQSREIYQKLDELMKEISEYGYVAEE  610 (697)
T ss_pred             CccCCCeeEEEECCeEEEEccCCCCCccHHHHHHHHHHHHHHHHHcCCCCCc
Confidence            75432 2221110   0000        011245567788899999999983

>PLN03081 pentatricopeptide (PPR) repeat-containing protein; Provisional

Probab=100.00  E-value=4.2e-63  Score=572.58  Aligned_cols=476  Identities=22%  Similarity=0.334  Sum_probs=434.6

Q ss_pred             CCChhhHHHHHHHHHhcCChhHHHHHHHHHHhCC-CCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHH
Q 003295          284 APNVVTYNNIIHGLCRNGRLYEAFHLKEKMVLRE-VEPSLITYSILINGLIKLEKFDDANFVLKEMSVRGFVPNYVVYNT  362 (833)
Q Consensus       284 ~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~-~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~y~~  362 (833)
                      ..+.++|+.+|.+|++.|++++|+++|+.|...+ +.||..+|+.++.+|++.++++.|.+++..|.+.|+.||..+|+.
T Consensus        84 ~~~~~~~~~~i~~l~~~g~~~~Al~~f~~m~~~~~~~~~~~t~~~ll~a~~~~~~~~~a~~l~~~m~~~g~~~~~~~~n~  163 (697)
T PLN03081         84 RKSGVSLCSQIEKLVACGRHREALELFEILEAGCPFTLPASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNR  163 (697)
T ss_pred             CCCceeHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCcchHHHHH
Confidence            4577889999999999999999999999998764 678999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHcCChHHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCcccHHHHHHHHHhcCC
Q 003295          363 LIDGYCKKGNISEALKIRDDMVSKGMSPNSVTFNSLIHGFCKSGQMDNAENALEEMLSRGLSINQGAYTSVIKWLCINSR  442 (833)
Q Consensus       363 li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~l~~~~~~g~~~~~~~~~~li~~~~~~g~  442 (833)
                      |+.+|++.|++++|.++|++|.+    ||.++|+++|.+|++.|++++|.++|++|.+.|+.|+..+|+           
T Consensus       164 Li~~y~k~g~~~~A~~lf~~m~~----~~~~t~n~li~~~~~~g~~~~A~~lf~~M~~~g~~p~~~t~~-----------  228 (697)
T PLN03081        164 VLLMHVKCGMLIDARRLFDEMPE----RNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFV-----------  228 (697)
T ss_pred             HHHHHhcCCCHHHHHHHHhcCCC----CCeeeHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCChhhHH-----------
Confidence            99999999999999999999864    688899999999998888888888888888777665555554           


Q ss_pred             hhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 003295          443 FNSALHFTKEMLLRNLRPGDGLLTLLVSGLCKNGKQAEATELCFRLFEKGFTVNTVTSNALIHGMCEAGNLKEAGKLLME  522 (833)
Q Consensus       443 ~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~l~~  522 (833)
                                              .++.++++.|..+.+.+++..+.+.|+.+|..+||+|+++|++.|++++|.++|++
T Consensus       229 ------------------------~ll~a~~~~~~~~~~~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~  284 (697)
T PLN03081        229 ------------------------VMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDG  284 (697)
T ss_pred             ------------------------HHHHHHhcCCcHHHHHHHHHHHHHhCCCccceeHHHHHHHHHHCCCHHHHHHHHHh
Confidence                                    45555556666666666777777778888999999999999999999999999999


Q ss_pred             HhhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCH
Q 003295          523 MLQRGLILDKVTYNTLILGCCKDGKPEEGFKLKEDMIKRGIQPDNYTYNLLLHGLCSLGKMEEAIELWEECKRTVFGPDI  602 (833)
Q Consensus       523 m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~  602 (833)
                      |.+.    |.++|+++|.+|++.|+.++|.++|++|.+.|+.||..||+.++.+|++.|++++|.++++.|.+.|+.||.
T Consensus       285 m~~~----~~vt~n~li~~y~~~g~~~eA~~lf~~M~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~g~~~d~  360 (697)
T PLN03081        285 MPEK----TTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDI  360 (697)
T ss_pred             CCCC----ChhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhccchHHHHHHHHHHHHhCCCCCe
Confidence            9754    999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhHHHHHHHHHccCCHHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 003295          603 YTYGVMIDGFCKADKIEEGETLFNEMISKKMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGL  682 (833)
Q Consensus       603 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~  682 (833)
                      .+|+.|+++|++.|++++|.++|++|.+    ||..+||++|.+|++.|+.++|+++|++|.+.|+.||..||+.++.+|
T Consensus       361 ~~~~~Li~~y~k~G~~~~A~~vf~~m~~----~d~~t~n~lI~~y~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~  436 (697)
T PLN03081        361 VANTALVDLYSKWGRMEDARNVFDRMPR----KNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSAC  436 (697)
T ss_pred             eehHHHHHHHHHCCCHHHHHHHHHhCCC----CCeeeHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHH
Confidence            9999999999999999999999999964    699999999999999999999999999999999999999999999999


Q ss_pred             HhcCCHHHHHHHHHHHHH-CCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHH
Q 003295          683 CNIGLIEDAKCLFDEMRK-EGLLPNVACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEA  761 (833)
Q Consensus       683 ~~~g~~~~A~~~~~~m~~-~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A  761 (833)
                      ++.|.+++|.++|++|.+ .|+.|+..+|+.++++|++.|++++|.+++++|   ++.|+..+|++|+.+|+..|+++.|
T Consensus       437 ~~~g~~~~a~~~f~~m~~~~g~~p~~~~y~~li~~l~r~G~~~eA~~~~~~~---~~~p~~~~~~~Ll~a~~~~g~~~~a  513 (697)
T PLN03081        437 RYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEAYAMIRRA---PFKPTVNMWAALLTACRIHKNLELG  513 (697)
T ss_pred             hcCCcHHHHHHHHHHHHHhcCCCCCccchHhHHHHHHhcCCHHHHHHHHHHC---CCCCCHHHHHHHHHHHHHcCCcHHH
Confidence            999999999999999986 599999999999999999999999999999876   4789999999999999999999999


Q ss_pred             HHHHHHHHHcCCCC-CHHHHHHHHHHHhcCCCHHHHHHHHHHHHHCCCCCC
Q 003295          762 AKLLNVMAEKGISP-DSITYNVFMDGHCKGGNVEEAFKVCDRMLSEGLSLD  811 (833)
Q Consensus       762 ~~~~~~m~~~g~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~p~  811 (833)
                      ..+++++.+  +.| +..+|..|+..|++.|++++|.+++++|.+.|+++.
T Consensus       514 ~~~~~~l~~--~~p~~~~~y~~L~~~y~~~G~~~~A~~v~~~m~~~g~~k~  562 (697)
T PLN03081        514 RLAAEKLYG--MGPEKLNNYVVLLNLYNSSGRQAEAAKVVETLKRKGLSMH  562 (697)
T ss_pred             HHHHHHHhC--CCCCCCcchHHHHHHHHhCCCHHHHHHHHHHHHHcCCccC
Confidence            999999976  556 467999999999999999999999999999998643

>TIGR02917 PEP_TPR_lipo putative PEP-CTERM system TPR-repeat lipoprotein

Probab=100.00  E-value=4.4e-39  Score=391.41  Aligned_cols=711  Identities=13%  Similarity=0.029  Sum_probs=528.3

Q ss_pred             hhcCCChHHHHHHHHhhhhcCCCCCCHHHHHHHHHHHHhCCCchhHHHHHHHHHcCCCCccccCCCcchHHHHHHHH---
Q 003295           91 IRSNVNPKTALKFFYFASQSCNFRFTVRSYCLLIRLLLFSNLLSPARLLLIRLIDGKMPVLYASNPSIRHIEIASQM---  167 (833)
Q Consensus        91 ~~~~~~~~~a~~ff~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~a~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~---  167 (833)
                      ....+++..|+..+.-+....  +.+..++..+..++...|.+++|...+.+++......      ..........+   
T Consensus       169 ~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~p~~------~~~~~~~~~~~~~~  240 (899)
T TIGR02917       169 ALAENRFDEARALIDEVLTAD--PGNVDALLLKGDLLLSLGNIELALAAYRKAIALRPNN------PAVLLALATILIEA  240 (899)
T ss_pred             HHHCCCHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhhCCCC------HHHHHHHHHHHHHc
Confidence            444667888888888664432  3466778888888888888888888888887654110      00000001100   


Q ss_pred             -------hhhhcccCCcchhhhHHHHHHHHHHhhhccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHH
Q 003295          168 -------VDLNVTSEPALGVQIADLLVHVYCTQFKNLGFGYAIDVFSIFSSKGIFPSLKTCNFLLNSLVKANEVQKGIEV  240 (833)
Q Consensus       168 -------~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~f~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~  240 (833)
                             ..+....+..+... .......++ .+..|++++|+..|+.+.+.++. ....+..+...+.+.|++++|...
T Consensus       241 g~~~~A~~~~~~~~~~~~~~~-~~~~~~~~~-~~~~~~~~~A~~~~~~~l~~~~~-~~~~~~~~~~~~~~~g~~~~A~~~  317 (899)
T TIGR02917       241 GEFEEAEKHADALLKKAPNSP-LAHYLKALV-DFQKKNYEDARETLQDALKSAPE-YLPALLLAGASEYQLGNLEQAYQY  317 (899)
T ss_pred             CCHHHHHHHHHHHHHhCCCCc-hHHHHHHHH-HHHhcCHHHHHHHHHHHHHhCCC-chhHHHHHHHHHHHcCCHHHHHHH
Confidence                   00000000000000 011111221 23567888888888888776543 234455566677788888888888


Q ss_pred             HHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCC
Q 003295          241 FETMCRGVSPDVFLFSTAINAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIHGLCRNGRLYEAFHLKEKMVLREVEP  320 (833)
Q Consensus       241 ~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p  320 (833)
                      |+++....+.+...+..+...+.+.|++++|...++++.+... .+...++.+...+.+.|++++|.++|+++.+.. +.
T Consensus       318 ~~~~~~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~  395 (899)
T TIGR02917       318 LNQILKYAPNSHQARRLLASIQLRLGRVDEAIATLSPALGLDP-DDPAALSLLGEAYLALGDFEKAAEYLAKATELD-PE  395 (899)
T ss_pred             HHHHHHhCCCChHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CC
Confidence            8888855566777788888888888888888888888887643 356778888888888888888888888887753 34


Q ss_pred             ChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCChhHHHHHHH
Q 003295          321 SLITYSILINGLIKLEKFDDANFVLKEMSVRGFVPNYVVYNTLIDGYCKKGNISEALKIRDDMVSKGMSPNSVTFNSLIH  400 (833)
Q Consensus       321 ~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~  400 (833)
                      +...+..+...+...|++++|...++++.+.... +...+..++..+.+.|++++|.++++++.... +++..++..+..
T Consensus       396 ~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~  473 (899)
T TIGR02917       396 NAAARTQLGISKLSQGDPSEAIADLETAAQLDPE-LGRADLLLILSYLRSGQFDKALAAAKKLEKKQ-PDNASLHNLLGA  473 (899)
T ss_pred             CHHHHHHHHHHHHhCCChHHHHHHHHHHHhhCCc-chhhHHHHHHHHHhcCCHHHHHHHHHHHHHhC-CCCcHHHHHHHH
Confidence            5667777888888888888888888888776432 34456667778888888888888888887653 346678888888


Q ss_pred             HHHhcCChhHHHHHHHHHHHCCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHH
Q 003295          401 GFCKSGQMDNAENALEEMLSRGLSINQGAYTSVIKWLCINSRFNSALHFTKEMLLRNLRPGDGLLTLLVSGLCKNGKQAE  480 (833)
Q Consensus       401 ~~~~~g~~~~A~~~l~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  480 (833)
                      .+.+.|++++|.+.|+++.+.. +.+...+..++..+...|++++|.+.++.+...++. +..++..+...+.+.|+.++
T Consensus       474 ~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~  551 (899)
T TIGR02917       474 IYLGKGDLAKAREAFEKALSIE-PDFFPAAANLARIDIQEGNPDDAIQRFEKVLTIDPK-NLRAILALAGLYLRTGNEEE  551 (899)
T ss_pred             HHHhCCCHHHHHHHHHHHHhhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcC-cHHHHHHHHHHHHHcCCHHH
Confidence            8888888888888888887753 335566777888888888888888888888876543 55677778888888888888


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHH
Q 003295          481 ATELCFRLFEKGFTVNTVTSNALIHGMCEAGNLKEAGKLLMEMLQRGLILDKVTYNTLILGCCKDGKPEEGFKLKEDMIK  560 (833)
Q Consensus       481 A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~l~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  560 (833)
                      |...++++.+.+. .+...+..++..|.+.|++++|..+++++.+..+. +...|..+..++.+.|++++|...++.+.+
T Consensus       552 A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~  629 (899)
T TIGR02917       552 AVAWLEKAAELNP-QEIEPALALAQYYLGKGQLKKALAILNEAADAAPD-SPEAWLMLGRAQLAAGDLNKAVSSFKKLLA  629 (899)
T ss_pred             HHHHHHHHHHhCc-cchhHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            8888888877643 36677778888888888888888888888776543 777888888888888888888888888887


Q ss_pred             CCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCccCHHHH
Q 003295          561 RGIQPDNYTYNLLLHGLCSLGKMEEAIELWEECKRTVFGPDIYTYGVMIDGFCKADKIEEGETLFNEMISKKMELNPVVY  640 (833)
Q Consensus       561 ~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~  640 (833)
                      ... .+...+..+...+.+.|++++|...++++.+.. +.+..++..++..+...|++++|..+++.+.+..+. +...+
T Consensus       630 ~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~  706 (899)
T TIGR02917       630 LQP-DSALALLLLADAYAVMKNYAKAITSLKRALELK-PDNTEAQIGLAQLLLAAKRTESAKKIAKSLQKQHPK-AALGF  706 (899)
T ss_pred             hCC-CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcC-ChHHH
Confidence            643 366777888888888888888888888887753 445778888888888888888888888888877644 67778


Q ss_pred             HHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhc
Q 003295          641 NTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKL  720 (833)
Q Consensus       641 ~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~  720 (833)
                      ..+...+.+.|++++|.+.++++...+  |+..++..++..+.+.|++++|.+.++++.+.. +.+...+..+...|.+.
T Consensus       707 ~~~~~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~  783 (899)
T TIGR02917       707 ELEGDLYLRQKDYPAAIQAYRKALKRA--PSSQNAIKLHRALLASGNTAEAVKTLEAWLKTH-PNDAVLRTALAELYLAQ  783 (899)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHhhC--CCchHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHC
Confidence            888888888888888888888888764  444667778888888888888888888888763 45677888888888888


Q ss_pred             CChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCCHHHHHHHH
Q 003295          721 GQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISPDSITYNVFMDGHCKGGNVEEAFKVC  800 (833)
Q Consensus       721 g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~  800 (833)
                      |+.++|.+.|+++.+.. +++..+++.++..+...|+ .+|+.+++++.+.. +.+..++..++..+...|++++|.+++
T Consensus       784 g~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~-~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~  860 (899)
T TIGR02917       784 KDYDKAIKHYRTVVKKA-PDNAVVLNNLAWLYLELKD-PRALEYAEKALKLA-PNIPAILDTLGWLLVEKGEADRALPLL  860 (899)
T ss_pred             cCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCc-HHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcCCHHHHHHHH
Confidence            88888888888888764 6677888888888888888 77888888888742 235567778888888888888888888


Q ss_pred             HHHHHCCCCCCHHHHHHHHHhhccCCCCcc
Q 003295          801 DRMLSEGLSLDEITYTTLIDGWQSSTITNQ  830 (833)
Q Consensus       801 ~~m~~~g~~p~~~~~~~l~~~~~~~~~~~~  830 (833)
                      +++++.+.. +..++..+...+...+-.++
T Consensus       861 ~~a~~~~~~-~~~~~~~l~~~~~~~g~~~~  889 (899)
T TIGR02917       861 RKAVNIAPE-AAAIRYHLALALLATGRKAE  889 (899)
T ss_pred             HHHHhhCCC-ChHHHHHHHHHHHHcCCHHH
Confidence            888886543 67777778888776665544

This protein family occurs in strictly within a subset of Gram-negative bacterial species with the proposed PEP-CTERM/exosortase system, analogous to the LPXTG/sortase system common in Gram-positive bacteria. This protein occurs in a species if and only if a transmembrane histidine kinase (TIGR02916) and a DNA-binding response regulator (TIGR02915) also occur. The present of tetratricopeptide repeats (TPR) suggests protein-protein interaction, possibly for the regulation of PEP-CTERM protein expression, since many PEP-CTERM proteins in these genomes are preceded by a proposed DNA binding site for the response regulator.

>TIGR02917 PEP_TPR_lipo putative PEP-CTERM system TPR-repeat lipoprotein

Probab=100.00  E-value=1.2e-38  Score=387.62  Aligned_cols=688  Identities=14%  Similarity=0.028  Sum_probs=575.7

Q ss_pred             hhcCCChHHHHHHHHhhhhcCCCCCCHHHHHHHHHHHHhCCCchhHHHHHHHHHcCCCCccccCCCcch-H-------HH
Q 003295           91 IRSNVNPKTALKFFYFASQSCNFRFTVRSYCLLIRLLLFSNLLSPARLLLIRLIDGKMPVLYASNPSIR-H-------IE  162 (833)
Q Consensus        91 ~~~~~~~~~a~~ff~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~a~~~l~~~~~~~~~~~~~~~~~~~-~-------~~  162 (833)
                      ....++...|...|..+....  +.++.++..++.++...|.+++|...+.++++.....    +.... .       ..
T Consensus       203 ~~~~g~~~~A~~~~~~a~~~~--p~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~  276 (899)
T TIGR02917       203 LLSLGNIELALAAYRKAIALR--PNNPAVLLALATILIEAGEFEEAEKHADALLKKAPNS----PLAHYLKALVDFQKKN  276 (899)
T ss_pred             HHhcCCHHHHHHHHHHHHhhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCC----chHHHHHHHHHHHhcC
Confidence            344679999999999876543  4578889999999999999999999999998754211    00000 0       00


Q ss_pred             HHHHHhhhhcccCCcch-hhhHHHHHHHHHHhhhccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHH
Q 003295          163 IASQMVDLNVTSEPALG-VQIADLLVHVYCTQFKNLGFGYAIDVFSIFSSKGIFPSLKTCNFLLNSLVKANEVQKGIEVF  241 (833)
Q Consensus       163 ~~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~~~A~~~f~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~  241 (833)
                      ...++..+....+..+. ......+...   .+..|++++|...|+.+.+..+. +...+..+...+.+.|++++|...+
T Consensus       277 ~~~A~~~~~~~l~~~~~~~~~~~~~~~~---~~~~g~~~~A~~~~~~~~~~~p~-~~~~~~~la~~~~~~g~~~~A~~~~  352 (899)
T TIGR02917       277 YEDARETLQDALKSAPEYLPALLLAGAS---EYQLGNLEQAYQYLNQILKYAPN-SHQARRLLASIQLRLGRVDEAIATL  352 (899)
T ss_pred             HHHHHHHHHHHHHhCCCchhHHHHHHHH---HHHcCCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHCCCHHHHHHHH
Confidence            01111111111111111 1111122222   23679999999999998877654 6778888999999999999999999


Q ss_pred             HHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCC
Q 003295          242 ETMCRGVSPDVFLFSTAINAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIHGLCRNGRLYEAFHLKEKMVLREVEPS  321 (833)
Q Consensus       242 ~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~  321 (833)
                      +.+....+.+...++.+..++.+.|++++|.++|+++.+... .+...+..+...+...|++++|.+.++++.+.. +..
T Consensus       353 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~  430 (899)
T TIGR02917       353 SPALGLDPDDPAALSLLGEAYLALGDFEKAAEYLAKATELDP-ENAAARTQLGISKLSQGDPSEAIADLETAAQLD-PEL  430 (899)
T ss_pred             HHHHhcCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHhCCChHHHHHHHHHHHhhC-Ccc
Confidence            999865677888999999999999999999999999988643 256778889999999999999999999998764 234


Q ss_pred             hhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCChhHHHHHHHH
Q 003295          322 LITYSILINGLIKLEKFDDANFVLKEMSVRGFVPNYVVYNTLIDGYCKKGNISEALKIRDDMVSKGMSPNSVTFNSLIHG  401 (833)
Q Consensus       322 ~~t~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~  401 (833)
                      ...+..++..+.+.|++++|..+++++.... ..+..+|..+...|...|++++|.+.|+++.+.... +...+..++..
T Consensus       431 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~la~~  508 (899)
T TIGR02917       431 GRADLLLILSYLRSGQFDKALAAAKKLEKKQ-PDNASLHNLLGAIYLGKGDLAKAREAFEKALSIEPD-FFPAAANLARI  508 (899)
T ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHHHhC-CCCcHHHHHHHHHHHhCCCHHHHHHHHHHHHhhCCC-cHHHHHHHHHH
Confidence            4566778889999999999999999998753 346788999999999999999999999999886433 56678889999


Q ss_pred             HHhcCChhHHHHHHHHHHHCCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHH
Q 003295          402 FCKSGQMDNAENALEEMLSRGLSINQGAYTSVIKWLCINSRFNSALHFTKEMLLRNLRPGDGLLTLLVSGLCKNGKQAEA  481 (833)
Q Consensus       402 ~~~~g~~~~A~~~l~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A  481 (833)
                      +.+.|++++|.+.++++.+.+ +.+..++..+...+...|+.++|...+.++...+.. +...+..++..+.+.|++++|
T Consensus       509 ~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A  586 (899)
T TIGR02917       509 DIQEGNPDDAIQRFEKVLTID-PKNLRAILALAGLYLRTGNEEEAVAWLEKAAELNPQ-EIEPALALAQYYLGKGQLKKA  586 (899)
T ss_pred             HHHCCCHHHHHHHHHHHHHhC-cCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcc-chhHHHHHHHHHHHCCCHHHH
Confidence            999999999999999998864 346788999999999999999999999999877543 456677889999999999999


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHC
Q 003295          482 TELCFRLFEKGFTVNTVTSNALIHGMCEAGNLKEAGKLLMEMLQRGLILDKVTYNTLILGCCKDGKPEEGFKLKEDMIKR  561 (833)
Q Consensus       482 ~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~l~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  561 (833)
                      .++++++.+.. +.+...|..++..+...|++++|...|+++.+.++. +...+..+...+.+.|++++|...++++.+.
T Consensus       587 ~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  664 (899)
T TIGR02917       587 LAILNEAADAA-PDSPEAWLMLGRAQLAAGDLNKAVSSFKKLLALQPD-SALALLLLADAYAVMKNYAKAITSLKRALEL  664 (899)
T ss_pred             HHHHHHHHHcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            99999998763 457889999999999999999999999999987654 7788999999999999999999999999987


Q ss_pred             CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCccCHHHHH
Q 003295          562 GIQPDNYTYNLLLHGLCSLGKMEEAIELWEECKRTVFGPDIYTYGVMIDGFCKADKIEEGETLFNEMISKKMELNPVVYN  641 (833)
Q Consensus       562 g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~  641 (833)
                      .. .+..++..++..+...|++++|.++++.+.+.. +.+...+..+...+.+.|++++|.+.|+++...++  +..++.
T Consensus       665 ~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~--~~~~~~  740 (899)
T TIGR02917       665 KP-DNTEAQIGLAQLLLAAKRTESAKKIAKSLQKQH-PKAALGFELEGDLYLRQKDYPAAIQAYRKALKRAP--SSQNAI  740 (899)
T ss_pred             CC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cCChHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCC--CchHHH
Confidence            43 368889999999999999999999999998875 45677888899999999999999999999998754  447788


Q ss_pred             HHHHHHHHcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcC
Q 003295          642 TLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLG  721 (833)
Q Consensus       642 ~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g  721 (833)
                      .++.++.+.|++++|.+.++++.+.. +.+...+..+...|...|+.++|.+.|+++.+.. +++...++.+...+...|
T Consensus       741 ~l~~~~~~~g~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~  818 (899)
T TIGR02917       741 KLHRALLASGNTAEAVKTLEAWLKTH-PNDAVLRTALAELYLAQKDYDKAIKHYRTVVKKA-PDNAVVLNNLAWLYLELK  818 (899)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcC
Confidence            89999999999999999999999874 5578889999999999999999999999999874 567889999999999999


Q ss_pred             ChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCCHHHHHHHHH
Q 003295          722 QMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISPDSITYNVFMDGHCKGGNVEEAFKVCD  801 (833)
Q Consensus       722 ~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~  801 (833)
                      + ++|+.+++++.+.. +.+..++..++..+...|++++|.++++++++.+ +.+..++..++.++.+.|++++|.++++
T Consensus       819 ~-~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~  895 (899)
T TIGR02917       819 D-PRALEYAEKALKLA-PNIPAILDTLGWLLVEKGEADRALPLLRKAVNIA-PEAAAIRYHLALALLATGRKAEARKELD  895 (899)
T ss_pred             c-HHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCChHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            9 88999999999863 5567788899999999999999999999999975 3388999999999999999999999999


Q ss_pred             HHHH
Q 003295          802 RMLS  805 (833)
Q Consensus       802 ~m~~  805 (833)
                      +|++
T Consensus       896 ~~~~  899 (899)
T TIGR02917       896 KLLN  899 (899)
T ss_pred             HHhC
Confidence            9863

This protein family occurs in strictly within a subset of Gram-negative bacterial species with the proposed PEP-CTERM/exosortase system, analogous to the LPXTG/sortase system common in Gram-positive bacteria. This protein occurs in a species if and only if a transmembrane histidine kinase (TIGR02916) and a DNA-binding response regulator (TIGR02915) also occur. The present of tetratricopeptide repeats (TPR) suggests protein-protein interaction, possibly for the regulation of PEP-CTERM protein expression, since many PEP-CTERM proteins in these genomes are preceded by a proposed DNA binding site for the response regulator.

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=100.00  E-value=1.7e-27  Score=289.33  Aligned_cols=647  Identities=13%  Similarity=0.041  Sum_probs=473.0

Q ss_pred             HHHHHHHHHHHHhCCCchhHHHHHHHHHcCCCCccccCCCcchHHHHHHHHhhhhcccCCcchhhhHHHHHHHHHHhhhc
Q 003295          117 VRSYCLLIRLLLFSNLLSPARLLLIRLIDGKMPVLYASNPSIRHIEIASQMVDLNVTSEPALGVQIADLLVHVYCTQFKN  196 (833)
Q Consensus       117 ~~~~~~l~~~l~~~~~~~~a~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  196 (833)
                      .......+++....++.+.|++.|.++..-.       |-                      .+.....++..+   ...
T Consensus        28 ~~~Ll~q~~~~~~~~~~d~a~~~l~kl~~~~-------p~----------------------~p~~~~~~~~~~---l~~   75 (1157)
T PRK11447         28 QQQLLEQVRLGEATHREDLVRQSLYRLELID-------PN----------------------NPDVIAARFRLL---LRQ   75 (1157)
T ss_pred             HHHHHHHHHHHHhhCChHHHHHHHHHHHccC-------CC----------------------CHHHHHHHHHHH---HhC
Confidence            3445666777778888999999998887543       11                      122233333333   367


Q ss_pred             cCHHHHHHHHHHHHhCCCCCCHHH----------------HHHHHHHHHhcCChhHHHHHHHHhhcCCCCCHHH-HHHHH
Q 003295          197 LGFGYAIDVFSIFSSKGIFPSLKT----------------CNFLLNSLVKANEVQKGIEVFETMCRGVSPDVFL-FSTAI  259 (833)
Q Consensus       197 ~~~~~A~~~f~~~~~~~~~p~~~~----------------~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~-~~~li  259 (833)
                      |+.++|.+.+++..+..+. +...                ...+...+.+.|++++|...|+.+..+.+|+... .....
T Consensus        76 g~~~~A~~~l~~l~~~~P~-~~~~~~~~~~~~~~~~~~~~~l~~A~ll~~~g~~~eA~~~~~~~l~~~p~~~~la~~y~~  154 (1157)
T PRK11447         76 GDSDGAQKLLDRLSQLAPD-SNAYRSSRTTMLLSTPEGRQALQQARLLATTGRTEEALASYDKLFNGAPPELDLAVEYWR  154 (1157)
T ss_pred             CCHHHHHHHHHHHHhhCCC-ChHHHHHHHHHHhcCCchhhHHHHHHHHHhCCCHHHHHHHHHHHccCCCCChHHHHHHHH
Confidence            8999999999998887654 2222                2334456888999999999999999766666432 11112


Q ss_pred             HHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCC--hhh-------------
Q 003295          260 NAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIHGLCRNGRLYEAFHLKEKMVLREVEPS--LIT-------------  324 (833)
Q Consensus       260 ~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~--~~t-------------  324 (833)
                      ......|+.++|++.|+++.+..+. +...+..+...+.+.|+.++|+..++++........  ...             
T Consensus       155 ~~~~~~g~~~~A~~~L~~ll~~~P~-~~~~~~~LA~ll~~~g~~~eAl~~l~~~~~~~~~~~~aa~~~~~~l~~~~~~~~  233 (1157)
T PRK11447        155 LVAKLPAQRPEAINQLQRLNADYPG-NTGLRNTLALLLFSSGRRDEGFAVLEQMAKSPAGRDAAAQLWYGQIKDMPVSDA  233 (1157)
T ss_pred             HHhhCCccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHccCCHHHHHHHHHHHhhCCCchHHHHHHHHHHHhccCCChh
Confidence            2223469999999999999987533 566788899999999999999999999876421000  011             


Q ss_pred             ----HHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCChhHHHHHHH
Q 003295          325 ----YSILINGLIKLEKFDDANFVLKEMSVRGFVPNYVVYNTLIDGYCKKGNISEALKIRDDMVSKGMSPNSVTFNSLIH  400 (833)
Q Consensus       325 ----~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~  400 (833)
                          +...+..+-.....++|...+.++......|+... ......+...|++++|+..|++..+.... +...+..+..
T Consensus       234 ~~~~l~~~l~~~p~~~~~~~A~~~L~~~~~~~~dp~~~~-~~~G~~~~~~g~~~~A~~~l~~aL~~~P~-~~~a~~~Lg~  311 (1157)
T PRK11447        234 SVAALQKYLQVFSDGDSVAAARSQLAEQQKQLADPAFRA-RAQGLAAVDSGQGGKAIPELQQAVRANPK-DSEALGALGQ  311 (1157)
T ss_pred             hHHHHHHHHHHCCCchHHHHHHHHHHHHHHhccCcchHH-HHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHH
Confidence                11111111122234456666666554422333221 23456677899999999999999986433 7788899999


Q ss_pred             HHHhcCChhHHHHHHHHHHHCCCCCCc-ccH------------HHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHH
Q 003295          401 GFCKSGQMDNAENALEEMLSRGLSINQ-GAY------------TSVIKWLCINSRFNSALHFTKEMLLRNLRPGDGLLTL  467 (833)
Q Consensus       401 ~~~~~g~~~~A~~~l~~~~~~g~~~~~-~~~------------~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~  467 (833)
                      .+.+.|++++|+..|++..+....... ..|            ......+.+.|++++|++.+++++...+. +...+..
T Consensus       312 ~~~~~g~~~eA~~~l~~Al~~~p~~~~~~~~~~ll~~~~~~~~~~~g~~~~~~g~~~eA~~~~~~Al~~~P~-~~~a~~~  390 (1157)
T PRK11447        312 AYSQQGDRARAVAQFEKALALDPHSSNRDKWESLLKVNRYWLLIQQGDAALKANNLAQAERLYQQARQVDNT-DSYAVLG  390 (1157)
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCCCccchhHHHHHHHhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHH
Confidence            999999999999999999886432211 112            12345677899999999999999987653 4566778


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCC--------CCHHHHHHHH
Q 003295          468 LVSGLCKNGKQAEATELCFRLFEKGFTVNTVTSNALIHGMCEAGNLKEAGKLLMEMLQRGLI--------LDKVTYNTLI  539 (833)
Q Consensus       468 li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~l~~m~~~g~~--------~~~~~~~~li  539 (833)
                      +...+...|++++|.+.|+++++... .+...+..+...|. .++.++|...++.+......        .....+..+.
T Consensus       391 Lg~~~~~~g~~~eA~~~y~~aL~~~p-~~~~a~~~L~~l~~-~~~~~~A~~~l~~l~~~~~~~~~~~~~~l~~~~~~~~a  468 (1157)
T PRK11447        391 LGDVAMARKDYAAAERYYQQALRMDP-GNTNAVRGLANLYR-QQSPEKALAFIASLSASQRRSIDDIERSLQNDRLAQQA  468 (1157)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHH-hcCHHHHHHHHHhCCHHHHHHHHHHHHHhhhhHHHHHH
Confidence            89999999999999999999998643 35667777777775 46789999988775433110        0123455677


Q ss_pred             HHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHccCCHH
Q 003295          540 LGCCKDGKPEEGFKLKEDMIKRGIQPDNYTYNLLLHGLCSLGKMEEAIELWEECKRTVFGPDIYTYGVMIDGFCKADKIE  619 (833)
Q Consensus       540 ~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~  619 (833)
                      ..+...|++++|++.+++.++..+. +...+..+...+.+.|++++|...++++.+.. +.+...+..+...+.+.++.+
T Consensus       469 ~~~~~~g~~~eA~~~~~~Al~~~P~-~~~~~~~LA~~~~~~G~~~~A~~~l~~al~~~-P~~~~~~~a~al~l~~~~~~~  546 (1157)
T PRK11447        469 EALENQGKWAQAAELQRQRLALDPG-SVWLTYRLAQDLRQAGQRSQADALMRRLAQQK-PNDPEQVYAYGLYLSGSDRDR  546 (1157)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHhCCCHH
Confidence            7888999999999999999987544 67778889999999999999999999998753 334555555556677899999


Q ss_pred             HHHHHHHHHHHCCCccCHH---------HHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHH
Q 003295          620 EGETLFNEMISKKMELNPV---------VYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIGLIED  690 (833)
Q Consensus       620 ~A~~~~~~~~~~~~~~~~~---------~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~  690 (833)
                      +|...++.+......++..         .+......+...|+.++|.++++.     .+.+...+..+...+.+.|++++
T Consensus       547 ~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~~l~~~G~~~eA~~~l~~-----~p~~~~~~~~La~~~~~~g~~~~  621 (1157)
T PRK11447        547 AALAHLNTLPRAQWNSNIQELAQRLQSDQVLETANRLRDSGKEAEAEALLRQ-----QPPSTRIDLTLADWAQQRGDYAA  621 (1157)
T ss_pred             HHHHHHHhCCchhcChhHHHHHHHHhhhHHHHHHHHHHHCCCHHHHHHHHHh-----CCCCchHHHHHHHHHHHcCCHHH
Confidence            9999998865432222221         233456778899999999999872     24566677888999999999999


Q ss_pred             HHHHHHHHHHCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 003295          691 AKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAE  770 (833)
Q Consensus       691 A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  770 (833)
                      |+..|+++++.. +.+...+..++..|...|++++|++.++...+.. +.+..++..+..++...|++++|.+++++++.
T Consensus       622 A~~~y~~al~~~-P~~~~a~~~la~~~~~~g~~~eA~~~l~~ll~~~-p~~~~~~~~la~~~~~~g~~~eA~~~~~~al~  699 (1157)
T PRK11447        622 ARAAYQRVLTRE-PGNADARLGLIEVDIAQGDLAAARAQLAKLPATA-NDSLNTQRRVALAWAALGDTAAAQRTFNRLIP  699 (1157)
T ss_pred             HHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHhccC-CCChHHHHHHHHHHHhCCCHHHHHHHHHHHhh
Confidence            999999999863 4467888999999999999999999999988753 44567788889999999999999999999987


Q ss_pred             cCC--CC---CHHHHHHHHHHHhcCCCHHHHHHHHHHHHH-CCCCCC
Q 003295          771 KGI--SP---DSITYNVFMDGHCKGGNVEEAFKVCDRMLS-EGLSLD  811 (833)
Q Consensus       771 ~g~--~p---~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~-~g~~p~  811 (833)
                      ..-  .|   +...+..+...+...|++++|+..|++.+. .|+.|+
T Consensus       700 ~~~~~~~~~~~a~~~~~~a~~~~~~G~~~~A~~~y~~Al~~~~~~~~  746 (1157)
T PRK11447        700 QAKSQPPSMESALVLRDAARFEAQTGQPQQALETYKDAMVASGITPT  746 (1157)
T ss_pred             hCccCCcchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhcCCCCC
Confidence            421  22   235677788999999999999999999975 356544

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=100.00  E-value=8.6e-27  Score=283.23  Aligned_cols=594  Identities=12%  Similarity=0.035  Sum_probs=450.6

Q ss_pred             hccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHhhcCCCCCHHHH----------------HHH
Q 003295          195 KNLGFGYAIDVFSIFSSKGIFPSLKTCNFLLNSLVKANEVQKGIEVFETMCRGVSPDVFLF----------------STA  258 (833)
Q Consensus       195 ~~~~~~~A~~~f~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~----------------~~l  258 (833)
                      ..++.+.|.+.++++....+. ++.++..++..+.+.|+.++|.+.+++..+..|.+....                ...
T Consensus        40 ~~~~~d~a~~~l~kl~~~~p~-~p~~~~~~~~~~l~~g~~~~A~~~l~~l~~~~P~~~~~~~~~~~~~~~~~~~~~~l~~  118 (1157)
T PRK11447         40 ATHREDLVRQSLYRLELIDPN-NPDVIAARFRLLLRQGDSDGAQKLLDRLSQLAPDSNAYRSSRTTMLLSTPEGRQALQQ  118 (1157)
T ss_pred             hhCChHHHHHHHHHHHccCCC-CHHHHHHHHHHHHhCCCHHHHHHHHHHHHhhCCCChHHHHHHHHHHhcCCchhhHHHH
Confidence            567889999999998887665 788889999999999999999999999985445554432                334


Q ss_pred             HHHHHhcCChhHHHHHHHHHHHcCCCCChh-hHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCC
Q 003295          259 INAFCKRGRIEDAIGLFTKMEELGIAPNVV-TYNNIIHGLCRNGRLYEAFHLKEKMVLREVEPSLITYSILINGLIKLEK  337 (833)
Q Consensus       259 i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~-~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~  337 (833)
                      ...+.+.|++++|.+.|+++.+.+. |+.. ....+.......|+.++|++.++++.+.. +.+...+..+...+...|+
T Consensus       119 A~ll~~~g~~~eA~~~~~~~l~~~p-~~~~la~~y~~~~~~~~g~~~~A~~~L~~ll~~~-P~~~~~~~~LA~ll~~~g~  196 (1157)
T PRK11447        119 ARLLATTGRTEEALASYDKLFNGAP-PELDLAVEYWRLVAKLPAQRPEAINQLQRLNADY-PGNTGLRNTLALLLFSSGR  196 (1157)
T ss_pred             HHHHHhCCCHHHHHHHHHHHccCCC-CChHHHHHHHHHHhhCCccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHccCC
Confidence            5578899999999999999987643 2321 11111122224699999999999999874 4466778889999999999


Q ss_pred             hhHHHHHHHHHHHCCCCCC--hhh-----------------HHHHHHHHHHcCChHHHHHHHHHHHhCCCCCChhHHHHH
Q 003295          338 FDDANFVLKEMSVRGFVPN--YVV-----------------YNTLIDGYCKKGNISEALKIRDDMVSKGMSPNSVTFNSL  398 (833)
Q Consensus       338 ~~~A~~~~~~m~~~g~~p~--~~~-----------------y~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l  398 (833)
                      .++|+..++++........  ...                 +...+..+-.....++|...++++......|+... ...
T Consensus       197 ~~eAl~~l~~~~~~~~~~~~aa~~~~~~l~~~~~~~~~~~~l~~~l~~~p~~~~~~~A~~~L~~~~~~~~dp~~~~-~~~  275 (1157)
T PRK11447        197 RDEGFAVLEQMAKSPAGRDAAAQLWYGQIKDMPVSDASVAALQKYLQVFSDGDSVAAARSQLAEQQKQLADPAFRA-RAQ  275 (1157)
T ss_pred             HHHHHHHHHHHhhCCCchHHHHHHHHHHHhccCCChhhHHHHHHHHHHCCCchHHHHHHHHHHHHHHhccCcchHH-HHH
Confidence            9999999999976421100  001                 11111111122234556666666554433344322 234


Q ss_pred             HHHHHhcCChhHHHHHHHHHHHCCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCh-hh------------H
Q 003295          399 IHGFCKSGQMDNAENALEEMLSRGLSINQGAYTSVIKWLCINSRFNSALHFTKEMLLRNLRPGD-GL------------L  465 (833)
Q Consensus       399 i~~~~~~g~~~~A~~~l~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~-~~------------~  465 (833)
                      ...+...|++++|+..|++..+.. +.+...+..+...+.+.|++++|+..+++.++....... ..            .
T Consensus       276 G~~~~~~g~~~~A~~~l~~aL~~~-P~~~~a~~~Lg~~~~~~g~~~eA~~~l~~Al~~~p~~~~~~~~~~ll~~~~~~~~  354 (1157)
T PRK11447        276 GLAAVDSGQGGKAIPELQQAVRAN-PKDSEALGALGQAYSQQGDRARAVAQFEKALALDPHSSNRDKWESLLKVNRYWLL  354 (1157)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccchhHHHHHHHhhhHHHH
Confidence            567788999999999999999864 346788999999999999999999999999887654322 11            1


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhc
Q 003295          466 TLLVSGLCKNGKQAEATELCFRLFEKGFTVNTVTSNALIHGMCEAGNLKEAGKLLMEMLQRGLILDKVTYNTLILGCCKD  545 (833)
Q Consensus       466 ~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~l~~m~~~g~~~~~~~~~~li~~~~~~  545 (833)
                      ......+.+.|++++|...++++++... .+...+..+...+...|++++|++.|+++.+..+. +...+..+...+. .
T Consensus       355 ~~~g~~~~~~g~~~eA~~~~~~Al~~~P-~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~p~-~~~a~~~L~~l~~-~  431 (1157)
T PRK11447        355 IQQGDAALKANNLAQAERLYQQARQVDN-TDSYAVLGLGDVAMARKDYAAAERYYQQALRMDPG-NTNAVRGLANLYR-Q  431 (1157)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHH-h
Confidence            2234567899999999999999998743 46778888999999999999999999999987654 5667777777764 5


Q ss_pred             CChhhHHHHHHHHHHCCCC--------CCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHccCC
Q 003295          546 GKPEEGFKLKEDMIKRGIQ--------PDNYTYNLLLHGLCSLGKMEEAIELWEECKRTVFGPDIYTYGVMIDGFCKADK  617 (833)
Q Consensus       546 g~~~~A~~~~~~m~~~g~~--------p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  617 (833)
                      ++.++|..+++.+......        .....+..+...+...|++++|++.|++..+.. +.+...+..+...|.+.|+
T Consensus       432 ~~~~~A~~~l~~l~~~~~~~~~~~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~~-P~~~~~~~~LA~~~~~~G~  510 (1157)
T PRK11447        432 QSPEKALAFIASLSASQRRSIDDIERSLQNDRLAQQAEALENQGKWAQAAELQRQRLALD-PGSVWLTYRLAQDLRQAGQ  510 (1157)
T ss_pred             cCHHHHHHHHHhCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCC
Confidence            6789999888765433110        012245567778889999999999999998864 3356677889999999999


Q ss_pred             HHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHH---------HHHHHHHHHHhcCCH
Q 003295          618 IEEGETLFNEMISKKMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSV---------TYSSLIHGLCNIGLI  688 (833)
Q Consensus       618 ~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~---------~~~~li~~~~~~g~~  688 (833)
                      +++|...++++.+..+. ++..+..+...+.+.|+.++|+..++.+......++..         .+..+...+...|+.
T Consensus       511 ~~~A~~~l~~al~~~P~-~~~~~~a~al~l~~~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~~l~~~G~~  589 (1157)
T PRK11447        511 RSQADALMRRLAQQKPN-DPEQVYAYGLYLSGSDRDRAALAHLNTLPRAQWNSNIQELAQRLQSDQVLETANRLRDSGKE  589 (1157)
T ss_pred             HHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHhCCCHHHHHHHHHhCCchhcChhHHHHHHHHhhhHHHHHHHHHHHCCCH
Confidence            99999999999887554 55666666666788999999999998865432222221         233456778899999


Q ss_pred             HHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 003295          689 EDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVM  768 (833)
Q Consensus       689 ~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m  768 (833)
                      ++|.++++.     .+.+...+..+...+.+.|++++|++.|++..+.. +.+...+..++..|...|++++|++.++++
T Consensus       590 ~eA~~~l~~-----~p~~~~~~~~La~~~~~~g~~~~A~~~y~~al~~~-P~~~~a~~~la~~~~~~g~~~eA~~~l~~l  663 (1157)
T PRK11447        590 AEAEALLRQ-----QPPSTRIDLTLADWAQQRGDYAAARAAYQRVLTRE-PGNADARLGLIEVDIAQGDLAAARAQLAKL  663 (1157)
T ss_pred             HHHHHHHHh-----CCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            999999872     24566777889999999999999999999999864 567889999999999999999999999998


Q ss_pred             HHcCCCC-CHHHHHHHHHHHhcCCCHHHHHHHHHHHHHC
Q 003295          769 AEKGISP-DSITYNVFMDGHCKGGNVEEAFKVCDRMLSE  806 (833)
Q Consensus       769 ~~~g~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  806 (833)
                      .+.  .| +..++..+..++...|++++|.+++++++..
T Consensus       664 l~~--~p~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~  700 (1157)
T PRK11447        664 PAT--ANDSLNTQRRVALAWAALGDTAAAQRTFNRLIPQ  700 (1157)
T ss_pred             hcc--CCCChHHHHHHHHHHHhCCCHHHHHHHHHHHhhh
Confidence            874  44 5567788899999999999999999999874

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.96  E-value=2.8e-23  Score=240.34  Aligned_cols=592  Identities=14%  Similarity=0.077  Sum_probs=425.1

Q ss_pred             HHHHHHHHHHhhhccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHhhcCCCCCHHHHHHHHHHH
Q 003295          183 ADLLVHVYCTQFKNLGFGYAIDVFSIFSSKGIFPSLKTCNFLLNSLVKANEVQKGIEVFETMCRGVSPDVFLFSTAINAF  262 (833)
Q Consensus       183 ~~~l~~~~~~~~~~~~~~~A~~~f~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~  262 (833)
                      ...+..++. ....|++++|++.|+...+..+. +..++..|...|.+.|+.++|+..+++..+..|.|...+..+... 
T Consensus        45 ~~~f~~a~~-~~~~Gd~~~A~~~l~~Al~~dP~-n~~~~~~LA~~yl~~g~~~~A~~~~~kAv~ldP~n~~~~~~La~i-  121 (987)
T PRK09782         45 YPRLDKALK-AQKNNDEATAIREFEYIHQQVPD-NIPLTLYLAEAYRHFGHDDRARLLLEDQLKRHPGDARLERSLAAI-  121 (987)
T ss_pred             HHHHHHHHH-HHhCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCcccHHHHHHHHHh-
Confidence            344444443 23569999999999999998877 588899999999999999999999999997777777776665222 


Q ss_pred             HhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHH--------HHhcCChhHHHHHHHHHHhCCCCCChhhHHH-HHHHHH
Q 003295          263 CKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIHG--------LCRNGRLYEAFHLKEKMVLREVEPSLITYSI-LINGLI  333 (833)
Q Consensus       263 ~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~--------~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~-li~~~~  333 (833)
                         +++++|..+++++.+..+. +..++..+...        |.+.   ++|.+.++ .......|+..+... +...|.
T Consensus       122 ---~~~~kA~~~ye~l~~~~P~-n~~~~~~la~~~~~~~~l~y~q~---eqAl~AL~-lr~~~~~~~~~vL~L~~~rlY~  193 (987)
T PRK09782        122 ---PVEVKSVTTVEELLAQQKA-CDAVPTLRCRSEVGQNALRLAQL---PVARAQLN-DATFAASPEGKTLRTDLLQRAI  193 (987)
T ss_pred             ---ccChhHHHHHHHHHHhCCC-ChhHHHHHHHHhhccchhhhhhH---HHHHHHHH-HhhhCCCCCcHHHHHHHHHHHH
Confidence               9999999999999987543 45555555554        6555   55555554 333223334444444 489999


Q ss_pred             hcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHH-cCChHHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChhHHH
Q 003295          334 KLEKFDDANFVLKEMSVRGFVPNYVVYNTLIDGYCK-KGNISEALKIRDDMVSKGMSPNSVTFNSLIHGFCKSGQMDNAE  412 (833)
Q Consensus       334 ~~g~~~~A~~~~~~m~~~g~~p~~~~y~~li~~~~~-~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~  412 (833)
                      +.|++++|+.+++++.+.+.. +..-...|...|.. .++ +++..+++..    ++-+...+..++..|.+.|+.++|.
T Consensus       194 ~l~dw~~Ai~lL~~L~k~~pl-~~~~~~~L~~ay~q~l~~-~~a~al~~~~----lk~d~~l~~ala~~yi~~G~~~~A~  267 (987)
T PRK09782        194 YLKQWSQADTLYNEARQQNTL-SAAERRQWFDVLLAGQLD-DRLLALQSQG----IFTDPQSRITYATALAYRGEKARLQ  267 (987)
T ss_pred             HHhCHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHhhCH-HHHHHHhchh----cccCHHHHHHHHHHHHHCCCHHHHH
Confidence            999999999999999998643 45556777778888 477 8888886642    3347888999999999999999999


Q ss_pred             HHHHHHHHCCCC-CCcccHH------------------------------HHHHHHHhcCChhHHHHHHHHHHHCCCCCC
Q 003295          413 NALEEMLSRGLS-INQGAYT------------------------------SVIKWLCINSRFNSALHFTKEMLLRNLRPG  461 (833)
Q Consensus       413 ~~l~~~~~~g~~-~~~~~~~------------------------------~li~~~~~~g~~~~A~~~~~~~~~~~~~~~  461 (833)
                      ++++++...... |...+|.                              .++..+.+++.++.+.++.      .+.|.
T Consensus       268 ~~L~~~~~~~~~~~~~~~~~~~l~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------~~~~~  341 (987)
T PRK09782        268 HYLIENKPLFTTDAQEKSWLYLLSKYSANPVQALANYTVQFADNRQYVVGATLPVLLKEGQYDAAQKLL------ATLPA  341 (987)
T ss_pred             HHHHhCcccccCCCccHHHHHHHHhccCchhhhccchhhhhHHHHHHHHHHHHHHHHhccHHHHHHHHh------cCCCc
Confidence            999987654222 2222211                              2245556666666554441      23444


Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhC-C-CCCCHHHHHHHH
Q 003295          462 DGLLTLLVSGLCKNGKQAEATELCFRLFEKGFTVNTVTSNALIHGMCEAGNLKEAGKLLMEMLQR-G-LILDKVTYNTLI  539 (833)
Q Consensus       462 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~l~~m~~~-g-~~~~~~~~~~li  539 (833)
                      ......-..+....+...++.+.++.+.... +-+....-.+.-...+.|+.++|..+|...... + -.++.....-|+
T Consensus       342 ~~~~~~r~~~~~~~~~~~~~~~~~~~~y~~~-~~~~~~l~q~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~l~  420 (987)
T PRK09782        342 NEMLEERYAVSVATRNKAEALRLARLLYQQE-PANLTRLDQLTWQLMQNGQSREAADLLLQRYPFQGDARLSQTLMARLA  420 (987)
T ss_pred             chHHHHHHhhccccCchhHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcccHHHHHHHHHHhcCCCcccccCHHHHHHHH
Confidence            3332111112234467777777777777652 224555555555667889999999999998773 1 222344445777


Q ss_pred             HHHHhcCC---hhhHHHH----------------------HHHHHHC-CC-CC--CHHHHHHHHHHHHhcCCHHHHHHHH
Q 003295          540 LGCCKDGK---PEEGFKL----------------------KEDMIKR-GI-QP--DNYTYNLLLHGLCSLGKMEEAIELW  590 (833)
Q Consensus       540 ~~~~~~g~---~~~A~~~----------------------~~~m~~~-g~-~p--~~~~~~~li~~~~~~g~~~~A~~~~  590 (833)
                      ..|.+.+.   ..++..+                      .+..... +. ++  +...|..+..++.. ++.++|...+
T Consensus       421 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~al~~~p~~~~~~a~~~LG~~l~~-~~~~eAi~a~  499 (987)
T PRK09782        421 SLLESHPYLATPAKVAILSKPLPLAEQRQWQSQLPGIADNCPAIVRLLGDMSPSYDAAAWNRLAKCYRD-TLPGVALYAW  499 (987)
T ss_pred             HHHHhCCcccchHHHHHhccccccchhHHHHhhhhhhhhhHHHHHHhcccCCCCCCHHHHHHHHHHHHh-CCcHHHHHHH
Confidence            77777766   2333222                      1111111 11 23  56677778877776 8888999988


Q ss_pred             HHHhhCCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCC
Q 003295          591 EECKRTVFGPDIYTYGVMIDGFCKADKIEEGETLFNEMISKKMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILP  670 (833)
Q Consensus       591 ~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p  670 (833)
                      .+....  .|+......+...+...|++++|...|+++...  .|+...+..+...+.+.|+.++|...+++..+.. +.
T Consensus       500 ~~Al~~--~Pd~~~~L~lA~al~~~Gr~eeAi~~~rka~~~--~p~~~a~~~la~all~~Gd~~eA~~~l~qAL~l~-P~  574 (987)
T PRK09782        500 LQAEQR--QPDAWQHRAVAYQAYQVEDYATALAAWQKISLH--DMSNEDLLAAANTAQAAGNGAARDRWLQQAEQRG-LG  574 (987)
T ss_pred             HHHHHh--CCchHHHHHHHHHHHHCCCHHHHHHHHHHHhcc--CCCcHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-Cc
Confidence            887765  366544444455557899999999999998665  3444556777888899999999999999998874 33


Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 003295          671 TSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIG  750 (833)
Q Consensus       671 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~  750 (833)
                      +...+..+.......|++++|...+++.++.  .|+...|..+...+.+.|+.++|+..+++..+.. +.+...++.+..
T Consensus       575 ~~~l~~~La~~l~~~Gr~~eAl~~~~~AL~l--~P~~~a~~~LA~~l~~lG~~deA~~~l~~AL~l~-Pd~~~a~~nLG~  651 (987)
T PRK09782        575 DNALYWWLHAQRYIPGQPELALNDLTRSLNI--APSANAYVARATIYRQRHNVPAAVSDLRAALELE-PNNSNYQAALGY  651 (987)
T ss_pred             cHHHHHHHHHHHHhCCCHHHHHHHHHHHHHh--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHH
Confidence            3333444444555669999999999999985  5788889999999999999999999999999864 556778899999


Q ss_pred             HHHhcCCHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhcCCCHHHHHHHHHHHHHCCCCCC
Q 003295          751 GYCKLGDMKEAAKLLNVMAEKGISP-DSITYNVFMDGHCKGGNVEEAFKVCDRMLSEGLSLD  811 (833)
Q Consensus       751 ~~~~~g~~~~A~~~~~~m~~~g~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~p~  811 (833)
                      ++...|++++|+..++++++.  .| +...+..+..++...|++++|...+++.++  +.|+
T Consensus       652 aL~~~G~~eeAi~~l~~AL~l--~P~~~~a~~nLA~al~~lGd~~eA~~~l~~Al~--l~P~  709 (987)
T PRK09782        652 ALWDSGDIAQSREMLERAHKG--LPDDPALIRQLAYVNQRLDDMAATQHYARLVID--DIDN  709 (987)
T ss_pred             HHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHh--cCCC
Confidence            999999999999999999984  45 678899999999999999999999999998  5565

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.96  E-value=1.6e-22  Score=234.08  Aligned_cols=640  Identities=12%  Similarity=0.045  Sum_probs=438.3

Q ss_pred             CCChHHHHHHHHhhhhcCCCCCCHHHHHHHHHHHHhCCCchhHHHHHHHHHcCCCCccccCCCcchHHHHHHHHhhhhcc
Q 003295           94 NVNPKTALKFFYFASQSCNFRFTVRSYCLLIRLLLFSNLLSPARLLLIRLIDGKMPVLYASNPSIRHIEIASQMVDLNVT  173 (833)
Q Consensus        94 ~~~~~~a~~ff~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~a~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  173 (833)
                      .+|++.|+..|+-+-+..  +.++.++..|++.+...|.+++|+..+.+.++..       |                  
T Consensus        57 ~Gd~~~A~~~l~~Al~~d--P~n~~~~~~LA~~yl~~g~~~~A~~~~~kAv~ld-------P------------------  109 (987)
T PRK09782         57 NNDEATAIREFEYIHQQV--PDNIPLTLYLAEAYRHFGHDDRARLLLEDQLKRH-------P------------------  109 (987)
T ss_pred             CCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-------c------------------
Confidence            478888888888876644  7778888888899999999999988888887654       1                  


Q ss_pred             cCCcchhhhHHHHHHHHHHhhhccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHH--------HHhcCChhHHHHHHHHhh
Q 003295          174 SEPALGVQIADLLVHVYCTQFKNLGFGYAIDVFSIFSSKGIFPSLKTCNFLLNS--------LVKANEVQKGIEVFETMC  245 (833)
Q Consensus       174 ~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~f~~~~~~~~~p~~~~~~~ll~~--------~~~~g~~~~A~~~~~~~~  245 (833)
                          ........|.     .  -+.+.+|..+|+++.+..+. +..++..+...        |.+.+...+++.  ... 
T Consensus       110 ----~n~~~~~~La-----~--i~~~~kA~~~ye~l~~~~P~-n~~~~~~la~~~~~~~~l~y~q~eqAl~AL~--lr~-  174 (987)
T PRK09782        110 ----GDARLERSLA-----A--IPVEVKSVTTVEELLAQQKA-CDAVPTLRCRSEVGQNALRLAQLPVARAQLN--DAT-  174 (987)
T ss_pred             ----ccHHHHHHHH-----H--hccChhHHHHHHHHHHhCCC-ChhHHHHHHHHhhccchhhhhhHHHHHHHHH--Hhh-
Confidence                0111122221     1  15677888889888877655 44555555554        555544444444  111 


Q ss_pred             cCCCCCHHHHHH-HHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHh-cCChhHHHHHHHHHHhCCCCCChh
Q 003295          246 RGVSPDVFLFST-AINAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIHGLCR-NGRLYEAFHLKEKMVLREVEPSLI  323 (833)
Q Consensus       246 ~~~~~~~~~~~~-li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~-~g~~~~A~~~~~~m~~~~~~p~~~  323 (833)
                      ....|+..+... +.+.|.+.|++++|++.+.++.+.++. +..-...|..+|.. .++ +++..+++.    .+..|..
T Consensus       175 ~~~~~~~~vL~L~~~rlY~~l~dw~~Ai~lL~~L~k~~pl-~~~~~~~L~~ay~q~l~~-~~a~al~~~----~lk~d~~  248 (987)
T PRK09782        175 FAASPEGKTLRTDLLQRAIYLKQWSQADTLYNEARQQNTL-SAAERRQWFDVLLAGQLD-DRLLALQSQ----GIFTDPQ  248 (987)
T ss_pred             hCCCCCcHHHHHHHHHHHHHHhCHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHhhCH-HHHHHHhch----hcccCHH
Confidence            222333443333 488888899999999999999887643 44556677778877 466 777777553    2235778


Q ss_pred             hHHHHHHHHHhcCChhHHHHHHHHHHHCCCC-CChhhHHHHHHHHHHcCChH-HHHHHHHHHHhCCCCCCh-hHHHHHHH
Q 003295          324 TYSILINGLIKLEKFDDANFVLKEMSVRGFV-PNYVVYNTLIDGYCKKGNIS-EALKIRDDMVSKGMSPNS-VTFNSLIH  400 (833)
Q Consensus       324 t~~~li~~~~~~g~~~~A~~~~~~m~~~g~~-p~~~~y~~li~~~~~~g~~~-~A~~~~~~m~~~g~~p~~-~~~~~li~  400 (833)
                      .+..++..|.+.|+.++|..+++++...-.. |+..+|.-+   +.+.+... .|..-|.+    ...++. .....++.
T Consensus       249 l~~ala~~yi~~G~~~~A~~~L~~~~~~~~~~~~~~~~~~~---l~r~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~  321 (987)
T PRK09782        249 SRITYATALAYRGEKARLQHYLIENKPLFTTDAQEKSWLYL---LSKYSANPVQALANYTV----QFADNRQYVVGATLP  321 (987)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHhCcccccCCCccHHHHHH---HHhccCchhhhccchhh----hhHHHHHHHHHHHHH
Confidence            8888888899999999999888887654222 444443333   34444432 11111111    011111 12233477


Q ss_pred             HHHhcCChhHHHHHHHHHHHCCCCCCcccHHHHHHHH--HhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCH
Q 003295          401 GFCKSGQMDNAENALEEMLSRGLSINQGAYTSVIKWL--CINSRFNSALHFTKEMLLRNLRPGDGLLTLLVSGLCKNGKQ  478 (833)
Q Consensus       401 ~~~~~g~~~~A~~~l~~~~~~g~~~~~~~~~~li~~~--~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~  478 (833)
                      .+.+.++++.+.++..      ..|....  ...+..  ...+...++.+.+..|.+.... +......+.-...+.|+.
T Consensus       322 ~~~~~~~~~~~~~~~~------~~~~~~~--~~~r~~~~~~~~~~~~~~~~~~~~y~~~~~-~~~~l~q~~~~~~~~~~~  392 (987)
T PRK09782        322 VLLKEGQYDAAQKLLA------TLPANEM--LEERYAVSVATRNKAEALRLARLLYQQEPA-NLTRLDQLTWQLMQNGQS  392 (987)
T ss_pred             HHHhccHHHHHHHHhc------CCCcchH--HHHHHhhccccCchhHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHcccH
Confidence            7888888886665522      2222222  222222  2336677777777777665332 333444445556788899


Q ss_pred             HHHHHHHHHHHHC-C-CCCCHHHHHHHHHHHHhcCC---HHHHHHH-------------------------HHHHhhCCC
Q 003295          479 AEATELCFRLFEK-G-FTVNTVTSNALIHGMCEAGN---LKEAGKL-------------------------LMEMLQRGL  528 (833)
Q Consensus       479 ~~A~~~~~~~~~~-g-~~~~~~~~~~li~~~~~~g~---~~~A~~~-------------------------l~~m~~~g~  528 (833)
                      ++|..++++.... + ...+....+-++..|.+.+.   ..++..+                         +...... .
T Consensus       393 ~~a~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~al~~-~  471 (987)
T PRK09782        393 REAADLLLQRYPFQGDARLSQTLMARLASLLESHPYLATPAKVAILSKPLPLAEQRQWQSQLPGIADNCPAIVRLLGD-M  471 (987)
T ss_pred             HHHHHHHHHhcCCCcccccCHHHHHHHHHHHHhCCcccchHHHHHhccccccchhHHHHhhhhhhhhhHHHHHHhccc-C
Confidence            9999999988773 1 22244555577777777765   3333222                         1122211 1


Q ss_pred             CC--CHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHH
Q 003295          529 IL--DKVTYNTLILGCCKDGKPEEGFKLKEDMIKRGIQPDNYTYNLLLHGLCSLGKMEEAIELWEECKRTVFGPDIYTYG  606 (833)
Q Consensus       529 ~~--~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~  606 (833)
                      ++  +...|..+..++.. ++.++|...+.+....  .|+......+...+...|++++|...|+++...  +|+...+.
T Consensus       472 p~~~~~~a~~~LG~~l~~-~~~~eAi~a~~~Al~~--~Pd~~~~L~lA~al~~~Gr~eeAi~~~rka~~~--~p~~~a~~  546 (987)
T PRK09782        472 SPSYDAAAWNRLAKCYRD-TLPGVALYAWLQAEQR--QPDAWQHRAVAYQAYQVEDYATALAAWQKISLH--DMSNEDLL  546 (987)
T ss_pred             CCCCCHHHHHHHHHHHHh-CCcHHHHHHHHHHHHh--CCchHHHHHHHHHHHHCCCHHHHHHHHHHHhcc--CCCcHHHH
Confidence            23  56778888877776 8899999988888876  356554444555667899999999999998664  45555566


Q ss_pred             HHHHHHHccCCHHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC
Q 003295          607 VMIDGFCKADKIEEGETLFNEMISKKMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIG  686 (833)
Q Consensus       607 ~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g  686 (833)
                      .+...+.+.|+.++|...+++.++..+. +...+..+.....+.|++++|...+++..+.  .|+...+..+...+.+.|
T Consensus       547 ~la~all~~Gd~~eA~~~l~qAL~l~P~-~~~l~~~La~~l~~~Gr~~eAl~~~~~AL~l--~P~~~a~~~LA~~l~~lG  623 (987)
T PRK09782        547 AAANTAQAAGNGAARDRWLQQAEQRGLG-DNALYWWLHAQRYIPGQPELALNDLTRSLNI--APSANAYVARATIYRQRH  623 (987)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHhcCCc-cHHHHHHHHHHHHhCCCHHHHHHHHHHHHHh--CCCHHHHHHHHHHHHHCC
Confidence            7778889999999999999999987533 3344444444555669999999999999987  457888999999999999


Q ss_pred             CHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 003295          687 LIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLN  766 (833)
Q Consensus       687 ~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~  766 (833)
                      +.++|+..+++..+.. +.+...++.+...+...|+.++|+..+++..+.. +-+...+..+..++...|++++|+..++
T Consensus       624 ~~deA~~~l~~AL~l~-Pd~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l~-P~~~~a~~nLA~al~~lGd~~eA~~~l~  701 (987)
T PRK09782        624 NVPAAVSDLRAALELE-PNNSNYQAALGYALWDSGDIAQSREMLERAHKGL-PDDPALIRQLAYVNQRLDDMAATQHYAR  701 (987)
T ss_pred             CHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            9999999999999863 4466788888899999999999999999999864 5567899999999999999999999999


Q ss_pred             HHHHcCCCCCH-HHHHHHHHHHhcCCCHHHHHHHHHHHHHCCCCCCH
Q 003295          767 VMAEKGISPDS-ITYNVFMDGHCKGGNVEEAFKVCDRMLSEGLSLDE  812 (833)
Q Consensus       767 ~m~~~g~~p~~-~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~p~~  812 (833)
                      ++++  +.|+. .+.....+...+..+++.|.+.+.+...  +.|+.
T Consensus       702 ~Al~--l~P~~a~i~~~~g~~~~~~~~~~~a~~~~~r~~~--~~~~~  744 (987)
T PRK09782        702 LVID--DIDNQALITPLTPEQNQQRFNFRRLHEEVGRRWT--FSFDS  744 (987)
T ss_pred             HHHh--cCCCCchhhhhhhHHHHHHHHHHHHHHHHHHHhh--cCccc
Confidence            9998  55754 6666777888888888888888877766  44443

>KOG2002 consensus TPR-containing nuclear phosphoprotein that regulates K(+) uptake [Inorganic ion transport and metabolism]

Probab=99.93  E-value=3e-19  Score=192.58  Aligned_cols=664  Identities=12%  Similarity=0.082  Sum_probs=461.2

Q ss_pred             HHHHHHHHHHHHhCCCchhHHHHHHHHHcCCCCccccCCCcchHHHHHHHHhhhhcccCCcchhhhHHHHHHHHHHh-h-
Q 003295          117 VRSYCLLIRLLLFSNLLSPARLLLIRLIDGKMPVLYASNPSIRHIEIASQMVDLNVTSEPALGVQIADLLVHVYCTQ-F-  194 (833)
Q Consensus       117 ~~~~~~l~~~l~~~~~~~~a~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~-  194 (833)
                      ...|...+.-+.+.|+.++...+|..-+..... .+..+    ....                ....+.|..-|... + 
T Consensus        41 le~wi~~AleYy~~gk~eefi~iLE~g~~~~~~-~y~d~----~~~~----------------~~a~~~laay~s~~a~k   99 (1018)
T KOG2002|consen   41 LEAWIEIALEYYKQGKTEEFIKILESGLIDANE-EYADV----KSDQ----------------MKALDILAAYYSQLAMK   99 (1018)
T ss_pred             hhHHHHHHHHHHhcccHHHHHHHHHhhhhcccc-hhcch----HHHH----------------HHHHHHHHHHHHHHHHH
Confidence            457888889999999999999998776522100 00010    0010                11122222211100 0 


Q ss_pred             ------hccCHHHHHHHHHHHHhCCCC-CCHHHHHHHHHHHHhcCC--hhHHHHHHHHhhcCCCCCHHHHHHHHHHHHhc
Q 003295          195 ------KNLGFGYAIDVFSIFSSKGIF-PSLKTCNFLLNSLVKANE--VQKGIEVFETMCRGVSPDVFLFSTAINAFCKR  265 (833)
Q Consensus       195 ------~~~~~~~A~~~f~~~~~~~~~-p~~~~~~~ll~~~~~~g~--~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~  265 (833)
                            +...+..|.-.|+..-..... ++..+....  .|...|.  ++.|...|..+++..++|+-.+..-.......
T Consensus       100 ek~~~~k~e~~~~at~~~~~A~ki~m~~~~~l~~~~~--~~l~~~~~~~~~A~a~F~~Vl~~sp~Nil~LlGkA~i~ynk  177 (1018)
T KOG2002|consen  100 EKKKDEKDELFDKATLLFDLADKIDMYEDSHLLVQRG--FLLLEGDKSMDDADAQFHFVLKQSPDNILALLGKARIAYNK  177 (1018)
T ss_pred             HHhcchhHHHHHHHHHHhhHHHHhhccCcchhhhhhh--hhhhcCCccHHHHHHHHHHHHhhCCcchHHHHHHHHHHhcc
Confidence                  111133455555544332211 111111111  1223333  58899999888866677877765555566678


Q ss_pred             CChhHHHHHHHHHHHcC--CCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCh-hhHHHHHHHHH---hcCChh
Q 003295          266 GRIEDAIGLFTKMEELG--IAPNVVTYNNIIHGLCRNGRLYEAFHLKEKMVLREVEPSL-ITYSILINGLI---KLEKFD  339 (833)
Q Consensus       266 g~~~~A~~~~~~m~~~g--~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~-~t~~~li~~~~---~~g~~~  339 (833)
                      |++..|+.+|.......  +.||+.  -.+...+.+.|+.+.|+..|++..+.  .|+. .++-.|.-.-.   ....+.
T Consensus       178 kdY~~al~yyk~al~inp~~~aD~r--Igig~Cf~kl~~~~~a~~a~~ralqL--dp~~v~alv~L~~~~l~~~d~~s~~  253 (1018)
T KOG2002|consen  178 KDYRGALKYYKKALRINPACKADVR--IGIGHCFWKLGMSEKALLAFERALQL--DPTCVSALVALGEVDLNFNDSDSYK  253 (1018)
T ss_pred             ccHHHHHHHHHHHHhcCcccCCCcc--chhhhHHHhccchhhHHHHHHHHHhc--ChhhHHHHHHHHHHHHHccchHHHH
Confidence            89999999999976543  334443  23345556889999999999999876  3433 23322222111   223456


Q ss_pred             HHHHHHHHHHHCCCCCChhhHHHHHHHHHHcCChHHHHHHHHHHHhCCCCC--ChhHHHHHHHHHHhcCChhHHHHHHHH
Q 003295          340 DANFVLKEMSVRGFVPNYVVYNTLIDGYCKKGNISEALKIRDDMVSKGMSP--NSVTFNSLIHGFCKSGQMDNAENALEE  417 (833)
Q Consensus       340 ~A~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~A~~~~~~m~~~g~~p--~~~~~~~li~~~~~~g~~~~A~~~l~~  417 (833)
                      .+..++...-.... -|++..+.|...|.-.|++..+..+...+......-  -...|--+.++|-..|++++|...|.+
T Consensus       254 ~~~~ll~~ay~~n~-~nP~~l~~LAn~fyfK~dy~~v~~la~~ai~~t~~~~~~aes~Y~~gRs~Ha~Gd~ekA~~yY~~  332 (1018)
T KOG2002|consen  254 KGVQLLQRAYKENN-ENPVALNHLANHFYFKKDYERVWHLAEHAIKNTENKSIKAESFYQLGRSYHAQGDFEKAFKYYME  332 (1018)
T ss_pred             HHHHHHHHHHhhcC-CCcHHHHHHHHHHhhcccHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHhhccHHHHHHHHHH
Confidence            67777766655432 267788888999999999999999998888753211  123466788899999999999999988


Q ss_pred             HHHCCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcC----CHHHHHHHHHHHHHCCC
Q 003295          418 MLSRGLSINQGAYTSVIKWLCINSRFNSALHFTKEMLLRNLRPGDGLLTLLVSGLCKNG----KQAEATELCFRLFEKGF  493 (833)
Q Consensus       418 ~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g----~~~~A~~~~~~~~~~g~  493 (833)
                      ..+....-....+.-+...+.+.|+++.+...|.......+. +..+...|...|...+    ..+.|..++.+..+.. 
T Consensus       333 s~k~~~d~~~l~~~GlgQm~i~~~dle~s~~~fEkv~k~~p~-~~etm~iLG~Lya~~~~~~~~~d~a~~~l~K~~~~~-  410 (1018)
T KOG2002|consen  333 SLKADNDNFVLPLVGLGQMYIKRGDLEESKFCFEKVLKQLPN-NYETMKILGCLYAHSAKKQEKRDKASNVLGKVLEQT-  410 (1018)
T ss_pred             HHccCCCCccccccchhHHHHHhchHHHHHHHHHHHHHhCcc-hHHHHHHHHhHHHhhhhhhHHHHHHHHHHHHHHhcc-
Confidence            877543333455677888899999999999999888876433 5567777777777765    5677888887777763 


Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHH----hhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHC---CCCCC
Q 003295          494 TVNTVTSNALIHGMCEAGNLKEAGKLLMEM----LQRGLILDKVTYNTLILGCCKDGKPEEGFKLKEDMIKR---GIQPD  566 (833)
Q Consensus       494 ~~~~~~~~~li~~~~~~g~~~~A~~~l~~m----~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~---g~~p~  566 (833)
                      +.|...|-.+...+-...-+.. +..|..+    ...+-.+.+...|.+.......|++++|...|......   ...+|
T Consensus       411 ~~d~~a~l~laql~e~~d~~~s-L~~~~~A~d~L~~~~~~ip~E~LNNvaslhf~~g~~~~A~~~f~~A~~~~~~~~n~d  489 (1018)
T KOG2002|consen  411 PVDSEAWLELAQLLEQTDPWAS-LDAYGNALDILESKGKQIPPEVLNNVASLHFRLGNIEKALEHFKSALGKLLEVANKD  489 (1018)
T ss_pred             cccHHHHHHHHHHHHhcChHHH-HHHHHHHHHHHHHcCCCCCHHHHHhHHHHHHHhcChHHHHHHHHHHhhhhhhhcCcc
Confidence            4578888888887766554444 6666544    34455578889999999999999999999999998765   12223


Q ss_pred             H------HHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCC-HhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCccCHHH
Q 003295          567 N------YTYNLLLHGLCSLGKMEEAIELWEECKRTVFGPD-IYTYGVMIDGFCKADKIEEGETLFNEMISKKMELNPVV  639 (833)
Q Consensus       567 ~------~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~-~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~  639 (833)
                      .      .+-..+....-..++.+.|.+.|..+.+..  |+ +..|..+.-+....+...+|...+.+.....- .++..
T Consensus       490 e~~~~~lt~~YNlarl~E~l~~~~~A~e~Yk~Ilkeh--p~YId~ylRl~~ma~~k~~~~ea~~~lk~~l~~d~-~np~a  566 (1018)
T KOG2002|consen  490 EGKSTNLTLKYNLARLLEELHDTEVAEEMYKSILKEH--PGYIDAYLRLGCMARDKNNLYEASLLLKDALNIDS-SNPNA  566 (1018)
T ss_pred             ccccchhHHHHHHHHHHHhhhhhhHHHHHHHHHHHHC--chhHHHHHHhhHHHHhccCcHHHHHHHHHHHhccc-CCcHH
Confidence            2      234446666777789999999999998863  44 34454444344445788899999999887654 37888


Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHhC-CCCCCHHHHHHHHHHHHh------------cCCHHHHHHHHHHHHHCCCCCC
Q 003295          640 YNTLIRAYCKIGNTTAAFRLSNDMKSR-GILPTSVTYSSLIHGLCN------------IGLIEDAKCLFDEMRKEGLLPN  706 (833)
Q Consensus       640 ~~~li~~~~~~g~~~~A~~~~~~m~~~-~~~p~~~~~~~li~~~~~------------~g~~~~A~~~~~~m~~~g~~p~  706 (833)
                      +..+...+.+...+..|.+-|+...+. ...+|..+..+|.+.|.+            .+..++|+++|.+.++.. +-|
T Consensus       567 rsl~G~~~l~k~~~~~a~k~f~~i~~~~~~~~D~YsliaLGN~~~~~l~~~~rn~ek~kk~~~KAlq~y~kvL~~d-pkN  645 (1018)
T KOG2002|consen  567 RSLLGNLHLKKSEWKPAKKKFETILKKTSTKTDAYSLIALGNVYIQALHNPSRNPEKEKKHQEKALQLYGKVLRND-PKN  645 (1018)
T ss_pred             HHHHHHHHHhhhhhcccccHHHHHHhhhccCCchhHHHHhhHHHHHHhcccccChHHHHHHHHHHHHHHHHHHhcC-cch
Confidence            888888999999998898877776654 223677777777776642            345788999999999863 458


Q ss_pred             hhHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCC-CCCHHHHHHHHH
Q 003295          707 VACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAEKGI-SPDSITYNVFMD  785 (833)
Q Consensus       707 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~-~p~~~~~~~l~~  785 (833)
                      ...-|.+.-.++..|++.+|..+|.+..+.. ..+..+|-.+.++|...|+|..|+++|+....+-. .-+..+...|.+
T Consensus       646 ~yAANGIgiVLA~kg~~~~A~dIFsqVrEa~-~~~~dv~lNlah~~~e~~qy~~AIqmYe~~lkkf~~~~~~~vl~~Lar  724 (1018)
T KOG2002|consen  646 MYAANGIGIVLAEKGRFSEARDIFSQVREAT-SDFEDVWLNLAHCYVEQGQYRLAIQMYENCLKKFYKKNRSEVLHYLAR  724 (1018)
T ss_pred             hhhccchhhhhhhccCchHHHHHHHHHHHHH-hhCCceeeeHHHHHHHHHHHHHHHHHHHHHHHHhcccCCHHHHHHHHH
Confidence            8888999999999999999999999999864 44667899999999999999999999999887533 347788999999


Q ss_pred             HHhcCCCHHHHHHHHHHHHHCCCCCCHHHHH
Q 003295          786 GHCKGGNVEEAFKVCDRMLSEGLSLDEITYT  816 (833)
Q Consensus       786 ~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~  816 (833)
                      ++.+.|++.+|.+++.........-...-++
T Consensus       725 a~y~~~~~~eak~~ll~a~~~~p~~~~v~FN  755 (1018)
T KOG2002|consen  725 AWYEAGKLQEAKEALLKARHLAPSNTSVKFN  755 (1018)
T ss_pred             HHHHhhhHHHHHHHHHHHHHhCCccchHHhH
Confidence            9999999999999998888743332344444

>KOG4626 consensus O-linked N-acetylglucosamine transferase OGT [Carbohydrate transport and metabolism; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=99.93  E-value=3.5e-22  Score=203.69  Aligned_cols=430  Identities=14%  Similarity=0.065  Sum_probs=199.3

Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCChhHHHHHHHHHHhc
Q 003295          326 SILINGLIKLEKFDDANFVLKEMSVRGFVPNYVVYNTLIDGYCKKGNISEALKIRDDMVSKGMSPNSVTFNSLIHGFCKS  405 (833)
Q Consensus       326 ~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~  405 (833)
                      ..|.+-..+.|++++|++.-...-..+. .+....-.+-.++.+..+++.....-....+...+ -..+|..+.+.+-..
T Consensus        52 l~lah~~yq~gd~~~a~~h~nmv~~~d~-t~~~~llll~ai~~q~~r~d~s~a~~~~a~r~~~q-~ae~ysn~aN~~ker  129 (966)
T KOG4626|consen   52 LELAHRLYQGGDYKQAEKHCNMVGQEDP-TNTERLLLLSAIFFQGSRLDKSSAGSLLAIRKNPQ-GAEAYSNLANILKER  129 (966)
T ss_pred             HHHHHHHHhccCHHHHHHHHhHhhccCC-Ccccceeeehhhhhcccchhhhhhhhhhhhhccch-HHHHHHHHHHHHHHh
Confidence            3455555666666666665544433311 11222222333455555555544443333333222 345666666666666


Q ss_pred             CChhHHHHHHHHHHHCCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHH
Q 003295          406 GQMDNAENALEEMLSRGLSINQGAYTSVIKWLCINSRFNSALHFTKEMLLRNLRPGDGLLTLLVSGLCKNGKQAEATELC  485 (833)
Q Consensus       406 g~~~~A~~~l~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~  485 (833)
                      |++++|+++++.+++... -....|..+..++...|+.+.|.+.|.+.++.++. .....+.+...+...|++++|..-+
T Consensus       130 g~~~~al~~y~~aiel~p-~fida~inla~al~~~~~~~~a~~~~~~alqlnP~-l~ca~s~lgnLlka~Grl~ea~~cY  207 (966)
T KOG4626|consen  130 GQLQDALALYRAAIELKP-KFIDAYINLAAALVTQGDLELAVQCFFEALQLNPD-LYCARSDLGNLLKAEGRLEEAKACY  207 (966)
T ss_pred             chHHHHHHHHHHHHhcCc-hhhHHHhhHHHHHHhcCCCcccHHHHHHHHhcCcc-hhhhhcchhHHHHhhcccchhHHHH
Confidence            666777666666666532 24555666666666666666666666555543321 0112223333334445555555555


Q ss_pred             HHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCC
Q 003295          486 FRLFEKGFTVNTVTSNALIHGMCEAGNLKEAGKLLMEMLQRGLILDKVTYNTLILGCCKDGKPEEGFKLKEDMIKRGIQP  565 (833)
Q Consensus       486 ~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~l~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p  565 (833)
                      .+.++... .-.+.|+.|...+-.+|+...|+..|++..+..+. =...|-.|...|...+.++.|+..+.+....... 
T Consensus       208 lkAi~~qp-~fAiawsnLg~~f~~~Gei~~aiq~y~eAvkldP~-f~dAYiNLGnV~ke~~~~d~Avs~Y~rAl~lrpn-  284 (966)
T KOG4626|consen  208 LKAIETQP-CFAIAWSNLGCVFNAQGEIWLAIQHYEEAVKLDPN-FLDAYINLGNVYKEARIFDRAVSCYLRALNLRPN-  284 (966)
T ss_pred             HHHHhhCC-ceeeeehhcchHHhhcchHHHHHHHHHHhhcCCCc-chHHHhhHHHHHHHHhcchHHHHHHHHHHhcCCc-
Confidence            44444321 12334455555555555555555555554444322 2234444444444444555555444444443211 


Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCC-HhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCccCHHHHHHHH
Q 003295          566 DNYTYNLLLHGLCSLGKMEEAIELWEECKRTVFGPD-IYTYGVMIDGFCKADKIEEGETLFNEMISKKMELNPVVYNTLI  644 (833)
Q Consensus       566 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~-~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li  644 (833)
                      ..+.+..+...|...|.++.|+..|++.++.  .|+ ...|+.|..++-..|++.+|+..+.+.+...+. -..+.+.+.
T Consensus       285 ~A~a~gNla~iYyeqG~ldlAI~~Ykral~~--~P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL~l~p~-hadam~NLg  361 (966)
T KOG4626|consen  285 HAVAHGNLACIYYEQGLLDLAIDTYKRALEL--QPNFPDAYNNLANALKDKGSVTEAVDCYNKALRLCPN-HADAMNNLG  361 (966)
T ss_pred             chhhccceEEEEeccccHHHHHHHHHHHHhc--CCCchHHHhHHHHHHHhccchHHHHHHHHHHHHhCCc-cHHHHHHHH
Confidence            2333444444444445555555555444443  222 334444444444444444444444444443322 333444444


Q ss_pred             HHHHHcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCh-hHHHHHHHHHHhcCCh
Q 003295          645 RAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNV-ACYTALIGGYCKLGQM  723 (833)
Q Consensus       645 ~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-~~~~~li~~~~~~g~~  723 (833)
                      ..|...|.+++|..+|....+.. +.-....+.|...|-++|++++|+..+++.++  +.|+. ..|+.+...|-..|+.
T Consensus       362 ni~~E~~~~e~A~~ly~~al~v~-p~~aaa~nNLa~i~kqqgnl~~Ai~~Ykealr--I~P~fAda~~NmGnt~ke~g~v  438 (966)
T KOG4626|consen  362 NIYREQGKIEEATRLYLKALEVF-PEFAAAHNNLASIYKQQGNLDDAIMCYKEALR--IKPTFADALSNMGNTYKEMGDV  438 (966)
T ss_pred             HHHHHhccchHHHHHHHHHHhhC-hhhhhhhhhHHHHHHhcccHHHHHHHHHHHHh--cCchHHHHHHhcchHHHHhhhH
Confidence            44444444444444444444331 11223344444444444444444444444444  33432 3444444444444444


Q ss_pred             hHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 003295          724 DEAESVLQEMASINIHPN-KITYTIMIGGYCKLGDMKEAAKLLNVMAE  770 (833)
Q Consensus       724 ~~A~~~~~~m~~~g~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~  770 (833)
                      +.|.+.+.+.+..  .|. ...++.|...|...|++.+|+.-+++++.
T Consensus       439 ~~A~q~y~rAI~~--nPt~AeAhsNLasi~kDsGni~~AI~sY~~aLk  484 (966)
T KOG4626|consen  439 SAAIQCYTRAIQI--NPTFAEAHSNLASIYKDSGNIPEAIQSYRTALK  484 (966)
T ss_pred             HHHHHHHHHHHhc--CcHHHHHHhhHHHHhhccCCcHHHHHHHHHHHc
Confidence            4444444444432  222 23444444444444444444444444444

>KOG2002 consensus TPR-containing nuclear phosphoprotein that regulates K(+) uptake [Inorganic ion transport and metabolism]

Probab=99.92  E-value=3.7e-19  Score=191.89  Aligned_cols=536  Identities=14%  Similarity=0.082  Sum_probs=378.9

Q ss_pred             HHHhhhccCHHHHHHHHHHHHhCC--CCCCHHHHHHHHHHHHhcCChhHHHHHHHHhhcCCCCCHHHHHHHHHHHHhc--
Q 003295          190 YCTQFKNLGFGYAIDVFSIFSSKG--IFPSLKTCNFLLNSLVKANEVQKGIEVFETMCRGVSPDVFLFSTAINAFCKR--  265 (833)
Q Consensus       190 ~~~~~~~~~~~~A~~~f~~~~~~~--~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~--  265 (833)
                      .|-.|..+++..|+..|..++...  +.||++.  .+...+++.|+.+.|+..|.+++.-.|.++.++..|.-.-...  
T Consensus       171 A~i~ynkkdY~~al~yyk~al~inp~~~aD~rI--gig~Cf~kl~~~~~a~~a~~ralqLdp~~v~alv~L~~~~l~~~d  248 (1018)
T KOG2002|consen  171 ARIAYNKKDYRGALKYYKKALRINPACKADVRI--GIGHCFWKLGMSEKALLAFERALQLDPTCVSALVALGEVDLNFND  248 (1018)
T ss_pred             HHHHhccccHHHHHHHHHHHHhcCcccCCCccc--hhhhHHHhccchhhHHHHHHHHHhcChhhHHHHHHHHHHHHHccc
Confidence            344677889999999999865543  4455543  3446777889999999999988854444555544443332222  


Q ss_pred             -CChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCC--ChhhHHHHHHHHHhcCChhHHH
Q 003295          266 -GRIEDAIGLFTKMEELGIAPNVVTYNNIIHGLCRNGRLYEAFHLKEKMVLREVEP--SLITYSILINGLIKLEKFDDAN  342 (833)
Q Consensus       266 -g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p--~~~t~~~li~~~~~~g~~~~A~  342 (833)
                       ..+..|..++...-.... -|++..+.|.+.|...|++..+.++.+.+.......  -...|--+.++|...|++++|.
T Consensus       249 ~~s~~~~~~ll~~ay~~n~-~nP~~l~~LAn~fyfK~dy~~v~~la~~ai~~t~~~~~~aes~Y~~gRs~Ha~Gd~ekA~  327 (1018)
T KOG2002|consen  249 SDSYKKGVQLLQRAYKENN-ENPVALNHLANHFYFKKDYERVWHLAEHAIKNTENKSIKAESFYQLGRSYHAQGDFEKAF  327 (1018)
T ss_pred             hHHHHHHHHHHHHHHhhcC-CCcHHHHHHHHHHhhcccHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHhhccHHHHH
Confidence             235566666666655443 377888889999999999999999988888653111  1234677888899999999999


Q ss_pred             HHHHHHHHCCCCCC--hhhHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcC----ChhHHHHHHH
Q 003295          343 FVLKEMSVRGFVPN--YVVYNTLIDGYCKKGNISEALKIRDDMVSKGMSPNSVTFNSLIHGFCKSG----QMDNAENALE  416 (833)
Q Consensus       343 ~~~~~m~~~g~~p~--~~~y~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g----~~~~A~~~l~  416 (833)
                      ..|.+..+.  .+|  +..+--|...|.+.|+++++...|+.+..... -+..|...|...|...+    ..+.|..++.
T Consensus       328 ~yY~~s~k~--~~d~~~l~~~GlgQm~i~~~dle~s~~~fEkv~k~~p-~~~etm~iLG~Lya~~~~~~~~~d~a~~~l~  404 (1018)
T KOG2002|consen  328 KYYMESLKA--DNDNFVLPLVGLGQMYIKRGDLEESKFCFEKVLKQLP-NNYETMKILGCLYAHSAKKQEKRDKASNVLG  404 (1018)
T ss_pred             HHHHHHHcc--CCCCccccccchhHHHHHhchHHHHHHHHHHHHHhCc-chHHHHHHHHhHHHhhhhhhHHHHHHHHHHH
Confidence            999888876  344  34455678889999999999999999887632 25567777777776664    5677777777


Q ss_pred             HHHHCCCCCCcccHHHHHHHHHhcCChhHHHHHHHHH----HHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHC-
Q 003295          417 EMLSRGLSINQGAYTSVIKWLCINSRFNSALHFTKEM----LLRNLRPGDGLLTLLVSGLCKNGKQAEATELCFRLFEK-  491 (833)
Q Consensus       417 ~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~----~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~-  491 (833)
                      +..+.- +.|...|..+...+....-+.. +..+..+    ...+..+.....+.+.......|++++|...|.+.... 
T Consensus       405 K~~~~~-~~d~~a~l~laql~e~~d~~~s-L~~~~~A~d~L~~~~~~ip~E~LNNvaslhf~~g~~~~A~~~f~~A~~~~  482 (1018)
T KOG2002|consen  405 KVLEQT-PVDSEAWLELAQLLEQTDPWAS-LDAYGNALDILESKGKQIPPEVLNNVASLHFRLGNIEKALEHFKSALGKL  482 (1018)
T ss_pred             HHHhcc-cccHHHHHHHHHHHHhcChHHH-HHHHHHHHHHHHHcCCCCCHHHHHhHHHHHHHhcChHHHHHHHHHHhhhh
Confidence            777663 4567777777777666544443 5555443    34455567778888888889999999999988887765 


Q ss_pred             --CC------CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCC
Q 003295          492 --GF------TVNTVTSNALIHGMCEAGNLKEAGKLLMEMLQRGLILDKVTYNTLILGCCKDGKPEEGFKLKEDMIKRGI  563 (833)
Q Consensus       492 --g~------~~~~~~~~~li~~~~~~g~~~~A~~~l~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~  563 (833)
                        ..      .+++.+-..+...+-..++.+.|.+++..+.+..+. -...|-.++......+...+|..++...+... 
T Consensus       483 ~~~~n~de~~~~~lt~~YNlarl~E~l~~~~~A~e~Yk~Ilkehp~-YId~ylRl~~ma~~k~~~~ea~~~lk~~l~~d-  560 (1018)
T KOG2002|consen  483 LEVANKDEGKSTNLTLKYNLARLLEELHDTEVAEEMYKSILKEHPG-YIDAYLRLGCMARDKNNLYEASLLLKDALNID-  560 (1018)
T ss_pred             hhhcCccccccchhHHHHHHHHHHHhhhhhhHHHHHHHHHHHHCch-hHHHHHHhhHHHHhccCcHHHHHHHHHHHhcc-
Confidence              11      122323444666667778899999999998887433 33344444433334567888888888888764 


Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCC-CCCHhhHHHHHHHHHc------------cCCHHHHHHHHHHHHH
Q 003295          564 QPDNYTYNLLLHGLCSLGKMEEAIELWEECKRTVF-GPDIYTYGVMIDGFCK------------ADKIEEGETLFNEMIS  630 (833)
Q Consensus       564 ~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~~li~~~~~------------~g~~~~A~~~~~~~~~  630 (833)
                      ..++..+..+...+.+...+..|.+-|..+.+.-. .+|+.+.-.|.+.|.+            .+..++|+++|.+.++
T Consensus       561 ~~np~arsl~G~~~l~k~~~~~a~k~f~~i~~~~~~~~D~YsliaLGN~~~~~l~~~~rn~ek~kk~~~KAlq~y~kvL~  640 (1018)
T KOG2002|consen  561 SSNPNARSLLGNLHLKKSEWKPAKKKFETILKKTSTKTDAYSLIALGNVYIQALHNPSRNPEKEKKHQEKALQLYGKVLR  640 (1018)
T ss_pred             cCCcHHHHHHHHHHHhhhhhcccccHHHHHHhhhccCCchhHHHHhhHHHHHHhcccccChHHHHHHHHHHHHHHHHHHh
Confidence            33666777777788888888888887766654322 2566665555554432            3456788888888888


Q ss_pred             CCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC-CCCCChhH
Q 003295          631 KKMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKE-GLLPNVAC  709 (833)
Q Consensus       631 ~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-g~~p~~~~  709 (833)
                      ..+. |...-|.+.-.++..|++.+|..+|.+..+... ....+|..+.++|...|++..|+++|+...+. +-..+..+
T Consensus       641 ~dpk-N~yAANGIgiVLA~kg~~~~A~dIFsqVrEa~~-~~~dv~lNlah~~~e~~qy~~AIqmYe~~lkkf~~~~~~~v  718 (1018)
T KOG2002|consen  641 NDPK-NMYAANGIGIVLAEKGRFSEARDIFSQVREATS-DFEDVWLNLAHCYVEQGQYRLAIQMYENCLKKFYKKNRSEV  718 (1018)
T ss_pred             cCcc-hhhhccchhhhhhhccCchHHHHHHHHHHHHHh-hCCceeeeHHHHHHHHHHHHHHHHHHHHHHHHhcccCCHHH
Confidence            7766 778888888888888999999999988887643 24556778888888899999999998887765 33446777


Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHhCC
Q 003295          710 YTALIGGYCKLGQMDEAESVLQEMASIN  737 (833)
Q Consensus       710 ~~~li~~~~~~g~~~~A~~~~~~m~~~g  737 (833)
                      ...|..++.+.|.+.+|.+.+.......
T Consensus       719 l~~Lara~y~~~~~~eak~~ll~a~~~~  746 (1018)
T KOG2002|consen  719 LHYLARAWYEAGKLQEAKEALLKARHLA  746 (1018)
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHHhC
Confidence            8888888888888888888888777643

>KOG4626 consensus O-linked N-acetylglucosamine transferase OGT [Carbohydrate transport and metabolism; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=99.92  E-value=4e-21  Score=196.08  Aligned_cols=439  Identities=15%  Similarity=0.132  Sum_probs=353.0

Q ss_pred             HhhhccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHH
Q 003295          192 TQFKNLGFGYAIDVFSIFSSKGIFPSLKTCNFLLNSLVKANEVQKGIEVFETMCRGVSPDVFLFSTAINAFCKRGRIEDA  271 (833)
Q Consensus       192 ~~~~~~~~~~A~~~f~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A  271 (833)
                      ..++.|++..|.+.-...-+.++. +....-.+-..+.+..+++.....-....+..+.-..+|..+.+.+-..|++++|
T Consensus        57 ~~yq~gd~~~a~~h~nmv~~~d~t-~~~~llll~ai~~q~~r~d~s~a~~~~a~r~~~q~ae~ysn~aN~~kerg~~~~a  135 (966)
T KOG4626|consen   57 RLYQGGDYKQAEKHCNMVGQEDPT-NTERLLLLSAIFFQGSRLDKSSAGSLLAIRKNPQGAEAYSNLANILKERGQLQDA  135 (966)
T ss_pred             HHHhccCHHHHHHHHhHhhccCCC-cccceeeehhhhhcccchhhhhhhhhhhhhccchHHHHHHHHHHHHHHhchHHHH
Confidence            345789999998876555444432 2223333445666777777766665555555667788999999999999999999


Q ss_pred             HHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHH-HHHHHHHhcCChhHHHHHHHHHHH
Q 003295          272 IGLFTKMEELGIAPNVVTYNNIIHGLCRNGRLYEAFHLKEKMVLREVEPSLITYS-ILINGLIKLEKFDDANFVLKEMSV  350 (833)
Q Consensus       272 ~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~-~li~~~~~~g~~~~A~~~~~~m~~  350 (833)
                      +.+++.|.+.... .+..|-.+..++...|+.+.|.+.|.+..+.  .|+.+... -+...+...|++++|...+.+..+
T Consensus       136 l~~y~~aiel~p~-fida~inla~al~~~~~~~~a~~~~~~alql--nP~l~ca~s~lgnLlka~Grl~ea~~cYlkAi~  212 (966)
T KOG4626|consen  136 LALYRAAIELKPK-FIDAYINLAAALVTQGDLELAVQCFFEALQL--NPDLYCARSDLGNLLKAEGRLEEAKACYLKAIE  212 (966)
T ss_pred             HHHHHHHHhcCch-hhHHHhhHHHHHHhcCCCcccHHHHHHHHhc--CcchhhhhcchhHHHHhhcccchhHHHHHHHHh
Confidence            9999999986432 5778999999999999999999999999875  56655443 445555668999999999999887


Q ss_pred             CCCCCC-hhhHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCC-hhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCcc
Q 003295          351 RGFVPN-YVVYNTLIDGYCKKGNISEALKIRDDMVSKGMSPN-SVTFNSLIHGFCKSGQMDNAENALEEMLSRGLSINQG  428 (833)
Q Consensus       351 ~g~~p~-~~~y~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~~~~~li~~~~~~g~~~~A~~~l~~~~~~g~~~~~~  428 (833)
                      .  .|. .+.|+.|...+-..|++..|++.|++.+..  +|+ ...|-.|...|-..+.+++|...+.+..... +-..+
T Consensus       213 ~--qp~fAiawsnLg~~f~~~Gei~~aiq~y~eAvkl--dP~f~dAYiNLGnV~ke~~~~d~Avs~Y~rAl~lr-pn~A~  287 (966)
T KOG4626|consen  213 T--QPCFAIAWSNLGCVFNAQGEIWLAIQHYEEAVKL--DPNFLDAYINLGNVYKEARIFDRAVSCYLRALNLR-PNHAV  287 (966)
T ss_pred             h--CCceeeeehhcchHHhhcchHHHHHHHHHHhhcC--CCcchHHHhhHHHHHHHHhcchHHHHHHHHHHhcC-Ccchh
Confidence            6  454 678999999999999999999999999885  454 3578889999999999999999999988752 33567


Q ss_pred             cHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 003295          429 AYTSVIKWLCINSRFNSALHFTKEMLLRNLRPGDGLLTLLVSGLCKNGKQAEATELCFRLFEKGFTVNTVTSNALIHGMC  508 (833)
Q Consensus       429 ~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~  508 (833)
                      .+..+...|..+|.+|.|+..+++.++..+. =...|+.+..++...|++.+|.+.+.+.+... +....+.+.|...|.
T Consensus       288 a~gNla~iYyeqG~ldlAI~~Ykral~~~P~-F~~Ay~NlanALkd~G~V~ea~~cYnkaL~l~-p~hadam~NLgni~~  365 (966)
T KOG4626|consen  288 AHGNLACIYYEQGLLDLAIDTYKRALELQPN-FPDAYNNLANALKDKGSVTEAVDCYNKALRLC-PNHADAMNNLGNIYR  365 (966)
T ss_pred             hccceEEEEeccccHHHHHHHHHHHHhcCCC-chHHHhHHHHHHHhccchHHHHHHHHHHHHhC-CccHHHHHHHHHHHH
Confidence            8888889999999999999999999886544 24578999999999999999999999988863 335678889999999


Q ss_pred             hcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCC-HHHHHHHHHHHHhcCCHHHHH
Q 003295          509 EAGNLKEAGKLLMEMLQRGLILDKVTYNTLILGCCKDGKPEEGFKLKEDMIKRGIQPD-NYTYNLLLHGLCSLGKMEEAI  587 (833)
Q Consensus       509 ~~g~~~~A~~~l~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~~~~~li~~~~~~g~~~~A~  587 (833)
                      +.|.+++|..+|....+-.+. =...++.|...|-++|++++|+.-+++.++.  .|+ ...|+.+...|-..|+.+.|.
T Consensus       366 E~~~~e~A~~ly~~al~v~p~-~aaa~nNLa~i~kqqgnl~~Ai~~YkealrI--~P~fAda~~NmGnt~ke~g~v~~A~  442 (966)
T KOG4626|consen  366 EQGKIEEATRLYLKALEVFPE-FAAAHNNLASIYKQQGNLDDAIMCYKEALRI--KPTFADALSNMGNTYKEMGDVSAAI  442 (966)
T ss_pred             HhccchHHHHHHHHHHhhChh-hhhhhhhHHHHHHhcccHHHHHHHHHHHHhc--CchHHHHHHhcchHHHHhhhHHHHH
Confidence            999999999999998876443 4567888999999999999999999999875  554 467888999999999999999


Q ss_pred             HHHHHHhhCCCCCC-HhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCccCHHHHHHHHHHH
Q 003295          588 ELWEECKRTVFGPD-IYTYGVMIDGFCKADKIEEGETLFNEMISKKMELNPVVYNTLIRAY  647 (833)
Q Consensus       588 ~~~~~~~~~~~~~~-~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~  647 (833)
                      +.+.+.+...  |. ....+.|...|-..|++.+|+.-+++.++..+. .+..|..++.++
T Consensus       443 q~y~rAI~~n--Pt~AeAhsNLasi~kDsGni~~AI~sY~~aLklkPD-fpdA~cNllh~l  500 (966)
T KOG4626|consen  443 QCYTRAIQIN--PTFAEAHSNLASIYKDSGNIPEAIQSYRTALKLKPD-FPDAYCNLLHCL  500 (966)
T ss_pred             HHHHHHHhcC--cHHHHHHhhHHHHhhccCCcHHHHHHHHHHHccCCC-CchhhhHHHHHH
Confidence            9999988753  43 567888999999999999999999999887554 344555555443

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.89  E-value=5e-20  Score=200.13  Aligned_cols=303  Identities=13%  Similarity=0.050  Sum_probs=228.8

Q ss_pred             HHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCC---HHHHHHHHHHHHhc
Q 003295          504 IHGMCEAGNLKEAGKLLMEMLQRGLILDKVTYNTLILGCCKDGKPEEGFKLKEDMIKRGIQPD---NYTYNLLLHGLCSL  580 (833)
Q Consensus       504 i~~~~~~g~~~~A~~~l~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~---~~~~~~li~~~~~~  580 (833)
                      ...+...|++++|...|.++.+.++. +..++..+...+...|++++|..+++.+.+.+..++   ...+..++..+.+.
T Consensus        42 g~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~~~  120 (389)
T PRK11788         42 GLNFLLNEQPDKAIDLFIEMLKVDPE-TVELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYLKA  120 (389)
T ss_pred             HHHHHhcCChHHHHHHHHHHHhcCcc-cHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHC
Confidence            33456677788888888888776543 556777777778888888888888887776533222   24567777788888


Q ss_pred             CCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCccCH----HHHHHHHHHHHHcCChHHH
Q 003295          581 GKMEEAIELWEECKRTVFGPDIYTYGVMIDGFCKADKIEEGETLFNEMISKKMELNP----VVYNTLIRAYCKIGNTTAA  656 (833)
Q Consensus       581 g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~----~~~~~li~~~~~~g~~~~A  656 (833)
                      |++++|..+|+++.+.. +.+..++..++..+.+.|++++|.+.++.+.+.++.+..    ..+..+...+.+.|++++|
T Consensus       121 g~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A  199 (389)
T PRK11788        121 GLLDRAEELFLQLVDEG-DFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALARGDLDAA  199 (389)
T ss_pred             CCHHHHHHHHHHHHcCC-cchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHhCCCHHHH
Confidence            88888888888887652 345677888888888888888888888888776544322    2455677778888889999


Q ss_pred             HHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHhC
Q 003295          657 FRLSNDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESVLQEMASI  736 (833)
Q Consensus       657 ~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  736 (833)
                      ...++++.+.. +.+...+..+...+.+.|++++|.++++++.+.+......+++.++.+|++.|++++|.+.++++.+.
T Consensus       200 ~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~  278 (389)
T PRK11788        200 RALLKKALAAD-PQCVRASILLGDLALAQGDYAAAIEALERVEEQDPEYLSEVLPKLMECYQALGDEAEGLEFLRRALEE  278 (389)
T ss_pred             HHHHHHHHhHC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            99888888764 33556777788888889999999999998887531222456788888899999999999999988874


Q ss_pred             CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhc---CCCHHHHHHHHHHHHHCCCCCCHH
Q 003295          737 NIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISPDSITYNVFMDGHCK---GGNVEEAFKVCDRMLSEGLSLDEI  813 (833)
Q Consensus       737 g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~---~g~~~~A~~~~~~m~~~g~~p~~~  813 (833)
                        .|+...+..++..+.+.|++++|..+++++++.  .|+..++..++..+..   .|+.+++..++++|++++++|+..
T Consensus       279 --~p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~--~P~~~~~~~l~~~~~~~~~~g~~~~a~~~~~~~~~~~~~~~p~  354 (389)
T PRK11788        279 --YPGADLLLALAQLLEEQEGPEAAQALLREQLRR--HPSLRGFHRLLDYHLAEAEEGRAKESLLLLRDLVGEQLKRKPR  354 (389)
T ss_pred             --CCCchHHHHHHHHHHHhCCHHHHHHHHHHHHHh--CcCHHHHHHHHHHhhhccCCccchhHHHHHHHHHHHHHhCCCC
Confidence              466666788888899999999999999988874  6888888887777664   458889999999999887777743

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.88  E-value=4.6e-20  Score=200.43  Aligned_cols=303  Identities=17%  Similarity=0.122  Sum_probs=206.2

Q ss_pred             HHHHHhcCChhHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCC---hhhHHHHHHHHHhcC
Q 003295          225 LNSLVKANEVQKGIEVFETMCRGVSPDVFLFSTAINAFCKRGRIEDAIGLFTKMEELGIAPN---VVTYNNIIHGLCRNG  301 (833)
Q Consensus       225 l~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~---~~~~~~li~~~~~~g  301 (833)
                      ...+...|++++|...|+++.+..+.+..++..+...+...|++++|...++.+...+..++   ...+..++..|.+.|
T Consensus        42 g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~~~g  121 (389)
T PRK11788         42 GLNFLLNEQPDKAIDLFIEMLKVDPETVELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYLKAG  121 (389)
T ss_pred             HHHHHhcCChHHHHHHHHHHHhcCcccHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHCC
Confidence            33456778888888888888854556677788888888888888888888888876432211   245677788888888


Q ss_pred             ChhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCh----hhHHHHHHHHHHcCChHHHH
Q 003295          302 RLYEAFHLKEKMVLREVEPSLITYSILINGLIKLEKFDDANFVLKEMSVRGFVPNY----VVYNTLIDGYCKKGNISEAL  377 (833)
Q Consensus       302 ~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~----~~y~~li~~~~~~g~~~~A~  377 (833)
                      ++++|..+|+++.+.. +++..+++.++..+.+.|++++|.+.++.+.+.+..++.    ..|..+...+.+.|++++|.
T Consensus       122 ~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~  200 (389)
T PRK11788        122 LLDRAEELFLQLVDEG-DFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALARGDLDAAR  200 (389)
T ss_pred             CHHHHHHHHHHHHcCC-cchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHhCCCHHHHH
Confidence            8888888888887652 446677888888888888888888888888776433221    23455666777788888888


Q ss_pred             HHHHHHHhCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHHCC
Q 003295          378 KIRDDMVSKGMSPNSVTFNSLIHGFCKSGQMDNAENALEEMLSRGLSINQGAYTSVIKWLCINSRFNSALHFTKEMLLRN  457 (833)
Q Consensus       378 ~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~l~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~  457 (833)
                      +.|+++.+... .+...+..+...+.+.|++++|.++++++.+.+.....                              
T Consensus       201 ~~~~~al~~~p-~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~------------------------------  249 (389)
T PRK11788        201 ALLKKALAADP-QCVRASILLGDLALAQGDYAAAIEALERVEEQDPEYLS------------------------------  249 (389)
T ss_pred             HHHHHHHhHCc-CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHChhhHH------------------------------
Confidence            88888776532 24456667777777778888887777777654321111                              


Q ss_pred             CCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHH
Q 003295          458 LRPGDGLLTLLVSGLCKNGKQAEATELCFRLFEKGFTVNTVTSNALIHGMCEAGNLKEAGKLLMEMLQRGLILDKVTYNT  537 (833)
Q Consensus       458 ~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~l~~m~~~g~~~~~~~~~~  537 (833)
                           .++..++..|++.|++++|...++++.+..  |+...+..++..+.+.|++++|..+++++.+.  .|+..+++.
T Consensus       250 -----~~~~~l~~~~~~~g~~~~A~~~l~~~~~~~--p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~--~P~~~~~~~  320 (389)
T PRK11788        250 -----EVLPKLMECYQALGDEAEGLEFLRRALEEY--PGADLLLALAQLLEEQEGPEAAQALLREQLRR--HPSLRGFHR  320 (389)
T ss_pred             -----HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCchHHHHHHHHHHHhCCHHHHHHHHHHHHHh--CcCHHHHHH
Confidence                 233444555555555666665555555542  33344566777777777777777777777665  456667777


Q ss_pred             HHHHHHh---cCChhhHHHHHHHHHHCCCCCCHH
Q 003295          538 LILGCCK---DGKPEEGFKLKEDMIKRGIQPDNY  568 (833)
Q Consensus       538 li~~~~~---~g~~~~A~~~~~~m~~~g~~p~~~  568 (833)
                      ++..++.   .|+.++++.++++|.+.++.|++.
T Consensus       321 l~~~~~~~~~~g~~~~a~~~~~~~~~~~~~~~p~  354 (389)
T PRK11788        321 LLDYHLAEAEEGRAKESLLLLRDLVGEQLKRKPR  354 (389)
T ss_pred             HHHHhhhccCCccchhHHHHHHHHHHHHHhCCCC
Confidence            7766664   446777777777777766655554

>TIGR00990 3a0801s09 mitochondrial precursor proteins import receptor (72 kDa mitochondrial outermembrane protein) (mitochondrial import receptor for the ADP/ATP carrier) (translocase of outermembrane tom70)

Probab=99.88  E-value=3.2e-18  Score=195.84  Aligned_cols=430  Identities=16%  Similarity=0.039  Sum_probs=258.0

Q ss_pred             hhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCC-ChhhHHHHHHH
Q 003295          288 VTYNNIIHGLCRNGRLYEAFHLKEKMVLREVEPSLITYSILINGLIKLEKFDDANFVLKEMSVRGFVP-NYVVYNTLIDG  366 (833)
Q Consensus       288 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~~y~~li~~  366 (833)
                      ..+......+.+.|++++|+..|++.+..  .|+...|..+..+|.+.|++++|+..+++..+.  .| +...|..+..+
T Consensus       128 ~~~k~~G~~~~~~~~~~~Ai~~y~~al~~--~p~~~~~~n~a~~~~~l~~~~~Ai~~~~~al~l--~p~~~~a~~~~a~a  203 (615)
T TIGR00990       128 AKLKEKGNKAYRNKDFNKAIKLYSKAIEC--KPDPVYYSNRAACHNALGDWEKVVEDTTAALEL--DPDYSKALNRRANA  203 (615)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCchHHHHHHHHHHHHhCCHHHHHHHHHHHHHc--CCCCHHHHHHHHHH
Confidence            45667888888999999999999998864  577888888888899999999999999998876  34 46678888888


Q ss_pred             HHHcCChHHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCcccHHHHHHHHHhcCChhHH
Q 003295          367 YCKKGNISEALKIRDDMVSKGMSPNSVTFNSLIHGFCKSGQMDNAENALEEMLSRGLSINQGAYTSVIKWLCINSRFNSA  446 (833)
Q Consensus       367 ~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~l~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A  446 (833)
                      |...|++++|+.-|......+...+. ....++.-+.+    ..+.....+..+. .+.+...+..+...+ .....+.+
T Consensus       204 ~~~lg~~~eA~~~~~~~~~~~~~~~~-~~~~~~~~~l~----~~a~~~~~~~l~~-~~~~~~~~~~~~~~~-~~~~~~~~  276 (615)
T TIGR00990       204 YDGLGKYADALLDLTASCIIDGFRNE-QSAQAVERLLK----KFAESKAKEILET-KPENLPSVTFVGNYL-QSFRPKPR  276 (615)
T ss_pred             HHHcCCHHHHHHHHHHHHHhCCCccH-HHHHHHHHHHH----HHHHHHHHHHHhc-CCCCCCCHHHHHHHH-HHccCCcc
Confidence            99999999998888766543211121 11122221111    1222222222222 112222222222211 11111111


Q ss_pred             HHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH---HHhcCCHHHHHHHHHHH
Q 003295          447 LHFTKEMLLRNLRPGDGLLTLLVSGLCKNGKQAEATELCFRLFEKGFTVNTVTSNALIHG---MCEAGNLKEAGKLLMEM  523 (833)
Q Consensus       447 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~---~~~~g~~~~A~~~l~~m  523 (833)
                      ..-+.+....  .+.                                  ....+..+...   ....+++++|...|++.
T Consensus       277 ~~~~~~~~~~--~~~----------------------------------~~~~~~~l~~~~~e~~~~~~y~~A~~~~~~a  320 (615)
T TIGR00990       277 PAGLEDSNEL--DEE----------------------------------TGNGQLQLGLKSPESKADESYEEAARAFEKA  320 (615)
T ss_pred             hhhhhccccc--ccc----------------------------------cccchHHHHHHHHHhhhhhhHHHHHHHHHHH
Confidence            1000000000  000                                  00000111100   02235566777777766


Q ss_pred             hhCCC--CCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCC
Q 003295          524 LQRGL--ILDKVTYNTLILGCCKDGKPEEGFKLKEDMIKRGIQPDNYTYNLLLHGLCSLGKMEEAIELWEECKRTVFGPD  601 (833)
Q Consensus       524 ~~~g~--~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~  601 (833)
                      .+.+.  +-+...|..+...+...|++++|+..+++.++.... +...|..+...+...|++++|...|+++.+.. +.+
T Consensus       321 l~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~kal~l~P~-~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~-p~~  398 (615)
T TIGR00990       321 LDLGKLGEKEAIALNLRGTFKCLKGKHLEALADLSKSIELDPR-VTQSYIKRASMNLELGDPDKAEEDFDKALKLN-SED  398 (615)
T ss_pred             HhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-cHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCC
Confidence            65531  113445666666666677777777777777665322 34566666666777777777777777766543 334


Q ss_pred             HhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 003295          602 IYTYGVMIDGFCKADKIEEGETLFNEMISKKMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHG  681 (833)
Q Consensus       602 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~  681 (833)
                      ...|..+...+...|++++|...|++.++..+. +...+..+...+.+.|++++|+..+++..+.. +.+...++.+...
T Consensus       399 ~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~P~-~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~-P~~~~~~~~lg~~  476 (615)
T TIGR00990       399 PDIYYHRAQLHFIKGEFAQAGKDYQKSIDLDPD-FIFSHIQLGVTQYKEGSIASSMATFRRCKKNF-PEAPDVYNYYGEL  476 (615)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCcc-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCChHHHHHHHHH
Confidence            566666777777777777777777777766543 55666667777777777777777777776652 3356667777777


Q ss_pred             HHhcCCHHHHHHHHHHHHHCCCCCCh--h------HHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 003295          682 LCNIGLIEDAKCLFDEMRKEGLLPNV--A------CYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYC  753 (833)
Q Consensus       682 ~~~~g~~~~A~~~~~~m~~~g~~p~~--~------~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~  753 (833)
                      +...|++++|++.|++.++.  .|+.  .      .++..+..+...|++++|.+++++..+.. +.+...+..++..+.
T Consensus       477 ~~~~g~~~~A~~~~~~Al~l--~p~~~~~~~~~~~l~~~a~~~~~~~~~~~eA~~~~~kAl~l~-p~~~~a~~~la~~~~  553 (615)
T TIGR00990       477 LLDQNKFDEAIEKFDTAIEL--EKETKPMYMNVLPLINKALALFQWKQDFIEAENLCEKALIID-PECDIAVATMAQLLL  553 (615)
T ss_pred             HHHccCHHHHHHHHHHHHhc--CCccccccccHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHH
Confidence            77777888888777777764  2211  1      11112222334578888888888877653 334556777888888


Q ss_pred             hcCCHHHHHHHHHHHHHc
Q 003295          754 KLGDMKEAAKLLNVMAEK  771 (833)
Q Consensus       754 ~~g~~~~A~~~~~~m~~~  771 (833)
                      +.|++++|+++|+++.+.
T Consensus       554 ~~g~~~eAi~~~e~A~~l  571 (615)
T TIGR00990       554 QQGDVDEALKLFERAAEL  571 (615)
T ss_pred             HccCHHHHHHHHHHHHHH
Confidence            888888888888887763

>TIGR00990 3a0801s09 mitochondrial precursor proteins import receptor (72 kDa mitochondrial outermembrane protein) (mitochondrial import receptor for the ADP/ATP carrier) (translocase of outermembrane tom70)

Probab=99.88  E-value=9.8e-18  Score=191.78  Aligned_cols=435  Identities=13%  Similarity=0.012  Sum_probs=284.1

Q ss_pred             HHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHH
Q 003295          253 FLFSTAINAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIHGLCRNGRLYEAFHLKEKMVLREVEPSLITYSILINGL  332 (833)
Q Consensus       253 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~  332 (833)
                      ..+......+.+.|++++|...|++..+.  .|+...|..+..+|.+.|++++|++.+++..+.. +.+...|..+..+|
T Consensus       128 ~~~k~~G~~~~~~~~~~~Ai~~y~~al~~--~p~~~~~~n~a~~~~~l~~~~~Ai~~~~~al~l~-p~~~~a~~~~a~a~  204 (615)
T TIGR00990       128 AKLKEKGNKAYRNKDFNKAIKLYSKAIEC--KPDPVYYSNRAACHNALGDWEKVVEDTTAALELD-PDYSKALNRRANAY  204 (615)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCchHHHHHHHHHHHHhCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHH
Confidence            45778889999999999999999999875  5788899999999999999999999999999864 34567889999999


Q ss_pred             HhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChhHHH
Q 003295          333 IKLEKFDDANFVLKEMSVRGFVPNYVVYNTLIDGYCKKGNISEALKIRDDMVSKGMSPNSVTFNSLIHGFCKSGQMDNAE  412 (833)
Q Consensus       333 ~~~g~~~~A~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~  412 (833)
                      ...|++++|...|......+...+.. ...++.-+..    ..+........+.. +++...+..+. .|......+.+.
T Consensus       205 ~~lg~~~eA~~~~~~~~~~~~~~~~~-~~~~~~~~l~----~~a~~~~~~~l~~~-~~~~~~~~~~~-~~~~~~~~~~~~  277 (615)
T TIGR00990       205 DGLGKYADALLDLTASCIIDGFRNEQ-SAQAVERLLK----KFAESKAKEILETK-PENLPSVTFVG-NYLQSFRPKPRP  277 (615)
T ss_pred             HHcCCHHHHHHHHHHHHHhCCCccHH-HHHHHHHHHH----HHHHHHHHHHHhcC-CCCCCCHHHHH-HHHHHccCCcch
Confidence            99999999999998776543221222 1222222222    22333333333321 11222332222 232222222222


Q ss_pred             HHHHHHHHCCCCCCc-ccHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 003295          413 NALEEMLSRGLSINQ-GAYTSVIKWLCINSRFNSALHFTKEMLLRNLRPGDGLLTLLVSGLCKNGKQAEATELCFRLFEK  491 (833)
Q Consensus       413 ~~l~~~~~~g~~~~~-~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~  491 (833)
                      +-+.+..+.  .+.. ..+..+...+                                .-....+++++|.+.|++.++.
T Consensus       278 ~~~~~~~~~--~~~~~~~~~~l~~~~--------------------------------~e~~~~~~y~~A~~~~~~al~~  323 (615)
T TIGR00990       278 AGLEDSNEL--DEETGNGQLQLGLKS--------------------------------PESKADESYEEAARAFEKALDL  323 (615)
T ss_pred             hhhhccccc--ccccccchHHHHHHH--------------------------------HHhhhhhhHHHHHHHHHHHHhc
Confidence            222221111  1100 0011110000                                0012234566666666666654


Q ss_pred             C--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHH
Q 003295          492 G--FTVNTVTSNALIHGMCEAGNLKEAGKLLMEMLQRGLILDKVTYNTLILGCCKDGKPEEGFKLKEDMIKRGIQPDNYT  569 (833)
Q Consensus       492 g--~~~~~~~~~~li~~~~~~g~~~~A~~~l~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~  569 (833)
                      +  .+.+...++.+...+...|++++|+..|++..+..+. +...|..+...+...|++++|...++++++.... +..+
T Consensus       324 ~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~kal~l~P~-~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~p~-~~~~  401 (615)
T TIGR00990       324 GKLGEKEAIALNLRGTFKCLKGKHLEALADLSKSIELDPR-VTQSYIKRASMNLELGDPDKAEEDFDKALKLNSE-DPDI  401 (615)
T ss_pred             CCCChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-cHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHH
Confidence            3  1224456777777777788888888888887776443 4566777777777788888888888887776432 5677


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCccCHHHHHHHHHHHHH
Q 003295          570 YNLLLHGLCSLGKMEEAIELWEECKRTVFGPDIYTYGVMIDGFCKADKIEEGETLFNEMISKKMELNPVVYNTLIRAYCK  649 (833)
Q Consensus       570 ~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~  649 (833)
                      +..+...+...|++++|...|++..+.. +.+...+..+...+.+.|++++|+..|++.++..+. ++..|+.+...+..
T Consensus       402 ~~~lg~~~~~~g~~~~A~~~~~kal~l~-P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~P~-~~~~~~~lg~~~~~  479 (615)
T TIGR00990       402 YYHRAQLHFIKGEFAQAGKDYQKSIDLD-PDFIFSHIQLGVTQYKEGSIASSMATFRRCKKNFPE-APDVYNYYGELLLD  479 (615)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHcC-ccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHH
Confidence            7777778888888888888888877653 334566667777788888888888888888776443 67778888888888


Q ss_pred             cCChHHHHHHHHHHHhCCCCCCHH------HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCCh
Q 003295          650 IGNTTAAFRLSNDMKSRGILPTSV------TYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQM  723 (833)
Q Consensus       650 ~g~~~~A~~~~~~m~~~~~~p~~~------~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~  723 (833)
                      .|++++|.+.|++........+..      .++..+..+...|++++|.+++++..+.. +.+...+..+...+.+.|++
T Consensus       480 ~g~~~~A~~~~~~Al~l~p~~~~~~~~~~~l~~~a~~~~~~~~~~~eA~~~~~kAl~l~-p~~~~a~~~la~~~~~~g~~  558 (615)
T TIGR00990       480 QNKFDEAIEKFDTAIELEKETKPMYMNVLPLINKALALFQWKQDFIEAENLCEKALIID-PECDIAVATMAQLLLQQGDV  558 (615)
T ss_pred             ccCHHHHHHHHHHHHhcCCccccccccHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHccCH
Confidence            888888888888877653221111      11222223344688999999999888753 23445688888899999999


Q ss_pred             hHHHHHHHHHHhC
Q 003295          724 DEAESVLQEMASI  736 (833)
Q Consensus       724 ~~A~~~~~~m~~~  736 (833)
                      ++|.+.|++..+.
T Consensus       559 ~eAi~~~e~A~~l  571 (615)
T TIGR00990       559 DEALKLFERAAEL  571 (615)
T ss_pred             HHHHHHHHHHHHH
Confidence            9999999988764

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.86  E-value=2.3e-17  Score=187.81  Aligned_cols=331  Identities=10%  Similarity=0.024  Sum_probs=198.4

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh
Q 003295          430 YTSVIKWLCINSRFNSALHFTKEMLLRNLRPGDGLLTLLVSGLCKNGKQAEATELCFRLFEKGFTVNTVTSNALIHGMCE  509 (833)
Q Consensus       430 ~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~  509 (833)
                      ...++..+.+.|++++|..++...+...+.... .+..++.+....|++++|.+.++++.+..+ .+...+..+...+.+
T Consensus        45 ~~~~~~~~~~~g~~~~A~~l~~~~l~~~p~~~~-~l~~l~~~~l~~g~~~~A~~~l~~~l~~~P-~~~~a~~~la~~l~~  122 (656)
T PRK15174         45 IILFAIACLRKDETDVGLTLLSDRVLTAKNGRD-LLRRWVISPLASSQPDAVLQVVNKLLAVNV-CQPEDVLLVASVLLK  122 (656)
T ss_pred             HHHHHHHHHhcCCcchhHHHhHHHHHhCCCchh-HHHHHhhhHhhcCCHHHHHHHHHHHHHhCC-CChHHHHHHHHHHHH
Confidence            334444555556666666666655555444333 233333444556666666666666666532 245566666666777


Q ss_pred             cCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHH
Q 003295          510 AGNLKEAGKLLMEMLQRGLILDKVTYNTLILGCCKDGKPEEGFKLKEDMIKRGIQPDNYTYNLLLHGLCSLGKMEEAIEL  589 (833)
Q Consensus       510 ~g~~~~A~~~l~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~  589 (833)
                      .|++++|...++++.+..+. +...+..+...+...|+.++|...++.+......+ ...+..+ ..+...|++++|...
T Consensus       123 ~g~~~~Ai~~l~~Al~l~P~-~~~a~~~la~~l~~~g~~~eA~~~~~~~~~~~P~~-~~a~~~~-~~l~~~g~~~eA~~~  199 (656)
T PRK15174        123 SKQYATVADLAEQAWLAFSG-NSQIFALHLRTLVLMDKELQAISLARTQAQEVPPR-GDMIATC-LSFLNKSRLPEDHDL  199 (656)
T ss_pred             cCCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHCCChHHHHHHHHHHHHhCCCC-HHHHHHH-HHHHHcCCHHHHHHH
Confidence            77777777777776665433 55566666666777777777777776666553332 2222222 235666777777777


Q ss_pred             HHHHhhCCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHH----HHHHHHHHHh
Q 003295          590 WEECKRTVFGPDIYTYGVMIDGFCKADKIEEGETLFNEMISKKMELNPVVYNTLIRAYCKIGNTTA----AFRLSNDMKS  665 (833)
Q Consensus       590 ~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~----A~~~~~~m~~  665 (833)
                      ++.+.+....++...+..+...+.+.|++++|+..++++.+..+. +...+..+...+...|++++    |...+++..+
T Consensus       200 ~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~p~-~~~~~~~Lg~~l~~~G~~~eA~~~A~~~~~~Al~  278 (656)
T PRK15174        200 ARALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALARGLD-GAALRRSLGLAYYQSGRSREAKLQAAEHWRHALQ  278 (656)
T ss_pred             HHHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHcCCchhhHHHHHHHHHHHHh
Confidence            766655432233334444455666677777777777777665543 56666666777777777664    6666776666


Q ss_pred             CCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCH-HH
Q 003295          666 RGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESVLQEMASINIHPNK-IT  744 (833)
Q Consensus       666 ~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-~~  744 (833)
                      .. +.+...+..+...+.+.|++++|...++++.+.. +.+...+..+..++.+.|++++|...++++.+.  .|+. ..
T Consensus       279 l~-P~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l~-P~~~~a~~~La~~l~~~G~~~eA~~~l~~al~~--~P~~~~~  354 (656)
T PRK15174        279 FN-SDNVRIVTLYADALIRTGQNEKAIPLLQQSLATH-PDLPYVRAMYARALRQVGQYTAASDEFVQLARE--KGVTSKW  354 (656)
T ss_pred             hC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CccchHH
Confidence            53 3355566666677777777777777777766642 223445556666677777777777777776653  3333 23


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHH
Q 003295          745 YTIMIGGYCKLGDMKEAAKLLNVMAE  770 (833)
Q Consensus       745 ~~~li~~~~~~g~~~~A~~~~~~m~~  770 (833)
                      +..+..++...|++++|+..|+++.+
T Consensus       355 ~~~~a~al~~~G~~deA~~~l~~al~  380 (656)
T PRK15174        355 NRYAAAALLQAGKTSEAESVFEHYIQ  380 (656)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            33345566677777777777777666

>KOG2076 consensus RNA polymerase III transcription factor TFIIIC [Transcription]

Probab=99.86  E-value=3.5e-15  Score=160.73  Aligned_cols=363  Identities=13%  Similarity=0.060  Sum_probs=275.9

Q ss_pred             hhhccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHH
Q 003295          193 QFKNLGFGYAIDVFSIFSSKGIFPSLKTCNFLLNSLVKANEVQKGIEVFETMCRGVSPDVFLFSTAINAFCKRGRIEDAI  272 (833)
Q Consensus       193 ~~~~~~~~~A~~~f~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~  272 (833)
                      .+.+|++++|..++..+++..+. ....|.+|...|-..|+.+++...+-.+..-.|.|..-|..+..-..+.|.+++|.
T Consensus       149 lfarg~~eeA~~i~~EvIkqdp~-~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL~p~d~e~W~~ladls~~~~~i~qA~  227 (895)
T KOG2076|consen  149 LFARGDLEEAEEILMEVIKQDPR-NPIAYYTLGEIYEQRGDIEKALNFWLLAAHLNPKDYELWKRLADLSEQLGNINQAR  227 (895)
T ss_pred             HHHhCCHHHHHHHHHHHHHhCcc-chhhHHHHHHHHHHcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcccHHHHH
Confidence            34579999999999999988776 78899999999999999999999987776666778899999999999999999999


Q ss_pred             HHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhh-----HHHHHHHHHhcCChhHHHHHHHH
Q 003295          273 GLFTKMEELGIAPNVVTYNNIIHGLCRNGRLYEAFHLKEKMVLREVEPSLIT-----YSILINGLIKLEKFDDANFVLKE  347 (833)
Q Consensus       273 ~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t-----~~~li~~~~~~g~~~~A~~~~~~  347 (833)
                      -.|.+.++..+ ++...+---+..|-+.|+...|.+-|.++..... |...-     --..++.+...++-+.|.+.++.
T Consensus       228 ~cy~rAI~~~p-~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p-~~d~er~~d~i~~~~~~~~~~~~~e~a~~~le~  305 (895)
T KOG2076|consen  228 YCYSRAIQANP-SNWELIYERSSLYQKTGDLKRAMETFLQLLQLDP-PVDIERIEDLIRRVAHYFITHNERERAAKALEG  305 (895)
T ss_pred             HHHHHHHhcCC-cchHHHHHHHHHHHHhChHHHHHHHHHHHHhhCC-chhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence            99999999753 2444444456778899999999999999998642 33222     22345667777888999999999


Q ss_pred             HHHCCC-CCChhhHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCChh----------------------HHH----HHHH
Q 003295          348 MSVRGF-VPNYVVYNTLIDGYCKKGNISEALKIRDDMVSKGMSPNSV----------------------TFN----SLIH  400 (833)
Q Consensus       348 m~~~g~-~p~~~~y~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~----------------------~~~----~li~  400 (833)
                      ....+. ..+...++.++..|.+...++.|......+......+|..                      .|.    -+.-
T Consensus       306 ~~s~~~~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~~~~~~~~~~~~~~~~~s~~l~v~rl~i  385 (895)
T KOG2076|consen  306 ALSKEKDEASLEDLNILAELFLKNKQSDKALMKIVDDRNRESEKDDSEWDTDERRREEPNALCEVGKELSYDLRVIRLMI  385 (895)
T ss_pred             HHhhccccccccHHHHHHHHHHHhHHHHHhhHHHHHHhccccCCChhhhhhhhhccccccccccCCCCCCccchhHhHhh
Confidence            877322 2346678899999999999999999888887622222211                      111    2233


Q ss_pred             HHHhcCChhHHHHHHHHHHHCC--CCCCcccHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCH
Q 003295          401 GFCKSGQMDNAENALEEMLSRG--LSINQGAYTSVIKWLCINSRFNSALHFTKEMLLRNLRPGDGLLTLLVSGLCKNGKQ  478 (833)
Q Consensus       401 ~~~~~g~~~~A~~~l~~~~~~g--~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~  478 (833)
                      ++......+....+.....+..  +..+...|..+.+++...|++.+|+.++..+......-+..+|..+..+|...|..
T Consensus       386 cL~~L~~~e~~e~ll~~l~~~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~~a~c~~~l~e~  465 (895)
T KOG2076|consen  386 CLVHLKERELLEALLHFLVEDNVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFVWYKLARCYMELGEY  465 (895)
T ss_pred             hhhcccccchHHHHHHHHHHhcCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhhhHHHHHHHHHHhhH
Confidence            4444555555555555566555  44566789999999999999999999999999888777888999999999999999


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCC--------CCCCHHHHHHHHHHHHhcCChhh
Q 003295          479 AEATELCFRLFEKGFTVNTVTSNALIHGMCEAGNLKEAGKLLMEMLQRG--------LILDKVTYNTLILGCCKDGKPEE  550 (833)
Q Consensus       479 ~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~l~~m~~~g--------~~~~~~~~~~li~~~~~~g~~~~  550 (833)
                      ++|.+.++.++... +.+...--+|...+.+.|+.++|.+.+..+..-+        ..|+..........+...|+.++
T Consensus       466 e~A~e~y~kvl~~~-p~~~D~Ri~Lasl~~~~g~~EkalEtL~~~~~~D~~~~e~~a~~~e~ri~~~r~d~l~~~gk~E~  544 (895)
T KOG2076|consen  466 EEAIEFYEKVLILA-PDNLDARITLASLYQQLGNHEKALETLEQIINPDGRNAEACAWEPERRILAHRCDILFQVGKREE  544 (895)
T ss_pred             HHHHHHHHHHHhcC-CCchhhhhhHHHHHHhcCCHHHHHHHHhcccCCCccchhhccccHHHHHHHHHHHHHHHhhhHHH
Confidence            99999999999873 3366677788889999999999999999865322        22333333444556667777766


Q ss_pred             HHHHHHHHH
Q 003295          551 GFKLKEDMI  559 (833)
Q Consensus       551 A~~~~~~m~  559 (833)
                      -+.....|+
T Consensus       545 fi~t~~~Lv  553 (895)
T KOG2076|consen  545 FINTASTLV  553 (895)
T ss_pred             HHHHHHHHH
Confidence            555444443

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.86  E-value=2.4e-17  Score=187.70  Aligned_cols=330  Identities=12%  Similarity=0.082  Sum_probs=168.8

Q ss_pred             HHHHHHHhcCChhHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCC
Q 003295          223 FLLNSLVKANEVQKGIEVFETMCRGVSPDVFLFSTAINAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIHGLCRNGR  302 (833)
Q Consensus       223 ~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~  302 (833)
                      .++..+.+.|++++|..+++..+...+.+...+..++.+....|++++|...|+++.+..+. +...+..+...+.+.|+
T Consensus        47 ~~~~~~~~~g~~~~A~~l~~~~l~~~p~~~~~l~~l~~~~l~~g~~~~A~~~l~~~l~~~P~-~~~a~~~la~~l~~~g~  125 (656)
T PRK15174         47 LFAIACLRKDETDVGLTLLSDRVLTAKNGRDLLRRWVISPLASSQPDAVLQVVNKLLAVNVC-QPEDVLLVASVLLKSKQ  125 (656)
T ss_pred             HHHHHHHhcCCcchhHHHhHHHHHhCCCchhHHHHHhhhHhhcCCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHcCC
Confidence            34555566666777766666666444445555555566666666677777777666665322 34456666666666666


Q ss_pred             hhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHHcCChHHHHHHHHH
Q 003295          303 LYEAFHLKEKMVLREVEPSLITYSILINGLIKLEKFDDANFVLKEMSVRGFVPNYVVYNTLIDGYCKKGNISEALKIRDD  382 (833)
Q Consensus       303 ~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~A~~~~~~  382 (833)
                      +++|...++++.... +.+...+..++..+...|++++|...++.+...... +...+..+ ..+.+.|++++|...++.
T Consensus       126 ~~~Ai~~l~~Al~l~-P~~~~a~~~la~~l~~~g~~~eA~~~~~~~~~~~P~-~~~a~~~~-~~l~~~g~~~eA~~~~~~  202 (656)
T PRK15174        126 YATVADLAEQAWLAF-SGNSQIFALHLRTLVLMDKELQAISLARTQAQEVPP-RGDMIATC-LSFLNKSRLPEDHDLARA  202 (656)
T ss_pred             HHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCChHHHHHHHHHHHHhCCC-CHHHHHHH-HHHHHcCCHHHHHHHHHH
Confidence            666666666666542 234455566666666666666666666666544222 12222222 235566666666666666


Q ss_pred             HHhCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCcccHHHHHHHHHhcCChhH----HHHHHHHHHHCCC
Q 003295          383 MVSKGMSPNSVTFNSLIHGFCKSGQMDNAENALEEMLSRGLSINQGAYTSVIKWLCINSRFNS----ALHFTKEMLLRNL  458 (833)
Q Consensus       383 m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~l~~~~~~g~~~~~~~~~~li~~~~~~g~~~~----A~~~~~~~~~~~~  458 (833)
                      +.+....++...+..+...+.+.|++++|.+.++++.+.. +.+...+..+...+...|++++    |...++..+...+
T Consensus       203 ~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~-p~~~~~~~~Lg~~l~~~G~~~eA~~~A~~~~~~Al~l~P  281 (656)
T PRK15174        203 LLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALARG-LDGAALRRSLGLAYYQSGRSREAKLQAAEHWRHALQFNS  281 (656)
T ss_pred             HHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCchhhHHHHHHHHHHHHhhCC
Confidence            6554332333344444555666666666666666666543 2234444445555555555543    4444444444322


Q ss_pred             CCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHH
Q 003295          459 RPGDGLLTLLVSGLCKNGKQAEATELCFRLFEKGFTVNTVTSNALIHGMCEAGNLKEAGKLLMEMLQRGLILDKVTYNTL  538 (833)
Q Consensus       459 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~l~~m~~~g~~~~~~~~~~l  538 (833)
                      . +..++..+...+.+.|++++|...+++..+..+ .+...+..+...+.+.|++++|...|+++.+.++. +...+..+
T Consensus       282 ~-~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l~P-~~~~a~~~La~~l~~~G~~~eA~~~l~~al~~~P~-~~~~~~~~  358 (656)
T PRK15174        282 D-NVRIVTLYADALIRTGQNEKAIPLLQQSLATHP-DLPYVRAMYARALRQVGQYTAASDEFVQLAREKGV-TSKWNRYA  358 (656)
T ss_pred             C-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcc-chHHHHHH
Confidence            1 233344444444444444444444444444321 13333444444444444444444444444433221 11122222


Q ss_pred             HHHHHhcCChhhHHHHHHHHHH
Q 003295          539 ILGCCKDGKPEEGFKLKEDMIK  560 (833)
Q Consensus       539 i~~~~~~g~~~~A~~~~~~m~~  560 (833)
                      ..++...|+.++|...|++.++
T Consensus       359 a~al~~~G~~deA~~~l~~al~  380 (656)
T PRK15174        359 AAALLQAGKTSEAESVFEHYIQ  380 (656)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHH
Confidence            3334444444444444444444

>KOG0495 consensus HAT repeat protein [RNA processing and modification]

Probab=99.85  E-value=1.3e-14  Score=150.14  Aligned_cols=584  Identities=11%  Similarity=0.022  Sum_probs=353.9

Q ss_pred             HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHH
Q 003295          199 FGYAIDVFSIFSSKGIFPSLKTCNFLLNSLVKANEVQKGIEVFETMCRGVSPDVFLFSTAINAFCKRGRIEDAIGLFTKM  278 (833)
Q Consensus       199 ~~~A~~~f~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m  278 (833)
                      ...|.-++....+.++. ++..|-+-...=-..|++..|..+...-++.++.+...|.--    ++....+.|..+....
T Consensus       267 ikKaR~llKSvretnP~-hp~gWIAsArLEEvagKl~~Ar~~I~~GCe~cprSeDvWLea----iRLhp~d~aK~vvA~A  341 (913)
T KOG0495|consen  267 IKKARLLLKSVRETNPK-HPPGWIASARLEEVAGKLSVARNLIMKGCEECPRSEDVWLEA----IRLHPPDVAKTVVANA  341 (913)
T ss_pred             HHHHHHHHHHHHhcCCC-CCchHHHHHHHHHHhhHHHHHHHHHHHHHhhCCchHHHHHHH----HhcCChHHHHHHHHHH
Confidence            45677788887777765 444555555555567888888887766665566666666433    3445566677777666


Q ss_pred             HHcCCCCChh-hHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCh
Q 003295          279 EELGIAPNVV-TYNNIIHGLCRNGRLYEAFHLKEKMVLREVEPSLITYSILINGLIKLEKFDDANFVLKEMSVRGFVPNY  357 (833)
Q Consensus       279 ~~~g~~p~~~-~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~  357 (833)
                      .+.  -|+.+ .|--.++.   ..+...=.+++++..+. ++.++..|-..    +...+-++|+.++....+-  -|. 
T Consensus       342 vr~--~P~Sv~lW~kA~dL---E~~~~~K~RVlRKALe~-iP~sv~LWKaA----VelE~~~darilL~rAvec--cp~-  408 (913)
T KOG0495|consen  342 VRF--LPTSVRLWLKAADL---ESDTKNKKRVLRKALEH-IPRSVRLWKAA----VELEEPEDARILLERAVEC--CPQ-  408 (913)
T ss_pred             HHh--CCCChhhhhhHHhh---hhHHHHHHHHHHHHHHh-CCchHHHHHHH----HhccChHHHHHHHHHHHHh--ccc-
Confidence            654  23332 22222111   12223334455555554 33344444433    3345555566666666653  221 


Q ss_pred             hhHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHH----HCCCCCCcccHHHH
Q 003295          358 VVYNTLIDGYCKKGNISEALKIRDDMVSKGMSPNSVTFNSLIHGFCKSGQMDNAENALEEML----SRGLSINQGAYTSV  433 (833)
Q Consensus       358 ~~y~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~l~~~~----~~g~~~~~~~~~~l  433 (833)
                        -..|.-+|.+..-++.|.++++...+. ++-+...|.+-...--.+|+.+....++.+-.    ..|+..+...|..=
T Consensus       409 --s~dLwlAlarLetYenAkkvLNkaRe~-iptd~~IWitaa~LEE~ngn~~mv~kii~rgl~~L~~ngv~i~rdqWl~e  485 (913)
T KOG0495|consen  409 --SMDLWLALARLETYENAKKVLNKAREI-IPTDREIWITAAKLEEANGNVDMVEKIIDRGLSELQANGVEINRDQWLKE  485 (913)
T ss_pred             --hHHHHHHHHHHHHHHHHHHHHHHHHhh-CCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhcceeecHHHHHHH
Confidence              122333455666677777777776664 44466666666666666777776666665433    35666666677776


Q ss_pred             HHHHHhcCChhHHHHHHHHHHHCCCCCCh--hhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC
Q 003295          434 IKWLCINSRFNSALHFTKEMLLRNLRPGD--GLLTLLVSGLCKNGKQAEATELCFRLFEKGFTVNTVTSNALIHGMCEAG  511 (833)
Q Consensus       434 i~~~~~~g~~~~A~~~~~~~~~~~~~~~~--~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g  511 (833)
                      ...+-..|..-.+..+.+..+.-|+...+  .|+..-...|.+.+.++-|..+|...++. ++.+...|...+..--..|
T Consensus       486 Ae~~e~agsv~TcQAIi~avigigvEeed~~~tw~~da~~~~k~~~~~carAVya~alqv-fp~k~slWlra~~~ek~hg  564 (913)
T KOG0495|consen  486 AEACEDAGSVITCQAIIRAVIGIGVEEEDRKSTWLDDAQSCEKRPAIECARAVYAHALQV-FPCKKSLWLRAAMFEKSHG  564 (913)
T ss_pred             HHHHhhcCChhhHHHHHHHHHhhccccchhHhHHhhhHHHHHhcchHHHHHHHHHHHHhh-ccchhHHHHHHHHHHHhcC
Confidence            77777777777777777776666655433  45566666677777777777777776665 3445666766666666667


Q ss_pred             CHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 003295          512 NLKEAGKLLMEMLQRGLILDKVTYNTLILGCCKDGKPEEGFKLKEDMIKRGIQPDNYTYNLLLHGLCSLGKMEEAIELWE  591 (833)
Q Consensus       512 ~~~~A~~~l~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~  591 (833)
                      ..++-..+|++....-++ ....|......+-..|++..|..++.+..+.... +...|-+.+........++.|..+|.
T Consensus       565 t~Esl~Allqkav~~~pk-ae~lwlM~ake~w~agdv~~ar~il~~af~~~pn-seeiwlaavKle~en~e~eraR~lla  642 (913)
T KOG0495|consen  565 TRESLEALLQKAVEQCPK-AEILWLMYAKEKWKAGDVPAARVILDQAFEANPN-SEEIWLAAVKLEFENDELERARDLLA  642 (913)
T ss_pred             cHHHHHHHHHHHHHhCCc-chhHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCC-cHHHHHHHHHHhhccccHHHHHHHHH
Confidence            777777777777665333 4555555566666677777777777777766444 55666666666677777777777777


Q ss_pred             HHhhCCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCC
Q 003295          592 ECKRTVFGPDIYTYGVMIDGFCKADKIEEGETLFNEMISKKMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPT  671 (833)
Q Consensus       592 ~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~  671 (833)
                      +....  .|+...|..-+....-.+..++|.+++++.++.-+. -.-.|..+.+.+-+.++.+.|.+.|..-.+. ++-.
T Consensus       643 kar~~--sgTeRv~mKs~~~er~ld~~eeA~rllEe~lk~fp~-f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k~-cP~~  718 (913)
T KOG0495|consen  643 KARSI--SGTERVWMKSANLERYLDNVEEALRLLEEALKSFPD-FHKLWLMLGQIEEQMENIEMAREAYLQGTKK-CPNS  718 (913)
T ss_pred             HHhcc--CCcchhhHHHhHHHHHhhhHHHHHHHHHHHHHhCCc-hHHHHHHHhHHHHHHHHHHHHHHHHHhcccc-CCCC
Confidence            76654  355556655555555567777777777777665322 3455666666777777777777777665544 2334


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 003295          672 SVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGG  751 (833)
Q Consensus       672 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~  751 (833)
                      ...|..|...-.+.|.+-+|..++++..-.+ +-+...|-..|..-.+.|+.+.|..+..++.+. ++.+...|..-|+.
T Consensus       719 ipLWllLakleEk~~~~~rAR~ildrarlkN-Pk~~~lwle~Ir~ElR~gn~~~a~~lmakALQe-cp~sg~LWaEaI~l  796 (913)
T KOG0495|consen  719 IPLWLLLAKLEEKDGQLVRARSILDRARLKN-PKNALLWLESIRMELRAGNKEQAELLMAKALQE-CPSSGLLWAEAIWL  796 (913)
T ss_pred             chHHHHHHHHHHHhcchhhHHHHHHHHHhcC-CCcchhHHHHHHHHHHcCCHHHHHHHHHHHHHh-CCccchhHHHHHHh
Confidence            4455555566666677777777777776654 445666777777777777777777776666643 45555566666665


Q ss_pred             HHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHHCCCCCC-HHHHHHHH
Q 003295          752 YCKLGDMKEAAKLLNVMAEKGISPDSITYNVFMDGHCKGGNVEEAFKVCDRMLSEGLSLD-EITYTTLI  819 (833)
Q Consensus       752 ~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~~~~~l~  819 (833)
                      .-+.++-..+...+++     +.-|+.+...+...+....++++|.++|++.++  +.|| ..+|..+.
T Consensus       797 e~~~~rkTks~DALkk-----ce~dphVllaia~lfw~e~k~~kar~Wf~Ravk--~d~d~GD~wa~fy  858 (913)
T KOG0495|consen  797 EPRPQRKTKSIDALKK-----CEHDPHVLLAIAKLFWSEKKIEKAREWFERAVK--KDPDNGDAWAWFY  858 (913)
T ss_pred             ccCcccchHHHHHHHh-----ccCCchhHHHHHHHHHHHHHHHHHHHHHHHHHc--cCCccchHHHHHH
Confidence            5555554444444433     334555555566666666666666666666665  3444 34444443

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.84  E-value=1.2e-16  Score=186.18  Aligned_cols=158  Identities=14%  Similarity=0.038  Sum_probs=96.1

Q ss_pred             HHHHHHHhcCChhHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCC
Q 003295          223 FLLNSLVKANEVQKGIEVFETMCRGVSPDVFLFSTAINAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIHGLCRNGR  302 (833)
Q Consensus       223 ~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~  302 (833)
                      -.+......|+.++|+.+|.+.....+.+...+..+...+.+.|++++|.++|++..+..+ .+...+..++..+...|+
T Consensus        20 d~~~ia~~~g~~~~A~~~~~~~~~~~~~~a~~~~~lA~~~~~~g~~~~A~~~~~~al~~~P-~~~~a~~~la~~l~~~g~   98 (765)
T PRK10049         20 DWLQIALWAGQDAEVITVYNRYRVHMQLPARGYAAVAVAYRNLKQWQNSLTLWQKALSLEP-QNDDYQRGLILTLADAGQ   98 (765)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHCCC
Confidence            3444455667777777777666532344455566666677777777777777777665421 134455566666666777


Q ss_pred             hhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHHcCChHHHHHHHHH
Q 003295          303 LYEAFHLKEKMVLREVEPSLITYSILINGLIKLEKFDDANFVLKEMSVRGFVPNYVVYNTLIDGYCKKGNISEALKIRDD  382 (833)
Q Consensus       303 ~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~A~~~~~~  382 (833)
                      +++|+..+++..+.. +.+.. +..+...+...|+.++|...++++.+.... +...+..+...+.+.|..++|++.++.
T Consensus        99 ~~eA~~~l~~~l~~~-P~~~~-~~~la~~l~~~g~~~~Al~~l~~al~~~P~-~~~~~~~la~~l~~~~~~e~Al~~l~~  175 (765)
T PRK10049         99 YDEALVKAKQLVSGA-PDKAN-LLALAYVYKRAGRHWDELRAMTQALPRAPQ-TQQYPTEYVQALRNNRLSAPALGAIDD  175 (765)
T ss_pred             HHHHHHHHHHHHHhC-CCCHH-HHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCChHHHHHHHHh
Confidence            777777777766552 23334 666666666777777777777777665222 344445556666666667777766665


Q ss_pred             HH
Q 003295          383 MV  384 (833)
Q Consensus       383 m~  384 (833)
                      ..
T Consensus       176 ~~  177 (765)
T PRK10049        176 AN  177 (765)
T ss_pred             CC
Confidence            44

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.83  E-value=2.1e-15  Score=171.76  Aligned_cols=431  Identities=12%  Similarity=0.044  Sum_probs=232.3

Q ss_pred             HHhcCChhHHHHHHHHHHHCCCCCCh--hhHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChh
Q 003295          332 LIKLEKFDDANFVLKEMSVRGFVPNY--VVYNTLIDGYCKKGNISEALKIRDDMVSKGMSPNSVTFNSLIHGFCKSGQMD  409 (833)
Q Consensus       332 ~~~~g~~~~A~~~~~~m~~~g~~p~~--~~y~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~  409 (833)
                      ..+.|+++.|+..|++..+.  .|+.  ..+ .++..+...|+.++|+..+++..... .........+...+...|+++
T Consensus        44 ~~r~Gd~~~Al~~L~qaL~~--~P~~~~av~-dll~l~~~~G~~~~A~~~~eka~~p~-n~~~~~llalA~ly~~~gdyd  119 (822)
T PRK14574         44 RARAGDTAPVLDYLQEESKA--GPLQSGQVD-DWLQIAGWAGRDQEVIDVYERYQSSM-NISSRGLASAARAYRNEKRWD  119 (822)
T ss_pred             HHhCCCHHHHHHHHHHHHhh--CccchhhHH-HHHHHHHHcCCcHHHHHHHHHhccCC-CCCHHHHHHHHHHHHHcCCHH
Confidence            35666666666666666654  3332  122 55555666666666666666655210 111122222244555556666


Q ss_pred             HHHHHHHHHHHCCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 003295          410 NAENALEEMLSRGLSINQGAYTSVIKWLCINSRFNSALHFTKEMLLRNLRPGDGLLTLLVSGLCKNGKQAEATELCFRLF  489 (833)
Q Consensus       410 ~A~~~l~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~  489 (833)
                      +|.++|+++.+.... +...+                                   ..++..+...++.++|++.++++.
T Consensus       120 ~Aiely~kaL~~dP~-n~~~l-----------------------------------~gLa~~y~~~~q~~eAl~~l~~l~  163 (822)
T PRK14574        120 QALALWQSSLKKDPT-NPDLI-----------------------------------SGMIMTQADAGRGGVVLKQATELA  163 (822)
T ss_pred             HHHHHHHHHHhhCCC-CHHHH-----------------------------------HHHHHHHhhcCCHHHHHHHHHHhc
Confidence            666666666654322 23333                                   344444555555555555555554


Q ss_pred             HCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHH
Q 003295          490 EKGFTVNTVTSNALIHGMCEAGNLKEAGKLLMEMLQRGLILDKVTYNTLILGCCKDGKPEEGFKLKEDMIKRGIQPDNYT  569 (833)
Q Consensus       490 ~~g~~~~~~~~~~li~~~~~~g~~~~A~~~l~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~  569 (833)
                      ...  |+...+..++..+...++..+|++.++++.+.++. +...+..+...+.+.|-...|.++..+-... +.+....
T Consensus       164 ~~d--p~~~~~l~layL~~~~~~~~~AL~~~ekll~~~P~-n~e~~~~~~~~l~~~~~~~~a~~l~~~~p~~-f~~~~~~  239 (822)
T PRK14574        164 ERD--PTVQNYMTLSYLNRATDRNYDALQASSEAVRLAPT-SEEVLKNHLEILQRNRIVEPALRLAKENPNL-VSAEHYR  239 (822)
T ss_pred             ccC--cchHHHHHHHHHHHhcchHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCcHHHHHHHHhCccc-cCHHHHH
Confidence            432  22223333333333334444455555555555433 4455555555555555555555444432111 1100000


Q ss_pred             ------HHHHHHHH-----HhcC---CHHHHHHHHHHHhhCC-CCCC-HhhH-H---HHHHHHHccCCHHHHHHHHHHHH
Q 003295          570 ------YNLLLHGL-----CSLG---KMEEAIELWEECKRTV-FGPD-IYTY-G---VMIDGFCKADKIEEGETLFNEMI  629 (833)
Q Consensus       570 ------~~~li~~~-----~~~g---~~~~A~~~~~~~~~~~-~~~~-~~~~-~---~li~~~~~~g~~~~A~~~~~~~~  629 (833)
                            ....++.-     ....   -.+.|+.-++.+...- -.|. ...| .   -.+-++.+.|++.++++.|+.+.
T Consensus       240 ~l~~~~~a~~vr~a~~~~~~~~~r~~~~d~ala~~~~l~~~~~~~p~~~~~~~~~~~Drl~aL~~r~r~~~vi~~y~~l~  319 (822)
T PRK14574        240 QLERDAAAEQVRMAVLPTRSETERFDIADKALADYQNLLTRWGKDPEAQADYQRARIDRLGALLVRHQTADLIKEYEAME  319 (822)
T ss_pred             HHHHHHHHHHHhhcccccccchhhHHHHHHHHHHHHHHHhhccCCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhh
Confidence                  00000000     0011   1233444444444311 1122 1111 1   22345666777777777777777


Q ss_pred             HCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCC-----CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC-
Q 003295          630 SKKMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRG-----ILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGL-  703 (833)
Q Consensus       630 ~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~-----~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~-  703 (833)
                      ..+.+....+-..+.++|...+++++|+.+++.+....     ..++......|..++...+++++|..+++++.+.-- 
T Consensus       320 ~~~~~~P~y~~~a~adayl~~~~P~kA~~l~~~~~~~~~~~~~~~~~~~~~~~L~yA~ld~e~~~~A~~~l~~~~~~~p~  399 (822)
T PRK14574        320 AEGYKMPDYARRWAASAYIDRRLPEKAAPILSSLYYSDGKTFRNSDDLLDADDLYYSLNESEQLDKAYQFAVNYSEQTPY  399 (822)
T ss_pred             hcCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHhhccccccCCCcchHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCc
Confidence            76655455566777777777777777777777775532     122333346677777777777777777777776310 


Q ss_pred             ----------CCCh---hHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 003295          704 ----------LPNV---ACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAE  770 (833)
Q Consensus       704 ----------~p~~---~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  770 (833)
                                .||.   ..+..++..+...|++.+|++.++++.... |-|......+...+...|++.+|.+.++.+..
T Consensus       400 ~~~~~~~~~~~pn~d~~~~~~l~a~~~~~~gdl~~Ae~~le~l~~~a-P~n~~l~~~~A~v~~~Rg~p~~A~~~~k~a~~  478 (822)
T PRK14574        400 QVGVYGLPGKEPNDDWIEGQTLLVQSLVALNDLPTAQKKLEDLSSTA-PANQNLRIALASIYLARDLPRKAEQELKAVES  478 (822)
T ss_pred             EEeccCCCCCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhh
Confidence                      1221   123345566677778888888888777654 66777777777778888888888887766555


Q ss_pred             cCCCC-CHHHHHHHHHHHhcCCCHHHHHHHHHHHHHCCCCCC
Q 003295          771 KGISP-DSITYNVFMDGHCKGGNVEEAFKVCDRMLSEGLSLD  811 (833)
Q Consensus       771 ~g~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~p~  811 (833)
                        +.| +..+....+.++...|++++|..+.+.+.+  ..|+
T Consensus       479 --l~P~~~~~~~~~~~~al~l~e~~~A~~~~~~l~~--~~Pe  516 (822)
T PRK14574        479 --LAPRSLILERAQAETAMALQEWHQMELLTDDVIS--RSPE  516 (822)
T ss_pred             --hCCccHHHHHHHHHHHHhhhhHHHHHHHHHHHHh--hCCC
Confidence              345 445666777777777888888777777766  4455

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.83  E-value=3.8e-16  Score=181.89  Aligned_cols=395  Identities=11%  Similarity=0.037  Sum_probs=181.8

Q ss_pred             HHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChh
Q 003295          330 NGLIKLEKFDDANFVLKEMSVRGFVPNYVVYNTLIDGYCKKGNISEALKIRDDMVSKGMSPNSVTFNSLIHGFCKSGQMD  409 (833)
Q Consensus       330 ~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~  409 (833)
                      ......|+.++|+.++.+..... ..+...+..+...+.+.|++++|.+++++..+..+. +...+..++..+.+.|+++
T Consensus        23 ~ia~~~g~~~~A~~~~~~~~~~~-~~~a~~~~~lA~~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~la~~l~~~g~~~  100 (765)
T PRK10049         23 QIALWAGQDAEVITVYNRYRVHM-QLPARGYAAVAVAYRNLKQWQNSLTLWQKALSLEPQ-NDDYQRGLILTLADAGQYD  100 (765)
T ss_pred             HHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHH
Confidence            33444556666665555555411 223334555555555666666666666555543211 3334445555555555555


Q ss_pred             HHHHHHHHHHHCCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 003295          410 NAENALEEMLSRGLSINQGAYTSVIKWLCINSRFNSALHFTKEMLLRNLRPGDGLLTLLVSGLCKNGKQAEATELCFRLF  489 (833)
Q Consensus       410 ~A~~~l~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~  489 (833)
                      +|...++++.+.. +.+.. +                                   ..+...+...|+.++|...++++.
T Consensus       101 eA~~~l~~~l~~~-P~~~~-~-----------------------------------~~la~~l~~~g~~~~Al~~l~~al  143 (765)
T PRK10049        101 EALVKAKQLVSGA-PDKAN-L-----------------------------------LALAYVYKRAGRHWDELRAMTQAL  143 (765)
T ss_pred             HHHHHHHHHHHhC-CCCHH-H-----------------------------------HHHHHHHHHCCCHHHHHHHHHHHH
Confidence            5555555555441 11222 3                                   344444445555555555555555


Q ss_pred             HCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCH------HHHHHHHHHHH-----hcCCh---hhHHHHH
Q 003295          490 EKGFTVNTVTSNALIHGMCEAGNLKEAGKLLMEMLQRGLILDK------VTYNTLILGCC-----KDGKP---EEGFKLK  555 (833)
Q Consensus       490 ~~g~~~~~~~~~~li~~~~~~g~~~~A~~~l~~m~~~g~~~~~------~~~~~li~~~~-----~~g~~---~~A~~~~  555 (833)
                      +..+. +...+..+...+...+..++|+..++....   .|+.      .....++....     ..+++   ++|++.+
T Consensus       144 ~~~P~-~~~~~~~la~~l~~~~~~e~Al~~l~~~~~---~p~~~~~l~~~~~~~~~r~~~~~~~~~~~r~~~ad~Al~~~  219 (765)
T PRK10049        144 PRAPQ-TQQYPTEYVQALRNNRLSAPALGAIDDANL---TPAEKRDLEADAAAELVRLSFMPTRSEKERYAIADRALAQY  219 (765)
T ss_pred             HhCCC-CHHHHHHHHHHHHHCCChHHHHHHHHhCCC---CHHHHHHHHHHHHHHHHHhhcccccChhHHHHHHHHHHHHH
Confidence            54222 444444455555555666666665554433   1110      00111111111     11122   4556666


Q ss_pred             HHHHHC-CCCCCHH-HH----HHHHHHHHhcCCHHHHHHHHHHHhhCCCC-CCHhhHHHHHHHHHccCCHHHHHHHHHHH
Q 003295          556 EDMIKR-GIQPDNY-TY----NLLLHGLCSLGKMEEAIELWEECKRTVFG-PDIYTYGVMIDGFCKADKIEEGETLFNEM  628 (833)
Q Consensus       556 ~~m~~~-g~~p~~~-~~----~~li~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~~li~~~~~~g~~~~A~~~~~~~  628 (833)
                      +.+++. ...|+.. .+    ...+..+...|++++|+..|+.+.+.+.. |+. ....+...|...|++++|+..|+++
T Consensus       220 ~~ll~~~~~~p~~~~~~~~a~~d~l~~Ll~~g~~~eA~~~~~~ll~~~~~~P~~-a~~~la~~yl~~g~~e~A~~~l~~~  298 (765)
T PRK10049        220 DALEALWHDNPDATADYQRARIDRLGALLARDRYKDVISEYQRLKAEGQIIPPW-AQRWVASAYLKLHQPEKAQSILTEL  298 (765)
T ss_pred             HHHHhhcccCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhccCCCCCHH-HHHHHHHHHHhcCCcHHHHHHHHHH
Confidence            666543 1122111 11    01122334456666666666666554321 221 1111344556666666666666665


Q ss_pred             HHCCCcc---CHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCC-----------CCC---HHHHHHHHHHHHhcCCHHHH
Q 003295          629 ISKKMEL---NPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGI-----------LPT---SVTYSSLIHGLCNIGLIEDA  691 (833)
Q Consensus       629 ~~~~~~~---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~-----------~p~---~~~~~~li~~~~~~g~~~~A  691 (833)
                      .+..+..   ....+..+..++.+.|++++|.+.++.+.+...           .|+   ...+..+...+...|+.++|
T Consensus       299 l~~~p~~~~~~~~~~~~L~~a~~~~g~~~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a~~~~a~~l~~~g~~~eA  378 (765)
T PRK10049        299 FYHPETIADLSDEELADLFYSLLESENYPGALTVTAHTINNSPPFLRLYGSPTSIPNDDWLQGQSLLSQVAKYSNDLPQA  378 (765)
T ss_pred             hhcCCCCCCCChHHHHHHHHHHHhcccHHHHHHHHHHHhhcCCceEeecCCCCCCCCchHHHHHHHHHHHHHHcCCHHHH
Confidence            5432211   123344444455566666666666665554321           011   11223334444455555555


Q ss_pred             HHHHHHHHHCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 003295          692 KCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAE  770 (833)
Q Consensus       692 ~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  770 (833)
                      ++.++++.... +.+...+..++..+...|++++|++.+++..+.. +.+...+..++..+...|++++|...++++++
T Consensus       379 ~~~l~~al~~~-P~n~~l~~~lA~l~~~~g~~~~A~~~l~~al~l~-Pd~~~l~~~~a~~al~~~~~~~A~~~~~~ll~  455 (765)
T PRK10049        379 EMRARELAYNA-PGNQGLRIDYASVLQARGWPRAAENELKKAEVLE-PRNINLEVEQAWTALDLQEWRQMDVLTDDVVA  455 (765)
T ss_pred             HHHHHHHHHhC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            55555554431 2234444455555555555555555555555432 22233444444445555555555555555554

>KOG0495 consensus HAT repeat protein [RNA processing and modification]

Probab=99.82  E-value=4.6e-13  Score=138.84  Aligned_cols=544  Identities=14%  Similarity=0.079  Sum_probs=403.0

Q ss_pred             hcCChhHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCC-hhhHHHHHHHHHhcCChhHHHH
Q 003295          230 KANEVQKGIEVFETMCRGVSPDVFLFSTAINAFCKRGRIEDAIGLFTKMEELGIAPN-VVTYNNIIHGLCRNGRLYEAFH  308 (833)
Q Consensus       230 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~~~~~li~~~~~~g~~~~A~~  308 (833)
                      +....+.|..+.....+-.|.++..|.-.+.   -..+...-.+++.+.++.  -|+ +..|-..+    ...+.+.|+.
T Consensus       327 RLhp~d~aK~vvA~Avr~~P~Sv~lW~kA~d---LE~~~~~K~RVlRKALe~--iP~sv~LWKaAV----elE~~~dari  397 (913)
T KOG0495|consen  327 RLHPPDVAKTVVANAVRFLPTSVRLWLKAAD---LESDTKNKKRVLRKALEH--IPRSVRLWKAAV----ELEEPEDARI  397 (913)
T ss_pred             hcCChHHHHHHHHHHHHhCCCChhhhhhHHh---hhhHHHHHHHHHHHHHHh--CCchHHHHHHHH----hccChHHHHH
Confidence            3345566777776666555555655533222   233445556677777764  244 44444433    3456666888


Q ss_pred             HHHHHHhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHHcCChHHHHHHHHHH----H
Q 003295          309 LKEKMVLREVEPSLITYSILINGLIKLEKFDDANFVLKEMSVRGFVPNYVVYNTLIDGYCKKGNISEALKIRDDM----V  384 (833)
Q Consensus       309 ~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~A~~~~~~m----~  384 (833)
                      ++.+..+. ++.+..    |.-+|.+..-|+.|..+++...+. +..+...|.+-...--.+|+.+...+++++-    .
T Consensus       398 lL~rAvec-cp~s~d----LwlAlarLetYenAkkvLNkaRe~-iptd~~IWitaa~LEE~ngn~~mv~kii~rgl~~L~  471 (913)
T KOG0495|consen  398 LLERAVEC-CPQSMD----LWLALARLETYENAKKVLNKAREI-IPTDREIWITAAKLEEANGNVDMVEKIIDRGLSELQ  471 (913)
T ss_pred             HHHHHHHh-ccchHH----HHHHHHHHHHHHHHHHHHHHHHhh-CCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHHHHh
Confidence            88888764 333333    334556777888888888888765 4446777777777777888888888777654    3


Q ss_pred             hCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCC--CcccHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCh
Q 003295          385 SKGMSPNSVTFNSLIHGFCKSGQMDNAENALEEMLSRGLSI--NQGAYTSVIKWLCINSRFNSALHFTKEMLLRNLRPGD  462 (833)
Q Consensus       385 ~~g~~p~~~~~~~li~~~~~~g~~~~A~~~l~~~~~~g~~~--~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~  462 (833)
                      ..|+..+...|..=...+-+.|..--+..+....+..|+.-  -..+|+.-...|.+.+.++-|..+|...++..+. +.
T Consensus       472 ~ngv~i~rdqWl~eAe~~e~agsv~TcQAIi~avigigvEeed~~~tw~~da~~~~k~~~~~carAVya~alqvfp~-k~  550 (913)
T KOG0495|consen  472 ANGVEINRDQWLKEAEACEDAGSVITCQAIIRAVIGIGVEEEDRKSTWLDDAQSCEKRPAIECARAVYAHALQVFPC-KK  550 (913)
T ss_pred             hcceeecHHHHHHHHHHHhhcCChhhHHHHHHHHHhhccccchhHhHHhhhHHHHHhcchHHHHHHHHHHHHhhccc-hh
Confidence            46777777777777777777788888888888887776642  3467888888888888888888888887765433 34


Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHH
Q 003295          463 GLLTLLVSGLCKNGKQAEATELCFRLFEKGFTVNTVTSNALIHGMCEAGNLKEAGKLLMEMLQRGLILDKVTYNTLILGC  542 (833)
Q Consensus       463 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~l~~m~~~g~~~~~~~~~~li~~~  542 (833)
                      ..+...+..--..|..++-..++++.+.. ++.....|......+-..|++..|..++.+..+.++. +...|-.-+..-
T Consensus       551 slWlra~~~ek~hgt~Esl~Allqkav~~-~pkae~lwlM~ake~w~agdv~~ar~il~~af~~~pn-seeiwlaavKle  628 (913)
T KOG0495|consen  551 SLWLRAAMFEKSHGTRESLEALLQKAVEQ-CPKAEILWLMYAKEKWKAGDVPAARVILDQAFEANPN-SEEIWLAAVKLE  628 (913)
T ss_pred             HHHHHHHHHHHhcCcHHHHHHHHHHHHHh-CCcchhHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCC-cHHHHHHHHHHh
Confidence            45555666666778888888899988887 4446777888888888889999999999999888766 788888888888


Q ss_pred             HhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCC-HhhHHHHHHHHHccCCHHHH
Q 003295          543 CKDGKPEEGFKLKEDMIKRGIQPDNYTYNLLLHGLCSLGKMEEAIELWEECKRTVFGPD-IYTYGVMIDGFCKADKIEEG  621 (833)
Q Consensus       543 ~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~-~~~~~~li~~~~~~g~~~~A  621 (833)
                      ..+..++.|..+|.+....  .|+...|.--+...--.++.++|++++++..+.  -|+ ...|..+.+.+-+.++++.|
T Consensus       629 ~en~e~eraR~llakar~~--sgTeRv~mKs~~~er~ld~~eeA~rllEe~lk~--fp~f~Kl~lmlGQi~e~~~~ie~a  704 (913)
T KOG0495|consen  629 FENDELERARDLLAKARSI--SGTERVWMKSANLERYLDNVEEALRLLEEALKS--FPDFHKLWLMLGQIEEQMENIEMA  704 (913)
T ss_pred             hccccHHHHHHHHHHHhcc--CCcchhhHHHhHHHHHhhhHHHHHHHHHHHHHh--CCchHHHHHHHhHHHHHHHHHHHH
Confidence            8899999999999988775  456666666666666678899999999888875  344 55677888888899999999


Q ss_pred             HHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 003295          622 ETLFNEMISKKMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKE  701 (833)
Q Consensus       622 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  701 (833)
                      .+.|..-.+.-+. .+..|-.+...--+.|.+-.|..++++..-++ +-+...|...|..-.+.|+.+.|..+..++++.
T Consensus       705 R~aY~~G~k~cP~-~ipLWllLakleEk~~~~~rAR~ildrarlkN-Pk~~~lwle~Ir~ElR~gn~~~a~~lmakALQe  782 (913)
T KOG0495|consen  705 REAYLQGTKKCPN-SIPLWLLLAKLEEKDGQLVRARSILDRARLKN-PKNALLWLESIRMELRAGNKEQAELLMAKALQE  782 (913)
T ss_pred             HHHHHhccccCCC-CchHHHHHHHHHHHhcchhhHHHHHHHHHhcC-CCcchhHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            9888877665333 66788888888888899999999999988776 447788888999999999999999999888876


Q ss_pred             CCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC-HHHH
Q 003295          702 GLLPNVACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISPD-SITY  780 (833)
Q Consensus       702 g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~~~  780 (833)
                       ++.+...|..-|....+.++-..+...+++     +.-|+....++...+....++++|.+.|.+.+..  .|| -.+|
T Consensus       783 -cp~sg~LWaEaI~le~~~~rkTks~DALkk-----ce~dphVllaia~lfw~e~k~~kar~Wf~Ravk~--d~d~GD~w  854 (913)
T KOG0495|consen  783 -CPSSGLLWAEAIWLEPRPQRKTKSIDALKK-----CEHDPHVLLAIAKLFWSEKKIEKAREWFERAVKK--DPDNGDAW  854 (913)
T ss_pred             -CCccchhHHHHHHhccCcccchHHHHHHHh-----ccCCchhHHHHHHHHHHHHHHHHHHHHHHHHHcc--CCccchHH
Confidence             455667777777777666665554444443     3557777788888888899999999999999885  354 4678


Q ss_pred             HHHHHHHhcCCCHHHHHHHHHHHHH
Q 003295          781 NVFMDGHCKGGNVEEAFKVCDRMLS  805 (833)
Q Consensus       781 ~~l~~~~~~~g~~~~A~~~~~~m~~  805 (833)
                      .-+..-+...|.-+.-.+++.....
T Consensus       855 a~fykfel~hG~eed~kev~~~c~~  879 (913)
T KOG0495|consen  855 AWFYKFELRHGTEEDQKEVLKKCET  879 (913)
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHhc
Confidence            8888888889988888888887776

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.81  E-value=1.1e-14  Score=165.93  Aligned_cols=443  Identities=14%  Similarity=0.086  Sum_probs=269.4

Q ss_pred             hhccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHH
Q 003295          194 FKNLGFGYAIDVFSIFSSKGIFPSLKTCNFLLNSLVKANEVQKGIEVFETMCRGVSPDVFLFSTAINAFCKRGRIEDAIG  273 (833)
Q Consensus       194 ~~~~~~~~A~~~f~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~  273 (833)
                      ++.|++..|++.|++..+..+.-....+ .++..+...|+.++|+..+++.....+.+......+...+...|++++|.+
T Consensus        45 ~r~Gd~~~Al~~L~qaL~~~P~~~~av~-dll~l~~~~G~~~~A~~~~eka~~p~n~~~~~llalA~ly~~~gdyd~Aie  123 (822)
T PRK14574         45 ARAGDTAPVLDYLQEESKAGPLQSGQVD-DWLQIAGWAGRDQEVIDVYERYQSSMNISSRGLASAARAYRNEKRWDQALA  123 (822)
T ss_pred             HhCCCHHHHHHHHHHHHhhCccchhhHH-HHHHHHHHcCCcHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHH
Confidence            4789999999999998877655222333 788888888999999999999973223334444445678888899999999


Q ss_pred             HHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCC
Q 003295          274 LFTKMEELGIAPNVVTYNNIIHGLCRNGRLYEAFHLKEKMVLREVEPSLITYSILINGLIKLEKFDDANFVLKEMSVRGF  353 (833)
Q Consensus       274 ~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~g~  353 (833)
                      +|+++.+..+. |...+..++..+...|+.++|++.++++...  .|+...+..++..+...++..+|++.++++.+.  
T Consensus       124 ly~kaL~~dP~-n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~--dp~~~~~l~layL~~~~~~~~~AL~~~ekll~~--  198 (822)
T PRK14574        124 LWQSSLKKDPT-NPDLISGMIMTQADAGRGGVVLKQATELAER--DPTVQNYMTLSYLNRATDRNYDALQASSEAVRL--  198 (822)
T ss_pred             HHHHHHhhCCC-CHHHHHHHHHHHhhcCCHHHHHHHHHHhccc--CcchHHHHHHHHHHHhcchHHHHHHHHHHHHHh--
Confidence            99999987544 4666777888889999999999999999876  566666655555555566776799999999987  


Q ss_pred             CC-ChhhHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCcccHHH
Q 003295          354 VP-NYVVYNTLIDGYCKKGNISEALKIRDDMVSKGMSPNSVTFNSLIHGFCKSGQMDNAENALEEMLSRGLSINQGAYTS  432 (833)
Q Consensus       354 ~p-~~~~y~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~l~~~~~~g~~~~~~~~~~  432 (833)
                      .| +...+..+...+.+.|-...|.++..+-      |+.++-......     +.+.|.+..+..    ..++..- . 
T Consensus       199 ~P~n~e~~~~~~~~l~~~~~~~~a~~l~~~~------p~~f~~~~~~~l-----~~~~~a~~vr~a----~~~~~~~-~-  261 (822)
T PRK14574        199 APTSEEVLKNHLEILQRNRIVEPALRLAKEN------PNLVSAEHYRQL-----ERDAAAEQVRMA----VLPTRSE-T-  261 (822)
T ss_pred             CCCCHHHHHHHHHHHHHcCCcHHHHHHHHhC------ccccCHHHHHHH-----HHHHHHHHHhhc----ccccccc-h-
Confidence            34 4667778888888999988888777653      332221111100     001111111100    0000000 0 


Q ss_pred             HHHHHHhcCChhHHHHHHHHHHHC-CCCCCh-----hhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 003295          433 VIKWLCINSRFNSALHFTKEMLLR-NLRPGD-----GLLTLLVSGLCKNGKQAEATELCFRLFEKGFTVNTVTSNALIHG  506 (833)
Q Consensus       433 li~~~~~~g~~~~A~~~~~~~~~~-~~~~~~-----~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~  506 (833)
                           -+.--.+.|+.-+..+... +..|..     ....-.+-++...|+..++++.++.+...+.+....+--.+.++
T Consensus       262 -----~r~~~~d~ala~~~~l~~~~~~~p~~~~~~~~~~~Drl~aL~~r~r~~~vi~~y~~l~~~~~~~P~y~~~a~ada  336 (822)
T PRK14574        262 -----ERFDIADKALADYQNLLTRWGKDPEAQADYQRARIDRLGALLVRHQTADLIKEYEAMEAEGYKMPDYARRWAASA  336 (822)
T ss_pred             -----hhHHHHHHHHHHHHHHHhhccCCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHH
Confidence                 0000122233333333321 111211     11112233555566666666666666665544444555566666


Q ss_pred             HHhcCCHHHHHHHHHHHhhCC-----CCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCC-------------CCCCHH
Q 003295          507 MCEAGNLKEAGKLLMEMLQRG-----LILDKVTYNTLILGCCKDGKPEEGFKLKEDMIKRG-------------IQPDNY  568 (833)
Q Consensus       507 ~~~~g~~~~A~~~l~~m~~~g-----~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g-------------~~p~~~  568 (833)
                      |...++.++|..+++++....     ..++......|..++...+++++|..+++.+.+..             ..||-.
T Consensus       337 yl~~~~P~kA~~l~~~~~~~~~~~~~~~~~~~~~~~L~yA~ld~e~~~~A~~~l~~~~~~~p~~~~~~~~~~~~pn~d~~  416 (822)
T PRK14574        337 YIDRRLPEKAAPILSSLYYSDGKTFRNSDDLLDADDLYYSLNESEQLDKAYQFAVNYSEQTPYQVGVYGLPGKEPNDDWI  416 (822)
T ss_pred             HHhcCCcHHHHHHHHHHhhccccccCCCcchHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCcEEeccCCCCCCCCccHH
Confidence            666666666666666664432     12233334556666666666666666666666521             112222


Q ss_pred             -HHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCccCHHHHHHHHHHH
Q 003295          569 -TYNLLLHGLCSLGKMEEAIELWEECKRTVFGPDIYTYGVMIDGFCKADKIEEGETLFNEMISKKMELNPVVYNTLIRAY  647 (833)
Q Consensus       569 -~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~  647 (833)
                       .+..++..+...|+..+|.+.++++.... +-|......+.+.+...|.+.+|++.++......+. +..+....+.++
T Consensus       417 ~~~~l~a~~~~~~gdl~~Ae~~le~l~~~a-P~n~~l~~~~A~v~~~Rg~p~~A~~~~k~a~~l~P~-~~~~~~~~~~~a  494 (822)
T PRK14574        417 EGQTLLVQSLVALNDLPTAQKKLEDLSSTA-PANQNLRIALASIYLARDLPRKAEQELKAVESLAPR-SLILERAQAETA  494 (822)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhhCCc-cHHHHHHHHHHH
Confidence             23334555666777777777777775543 446666667777777777777777777665555333 556666666666


Q ss_pred             HHcCChHHHHHHHHHHHhC
Q 003295          648 CKIGNTTAAFRLSNDMKSR  666 (833)
Q Consensus       648 ~~~g~~~~A~~~~~~m~~~  666 (833)
                      ...|++.+|..+.+.+.+.
T Consensus       495 l~l~e~~~A~~~~~~l~~~  513 (822)
T PRK14574        495 MALQEWHQMELLTDDVISR  513 (822)
T ss_pred             HhhhhHHHHHHHHHHHHhh
Confidence            7777777777777776665

>KOG2076 consensus RNA polymerase III transcription factor TFIIIC [Transcription]

Probab=99.81  E-value=2.6e-14  Score=154.12  Aligned_cols=372  Identities=15%  Similarity=0.076  Sum_probs=270.3

Q ss_pred             HHHHHHHHHHHhcCChhHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHH
Q 003295          219 KTCNFLLNSLVKANEVQKGIEVFETMCRGVSPDVFLFSTAINAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIHGLC  298 (833)
Q Consensus       219 ~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~  298 (833)
                      ...-...+.+...|++++|.+++.++++-.+.+...|..+...|-+.|+.+++...+-..--..+. |..-|-.+.....
T Consensus       140 ~~ll~eAN~lfarg~~eeA~~i~~EvIkqdp~~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL~p~-d~e~W~~ladls~  218 (895)
T KOG2076|consen  140 RQLLGEANNLFARGDLEEAEEILMEVIKQDPRNPIAYYTLGEIYEQRGDIEKALNFWLLAAHLNPK-DYELWKRLADLSE  218 (895)
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHHhCccchhhHHHHHHHHHHcccHHHHHHHHHHHHhcCCC-ChHHHHHHHHHHH
Confidence            333344444555699999999999999878889999999999999999999999888777655433 6688999999999


Q ss_pred             hcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChh----hHHHHHHHHHHcCChH
Q 003295          299 RNGRLYEAFHLKEKMVLREVEPSLITYSILINGLIKLEKFDDANFVLKEMSVRGFVPNYV----VYNTLIDGYCKKGNIS  374 (833)
Q Consensus       299 ~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~----~y~~li~~~~~~g~~~  374 (833)
                      +.|++++|.-.|.++++.. +++...+-.-...|-+.|+...|..-|.++.......|..    .--..+..+...++-+
T Consensus       219 ~~~~i~qA~~cy~rAI~~~-p~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~~~~~~e  297 (895)
T KOG2076|consen  219 QLGNINQARYCYSRAIQAN-PSNWELIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFITHNERE  297 (895)
T ss_pred             hcccHHHHHHHHHHHHhcC-CcchHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHhhHHH
Confidence            9999999999999999874 3444444455677889999999999999999874322222    2223456677788889


Q ss_pred             HHHHHHHHHHhCC-CCCChhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCc----------------------ccHH
Q 003295          375 EALKIRDDMVSKG-MSPNSVTFNSLIHGFCKSGQMDNAENALEEMLSRGLSINQ----------------------GAYT  431 (833)
Q Consensus       375 ~A~~~~~~m~~~g-~~p~~~~~~~li~~~~~~g~~~~A~~~l~~~~~~g~~~~~----------------------~~~~  431 (833)
                      .|.+.++.....+ -.-+...++.++..|.+...++.|......+..+...+|.                      ..|.
T Consensus       298 ~a~~~le~~~s~~~~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~~~~~~~~~~~~~~~~~s~~  377 (895)
T KOG2076|consen  298 RAAKALEGALSKEKDEASLEDLNILAELFLKNKQSDKALMKIVDDRNRESEKDDSEWDTDERRREEPNALCEVGKELSYD  377 (895)
T ss_pred             HHHHHHHHHHhhccccccccHHHHHHHHHHHhHHHHHhhHHHHHHhccccCCChhhhhhhhhccccccccccCCCCCCcc
Confidence            9999998887732 1225567889999999999999999988888763222221                      1111


Q ss_pred             ----HHHHHHHhcCChhHHHHHHHHHHHCC--CCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 003295          432 ----SVIKWLCINSRFNSALHFTKEMLLRN--LRPGDGLLTLLVSGLCKNGKQAEATELCFRLFEKGFTVNTVTSNALIH  505 (833)
Q Consensus       432 ----~li~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~  505 (833)
                          -+.-++.+....+....+..-....+  +.-+...|.-+..+|...|++.+|..++..+.......+...|-.+..
T Consensus       378 l~v~rl~icL~~L~~~e~~e~ll~~l~~~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~~a~  457 (895)
T KOG2076|consen  378 LRVIRLMICLVHLKERELLEALLHFLVEDNVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFVWYKLAR  457 (895)
T ss_pred             chhHhHhhhhhcccccchHHHHHHHHHHhcCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhhhHHHHH
Confidence                12223333444444444455555555  344556788888899999999999999999888766667888999999


Q ss_pred             HHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHC--------CCCCCHHHHHHHHHHH
Q 003295          506 GMCEAGNLKEAGKLLMEMLQRGLILDKVTYNTLILGCCKDGKPEEGFKLKEDMIKR--------GIQPDNYTYNLLLHGL  577 (833)
Q Consensus       506 ~~~~~g~~~~A~~~l~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~--------g~~p~~~~~~~li~~~  577 (833)
                      +|...|.+++|.+.+.......+. +...-.+|...+-+.|+.++|.+.++.+..-        +..|+........+.+
T Consensus       458 c~~~l~e~e~A~e~y~kvl~~~p~-~~D~Ri~Lasl~~~~g~~EkalEtL~~~~~~D~~~~e~~a~~~e~ri~~~r~d~l  536 (895)
T KOG2076|consen  458 CYMELGEYEEAIEFYEKVLILAPD-NLDARITLASLYQQLGNHEKALETLEQIINPDGRNAEACAWEPERRILAHRCDIL  536 (895)
T ss_pred             HHHHHhhHHHHHHHHHHHHhcCCC-chhhhhhHHHHHHhcCCHHHHHHHHhcccCCCccchhhccccHHHHHHHHHHHHH
Confidence            999999999999999998887554 5566667777888899999999988886522        2334444444455566


Q ss_pred             HhcCCHHHHHHHHHHH
Q 003295          578 CSLGKMEEAIELWEEC  593 (833)
Q Consensus       578 ~~~g~~~~A~~~~~~~  593 (833)
                      .+.|+.++-...-..|
T Consensus       537 ~~~gk~E~fi~t~~~L  552 (895)
T KOG2076|consen  537 FQVGKREEFINTASTL  552 (895)
T ss_pred             HHhhhHHHHHHHHHHH
Confidence            6777766644444333

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.79  E-value=1.9e-14  Score=141.59  Aligned_cols=361  Identities=17%  Similarity=0.174  Sum_probs=183.5

Q ss_pred             ChhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHH
Q 003295          391 NSVTFNSLIHGFCKSGQMDNAENALEEMLSRGLSINQGAYTSVIKWLCINSRFNSALHFTKEMLLRNLRPGDGLLTLLVS  470 (833)
Q Consensus       391 ~~~~~~~li~~~~~~g~~~~A~~~l~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~  470 (833)
                      ...+|.++|.++||-...+.|.+++++........+..+||.+|.+-.-.    ...+++.+|....++||..|+++++.
T Consensus       206 T~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~----~~K~Lv~EMisqkm~Pnl~TfNalL~  281 (625)
T KOG4422|consen  206 TDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYS----VGKKLVAEMISQKMTPNLFTFNALLS  281 (625)
T ss_pred             CchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhh----ccHHHHHHHHHhhcCCchHhHHHHHH
Confidence            33455555555555555555555555555544444555555554432111    11334444444444444444444444


Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCChhh
Q 003295          471 GLCKNGKQAEATELCFRLFEKGFTVNTVTSNALIHGMCEAGNLKEAGKLLMEMLQRGLILDKVTYNTLILGCCKDGKPEE  550 (833)
Q Consensus       471 ~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~l~~m~~~g~~~~~~~~~~li~~~~~~g~~~~  550 (833)
                      +..+.|+++.|.                               ..|.+++.+|++.|+.|...+|..+|..+++.++..+
T Consensus       282 c~akfg~F~~ar-------------------------------~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k  330 (625)
T KOG4422|consen  282 CAAKFGKFEDAR-------------------------------KAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQK  330 (625)
T ss_pred             HHHHhcchHHHH-------------------------------HHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchh
Confidence            444444333221                               1234455566666666666666666666666555432


Q ss_pred             -HHHHHHHHHHC----CCCC----CHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCC----CCCC---HhhHHHHHHHHHc
Q 003295          551 -GFKLKEDMIKR----GIQP----DNYTYNLLLHGLCSLGKMEEAIELWEECKRTV----FGPD---IYTYGVMIDGFCK  614 (833)
Q Consensus       551 -A~~~~~~m~~~----g~~p----~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~----~~~~---~~~~~~li~~~~~  614 (833)
                       |..++.++...    .++|    |...|...+..|.+..+.+-|.++..-.....    +.|+   ..-|..+....|+
T Consensus       331 ~as~~i~dI~N~ltGK~fkp~~p~d~~FF~~AM~Ic~~l~d~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~~licq  410 (625)
T KOG4422|consen  331 VASSWINDIQNSLTGKTFKPITPTDNKFFQSAMSICSSLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKFFDLICQ  410 (625)
T ss_pred             hhHHHHHHHHHhhccCcccCCCCchhHHHHHHHHHHHHhhhHHHHHHHHHHHHcCCchhhcChHHHHHHHHHHHHHHHHH
Confidence             33333333321    1111    33445555666666666666666655443211    1222   2234555666666


Q ss_pred             cCCHHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC--------
Q 003295          615 ADKIEEGETLFNEMISKKMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIG--------  686 (833)
Q Consensus       615 ~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g--------  686 (833)
                      ...++.-...++.|+-.-.-|+..+...++.+..-.|+++-.-+++.+++..|..-....-..++..+++..        
T Consensus       411 ~es~~~~~~~Y~~lVP~~y~p~~~~m~~~lrA~~v~~~~e~ipRiw~D~~~~ght~r~~l~eeil~~L~~~k~hp~tp~r  490 (625)
T KOG4422|consen  411 MESIDVTLKWYEDLVPSAYFPHSQTMIHLLRALDVANRLEVIPRIWKDSKEYGHTFRSDLREEILMLLARDKLHPLTPER  490 (625)
T ss_pred             HHHHHHHHHHHHHhccceecCCchhHHHHHHHHhhcCcchhHHHHHHHHHHhhhhhhHHHHHHHHHHHhcCCCCCCChHH
Confidence            666666666676666665666666666666666666666666666666665553333333333333333221        


Q ss_pred             ------------CH-HHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHhCCC----CCCHHHHHHHH
Q 003295          687 ------------LI-EDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESVLQEMASINI----HPNKITYTIMI  749 (833)
Q Consensus       687 ------------~~-~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~----~p~~~~~~~li  749 (833)
                                  ++ +....--.+|.+..  ......+.+.-.+.+.|..++|.+++.-+.+.+-    .|.......++
T Consensus       491 ~Ql~~~~ak~aad~~e~~e~~~~R~r~~~--~~~t~l~~ia~Ll~R~G~~qkA~e~l~l~~~~~~~ip~~p~lnAm~El~  568 (625)
T KOG4422|consen  491 EQLQVAFAKCAADIKEAYESQPIRQRAQD--WPATSLNCIAILLLRAGRTQKAWEMLGLFLRKHNKIPRSPLLNAMAELM  568 (625)
T ss_pred             HHHHHHHHHHHHHHHHHHHhhHHHHHhcc--CChhHHHHHHHHHHHcchHHHHHHHHHHHHhcCCcCCCCcchhhHHHHH
Confidence                        01 11111122333332  3344556666677788888888888887754331    23333334555


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHh
Q 003295          750 GGYCKLGDMKEAAKLLNVMAEKGISPDSITYNVFMDGHC  788 (833)
Q Consensus       750 ~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~  788 (833)
                      +.-...+....|+..++-|...+...-...-+.+...|.
T Consensus       569 d~a~~~~spsqA~~~lQ~a~~~n~~~~E~La~RI~e~f~  607 (625)
T KOG4422|consen  569 DSAKVSNSPSQAIEVLQLASAFNLPICEGLAQRIMEDFA  607 (625)
T ss_pred             HHHHhcCCHHHHHHHHHHHHHcCchhhhHHHHHHHHhcC
Confidence            666667777777777777766543222223334444443

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.78  E-value=2.3e-14  Score=141.15  Aligned_cols=444  Identities=16%  Similarity=0.163  Sum_probs=226.7

Q ss_pred             hccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChh---HHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHH
Q 003295          195 KNLGFGYAIDVFSIFSSKGIFPSLKTCNFLLNSLVKANEVQ---KGIEVFETMCRGVSPDVFLFSTAINAFCKRGRIEDA  271 (833)
Q Consensus       195 ~~~~~~~A~~~f~~~~~~~~~p~~~~~~~ll~~~~~~g~~~---~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A  271 (833)
                      ..|.+.++.-+|++|.+.|...+...-..|+..-+-.+.-+   .-++.|-.|...-..+..+|        +.|.+.+ 
T Consensus       127 S~~EvKDs~ilY~~m~~e~~~vS~kvq~~L~~LV~~~Ns~~~~~~E~~~Fv~~~~~~E~S~~sW--------K~G~vAd-  197 (625)
T KOG4422|consen  127 SSREVKDSCILYERMRSENVDVSEKVQLELFRLVTYYNSSNVPFAEWEEFVGMRNFGEDSTSSW--------KSGAVAD-  197 (625)
T ss_pred             hhcccchhHHHHHHHHhcCCCCCHHHHHHHHHHHHhhcCCCCcchhHHHHhhcccccccccccc--------ccccHHH-
Confidence            35667777777888877777666666555554433222211   22333333431112223333        3444433 


Q ss_pred             HHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHC
Q 003295          272 IGLFTKMEELGIAPNVVTYNNIIHGLCRNGRLYEAFHLKEKMVLREVEPSLITYSILINGLIKLEKFDDANFVLKEMSVR  351 (833)
Q Consensus       272 ~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~  351 (833)
                       -+|+...+     +..+|..+|.|+|+--..+.|.+++++......+-+..++|.+|.+-.    +.....++.+|...
T Consensus       198 -L~~E~~PK-----T~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S----~~~~K~Lv~EMisq  267 (625)
T KOG4422|consen  198 -LLFETLPK-----TDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASS----YSVGKKLVAEMISQ  267 (625)
T ss_pred             -HHHhhcCC-----CchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHH----hhccHHHHHHHHHh
Confidence             23333322     445666666666666666666666666665555556666666654321    22225566666666


Q ss_pred             CCCCChhhHHHHHHHHHHcCChHHH----HHHHHHHHhCCCCCChhHHHHHHHHHHhcCChhH-HHHHHHHHHHCCCCCC
Q 003295          352 GFVPNYVVYNTLIDGYCKKGNISEA----LKIRDDMVSKGMSPNSVTFNSLIHGFCKSGQMDN-AENALEEMLSRGLSIN  426 (833)
Q Consensus       352 g~~p~~~~y~~li~~~~~~g~~~~A----~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~-A~~~l~~~~~~g~~~~  426 (833)
                      .+.||..|+|+++.+..+.|+++.|    .+++.+|++-|+.|...+|..+|..+++.++..+ |..++.++..      
T Consensus       268 km~Pnl~TfNalL~c~akfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~as~~i~dI~N------  341 (625)
T KOG4422|consen  268 KMTPNLFTFNALLSCAAKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKVASSWINDIQN------  341 (625)
T ss_pred             hcCCchHhHHHHHHHHHHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhhhHHHHHHHHH------
Confidence            6666666666666666666655443    3455566666666666666666666665554432 2222222211      


Q ss_pred             cccHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 003295          427 QGAYTSVIKWLCINSRFNSALHFTKEMLLRNLRPGDGLLTLLVSGLCKNGKQAEATELCFRLFEKGFTVNTVTSNALIHG  506 (833)
Q Consensus       427 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~  506 (833)
                                               .+..+..+|-.                               +.|..-+...++.
T Consensus       342 -------------------------~ltGK~fkp~~-------------------------------p~d~~FF~~AM~I  365 (625)
T KOG4422|consen  342 -------------------------SLTGKTFKPIT-------------------------------PTDNKFFQSAMSI  365 (625)
T ss_pred             -------------------------hhccCcccCCC-------------------------------CchhHHHHHHHHH
Confidence                                     11111111111                               0112222223333


Q ss_pred             HHhcCCHHHHHHHHHHHhhCC----CCC---CHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHh
Q 003295          507 MCEAGNLKEAGKLLMEMLQRG----LIL---DKVTYNTLILGCCKDGKPEEGFKLKEDMIKRGIQPDNYTYNLLLHGLCS  579 (833)
Q Consensus       507 ~~~~g~~~~A~~~l~~m~~~g----~~~---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~  579 (833)
                      |.+..+.+-|.++-.-+....    +.|   ..+-|..+....|.....+.-..+|+.|+-.-.-|+..+...++++...
T Consensus       366 c~~l~d~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~~licq~es~~~~~~~Y~~lVP~~y~p~~~~m~~~lrA~~v  445 (625)
T KOG4422|consen  366 CSSLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKFFDLICQMESIDVTLKWYEDLVPSAYFPHSQTMIHLLRALDV  445 (625)
T ss_pred             HHHhhhHHHHHHHHHHHHcCCchhhcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccceecCCchhHHHHHHHHhh
Confidence            333344444433332222110    111   1233455666677777777777777777776666777777777777777


Q ss_pred             cCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHc-CCh-HHHH
Q 003295          580 LGKMEEAIELWEECKRTVFGPDIYTYGVMIDGFCKADKIEEGETLFNEMISKKMELNPVVYNTLIRAYCKI-GNT-TAAF  657 (833)
Q Consensus       580 ~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~-g~~-~~A~  657 (833)
                      .|.++-.-++|..++..|..-+....                ++++..+....+.|+...-..+-.+..+. -++ +...
T Consensus       446 ~~~~e~ipRiw~D~~~~ght~r~~l~----------------eeil~~L~~~k~hp~tp~r~Ql~~~~ak~aad~~e~~e  509 (625)
T KOG4422|consen  446 ANRLEVIPRIWKDSKEYGHTFRSDLR----------------EEILMLLARDKLHPLTPEREQLQVAFAKCAADIKEAYE  509 (625)
T ss_pred             cCcchhHHHHHHHHHHhhhhhhHHHH----------------HHHHHHHhcCCCCCCChHHHHHHHHHHHHHHHHHHHHH
Confidence            77777777777777766543332222                22223333332223212111111111111 011 1112


Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC-CCCChhHHH---HHHHHHHhcCChhHHHHHHHHH
Q 003295          658 RLSNDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEG-LLPNVACYT---ALIGGYCKLGQMDEAESVLQEM  733 (833)
Q Consensus       658 ~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g-~~p~~~~~~---~li~~~~~~g~~~~A~~~~~~m  733 (833)
                      ..-.+|.+...  .....+.+.-.+.+.|+.++|.++|.-..+++ -.|-....|   -+++.-.+.+....|...++-|
T Consensus       510 ~~~~R~r~~~~--~~t~l~~ia~Ll~R~G~~qkA~e~l~l~~~~~~~ip~~p~lnAm~El~d~a~~~~spsqA~~~lQ~a  587 (625)
T KOG4422|consen  510 SQPIRQRAQDW--PATSLNCIAILLLRAGRTQKAWEMLGLFLRKHNKIPRSPLLNAMAELMDSAKVSNSPSQAIEVLQLA  587 (625)
T ss_pred             hhHHHHHhccC--ChhHHHHHHHHHHHcchHHHHHHHHHHHHhcCCcCCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHH
Confidence            22234444433  44456666667788888899988888886543 233334444   3445555667788888888888


Q ss_pred             HhCC
Q 003295          734 ASIN  737 (833)
Q Consensus       734 ~~~g  737 (833)
                      ...+
T Consensus       588 ~~~n  591 (625)
T KOG4422|consen  588 SAFN  591 (625)
T ss_pred             HHcC
Confidence            6654

>KOG1915 consensus Cell cycle control protein (crooked neck) [Cell cycle control, cell division, chromosome partitioning]

Probab=99.74  E-value=4.2e-12  Score=126.96  Aligned_cols=162  Identities=13%  Similarity=0.092  Sum_probs=75.8

Q ss_pred             HHHHHHHHHHHHhcCChhHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHH
Q 003295          218 LKTCNFLLNSLVKANEVQKGIEVFETMCRGVSPDVFLFSTAINAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIHGL  297 (833)
Q Consensus       218 ~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~  297 (833)
                      ...|-.-...=..++++..|..+|++++.+...+...|...+..=.++..+..|+.++++....-+..|. .|-..+.+-
T Consensus        73 ~~~WikYaqwEesq~e~~RARSv~ERALdvd~r~itLWlkYae~Emknk~vNhARNv~dRAvt~lPRVdq-lWyKY~ymE  151 (677)
T KOG1915|consen   73 MQVWIKYAQWEESQKEIQRARSVFERALDVDYRNITLWLKYAEFEMKNKQVNHARNVWDRAVTILPRVDQ-LWYKYIYME  151 (677)
T ss_pred             HHHHHHHHHHHHhHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHhhhhHhHHHHHHHHHHHhcchHHH-HHHHHHHHH
Confidence            3334333333334445555555555555444455555555555555555555555555555443222121 223333333


Q ss_pred             HhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHHcCChHHHH
Q 003295          298 CRNGRLYEAFHLKEKMVLREVEPSLITYSILINGLIKLEKFDDANFVLKEMSVRGFVPNYVVYNTLIDGYCKKGNISEAL  377 (833)
Q Consensus       298 ~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~A~  377 (833)
                      -..|++..|+++|++-.+  .+|+...|++.|+.-.+.+.++.|..+++...-.  .|++.+|---+..-.++|...-|.
T Consensus       152 E~LgNi~gaRqiferW~~--w~P~eqaW~sfI~fElRykeieraR~IYerfV~~--HP~v~~wikyarFE~k~g~~~~aR  227 (677)
T KOG1915|consen  152 EMLGNIAGARQIFERWME--WEPDEQAWLSFIKFELRYKEIERARSIYERFVLV--HPKVSNWIKYARFEEKHGNVALAR  227 (677)
T ss_pred             HHhcccHHHHHHHHHHHc--CCCcHHHHHHHHHHHHHhhHHHHHHHHHHHHhee--cccHHHHHHHHHHHHhcCcHHHHH
Confidence            344555555555554443  2455555555555444444555555555444432  344444444444444444444444


Q ss_pred             HHHHHHH
Q 003295          378 KIRDDMV  384 (833)
Q Consensus       378 ~~~~~m~  384 (833)
                      .+|+...
T Consensus       228 ~VyerAi  234 (677)
T KOG1915|consen  228 SVYERAI  234 (677)
T ss_pred             HHHHHHH
Confidence            4444443

>KOG2003 consensus TPR repeat-containing protein [General function prediction only]

Probab=99.73  E-value=1e-13  Score=137.29  Aligned_cols=281  Identities=14%  Similarity=0.062  Sum_probs=209.6

Q ss_pred             HHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHh--cCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC
Q 003295          504 IHGMCEAGNLKEAGKLLMEMLQRGLILDKVTYNTLILGCCK--DGKPEEGFKLKEDMIKRGIQPDNYTYNLLLHGLCSLG  581 (833)
Q Consensus       504 i~~~~~~g~~~~A~~~l~~m~~~g~~~~~~~~~~li~~~~~--~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g  581 (833)
                      ..-|.++|+++.|++++.-..+..-..-...-+.|-..+.-  ..++..|...-+..+...- -+....+.-.+.....|
T Consensus       426 a~~~lk~~d~~~aieilkv~~~kdnk~~saaa~nl~~l~flqggk~~~~aqqyad~aln~dr-yn~~a~~nkgn~~f~ng  504 (840)
T KOG2003|consen  426 AGELLKNGDIEGAIEILKVFEKKDNKTASAAANNLCALRFLQGGKDFADAQQYADIALNIDR-YNAAALTNKGNIAFANG  504 (840)
T ss_pred             HHHHHhccCHHHHHHHHHHHHhccchhhHHHhhhhHHHHHHhcccchhHHHHHHHHHhcccc-cCHHHhhcCCceeeecC
Confidence            34578999999999999988877433223333333322222  3457778777777765421 13333333334445579


Q ss_pred             CHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHH
Q 003295          582 KMEEAIELWEECKRTVFGPDIYTYGVMIDGFCKADKIEEGETLFNEMISKKMELNPVVYNTLIRAYCKIGNTTAAFRLSN  661 (833)
Q Consensus       582 ~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~  661 (833)
                      ++++|.+.|++.......-....|| +.-.+-+.|++++|++.|-++...- ..+..+...+.+.|.-..+...|++++.
T Consensus       505 d~dka~~~ykeal~ndasc~ealfn-iglt~e~~~~ldeald~f~klh~il-~nn~evl~qianiye~led~aqaie~~~  582 (840)
T KOG2003|consen  505 DLDKAAEFYKEALNNDASCTEALFN-IGLTAEALGNLDEALDCFLKLHAIL-LNNAEVLVQIANIYELLEDPAQAIELLM  582 (840)
T ss_pred             cHHHHHHHHHHHHcCchHHHHHHHH-hcccHHHhcCHHHHHHHHHHHHHHH-HhhHHHHHHHHHHHHHhhCHHHHHHHHH
Confidence            9999999999998753222222232 2334667899999999998775432 2377788888899999999999999998


Q ss_pred             HHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCC
Q 003295          662 DMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESVLQEMASINIHPN  741 (833)
Q Consensus       662 ~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~  741 (833)
                      +.... ++.|+.....|...|-+.|+-.+|.+.+-+--+. ++-+..+...|..-|....-+++|+.+|++..-  +.|+
T Consensus       583 q~~sl-ip~dp~ilskl~dlydqegdksqafq~~ydsyry-fp~nie~iewl~ayyidtqf~ekai~y~ekaal--iqp~  658 (840)
T KOG2003|consen  583 QANSL-IPNDPAILSKLADLYDQEGDKSQAFQCHYDSYRY-FPCNIETIEWLAAYYIDTQFSEKAINYFEKAAL--IQPN  658 (840)
T ss_pred             Hhccc-CCCCHHHHHHHHHHhhcccchhhhhhhhhhcccc-cCcchHHHHHHHHHHHhhHHHHHHHHHHHHHHh--cCcc
Confidence            87765 5678889999999999999999999887766554 466888888888888888899999999999875  6899


Q ss_pred             HHHHHHHHHHH-HhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCC
Q 003295          742 KITYTIMIGGY-CKLGDMKEAAKLLNVMAEKGISPDSITYNVFMDGHCKGGN  792 (833)
Q Consensus       742 ~~~~~~li~~~-~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~  792 (833)
                      ..-|..++..| .+.|++.+|.++++....+ ++.|.....-|++.+...|.
T Consensus       659 ~~kwqlmiasc~rrsgnyqka~d~yk~~hrk-fpedldclkflvri~~dlgl  709 (840)
T KOG2003|consen  659 QSKWQLMIASCFRRSGNYQKAFDLYKDIHRK-FPEDLDCLKFLVRIAGDLGL  709 (840)
T ss_pred             HHHHHHHHHHHHHhcccHHHHHHHHHHHHHh-CccchHHHHHHHHHhccccc
Confidence            99999887664 5789999999999998876 67788888889998887775

>KOG2003 consensus TPR repeat-containing protein [General function prediction only]

Probab=99.73  E-value=3.9e-14  Score=140.16  Aligned_cols=474  Identities=14%  Similarity=0.110  Sum_probs=314.9

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhH-HHHHHHHHhcCChhHHHHHHHHHHhCCCCCCh------hhHHHHH
Q 003295          257 TAINAFCKRGRIEDAIGLFTKMEELGIAPNVVTY-NNIIHGLCRNGRLYEAFHLKEKMVLREVEPSL------ITYSILI  329 (833)
Q Consensus       257 ~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~-~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~------~t~~~li  329 (833)
                      .+..-|..+....+|+..++-+.+....||.-.. -.+.+.+.+..++.+|+++++-...+  .|++      ...+.+.
T Consensus       206 nlaqqy~~ndm~~ealntyeiivknkmf~nag~lkmnigni~~kkr~fskaikfyrmaldq--vpsink~~rikil~nig  283 (840)
T KOG2003|consen  206 NLAQQYEANDMTAEALNTYEIIVKNKMFPNAGILKMNIGNIHFKKREFSKAIKFYRMALDQ--VPSINKDMRIKILNNIG  283 (840)
T ss_pred             HHHHHhhhhHHHHHHhhhhhhhhcccccCCCceeeeeecceeeehhhHHHHHHHHHHHHhh--ccccchhhHHHHHhhcC
Confidence            3555677777788999999888877666775433 23556678888999999988777664  2332      2344455


Q ss_pred             HHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHHcCChHHHHHHHHHHHhCCCCC------------ChhHHHH
Q 003295          330 NGLIKLEKFDDANFVLKEMSVRGFVPNYVVYNTLIDGYCKKGNISEALKIRDDMVSKGMSP------------NSVTFNS  397 (833)
Q Consensus       330 ~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~A~~~~~~m~~~g~~p------------~~~~~~~  397 (833)
                      ..|.+.|++++|+.-|+...+.  .||..+-..|+-++..-|+-++..+.|.+|+.--..|            +....+.
T Consensus       284 vtfiq~gqy~dainsfdh~m~~--~pn~~a~~nl~i~~f~i~d~ekmkeaf~kli~ip~~~dddkyi~~~ddp~~~ll~e  361 (840)
T KOG2003|consen  284 VTFIQAGQYDDAINSFDHCMEE--APNFIAALNLIICAFAIGDAEKMKEAFQKLIDIPGEIDDDKYIKEKDDPDDNLLNE  361 (840)
T ss_pred             eeEEecccchhhHhhHHHHHHh--CccHHhhhhhhhhheecCcHHHHHHHHHHHhcCCCCCCcccccCCcCCcchHHHHH
Confidence            5678899999999999988776  6787766666666777899999999999988643222            3222222


Q ss_pred             HHH-----HHHhcCChhHHHHHHH---HHHHCCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHH
Q 003295          398 LIH-----GFCKSGQMDNAENALE---EMLSRGLSINQGAYTSVIKWLCINSRFNSALHFTKEMLLRNLRPGDGLLTLLV  469 (833)
Q Consensus       398 li~-----~~~~~g~~~~A~~~l~---~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li  469 (833)
                      -|.     -.-+. +-..|.+..-   +++..-+.|+-   ..-         .+..++.++.-......  ...-..-.
T Consensus       362 ai~nd~lk~~ek~-~ka~aek~i~ta~kiiapvi~~~f---a~g---------~dwcle~lk~s~~~~la--~dlei~ka  426 (840)
T KOG2003|consen  362 AIKNDHLKNMEKE-NKADAEKAIITAAKIIAPVIAPDF---AAG---------CDWCLESLKASQHAELA--IDLEINKA  426 (840)
T ss_pred             HHhhHHHHHHHHh-hhhhHHHHHHHHHHHhccccccch---hcc---------cHHHHHHHHHhhhhhhh--hhhhhhHH
Confidence            221     11111 1111222211   11111111111   110         11122222211110000  00111223


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh--cCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCC
Q 003295          470 SGLCKNGKQAEATELCFRLFEKGFTVNTVTSNALIHGMCE--AGNLKEAGKLLMEMLQRGLILDKVTYNTLILGCCKDGK  547 (833)
Q Consensus       470 ~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~--~g~~~~A~~~l~~m~~~g~~~~~~~~~~li~~~~~~g~  547 (833)
                      ..+.+.|+++.|.+++.-+.++.-......-|.|-..+.-  -.++.+|...-+......-- +......-.+.....|+
T Consensus       427 ~~~lk~~d~~~aieilkv~~~kdnk~~saaa~nl~~l~flqggk~~~~aqqyad~aln~dry-n~~a~~nkgn~~f~ngd  505 (840)
T KOG2003|consen  427 GELLKNGDIEGAIEILKVFEKKDNKTASAAANNLCALRFLQGGKDFADAQQYADIALNIDRY-NAAALTNKGNIAFANGD  505 (840)
T ss_pred             HHHHhccCHHHHHHHHHHHHhccchhhHHHhhhhHHHHHHhcccchhHHHHHHHHHhccccc-CHHHhhcCCceeeecCc
Confidence            4578999999999999988876444333334444333332  34677777776666544211 33333222333445789


Q ss_pred             hhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHccCCHHHHHHHHHH
Q 003295          548 PEEGFKLKEDMIKRGIQPDNYTYNLLLHGLCSLGKMEEAIELWEECKRTVFGPDIYTYGVMIDGFCKADKIEEGETLFNE  627 (833)
Q Consensus       548 ~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~  627 (833)
                      +++|.+.+++.+...-.- ...+..+.-.+-..|++++|++.|-.+... ...+..+...+...|....+...|++++.+
T Consensus       506 ~dka~~~ykeal~ndasc-~ealfniglt~e~~~~ldeald~f~klh~i-l~nn~evl~qianiye~led~aqaie~~~q  583 (840)
T KOG2003|consen  506 LDKAAEFYKEALNNDASC-TEALFNIGLTAEALGNLDEALDCFLKLHAI-LLNNAEVLVQIANIYELLEDPAQAIELLMQ  583 (840)
T ss_pred             HHHHHHHHHHHHcCchHH-HHHHHHhcccHHHhcCHHHHHHHHHHHHHH-HHhhHHHHHHHHHHHHHhhCHHHHHHHHHH
Confidence            999999999998763221 112222333567789999999999876542 234667777888999999999999999988


Q ss_pred             HHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCh
Q 003295          628 MISKKMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNV  707 (833)
Q Consensus       628 ~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~  707 (833)
                      .... ++.|+.....+...|-+.|+...|++.+-+-... ++-+..+...|..-|....-+++|+.+|++..-  +.|+.
T Consensus       584 ~~sl-ip~dp~ilskl~dlydqegdksqafq~~ydsyry-fp~nie~iewl~ayyidtqf~ekai~y~ekaal--iqp~~  659 (840)
T KOG2003|consen  584 ANSL-IPNDPAILSKLADLYDQEGDKSQAFQCHYDSYRY-FPCNIETIEWLAAYYIDTQFSEKAINYFEKAAL--IQPNQ  659 (840)
T ss_pred             hccc-CCCCHHHHHHHHHHhhcccchhhhhhhhhhcccc-cCcchHHHHHHHHHHHhhHHHHHHHHHHHHHHh--cCccH
Confidence            8766 3448999999999999999999999988766554 566888888899999999999999999999876  68999


Q ss_pred             hHHHHHHHH-HHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC
Q 003295          708 ACYTALIGG-YCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGD  757 (833)
Q Consensus       708 ~~~~~li~~-~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~  757 (833)
                      .-|..++.. +.+.|++.+|..+++....+ ++-|..+..-|++.+...|-
T Consensus       660 ~kwqlmiasc~rrsgnyqka~d~yk~~hrk-fpedldclkflvri~~dlgl  709 (840)
T KOG2003|consen  660 SKWQLMIASCFRRSGNYQKAFDLYKDIHRK-FPEDLDCLKFLVRIAGDLGL  709 (840)
T ss_pred             HHHHHHHHHHHHhcccHHHHHHHHHHHHHh-CccchHHHHHHHHHhccccc
Confidence            999988755 45689999999999999876 68899999999998887774

>KOG1915 consensus Cell cycle control protein (crooked neck) [Cell cycle control, cell division, chromosome partitioning]

Probab=99.70  E-value=1.5e-11  Score=123.14  Aligned_cols=443  Identities=13%  Similarity=0.068  Sum_probs=288.2

Q ss_pred             hccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHH
Q 003295          195 KNLGFGYAIDVFSIFSSKGIFPSLKTCNFLLNSLVKANEVQKGIEVFETMCRGVSPDVFLFSTAINAFCKRGRIEDAIGL  274 (833)
Q Consensus       195 ~~~~~~~A~~~f~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~  274 (833)
                      ..+++..|..+|++.+.-+.. +...|..-+..=.++..+..|..++++++.-.|.-...|...+..=-..|++..|+++
T Consensus        85 sq~e~~RARSv~ERALdvd~r-~itLWlkYae~Emknk~vNhARNv~dRAvt~lPRVdqlWyKY~ymEE~LgNi~gaRqi  163 (677)
T KOG1915|consen   85 SQKEIQRARSVFERALDVDYR-NITLWLKYAEFEMKNKQVNHARNVWDRAVTILPRVDQLWYKYIYMEEMLGNIAGARQI  163 (677)
T ss_pred             hHHHHHHHHHHHHHHHhcccc-cchHHHHHHHHHHhhhhHhHHHHHHHHHHHhcchHHHHHHHHHHHHHHhcccHHHHHH
Confidence            345677899999998876644 7888888999999999999999999999865555556677777777788999999999


Q ss_pred             HHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCC
Q 003295          275 FTKMEELGIAPNVVTYNNIIHGLCRNGRLYEAFHLKEKMVLREVEPSLITYSILINGLIKLEKFDDANFVLKEMSVRGFV  354 (833)
Q Consensus       275 ~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~g~~  354 (833)
                      |++-.+  ++|+...|++.|+.-.+-.+++.|+.++++..-  +.|++.+|-.....--+.|+..-|..+++...+.  .
T Consensus       164 ferW~~--w~P~eqaW~sfI~fElRykeieraR~IYerfV~--~HP~v~~wikyarFE~k~g~~~~aR~VyerAie~--~  237 (677)
T KOG1915|consen  164 FERWME--WEPDEQAWLSFIKFELRYKEIERARSIYERFVL--VHPKVSNWIKYARFEEKHGNVALARSVYERAIEF--L  237 (677)
T ss_pred             HHHHHc--CCCcHHHHHHHHHHHHHhhHHHHHHHHHHHHhe--ecccHHHHHHHHHHHHhcCcHHHHHHHHHHHHHH--h
Confidence            999876  489999999999999999999999999999886  4799999999999889999999999999988764  1


Q ss_pred             CC----hhhHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCC--hhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCcc
Q 003295          355 PN----YVVYNTLIDGYCKKGNISEALKIRDDMVSKGMSPN--SVTFNSLIHGFCKSGQMDNAENALEEMLSRGLSINQG  428 (833)
Q Consensus       355 p~----~~~y~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~--~~~~~~li~~~~~~g~~~~A~~~l~~~~~~g~~~~~~  428 (833)
                      .|    ...+.+....-.++..++.|.-+|.-.++.=++ +  ...|..+...--+.|+........-.=.+        
T Consensus       238 ~~d~~~e~lfvaFA~fEe~qkE~ERar~iykyAld~~pk-~raeeL~k~~~~fEKqfGd~~gIEd~Iv~KRk--------  308 (677)
T KOG1915|consen  238 GDDEEAEILFVAFAEFEERQKEYERARFIYKYALDHIPK-GRAEELYKKYTAFEKQFGDKEGIEDAIVGKRK--------  308 (677)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCc-ccHHHHHHHHHHHHHHhcchhhhHHHHhhhhh--------
Confidence            12    234444444445667778888888777765222 2  23344333333344554433322110000        


Q ss_pred             cHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH-HHHHHH----
Q 003295          429 AYTSVIKWLCINSRFNSALHFTKEMLLRNLRPGDGLLTLLVSGLCKNGKQAEATELCFRLFEKGFTVNT-VTSNAL----  503 (833)
Q Consensus       429 ~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~-~~~~~l----  503 (833)
                                         --+..++..+ .-|-.++-..++.....|+.+...+++++.+..-++.+. ..|.-.    
T Consensus       309 -------------------~qYE~~v~~n-p~nYDsWfdylrL~e~~g~~~~Ire~yErAIanvpp~~ekr~W~RYIYLW  368 (677)
T KOG1915|consen  309 -------------------FQYEKEVSKN-PYNYDSWFDYLRLEESVGDKDRIRETYERAIANVPPASEKRYWRRYIYLW  368 (677)
T ss_pred             -------------------hHHHHHHHhC-CCCchHHHHHHHHHHhcCCHHHHHHHHHHHHccCCchhHHHHHHHHHHHH
Confidence                               0011122221 123344445555555566666666666666655322211 111111    


Q ss_pred             ----HHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHH----HHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHH
Q 003295          504 ----IHGMCEAGNLKEAGKLLMEMLQRGLILDKVTYNTLILG----CCKDGKPEEGFKLKEDMIKRGIQPDNYTYNLLLH  575 (833)
Q Consensus       504 ----i~~~~~~g~~~~A~~~l~~m~~~g~~~~~~~~~~li~~----~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~  575 (833)
                          +-.-....+.+.+.++++..++. ++-..+||..+=-.    -.++.++..|.+++...+  |..|-..+|...|.
T Consensus       369 inYalyeEle~ed~ertr~vyq~~l~l-IPHkkFtFaKiWlmyA~feIRq~~l~~ARkiLG~AI--G~cPK~KlFk~YIe  445 (677)
T KOG1915|consen  369 INYALYEELEAEDVERTRQVYQACLDL-IPHKKFTFAKIWLMYAQFEIRQLNLTGARKILGNAI--GKCPKDKLFKGYIE  445 (677)
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHhh-cCcccchHHHHHHHHHHHHHHHcccHHHHHHHHHHh--ccCCchhHHHHHHH
Confidence                11122456677777777777663 22244454443222    335667777777777665  34666777777777


Q ss_pred             HHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHHHHCC-CccCHHHHHHHHHHHHHcCChH
Q 003295          576 GLCSLGKMEEAIELWEECKRTVFGPDIYTYGVMIDGFCKADKIEEGETLFNEMISKK-MELNPVVYNTLIRAYCKIGNTT  654 (833)
Q Consensus       576 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~li~~~~~~g~~~  654 (833)
                      .-.+.++++.+..+++..++-+ +.+..+|......-...|+.+.|..+|+-.++.. .......|.+.|+.-...|.++
T Consensus       446 lElqL~efDRcRkLYEkfle~~-Pe~c~~W~kyaElE~~LgdtdRaRaifelAi~qp~ldmpellwkaYIdFEi~~~E~e  524 (677)
T KOG1915|consen  446 LELQLREFDRCRKLYEKFLEFS-PENCYAWSKYAELETSLGDTDRARAIFELAISQPALDMPELLWKAYIDFEIEEGEFE  524 (677)
T ss_pred             HHHHHhhHHHHHHHHHHHHhcC-hHhhHHHHHHHHHHHHhhhHHHHHHHHHHHhcCcccccHHHHHHHhhhhhhhcchHH
Confidence            7777777777777777777654 3456667666666667777777777777766542 2223456667777777777777


Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHH
Q 003295          655 AAFRLSNDMKSRGILPTSVTYSSLI  679 (833)
Q Consensus       655 ~A~~~~~~m~~~~~~p~~~~~~~li  679 (833)
                      .|..+++++++.  .+...+|.++.
T Consensus       525 kaR~LYerlL~r--t~h~kvWisFA  547 (677)
T KOG1915|consen  525 KARALYERLLDR--TQHVKVWISFA  547 (677)
T ss_pred             HHHHHHHHHHHh--cccchHHHhHH
Confidence            777777777765  23334454443

>KOG4318 consensus Bicoid mRNA stability factor [RNA processing and modification]

Probab=99.64  E-value=3.2e-12  Score=137.23  Aligned_cols=557  Identities=15%  Similarity=0.137  Sum_probs=300.1

Q ss_pred             HHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHhh-cCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCC
Q 003295          207 SIFSSKGIFPSLKTCNFLLNSLVKANEVQKGIEVFETMC-RGVSPDVFLFSTAINAFCKRGRIEDAIGLFTKMEELGIAP  285 (833)
Q Consensus       207 ~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~-~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p  285 (833)
                      -.+...|+.|+-+||..+|..|+..|+.+.|- +|.-|. +..+.+...|+.++.+..+.|+.+.+.           +|
T Consensus        14 a~~e~~gi~PnRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpk-----------ep   81 (1088)
T KOG4318|consen   14 ALHEISGILPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPK-----------EP   81 (1088)
T ss_pred             HHHHHhcCCCchhhHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCC-----------CC
Confidence            34567899999999999999999999999998 999998 778888899999999999999988887           57


Q ss_pred             ChhhHHHHHHHHHhcCChhHHHHHHHH-HHh-------CCCCCChh-h-------------HHHHHHHHHhcCChhHHHH
Q 003295          286 NVVTYNNIIHGLCRNGRLYEAFHLKEK-MVL-------REVEPSLI-T-------------YSILINGLIKLEKFDDANF  343 (833)
Q Consensus       286 ~~~~~~~li~~~~~~g~~~~A~~~~~~-m~~-------~~~~p~~~-t-------------~~~li~~~~~~g~~~~A~~  343 (833)
                      -..||..|..+|...|++.- ++..++ |..       .|+-.-+. .             -...+.-..-.|-++.+.+
T Consensus        82 ~aDtyt~Ll~ayr~hGDli~-fe~veqdLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~n~illlv~eglwaqllk  160 (1088)
T KOG4318|consen   82 LADTYTNLLKAYRIHGDLIL-FEVVEQDLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAENAILLLVLEGLWAQLLK  160 (1088)
T ss_pred             chhHHHHHHHHHHhccchHH-HHHHHHHHHHHHhhhhhhccCcHHHHHHhhcccCcccchhHHHHHHHHHHHHHHHHHHH
Confidence            88899999999999998765 332222 211       11110000 0             1112222333444444454


Q ss_pred             HHHHHHHCCCCCChhhHHHHHHHHHHc-CChHHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHHCC
Q 003295          344 VLKEMSVRGFVPNYVVYNTLIDGYCKK-GNISEALKIRDDMVSKGMSPNSVTFNSLIHGFCKSGQMDNAENALEEMLSRG  422 (833)
Q Consensus       344 ~~~~m~~~g~~p~~~~y~~li~~~~~~-g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~l~~~~~~g  422 (833)
                      ++..+...... .  +....+.-.... ..+++-..+.....+   .|+..+|..+++.-...|+.+.|..++.+|.+.|
T Consensus       161 ll~~~Pvsa~~-~--p~~vfLrqnv~~ntpvekLl~~cksl~e---~~~s~~l~a~l~~alaag~~d~Ak~ll~emke~g  234 (1088)
T KOG4318|consen  161 LLAKVPVSAWN-A--PFQVFLRQNVVDNTPVEKLLNMCKSLVE---APTSETLHAVLKRALAAGDVDGAKNLLYEMKEKG  234 (1088)
T ss_pred             HHhhCCccccc-c--hHHHHHHHhccCCchHHHHHHHHHHhhc---CCChHHHHHHHHHHHhcCchhhHHHHHHHHHHcC
Confidence            44444321100 0  111112222221 223333333333332   5899999999999999999999999999999999


Q ss_pred             CCCCcccHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC----HH
Q 003295          423 LSINQGAYTSVIKWLCINSRFNSALHFTKEMLLRNLRPGDGLLTLLVSGLCKNGKQAEATELCFRLFEKGFTVN----TV  498 (833)
Q Consensus       423 ~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~----~~  498 (833)
                      ++.+.+.|..++-+   .+...-+..+++-|...|+.|+..|+...+..+.++|....+.+        |.+.+    ..
T Consensus       235 fpir~HyFwpLl~g---~~~~q~~e~vlrgmqe~gv~p~seT~adyvip~l~N~~t~~~~e--------~sq~~hg~tAa  303 (1088)
T KOG4318|consen  235 FPIRAHYFWPLLLG---INAAQVFEFVLRGMQEKGVQPGSETQADYVIPQLSNGQTKYGEE--------GSQLAHGFTAA  303 (1088)
T ss_pred             CCcccccchhhhhc---CccchHHHHHHHHHHHhcCCCCcchhHHHHHhhhcchhhhhccc--------ccchhhhhhHH
Confidence            99999999998877   77888888999999999999999999988888887666433332        22211    22


Q ss_pred             HHHHHHHHHHhcCCHH-----HHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCC--CC-CHHHH
Q 003295          499 TSNALIHGMCEAGNLK-----EAGKLLMEMLQRGLILDKVTYNTLILGCCKDGKPEEGFKLKEDMIKRGI--QP-DNYTY  570 (833)
Q Consensus       499 ~~~~li~~~~~~g~~~-----~A~~~l~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~--~p-~~~~~  570 (833)
                      .+..+..+.....+++     -....+.+..-.|.......|...+.. ..+|+-++..++-..|..--.  .+ ++..|
T Consensus       304 vrsaa~rg~~a~k~l~~nl~~~v~~s~k~~fLlg~d~~~aiws~c~~l-~hQgk~e~veqlvg~l~npt~r~s~~~V~a~  382 (1088)
T KOG4318|consen  304 VRSAACRGLLANKRLRQNLRKSVIGSTKKLFLLGTDILEAIWSMCEKL-RHQGKGEEVEQLVGQLLNPTLRDSGQNVDAF  382 (1088)
T ss_pred             HHHHHhcccHhHHHHHHHHHHHHHHHhhHHHHhccccchHHHHHHHHH-HHcCCCchHHHHHhhhcCCccccCcchHHHH
Confidence            2333333322222221     112222222223444334444433333 336777777777777654211  11 33344


Q ss_pred             HHHHHHHHhcCCHHHHHHHHH--HHhhCCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHHHHC----CCc-------cCH
Q 003295          571 NLLLHGLCSLGKMEEAIELWE--ECKRTVFGPDIYTYGVMIDGFCKADKIEEGETLFNEMISK----KME-------LNP  637 (833)
Q Consensus       571 ~~li~~~~~~g~~~~A~~~~~--~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~----~~~-------~~~  637 (833)
                      ..++.-|.+.-+..-...++.  +..+..  .+....-.++....+. +...+.+-+......    ...       +-.
T Consensus       383 ~~~lrqyFrr~e~~~~~~i~~~~qgls~~--l~se~tp~vsell~~l-rkns~lr~lv~Lss~Eler~he~~~~~~h~ir  459 (1088)
T KOG4318|consen  383 GALLRQYFRRIERHICSRIYYAGQGLSLN--LNSEDTPRVSELLENL-RKNSFLRQLVGLSSTELERSHEPWPLIAHLIR  459 (1088)
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHHHhh--hchhhhHHHHHHHHHh-CcchHHHHHhhhhHHHHhcccccchhhhhHHH
Confidence            444444433211111111111  111000  0000000011111000 111111111111100    000       011


Q ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC--CCCCChhHHHHHHH
Q 003295          638 VVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKE--GLLPNVACYTALIG  715 (833)
Q Consensus       638 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~--g~~p~~~~~~~li~  715 (833)
                      ..-+.++..++..-+..+++..-+.....- .+  ..|..||+-++...+.+.|..+.++....  .+..|...+..+.+
T Consensus       460 di~~ql~l~l~se~n~lK~l~~~ekye~~l-f~--g~ya~Li~l~~~hdkle~Al~~~~e~d~~d~s~~Ld~~~m~~l~d  536 (1088)
T KOG4318|consen  460 DIANQLHLTLNSEYNKLKILCDEEKYEDLL-FA--GLYALLIKLMDLHDKLEYALSFVDEIDTRDESIHLDLPLMTSLQD  536 (1088)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-hh--hHHHHHhhhHHHHHHHHHHHhchhhhcccchhhhcccHhHHHHHH
Confidence            223344445555545555544333333221 11  34666666666666666666666665432  22334445566666


Q ss_pred             HHHhcCChhHHHHHHHHHHhCC-CCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCCH
Q 003295          716 GYCKLGQMDEAESVLQEMASIN-IHPN-KITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISPDSITYNVFMDGHCKGGNV  793 (833)
Q Consensus       716 ~~~~~g~~~~A~~~~~~m~~~g-~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~  793 (833)
                      .+.+.+....+.++++++.+.- ..|+ ..++..+.......|+.+...++++-+...|+..+    .-++....+.++.
T Consensus       537 LL~r~~~l~dl~tiL~e~ks~a~n~~~~a~~~f~~lns~a~agqqe~Lkkl~d~lvslgl~et----gPl~~vhLrkdd~  612 (1088)
T KOG4318|consen  537 LLQRLAILYDLSTILYEDKSSAENEPLVAIILFPLLNSGAPAGQQEKLKKLADILVSLGLSET----GPLWMVHLRKDDQ  612 (1088)
T ss_pred             HHHHhHHHHHHHHHHhhhhHHhhCCchHHHHHHHHHhhhhhccCHHHHHHHHHHHHHhhhhhc----ccceEEEeeccch
Confidence            6666666666666666665421 1222 23444455555566666666666655555544321    1222333445555


Q ss_pred             HHHHHHHHHHH
Q 003295          794 EEAFKVCDRML  804 (833)
Q Consensus       794 ~~A~~~~~~m~  804 (833)
                      ..|.++++...
T Consensus       613 s~a~ea~e~~~  623 (1088)
T KOG4318|consen  613 SAAQEAPEPEE  623 (1088)
T ss_pred             hhhhhcchHHH
Confidence            55555554443

>KOG0547 consensus Translocase of outer mitochondrial membrane complex, subunit TOM70/TOM72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.63  E-value=3.1e-12  Score=128.69  Aligned_cols=217  Identities=17%  Similarity=0.163  Sum_probs=118.9

Q ss_pred             cCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHH
Q 003295          580 LGKMEEAIELWEECKRTVFGPDIYTYGVMIDGFCKADKIEEGETLFNEMISKKMELNPVVYNTLIRAYCKIGNTTAAFRL  659 (833)
Q Consensus       580 ~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~  659 (833)
                      .|+.-.|.+-|+..++....++ ..|-.+..+|...++.++....|++..+..+. |+.+|..-...+.-.+++++|..-
T Consensus       339 ~g~~~~a~~d~~~~I~l~~~~~-~lyI~~a~~y~d~~~~~~~~~~F~~A~~ldp~-n~dvYyHRgQm~flL~q~e~A~aD  416 (606)
T KOG0547|consen  339 KGDSLGAQEDFDAAIKLDPAFN-SLYIKRAAAYADENQSEKMWKDFNKAEDLDPE-NPDVYYHRGQMRFLLQQYEEAIAD  416 (606)
T ss_pred             cCCchhhhhhHHHHHhcCcccc-hHHHHHHHHHhhhhccHHHHHHHHHHHhcCCC-CCchhHhHHHHHHHHHHHHHHHHH
Confidence            4555566666666655432222 12444555566666666666666666655544 555555555555556666666666


Q ss_pred             HHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHhCCCC
Q 003295          660 SNDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESVLQEMASINIH  739 (833)
Q Consensus       660 ~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~  739 (833)
                      |++.+... +.+...|.-+.-+..+.+++++++..|++.+++ ++--+..|+.....+...+++++|.+.|+..++.  .
T Consensus       417 F~Kai~L~-pe~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kkk-FP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~L--E  492 (606)
T KOG0547|consen  417 FQKAISLD-PENAYAYIQLCCALYRQHKIAESMKTFEEAKKK-FPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIEL--E  492 (606)
T ss_pred             HHHHhhcC-hhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHhh--c
Confidence            66665543 224444544444455566666666666666654 3444556666666666666666666666666542  2


Q ss_pred             CC-------HHHH--HHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHhcCCCHHHHHHHHHHHHH
Q 003295          740 PN-------KITY--TIMIGGYCKLGDMKEAAKLLNVMAEKGISPD-SITYNVFMDGHCKGGNVEEAFKVCDRMLS  805 (833)
Q Consensus       740 p~-------~~~~--~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  805 (833)
                      |+       ...+  -.++- +.-.+++..|++++.++++  +.|. ...|..|...-...|+.++|+++|++...
T Consensus       493 ~~~~~~~v~~~plV~Ka~l~-~qwk~d~~~a~~Ll~KA~e--~Dpkce~A~~tlaq~~lQ~~~i~eAielFEksa~  565 (606)
T KOG0547|consen  493 PREHLIIVNAAPLVHKALLV-LQWKEDINQAENLLRKAIE--LDPKCEQAYETLAQFELQRGKIDEAIELFEKSAQ  565 (606)
T ss_pred             cccccccccchhhhhhhHhh-hchhhhHHHHHHHHHHHHc--cCchHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            22       1111  11111 1123566666666666666  3443 24566666666666666666666665544

>KOG1155 consensus Anaphase-promoting complex (APC), Cdc23 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=99.60  E-value=9.7e-11  Score=117.42  Aligned_cols=329  Identities=11%  Similarity=0.080  Sum_probs=168.7

Q ss_pred             CCChhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhH--H
Q 003295          389 SPNSVTFNSLIHGFCKSGQMDNAENALEEMLSRGLSINQGAYTSVIKWLCINSRFNSALHFTKEMLLRNLRPGDGLL--T  466 (833)
Q Consensus       389 ~p~~~~~~~li~~~~~~g~~~~A~~~l~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~--~  466 (833)
                      .-|...+-.....+-+.|..+.|+..|.+.... .+-.-.+|..|....   .+.+.+.-    ... +...|...+  -
T Consensus       161 ~~D~fllYL~Gvv~k~~~~~s~A~~sfv~~v~~-~P~~W~AWleL~~li---t~~e~~~~----l~~-~l~~~~h~M~~~  231 (559)
T KOG1155|consen  161 EKDEFLLYLYGVVLKELGLLSLAIDSFVEVVNR-YPWFWSAWLELSELI---TDIEILSI----LVV-GLPSDMHWMKKF  231 (559)
T ss_pred             cchhHHHHHHHHHHHhhchHHHHHHHHHHHHhc-CCcchHHHHHHHHhh---chHHHHHH----HHh-cCcccchHHHHH
Confidence            335555444455566788888888888887754 222333333332221   11111111    111 111111111  2


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCC--CCHHHHHHHHHHHHh
Q 003295          467 LLVSGLCKNGKQAEATELCFRLFEKGFTVNTVTSNALIHGMCEAGNLKEAGKLLMEMLQRGLI--LDKVTYNTLILGCCK  544 (833)
Q Consensus       467 ~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~l~~m~~~g~~--~~~~~~~~li~~~~~  544 (833)
                      .+..++....+.+++.+-.+.....|++.+...-+....+.....++++|+.+|+++.+..+-  -|..+|+.++..  +
T Consensus       232 F~~~a~~el~q~~e~~~k~e~l~~~gf~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~LYv--~  309 (559)
T KOG1155|consen  232 FLKKAYQELHQHEEALQKKERLSSVGFPNSMYIKTQIAAASYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVLYV--K  309 (559)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhccCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHHHH--H
Confidence            234455566677777777777777777766666666666666777777777777777766321  144555544433  2


Q ss_pred             cCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHccCCHHHHHHH
Q 003295          545 DGKPEEGFKLKEDMIKRGIQPDNYTYNLLLHGLCSLGKMEEAIELWEECKRTVFGPDIYTYGVMIDGFCKADKIEEGETL  624 (833)
Q Consensus       545 ~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~  624 (833)
                      +.+..  +..+.+-.-.--+--+.|+..+.+-|.-.++.++|...|++..+.+ +.....|+.+.+-|....+...|++-
T Consensus       310 ~~~sk--Ls~LA~~v~~idKyR~ETCCiIaNYYSlr~eHEKAv~YFkRALkLN-p~~~~aWTLmGHEyvEmKNt~AAi~s  386 (559)
T KOG1155|consen  310 NDKSK--LSYLAQNVSNIDKYRPETCCIIANYYSLRSEHEKAVMYFKRALKLN-PKYLSAWTLMGHEYVEMKNTHAAIES  386 (559)
T ss_pred             hhhHH--HHHHHHHHHHhccCCccceeeehhHHHHHHhHHHHHHHHHHHHhcC-cchhHHHHHhhHHHHHhcccHHHHHH
Confidence            21111  1111111110011123455555555555566666666666665543 22344455555555555555555555


Q ss_pred             HHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC
Q 003295          625 FNEMISKKMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLL  704 (833)
Q Consensus       625 ~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~  704 (833)
                      ++..++..+. |-..|-.+.++|.-.+.+.-|+-.|++..... +-|...|.+|..+|.+.++.++|++.|.+....| .
T Consensus       387 YRrAvdi~p~-DyRAWYGLGQaYeim~Mh~YaLyYfqkA~~~k-PnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~-d  463 (559)
T KOG1155|consen  387 YRRAVDINPR-DYRAWYGLGQAYEIMKMHFYALYYFQKALELK-PNDSRLWVALGECYEKLNRLEEAIKCYKRAILLG-D  463 (559)
T ss_pred             HHHHHhcCch-hHHHHhhhhHHHHHhcchHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHhccHHHHHHHHHHHHhcc-c
Confidence            5555555443 55555555555555555555555555555442 3355555555555555555555555555555543 2


Q ss_pred             CChhHHHHHHHHHHhcCChhHHHHHHHHHH
Q 003295          705 PNVACYTALIGGYCKLGQMDEAESVLQEMA  734 (833)
Q Consensus       705 p~~~~~~~li~~~~~~g~~~~A~~~~~~m~  734 (833)
                      .+...|..|...|-+.++.++|...|++-+
T Consensus       464 te~~~l~~LakLye~l~d~~eAa~~yek~v  493 (559)
T KOG1155|consen  464 TEGSALVRLAKLYEELKDLNEAAQYYEKYV  493 (559)
T ss_pred             cchHHHHHHHHHHHHHHhHHHHHHHHHHHH
Confidence            233455555555555555555555555443

>KOG4318 consensus Bicoid mRNA stability factor [RNA processing and modification]

Probab=99.58  E-value=2.5e-11  Score=130.60  Aligned_cols=531  Identities=15%  Similarity=0.102  Sum_probs=270.3

Q ss_pred             HHHhh-cCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCC
Q 003295          241 FETMC-RGVSPDVFLFSTAINAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIHGLCRNGRLYEAFHLKEKMVLREVE  319 (833)
Q Consensus       241 ~~~~~-~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~  319 (833)
                      +-.+. .|..||.+||..+|.-||..|+.+.|- +|.-|.-+....+...++.++.+....|+.+.+.           .
T Consensus        13 la~~e~~gi~PnRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpk-----------e   80 (1088)
T KOG4318|consen   13 LALHEISGILPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPK-----------E   80 (1088)
T ss_pred             HHHHHHhcCCCchhhHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCC-----------C
Confidence            33444 688999999999999999999999988 8888887777778888999999888888887776           5


Q ss_pred             CChhhHHHHHHHHHhcCChhH---HHHHHHHHH----HCCCCCChh--------------hHHHHHHHHHHcCChHHHHH
Q 003295          320 PSLITYSILINGLIKLEKFDD---ANFVLKEMS----VRGFVPNYV--------------VYNTLIDGYCKKGNISEALK  378 (833)
Q Consensus       320 p~~~t~~~li~~~~~~g~~~~---A~~~~~~m~----~~g~~p~~~--------------~y~~li~~~~~~g~~~~A~~  378 (833)
                      |-..||+.|...|...||+.-   ..+.++...    ..|+.-...              .-.+.+....-.|-++.+++
T Consensus        81 p~aDtyt~Ll~ayr~hGDli~fe~veqdLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~n~illlv~eglwaqllk  160 (1088)
T KOG4318|consen   81 PLADTYTNLLKAYRIHGDLILFEVVEQDLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAENAILLLVLEGLWAQLLK  160 (1088)
T ss_pred             CchhHHHHHHHHHHhccchHHHHHHHHHHHHHHhhhhhhccCcHHHHHHhhcccCcccchhHHHHHHHHHHHHHHHHHHH
Confidence            788899999999999998755   222111111    111110000              00112222233334444444


Q ss_pred             HHHHHHhCC-CCCChhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHHCC
Q 003295          379 IRDDMVSKG-MSPNSVTFNSLIHGFCKSGQMDNAENALEEMLSRGLSINQGAYTSVIKWLCINSRFNSALHFTKEMLLRN  457 (833)
Q Consensus       379 ~~~~m~~~g-~~p~~~~~~~li~~~~~~g~~~~A~~~l~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~  457 (833)
                      ++..+.... ..|-.+    +++-...  .+...++++.......-.++..+|..+++.-...|+.+.|..++.+|.+.|
T Consensus       161 ll~~~Pvsa~~~p~~v----fLrqnv~--~ntpvekLl~~cksl~e~~~s~~l~a~l~~alaag~~d~Ak~ll~emke~g  234 (1088)
T KOG4318|consen  161 LLAKVPVSAWNAPFQV----FLRQNVV--DNTPVEKLLNMCKSLVEAPTSETLHAVLKRALAAGDVDGAKNLLYEMKEKG  234 (1088)
T ss_pred             HHhhCCcccccchHHH----HHHHhcc--CCchHHHHHHHHHHhhcCCChHHHHHHHHHHHhcCchhhHHHHHHHHHHcC
Confidence            443332210 011111    1111111  111222222222211113555555555555555555555555555555555


Q ss_pred             CCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHH
Q 003295          458 LRPGDGLLTLLVSGLCKNGKQAEATELCFRLFEKGFTVNTVTSNALIHGMCEAGNLKEAGKLLMEMLQRGLILDKVTYNT  537 (833)
Q Consensus       458 ~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~l~~m~~~g~~~~~~~~~~  537 (833)
                      ...+...|-.|+.+   .++..-+..++.-|.+.|+.|+..|+...+..+.++|....+        +.|.. ....+++
T Consensus       235 fpir~HyFwpLl~g---~~~~q~~e~vlrgmqe~gv~p~seT~adyvip~l~N~~t~~~--------~e~sq-~~hg~tA  302 (1088)
T KOG4318|consen  235 FPIRAHYFWPLLLG---INAAQVFEFVLRGMQEKGVQPGSETQADYVIPQLSNGQTKYG--------EEGSQ-LAHGFTA  302 (1088)
T ss_pred             CCcccccchhhhhc---CccchHHHHHHHHHHHhcCCCCcchhHHHHHhhhcchhhhhc--------ccccc-hhhhhhH
Confidence            55555544444433   455555555555555555555555555544444443331111        11111 1111111


Q ss_pred             HHHHHHhcCChhhHHHHHH------------HHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCC---CCCH
Q 003295          538 LILGCCKDGKPEEGFKLKE------------DMIKRGIQPDNYTYNLLLHGLCSLGKMEEAIELWEECKRTVF---GPDI  602 (833)
Q Consensus       538 li~~~~~~g~~~~A~~~~~------------~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~---~~~~  602 (833)
                      -+..-.-.|  ..|.+.++            +..-.|+......|...... ...|+-++..++-..+..--.   ..++
T Consensus       303 avrsaa~rg--~~a~k~l~~nl~~~v~~s~k~~fLlg~d~~~aiws~c~~l-~hQgk~e~veqlvg~l~npt~r~s~~~V  379 (1088)
T KOG4318|consen  303 AVRSAACRG--LLANKRLRQNLRKSVIGSTKKLFLLGTDILEAIWSMCEKL-RHQGKGEEVEQLVGQLLNPTLRDSGQNV  379 (1088)
T ss_pred             HHHHHHhcc--cHhHHHHHHHHHHHHHHHhhHHHHhccccchHHHHHHHHH-HHcCCCchHHHHHhhhcCCccccCcchH
Confidence            111111111  11222111            11112333222233222222 225666666666655543211   1223


Q ss_pred             hhHHHHHHHHHccCCHHHHHHHHH--HHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHhC----CCC-------
Q 003295          603 YTYGVMIDGFCKADKIEEGETLFN--EMISKKMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSR----GIL-------  669 (833)
Q Consensus       603 ~~~~~li~~~~~~g~~~~A~~~~~--~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----~~~-------  669 (833)
                      ..|..++.-|.+.-+..-...++.  +.+..  ..+....-.++....+ -+...+++-+..+...    ...       
T Consensus       380 ~a~~~~lrqyFrr~e~~~~~~i~~~~qgls~--~l~se~tp~vsell~~-lrkns~lr~lv~Lss~Eler~he~~~~~~h  456 (1088)
T KOG4318|consen  380 DAFGALLRQYFRRIERHICSRIYYAGQGLSL--NLNSEDTPRVSELLEN-LRKNSFLRQLVGLSSTELERSHEPWPLIAH  456 (1088)
T ss_pred             HHHHHHHHHHHHHHHhhHHHHHHHHHHHHHh--hhchhhhHHHHHHHHH-hCcchHHHHHhhhhHHHHhcccccchhhhh
Confidence            344444444433221111111111  11110  0011111111111111 1223333322222111    001       


Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHhC--CCCCCHHHHHH
Q 003295          670 PTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESVLQEMASI--NIHPNKITYTI  747 (833)
Q Consensus       670 p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~--g~~p~~~~~~~  747 (833)
                      +-...-+.++..|+..-+..+++..-+.....- -+  ..|..||+-++...+.+.|..+..+....  .+.-|..-+..
T Consensus       457 ~irdi~~ql~l~l~se~n~lK~l~~~ekye~~l-f~--g~ya~Li~l~~~hdkle~Al~~~~e~d~~d~s~~Ld~~~m~~  533 (1088)
T KOG4318|consen  457 LIRDIANQLHLTLNSEYNKLKILCDEEKYEDLL-FA--GLYALLIKLMDLHDKLEYALSFVDEIDTRDESIHLDLPLMTS  533 (1088)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-hh--hHHHHHhhhHHHHHHHHHHHhchhhhcccchhhhcccHhHHH
Confidence            112234556666777666777765544444321 12  57899999999999999999999988642  23345556788


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCC-CCC-HHHHHHHHHHHhcCCCHHHHHHHHHHHHHCCCCC
Q 003295          748 MIGGYCKLGDMKEAAKLLNVMAEKGI-SPD-SITYNVFMDGHCKGGNVEEAFKVCDRMLSEGLSL  810 (833)
Q Consensus       748 li~~~~~~g~~~~A~~~~~~m~~~g~-~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~p  810 (833)
                      +.+.+.+.+....+.++++++.+.-. .|+ ..+.-.+.......|+.+.-.+.++-+...|+..
T Consensus       534 l~dLL~r~~~l~dl~tiL~e~ks~a~n~~~~a~~~f~~lns~a~agqqe~Lkkl~d~lvslgl~e  598 (1088)
T KOG4318|consen  534 LQDLLQRLAILYDLSTILYEDKSSAENEPLVAIILFPLLNSGAPAGQQEKLKKLADILVSLGLSE  598 (1088)
T ss_pred             HHHHHHHhHHHHHHHHHHhhhhHHhhCCchHHHHHHHHHhhhhhccCHHHHHHHHHHHHHhhhhh
Confidence            99999999999999999999987321 232 3456667777788899888888887777766644

>TIGR00540 hemY_coli hemY protein

Probab=99.58  E-value=7.7e-12  Score=135.28  Aligned_cols=291  Identities=10%  Similarity=0.002  Sum_probs=190.9

Q ss_pred             hcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 003295          509 EAGNLKEAGKLLMEMLQRGLILDKVTYNTLILGCCKDGKPEEGFKLKEDMIKRGIQPDNYTYNLLLHGLCSLGKMEEAIE  588 (833)
Q Consensus       509 ~~g~~~~A~~~l~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~  588 (833)
                      ..|+++.|.+.+.+..+.... ....+-.......+.|+.+.|.+.+.+..+....++..........+...|+++.|..
T Consensus        96 ~~g~~~~A~~~l~~~~~~~~~-~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~~p~~~l~~~~~~a~l~l~~~~~~~Al~  174 (409)
T TIGR00540        96 AEGDYAKAEKLIAKNADHAAE-PVLNLIKAAEAAQQRGDEARANQHLEEAAELAGNDNILVEIARTRILLAQNELHAARH  174 (409)
T ss_pred             hCCCHHHHHHHHHHHhhcCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCcCchHHHHHHHHHHHHCCCHHHHHH
Confidence            467777777777766655332 2333334455566677777777777777665333222233334666667777777777


Q ss_pred             HHHHHhhCCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCccCHHHHH-HHHH---HHHHcCChHHHHHHHHHHH
Q 003295          589 LWEECKRTVFGPDIYTYGVMIDGFCKADKIEEGETLFNEMISKKMELNPVVYN-TLIR---AYCKIGNTTAAFRLSNDMK  664 (833)
Q Consensus       589 ~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~-~li~---~~~~~g~~~~A~~~~~~m~  664 (833)
                      .++.+.+.. +-+......+...+.+.|++++|.+.+..+.+.+.. +...+. .-..   +....+..+++.+.+..+.
T Consensus       175 ~l~~l~~~~-P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~-~~~~~~~l~~~a~~~~l~~~~~~~~~~~L~~~~  252 (409)
T TIGR00540       175 GVDKLLEMA-PRHKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLF-DDEEFADLEQKAEIGLLDEAMADEGIDGLLNWW  252 (409)
T ss_pred             HHHHHHHhC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHH
Confidence            777777664 334556667777777777777777777777776543 322221 1111   1122233333344555555


Q ss_pred             hCCC---CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhH---HHHHHHHHHhcCChhHHHHHHHHHHhCCC
Q 003295          665 SRGI---LPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVAC---YTALIGGYCKLGQMDEAESVLQEMASINI  738 (833)
Q Consensus       665 ~~~~---~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~---~~~li~~~~~~g~~~~A~~~~~~m~~~g~  738 (833)
                      +...   +.+...+..+...+...|+.++|.+.+++..+.  .||...   ...........++.+.+.+.+++..+.. 
T Consensus       253 ~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~--~pd~~~~~~~~l~~~~~l~~~~~~~~~~~~e~~lk~~-  329 (409)
T TIGR00540       253 KNQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKK--LGDDRAISLPLCLPIPRLKPEDNEKLEKLIEKQAKNV-  329 (409)
T ss_pred             HHCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhh--CCCcccchhHHHHHhhhcCCCChHHHHHHHHHHHHhC-
Confidence            4321   137778888888999999999999999999885  344331   1122222334577888888888888652 


Q ss_pred             CCCH--HHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHH
Q 003295          739 HPNK--ITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISPDSITYNVFMDGHCKGGNVEEAFKVCDRMLS  805 (833)
Q Consensus       739 ~p~~--~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  805 (833)
                      +-|.  ....++++.+.+.|++++|.+.|++.......|+...+..++..+.+.|+.++|.+++++.+.
T Consensus       330 p~~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~~~~~~~La~ll~~~g~~~~A~~~~~~~l~  398 (409)
T TIGR00540       330 DDKPKCCINRALGQLLMKHGEFIEAADAFKNVAACKEQLDANDLAMAADAFDQAGDKAEAAAMRQDSLG  398 (409)
T ss_pred             CCChhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            4445  667789999999999999999999543333578998889999999999999999999987654

This is an uncharacterized protein encoded next to a heme-biosynthetic enzyme in two gamma division proteobacteria (E. coli and H. influenzae). It is known in no other species. The gene symbol hemY is unfortunate in that an unrelated protein, protoporphyrinogen oxidase, is designated as HemG in E. coli but as HemY in Bacillus subtilis.

>KOG1155 consensus Anaphase-promoting complex (APC), Cdc23 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=99.58  E-value=3.3e-10  Score=113.67  Aligned_cols=381  Identities=13%  Similarity=0.043  Sum_probs=260.2

Q ss_pred             CCCcccHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC--HHHHH
Q 003295          424 SINQGAYTSVIKWLCINSRFNSALHFTKEMLLRNLRPGDGLLTLLVSGLCKNGKQAEATELCFRLFEKGFTVN--TVTSN  501 (833)
Q Consensus       424 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~--~~~~~  501 (833)
                      ..|...+......+-+.|..+.|++.+...+..-+-    .+.+-+..    ++.-.-.++...+.. +.+.|  ...--
T Consensus       161 ~~D~fllYL~Gvv~k~~~~~s~A~~sfv~~v~~~P~----~W~AWleL----~~lit~~e~~~~l~~-~l~~~~h~M~~~  231 (559)
T KOG1155|consen  161 EKDEFLLYLYGVVLKELGLLSLAIDSFVEVVNRYPW----FWSAWLEL----SELITDIEILSILVV-GLPSDMHWMKKF  231 (559)
T ss_pred             cchhHHHHHHHHHHHhhchHHHHHHHHHHHHhcCCc----chHHHHHH----HHhhchHHHHHHHHh-cCcccchHHHHH
Confidence            334444444444455667777777777766543211    22222211    111111222222222 12211  11112


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCC--CCHHHHHHHHHHHHh
Q 003295          502 ALIHGMCEAGNLKEAGKLLMEMLQRGLILDKVTYNTLILGCCKDGKPEEGFKLKEDMIKRGIQ--PDNYTYNLLLHGLCS  579 (833)
Q Consensus       502 ~li~~~~~~g~~~~A~~~l~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~--p~~~~~~~li~~~~~  579 (833)
                      -+..++-...+.+++..-.....+.|+.-+...-+....+.....++++|..+|+++.+..+-  -|..+|..++  |.+
T Consensus       232 F~~~a~~el~q~~e~~~k~e~l~~~gf~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~L--Yv~  309 (559)
T KOG1155|consen  232 FLKKAYQELHQHEEALQKKERLSSVGFPNSMYIKTQIAAASYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVL--YVK  309 (559)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhccCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHH--HHH
Confidence            234455566677777777777777777655444444555556677888888888888877321  1556666554  223


Q ss_pred             cCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHH
Q 003295          580 LGKMEEAIELWEECKRTVFGPDIYTYGVMIDGFCKADKIEEGETLFNEMISKKMELNPVVYNTLIRAYCKIGNTTAAFRL  659 (833)
Q Consensus       580 ~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~  659 (833)
                      ..+..  +.++.+-...--+--+.|...+.+-|.-.++.++|...|+..++.++. ....|+.+.+-|....+...|.+-
T Consensus       310 ~~~sk--Ls~LA~~v~~idKyR~ETCCiIaNYYSlr~eHEKAv~YFkRALkLNp~-~~~aWTLmGHEyvEmKNt~AAi~s  386 (559)
T KOG1155|consen  310 NDKSK--LSYLAQNVSNIDKYRPETCCIIANYYSLRSEHEKAVMYFKRALKLNPK-YLSAWTLMGHEYVEMKNTHAAIES  386 (559)
T ss_pred             hhhHH--HHHHHHHHHHhccCCccceeeehhHHHHHHhHHHHHHHHHHHHhcCcc-hhHHHHHhhHHHHHhcccHHHHHH
Confidence            22211  222221111111223345556667777889999999999999998766 778999999999999999999999


Q ss_pred             HHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHhCCCC
Q 003295          660 SNDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESVLQEMASINIH  739 (833)
Q Consensus       660 ~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~  739 (833)
                      ++..++.. +.|-..|-.|..+|.-.+...-|+-.|+++.+.. +.|...|.+|..+|.+.++.++|++.|.+....| .
T Consensus       387 YRrAvdi~-p~DyRAWYGLGQaYeim~Mh~YaLyYfqkA~~~k-PnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~-d  463 (559)
T KOG1155|consen  387 YRRAVDIN-PRDYRAWYGLGQAYEIMKMHFYALYYFQKALELK-PNDSRLWVALGECYEKLNRLEEAIKCYKRAILLG-D  463 (559)
T ss_pred             HHHHHhcC-chhHHHHhhhhHHHHHhcchHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHhccHHHHHHHHHHHHhcc-c
Confidence            99999985 5589999999999999999999999999999852 4478999999999999999999999999999876 5


Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH----cCCCCC--HHHHHHHHHHHhcCCCHHHHHHHHHHHHHCCCCCCHH
Q 003295          740 PNKITYTIMIGGYCKLGDMKEAAKLLNVMAE----KGISPD--SITYNVFMDGHCKGGNVEEAFKVCDRMLSEGLSLDEI  813 (833)
Q Consensus       740 p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~----~g~~p~--~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~p~~~  813 (833)
                      .+...+..|.+.|-+.++.++|...+++-++    .|...+  ..+..-|..-+.+.+++++|..+.......  .+...
T Consensus       464 te~~~l~~LakLye~l~d~~eAa~~yek~v~~~~~eg~~~~~t~ka~~fLA~~f~k~~~~~~As~Ya~~~~~~--~~e~e  541 (559)
T KOG1155|consen  464 TEGSALVRLAKLYEELKDLNEAAQYYEKYVEVSELEGEIDDETIKARLFLAEYFKKMKDFDEASYYATLVLKG--ETECE  541 (559)
T ss_pred             cchHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhhcccchHHHHHHHHHHHHHHhhcchHHHHHHHHHHhcC--CchHH
Confidence            5778999999999999999999999998876    233333  233344677788999999999988777653  66666


Q ss_pred             HHHHHHHhhc
Q 003295          814 TYTTLIDGWQ  823 (833)
Q Consensus       814 ~~~~l~~~~~  823 (833)
                      --+.|+..+.
T Consensus       542 eak~LlReir  551 (559)
T KOG1155|consen  542 EAKALLREIR  551 (559)
T ss_pred             HHHHHHHHHH
Confidence            6677777765

>KOG2047 consensus mRNA splicing factor [RNA processing and modification]

Probab=99.57  E-value=1.1e-08  Score=107.00  Aligned_cols=544  Identities=12%  Similarity=0.083  Sum_probs=326.5

Q ss_pred             HHHHHHHHHHHHhcCChhHHHHHHHHhhcCCC--CCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHH
Q 003295          218 LKTCNFLLNSLVKANEVQKGIEVFETMCRGVS--PDVFLFSTAINAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIH  295 (833)
Q Consensus       218 ~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~--~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~  295 (833)
                      ++.|-.-+..+.++|++..-+..|+..++..|  .....|...+.-....|-.+-+..++++.++.    ++..-+-.|.
T Consensus       102 pRIwl~Ylq~l~~Q~~iT~tR~tfdrALraLpvtqH~rIW~lyl~Fv~~~~lPets~rvyrRYLk~----~P~~~eeyie  177 (835)
T KOG2047|consen  102 PRIWLDYLQFLIKQGLITRTRRTFDRALRALPVTQHDRIWDLYLKFVESHGLPETSIRVYRRYLKV----APEAREEYIE  177 (835)
T ss_pred             CHHHHHHHHHHHhcchHHHHHHHHHHHHHhCchHhhccchHHHHHHHHhCCChHHHHHHHHHHHhc----CHHHHHHHHH
Confidence            45788888999999999999999999985443  34567888888888889999999999999985    3444777888


Q ss_pred             HHHhcCChhHHHHHHHHHHhCC------CCCChhhHHHHHHHHHhcCChh---HHHHHHHHHHHCCCCCC--hhhHHHHH
Q 003295          296 GLCRNGRLYEAFHLKEKMVLRE------VEPSLITYSILINGLIKLEKFD---DANFVLKEMSVRGFVPN--YVVYNTLI  364 (833)
Q Consensus       296 ~~~~~g~~~~A~~~~~~m~~~~------~~p~~~t~~~li~~~~~~g~~~---~A~~~~~~m~~~g~~p~--~~~y~~li  364 (833)
                      .+++.+++++|.+.+.....+.      .+.+...|..+-+...+..+.-   ....+++.+..+  -+|  ...|++|+
T Consensus       178 ~L~~~d~~~eaa~~la~vln~d~f~sk~gkSn~qlw~elcdlis~~p~~~~slnvdaiiR~gi~r--ftDq~g~Lw~SLA  255 (835)
T KOG2047|consen  178 YLAKSDRLDEAAQRLATVLNQDEFVSKKGKSNHQLWLELCDLISQNPDKVQSLNVDAIIRGGIRR--FTDQLGFLWCSLA  255 (835)
T ss_pred             HHHhccchHHHHHHHHHhcCchhhhhhcccchhhHHHHHHHHHHhCcchhcccCHHHHHHhhccc--CcHHHHHHHHHHH
Confidence            8999999999999998886431      2345556776666665544322   334455555544  345  45799999


Q ss_pred             HHHHHcCChHHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCC-CCcccHHHHHHHHHhcCCh
Q 003295          365 DGYCKKGNISEALKIRDDMVSKGMSPNSVTFNSLIHGFCKSGQMDNAENALEEMLSRGLS-INQGAYTSVIKWLCINSRF  443 (833)
Q Consensus       365 ~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~l~~~~~~g~~-~~~~~~~~li~~~~~~g~~  443 (833)
                      +.|.+.|.+++|..+|++....-  ..+.-+..+.+.|..-....-+..+ +...+.+.. -+..             ++
T Consensus       256 dYYIr~g~~ekarDvyeeai~~v--~tvrDFt~ifd~Ya~FEE~~~~~~m-e~a~~~~~n~ed~~-------------dl  319 (835)
T KOG2047|consen  256 DYYIRSGLFEKARDVYEEAIQTV--MTVRDFTQIFDAYAQFEESCVAAKM-ELADEESGNEEDDV-------------DL  319 (835)
T ss_pred             HHHHHhhhhHHHHHHHHHHHHhh--eehhhHHHHHHHHHHHHHHHHHHHH-hhhhhcccChhhhh-------------hH
Confidence            99999999999999999987742  2444555666666543221111111 100001100 0111             11


Q ss_pred             hHHHHHHHHHHHCCC-----------CCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC------CHHHHHHHHHH
Q 003295          444 NSALHFTKEMLLRNL-----------RPGDGLLTLLVSGLCKNGKQAEATELCFRLFEKGFTV------NTVTSNALIHG  506 (833)
Q Consensus       444 ~~A~~~~~~~~~~~~-----------~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~------~~~~~~~li~~  506 (833)
                      +-.+..|..+..+..           ..+...+..  ..-+..|+..+-...+.+.+.. +.|      -...|..+...
T Consensus       320 ~~~~a~~e~lm~rr~~~lNsVlLRQn~~nV~eW~k--RV~l~e~~~~~~i~tyteAv~~-vdP~ka~Gs~~~Lw~~fakl  396 (835)
T KOG2047|consen  320 ELHMARFESLMNRRPLLLNSVLLRQNPHNVEEWHK--RVKLYEGNAAEQINTYTEAVKT-VDPKKAVGSPGTLWVEFAKL  396 (835)
T ss_pred             HHHHHHHHHHHhccchHHHHHHHhcCCccHHHHHh--hhhhhcCChHHHHHHHHHHHHc-cCcccCCCChhhHHHHHHHH
Confidence            111122222211110           011111111  1122344455555555555543 111      12356666666


Q ss_pred             HHhcCCHHHHHHHHHHHhhCCCCCC---HHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCC-----------C------C
Q 003295          507 MCEAGNLKEAGKLLMEMLQRGLILD---KVTYNTLILGCCKDGKPEEGFKLKEDMIKRGIQ-----------P------D  566 (833)
Q Consensus       507 ~~~~g~~~~A~~~l~~m~~~g~~~~---~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~-----------p------~  566 (833)
                      |-..|+++.|..+|++..+-..+--   ..+|..-...=.+..+++.|+++.+......-.           +      +
T Consensus       397 Ye~~~~l~~aRvifeka~~V~y~~v~dLa~vw~~waemElrh~~~~~Al~lm~~A~~vP~~~~~~~yd~~~pvQ~rlhrS  476 (835)
T KOG2047|consen  397 YENNGDLDDARVIFEKATKVPYKTVEDLAEVWCAWAEMELRHENFEAALKLMRRATHVPTNPELEYYDNSEPVQARLHRS  476 (835)
T ss_pred             HHhcCcHHHHHHHHHHhhcCCccchHHHHHHHHHHHHHHHhhhhHHHHHHHHHhhhcCCCchhhhhhcCCCcHHHHHHHh
Confidence            6677777777777776665433211   123333333334555666666666655432111           0      2


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCccCH-HHHHHHHH
Q 003295          567 NYTYNLLLHGLCSLGKMEEAIELWEECKRTVFGPDIYTYGVMIDGFCKADKIEEGETLFNEMISKKMELNP-VVYNTLIR  645 (833)
Q Consensus       567 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~-~~~~~li~  645 (833)
                      ...|...++.--..|-++....+|+.+.+..+... ...-.....+-...-++++.+++++-+..-..|+. ..|+..+.
T Consensus       477 lkiWs~y~DleEs~gtfestk~vYdriidLriaTP-qii~NyAmfLEeh~yfeesFk~YErgI~LFk~p~v~diW~tYLt  555 (835)
T KOG2047|consen  477 LKIWSMYADLEESLGTFESTKAVYDRIIDLRIATP-QIIINYAMFLEEHKYFEESFKAYERGISLFKWPNVYDIWNTYLT  555 (835)
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHHHhcCCH-HHHHHHHHHHHhhHHHHHHHHHHHcCCccCCCccHHHHHHHHHH
Confidence            33456666666677888888888988887654322 11112222334455678888888877666545554 45666665


Q ss_pred             HHHHc---CChHHHHHHHHHHHhCCCCCCHHHHHHHHHH--HHhcCCHHHHHHHHHHHHHCCCCCC--hhHHHHHHHHHH
Q 003295          646 AYCKI---GNTTAAFRLSNDMKSRGILPTSVTYSSLIHG--LCNIGLIEDAKCLFDEMRKEGLLPN--VACYTALIGGYC  718 (833)
Q Consensus       646 ~~~~~---g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~--~~~~g~~~~A~~~~~~m~~~g~~p~--~~~~~~li~~~~  718 (833)
                      -+.+.   ..++.|..+|++.++ |++|...-+..|+.+  -.+.|....|+++++++... +++.  ...||..|.--.
T Consensus       556 kfi~rygg~klEraRdLFEqaL~-~Cpp~~aKtiyLlYA~lEEe~GLar~amsiyerat~~-v~~a~~l~myni~I~kaa  633 (835)
T KOG2047|consen  556 KFIKRYGGTKLERARDLFEQALD-GCPPEHAKTIYLLYAKLEEEHGLARHAMSIYERATSA-VKEAQRLDMYNIYIKKAA  633 (835)
T ss_pred             HHHHHhcCCCHHHHHHHHHHHHh-cCCHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhc-CCHHHHHHHHHHHHHHHH
Confidence            55432   467889999999988 666654333333222  23458888899999987764 3443  256777776544


Q ss_pred             hcCChhHHHHHHHHHHhCCCCCCHHHH---HHHHHHHHhcCCHHHHHHHHHHHHHcCCCC--CHHHHHHHHHHHhcCCC
Q 003295          719 KLGQMDEAESVLQEMASINIHPNKITY---TIMIGGYCKLGDMKEAAKLLNVMAEKGISP--DSITYNVFMDGHCKGGN  792 (833)
Q Consensus       719 ~~g~~~~A~~~~~~m~~~g~~p~~~~~---~~li~~~~~~g~~~~A~~~~~~m~~~g~~p--~~~~~~~l~~~~~~~g~  792 (833)
                      ..=-+.....++++.++.  -||...-   .-....=++.|..+.|..++.-..+. +.|  +...|.+.=.-=.+.|+
T Consensus       634 e~yGv~~TR~iYekaIe~--Lp~~~~r~mclrFAdlEtklGEidRARaIya~~sq~-~dPr~~~~fW~twk~FEvrHGn  709 (835)
T KOG2047|consen  634 EIYGVPRTREIYEKAIES--LPDSKAREMCLRFADLETKLGEIDRARAIYAHGSQI-CDPRVTTEFWDTWKEFEVRHGN  709 (835)
T ss_pred             HHhCCcccHHHHHHHHHh--CChHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhhhc-CCCcCChHHHHHHHHHHHhcCC
Confidence            444455667788888774  5555432   23344456788999999888877664 355  55667777666678888

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.57  E-value=1.4e-11  Score=132.51  Aligned_cols=286  Identities=11%  Similarity=0.018  Sum_probs=193.5

Q ss_pred             cCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHH
Q 003295          510 AGNLKEAGKLLMEMLQRGLILDKVTYNTLILGCCKDGKPEEGFKLKEDMIKRGIQPDNYTYNLLLHGLCSLGKMEEAIEL  589 (833)
Q Consensus       510 ~g~~~~A~~~l~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~  589 (833)
                      .|+++.|.+.+....+.... ....|........+.|+++.|...+.++.+....+...........+...|+++.|...
T Consensus        97 eGd~~~A~k~l~~~~~~~~~-p~l~~llaA~aA~~~g~~~~A~~~l~~A~~~~~~~~~~~~l~~a~l~l~~g~~~~Al~~  175 (398)
T PRK10747         97 EGDYQQVEKLMTRNADHAEQ-PVVNYLLAAEAAQQRGDEARANQHLERAAELADNDQLPVEITRVRIQLARNENHAARHG  175 (398)
T ss_pred             CCCHHHHHHHHHHHHhcccc-hHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHCCCHHHHHHH
Confidence            57777777666665443211 12223222334466777777777777776642222112222335566777777777777


Q ss_pred             HHHHhhCCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCccCH-------HHHHHHHHHHHHcCChHHHHHHHHH
Q 003295          590 WEECKRTVFGPDIYTYGVMIDGFCKADKIEEGETLFNEMISKKMELNP-------VVYNTLIRAYCKIGNTTAAFRLSND  662 (833)
Q Consensus       590 ~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~-------~~~~~li~~~~~~g~~~~A~~~~~~  662 (833)
                      ++++.+.. +.+......+...|.+.|++++|.+++..+.+.+..++.       .+|..++.......+.+...++++.
T Consensus       176 l~~~~~~~-P~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~~~~~~~~~l~~~w~~  254 (398)
T PRK10747        176 VDKLLEVA-PRHPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQAMADQGSEGLKRWWKN  254 (398)
T ss_pred             HHHHHhcC-CCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHh
Confidence            77776654 334666667777777777777777777777776544222       1223333333334445555566665


Q ss_pred             HHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCH
Q 003295          663 MKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESVLQEMASINIHPNK  742 (833)
Q Consensus       663 m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~  742 (833)
                      +.+. .+.+......+...+...|+.++|.+.+++..+.  .|+....  ++.+....++.+++.+..++..+.. +-|.
T Consensus       255 lp~~-~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~--~~~~~l~--~l~~~l~~~~~~~al~~~e~~lk~~-P~~~  328 (398)
T PRK10747        255 QSRK-TRHQVALQVAMAEHLIECDDHDTAQQIILDGLKR--QYDERLV--LLIPRLKTNNPEQLEKVLRQQIKQH-GDTP  328 (398)
T ss_pred             CCHH-HhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHHHH--HHHhhccCCChHHHHHHHHHHHhhC-CCCH
Confidence            5443 2457777888889999999999999999988874  4555322  2334445688999999999888763 5566


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHH
Q 003295          743 ITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISPDSITYNVFMDGHCKGGNVEEAFKVCDRMLS  805 (833)
Q Consensus       743 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  805 (833)
                      ..+..+...|.+.|++++|.+.|+++.+  ..|+..+|..|...+.+.|+.++|.+.+++-+.
T Consensus       329 ~l~l~lgrl~~~~~~~~~A~~~le~al~--~~P~~~~~~~La~~~~~~g~~~~A~~~~~~~l~  389 (398)
T PRK10747        329 LLWSTLGQLLMKHGEWQEASLAFRAALK--QRPDAYDYAWLADALDRLHKPEEAAAMRRDGLM  389 (398)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHh--cCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            7788899999999999999999999998  569998888999999999999999999887754

>TIGR00540 hemY_coli hemY protein

Probab=99.56  E-value=2.9e-11  Score=130.79  Aligned_cols=293  Identities=12%  Similarity=-0.006  Sum_probs=195.1

Q ss_pred             HhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCChhhHH
Q 003295          473 CKNGKQAEATELCFRLFEKGFTVNTVTSNALIHGMCEAGNLKEAGKLLMEMLQRGLILDKVTYNTLILGCCKDGKPEEGF  552 (833)
Q Consensus       473 ~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~l~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~  552 (833)
                      ...|+++.|.+.+.+..+.... ....+-.....+.+.|+.+.|...+.+..+....+...........+...|+++.|.
T Consensus        95 ~~~g~~~~A~~~l~~~~~~~~~-~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~~p~~~l~~~~~~a~l~l~~~~~~~Al  173 (409)
T TIGR00540        95 LAEGDYAKAEKLIAKNADHAAE-PVLNLIKAAEAAQQRGDEARANQHLEEAAELAGNDNILVEIARTRILLAQNELHAAR  173 (409)
T ss_pred             HhCCCHHHHHHHHHHHhhcCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCcCchHHHHHHHHHHHHCCCHHHHH
Confidence            4567777777777766655322 233444455667777888888888877766543322233333466667778888888


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHH---HHHHHccCCHHHHHHHHHHHH
Q 003295          553 KLKEDMIKRGIQPDNYTYNLLLHGLCSLGKMEEAIELWEECKRTVFGPDIYTYGVM---IDGFCKADKIEEGETLFNEMI  629 (833)
Q Consensus       553 ~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l---i~~~~~~g~~~~A~~~~~~~~  629 (833)
                      ..++.+.+..+. +...+..+...+...|++++|.+.+..+.+.+..+.......-   ..++...+..+++.+.+..+.
T Consensus       174 ~~l~~l~~~~P~-~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~~l~~~~~~~~~~~L~~~~  252 (409)
T TIGR00540       174 HGVDKLLEMAPR-HKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLFDDEEFADLEQKAEIGLLDEAMADEGIDGLLNWW  252 (409)
T ss_pred             HHHHHHHHhCCC-CHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHH
Confidence            888888777544 5667777777888888888888888887776543222111111   111122233333344555555


Q ss_pred             HCCCc---cCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHHH---HHHHHHHHHhcCCHHHHHHHHHHHHHCCC
Q 003295          630 SKKME---LNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVT---YSSLIHGLCNIGLIEDAKCLFDEMRKEGL  703 (833)
Q Consensus       630 ~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~---~~~li~~~~~~g~~~~A~~~~~~m~~~g~  703 (833)
                      +..+.   .++..+..++..+...|+.++|.+.+++..+..  ||...   ...........++.+.+.+.+++..+.. 
T Consensus       253 ~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~~--pd~~~~~~~~l~~~~~l~~~~~~~~~~~~e~~lk~~-  329 (409)
T TIGR00540       253 KNQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKKL--GDDRAISLPLCLPIPRLKPEDNEKLEKLIEKQAKNV-  329 (409)
T ss_pred             HHCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhhC--CCcccchhHHHHHhhhcCCCChHHHHHHHHHHHHhC-
Confidence            44332   277888888889999999999999999988863  33331   1112222344577888888888888752 


Q ss_pred             CCCh--hHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 003295          704 LPNV--ACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAE  770 (833)
Q Consensus       704 ~p~~--~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  770 (833)
                      +-|.  ....++...+.+.|++++|.+.|+........|+...+..+...+.+.|+.++|.+++++...
T Consensus       330 p~~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~~~~~~~La~ll~~~g~~~~A~~~~~~~l~  398 (409)
T TIGR00540       330 DDKPKCCINRALGQLLMKHGEFIEAADAFKNVAACKEQLDANDLAMAADAFDQAGDKAEAAAMRQDSLG  398 (409)
T ss_pred             CCChhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            2344  566788899999999999999999544433578888888999999999999999999998654

This is an uncharacterized protein encoded next to a heme-biosynthetic enzyme in two gamma division proteobacteria (E. coli and H. influenzae). It is known in no other species. The gene symbol hemY is unfortunate in that an unrelated protein, protoporphyrinogen oxidase, is designated as HemG in E. coli but as HemY in Bacillus subtilis.

>KOG1173 consensus Anaphase-promoting complex (APC), Cdc16 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=99.55  E-value=2.5e-10  Score=117.57  Aligned_cols=284  Identities=13%  Similarity=0.033  Sum_probs=181.3

Q ss_pred             CHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHH
Q 003295          531 DKVTYNTLILGCCKDGKPEEGFKLKEDMIKRGIQPDNYTYNLLLHGLCSLGKMEEAIELWEECKRTVFGPDIYTYGVMID  610 (833)
Q Consensus       531 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~  610 (833)
                      +........+-+...+++.+..++.+...+.. +++...+..-|.++...|+..+-..+=.++.+. .+..+.+|-++.-
T Consensus       243 ~~dll~~~ad~~y~~c~f~~c~kit~~lle~d-pfh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~~-yP~~a~sW~aVg~  320 (611)
T KOG1173|consen  243 NLDLLAEKADRLYYGCRFKECLKITEELLEKD-PFHLPCLPLHIACLYELGKSNKLFLLSHKLVDL-YPSKALSWFAVGC  320 (611)
T ss_pred             cHHHHHHHHHHHHHcChHHHHHHHhHHHHhhC-CCCcchHHHHHHHHHHhcccchHHHHHHHHHHh-CCCCCcchhhHHH
Confidence            33344444455556677777777777777653 334455555556667777666665555555554 2445667777777


Q ss_pred             HHHccCCHHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHH
Q 003295          611 GFCKADKIEEGETLFNEMISKKMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIGLIED  690 (833)
Q Consensus       611 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~  690 (833)
                      -|...|+..+|.+.|.+....... -...|-.+...|.-.|..++|+..+....+. ++-...-+..+.--|.+.++.+.
T Consensus       321 YYl~i~k~seARry~SKat~lD~~-fgpaWl~fghsfa~e~EhdQAmaaY~tAarl-~~G~hlP~LYlgmey~~t~n~kL  398 (611)
T KOG1173|consen  321 YYLMIGKYSEARRYFSKATTLDPT-FGPAWLAFGHSFAGEGEHDQAMAAYFTAARL-MPGCHLPSLYLGMEYMRTNNLKL  398 (611)
T ss_pred             HHHHhcCcHHHHHHHHHHhhcCcc-ccHHHHHHhHHhhhcchHHHHHHHHHHHHHh-ccCCcchHHHHHHHHHHhccHHH
Confidence            677777777777777776654332 3456777777777777777777777666543 11111223334445667777777


Q ss_pred             HHHHHHHHHHCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHhC--CC---C-CCHHHHHHHHHHHHhcCCHHHHHHH
Q 003295          691 AKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESVLQEMASI--NI---H-PNKITYTIMIGGYCKLGDMKEAAKL  764 (833)
Q Consensus       691 A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~--g~---~-p~~~~~~~li~~~~~~g~~~~A~~~  764 (833)
                      |.++|.++..- .+-|+..++-+.-.....+.+.+|..+|+.....  .+   . --..+++.|+.+|.+.+++++|+..
T Consensus       399 Ae~Ff~~A~ai-~P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eAI~~  477 (611)
T KOG1173|consen  399 AEKFFKQALAI-APSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEAIDY  477 (611)
T ss_pred             HHHHHHHHHhc-CCCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHHHHHH
Confidence            77777777763 2336666776666666677777777777766521  00   1 1234577777778888888888888


Q ss_pred             HHHHHHcCCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHhh
Q 003295          765 LNVMAEKGISPDSITYNVFMDGHCKGGNVEEAFKVCDRMLSEGLSLDEITYTTLIDGW  822 (833)
Q Consensus       765 ~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~  822 (833)
                      +++.+.. .+-|..++.+++-.|...|+++.|++.|.+.+.  ++||..+...++..+
T Consensus       478 ~q~aL~l-~~k~~~~~asig~iy~llgnld~Aid~fhKaL~--l~p~n~~~~~lL~~a  532 (611)
T KOG1173|consen  478 YQKALLL-SPKDASTHASIGYIYHLLGNLDKAIDHFHKALA--LKPDNIFISELLKLA  532 (611)
T ss_pred             HHHHHHc-CCCchhHHHHHHHHHHHhcChHHHHHHHHHHHh--cCCccHHHHHHHHHH
Confidence            8877774 244677777777777777888888888877776  777766666555543

>PF13429 TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2_B

Probab=99.54  E-value=3.9e-14  Score=145.44  Aligned_cols=261  Identities=18%  Similarity=0.203  Sum_probs=97.7

Q ss_pred             HHHHHHHhcCChhhHHHHHHHHHHCC-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHcc
Q 003295          537 TLILGCCKDGKPEEGFKLKEDMIKRG-IQPDNYTYNLLLHGLCSLGKMEEAIELWEECKRTVFGPDIYTYGVMIDGFCKA  615 (833)
Q Consensus       537 ~li~~~~~~g~~~~A~~~~~~m~~~g-~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~  615 (833)
                      .+...+.+.|++++|+++++...... ...|...|..+.......++.+.|.+.++++...+.. +...+..++.. ...
T Consensus        13 ~~A~~~~~~~~~~~Al~~L~~~~~~~~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~~~-~~~~~~~l~~l-~~~   90 (280)
T PF13429_consen   13 RLARLLYQRGDYEKALEVLKKAAQKIAPPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASDKA-NPQDYERLIQL-LQD   90 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc-ccccccccccc-ccc
Confidence            34555666677777777775544432 1224444444555566667777777777777665422 44455555555 567


Q ss_pred             CCHHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCC-CCCCHHHHHHHHHHHHhcCCHHHHHHH
Q 003295          616 DKIEEGETLFNEMISKKMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRG-ILPTSVTYSSLIHGLCNIGLIEDAKCL  694 (833)
Q Consensus       616 g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~-~~p~~~~~~~li~~~~~~g~~~~A~~~  694 (833)
                      +++++|.+++.+..+..  +++..+..++..+.+.|+++++.++++.+.... .+.+...|..+...+.+.|+.++|++.
T Consensus        91 ~~~~~A~~~~~~~~~~~--~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~  168 (280)
T PF13429_consen   91 GDPEEALKLAEKAYERD--GDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRD  168 (280)
T ss_dssp             -----------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHH
T ss_pred             ccccccccccccccccc--cccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHH
Confidence            77777777776665542  455666777777777788888888777766432 244666677777777888888888888


Q ss_pred             HHHHHHCCCCC-ChhHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCC
Q 003295          695 FDEMRKEGLLP-NVACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAEKGI  773 (833)
Q Consensus       695 ~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~  773 (833)
                      +++.++.  .| |....+.++..+...|+.+++.++++...... +.|...|..+..+|...|++++|...+++..... 
T Consensus       169 ~~~al~~--~P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~-~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~-  244 (280)
T PF13429_consen  169 YRKALEL--DPDDPDARNALAWLLIDMGDYDEAREALKRLLKAA-PDDPDLWDALAAAYLQLGRYEEALEYLEKALKLN-  244 (280)
T ss_dssp             HHHHHHH---TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH--HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHHS-
T ss_pred             HHHHHHc--CCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHC-cCHHHHHHHHHHHhcccccccccccccccccccc-
Confidence            8888875  34 46677778888888888888777777776543 4556677788888888888888888888877742 


Q ss_pred             CCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHH
Q 003295          774 SPDSITYNVFMDGHCKGGNVEEAFKVCDRMLS  805 (833)
Q Consensus       774 ~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  805 (833)
                      +.|+.+...++.++...|+.++|.++.++...
T Consensus       245 p~d~~~~~~~a~~l~~~g~~~~A~~~~~~~~~  276 (280)
T PF13429_consen  245 PDDPLWLLAYADALEQAGRKDEALRLRRQALR  276 (280)
T ss_dssp             TT-HHHHHHHHHHHT-----------------
T ss_pred             cccccccccccccccccccccccccccccccc
Confidence            33677778888888888888888887776654

>KOG2047 consensus mRNA splicing factor [RNA processing and modification]

Probab=99.54  E-value=1.3e-08  Score=106.32  Aligned_cols=543  Identities=12%  Similarity=0.079  Sum_probs=295.3

Q ss_pred             HHHHHHHHHHHhCCCchhHHHHHHHHHcCCCCccccCCCcchHHHHHHHHhhhhcccCCcchhhhHHHHHHHHHHhhhcc
Q 003295          118 RSYCLLIRLLLFSNLLSPARLLLIRLIDGKMPVLYASNPSIRHIEIASQMVDLNVTSEPALGVQIADLLVHVYCTQFKNL  197 (833)
Q Consensus       118 ~~~~~l~~~l~~~~~~~~a~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  197 (833)
                      ..|..-+..+..++....-+..|++.+..- |+       ..|                   ..+++..++-.-   ..+
T Consensus       103 RIwl~Ylq~l~~Q~~iT~tR~tfdrALraL-pv-------tqH-------------------~rIW~lyl~Fv~---~~~  152 (835)
T KOG2047|consen  103 RIWLDYLQFLIKQGLITRTRRTFDRALRAL-PV-------TQH-------------------DRIWDLYLKFVE---SHG  152 (835)
T ss_pred             HHHHHHHHHHHhcchHHHHHHHHHHHHHhC-ch-------Hhh-------------------ccchHHHHHHHH---hCC
Confidence            445556666777777777777777766532 11       111                   123343333222   345


Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHhh-c------CCCCCHHHHHHHHHHHHhcCChhH
Q 003295          198 GFGYAIDVFSIFSSKGIFPSLKTCNFLLNSLVKANEVQKGIEVFETMC-R------GVSPDVFLFSTAINAFCKRGRIED  270 (833)
Q Consensus       198 ~~~~A~~~f~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~-~------~~~~~~~~~~~li~~~~~~g~~~~  270 (833)
                      .++.++.+|++.++.    ++..-+--+.-+++.+++++|.+.+...+ .      ..+.+...|.-+-....+.-+.-.
T Consensus       153 lPets~rvyrRYLk~----~P~~~eeyie~L~~~d~~~eaa~~la~vln~d~f~sk~gkSn~qlw~elcdlis~~p~~~~  228 (835)
T KOG2047|consen  153 LPETSIRVYRRYLKV----APEAREEYIEYLAKSDRLDEAAQRLATVLNQDEFVSKKGKSNHQLWLELCDLISQNPDKVQ  228 (835)
T ss_pred             ChHHHHHHHHHHHhc----CHHHHHHHHHHHHhccchHHHHHHHHHhcCchhhhhhcccchhhHHHHHHHHHHhCcchhc
Confidence            667889999988776    44557788889999999999999998887 2      134456667776666665544333


Q ss_pred             ---HHHHHHHHHHcCCCCCh--hhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChhHHHHHH
Q 003295          271 ---AIGLFTKMEELGIAPNV--VTYNNIIHGLCRNGRLYEAFHLKEKMVLREVEPSLITYSILINGLIKLEKFDDANFVL  345 (833)
Q Consensus       271 ---A~~~~~~m~~~g~~p~~--~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~  345 (833)
                         ...++..+..+  .+|.  ..|++|.+-|.+.|++++|..+|++....  .-++.-++.+-+.|+....-.-+..+=
T Consensus       229 slnvdaiiR~gi~r--ftDq~g~Lw~SLAdYYIr~g~~ekarDvyeeai~~--v~tvrDFt~ifd~Ya~FEE~~~~~~me  304 (835)
T KOG2047|consen  229 SLNVDAIIRGGIRR--FTDQLGFLWCSLADYYIRSGLFEKARDVYEEAIQT--VMTVRDFTQIFDAYAQFEESCVAAKME  304 (835)
T ss_pred             ccCHHHHHHhhccc--CcHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHh--heehhhHHHHHHHHHHHHHHHHHHHHh
Confidence               33344444433  3554  46889999999999999999999988764  234444555555555432211111110


Q ss_pred             HHHH--HCCCCCChhhHHHHHHHHHHcCChHHHHHHHHHHHhCC-----------CCCChhHHHHHHHHHHhcCChhHHH
Q 003295          346 KEMS--VRGFVPNYVVYNTLIDGYCKKGNISEALKIRDDMVSKG-----------MSPNSVTFNSLIHGFCKSGQMDNAE  412 (833)
Q Consensus       346 ~~m~--~~g~~p~~~~y~~li~~~~~~g~~~~A~~~~~~m~~~g-----------~~p~~~~~~~li~~~~~~g~~~~A~  412 (833)
                        +.  +.|-.-+....             +-.+.-|+.+...+           -+.++..|..-+.  +..|+..+-.
T Consensus       305 --~a~~~~~n~ed~~dl-------------~~~~a~~e~lm~rr~~~lNsVlLRQn~~nV~eW~kRV~--l~e~~~~~~i  367 (835)
T KOG2047|consen  305 --LADEESGNEEDDVDL-------------ELHMARFESLMNRRPLLLNSVLLRQNPHNVEEWHKRVK--LYEGNAAEQI  367 (835)
T ss_pred             --hhhhcccChhhhhhH-------------HHHHHHHHHHHhccchHHHHHHHhcCCccHHHHHhhhh--hhcCChHHHH
Confidence              10  01111111111             11111111111110           0112333332222  1234444444


Q ss_pred             HHHHHHHHCCCCCC------cccHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCC---hhhHHHHHHHHHhcCCHHHHHH
Q 003295          413 NALEEMLSRGLSIN------QGAYTSVIKWLCINSRFNSALHFTKEMLLRNLRPG---DGLLTLLVSGLCKNGKQAEATE  483 (833)
Q Consensus       413 ~~l~~~~~~g~~~~------~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~---~~~~~~li~~~~~~g~~~~A~~  483 (833)
                      ..+.++... +.|.      ...|..+.+.|-.+|+++.|..+|....+-..+.-   ..+|..-...-.+..+++.|..
T Consensus       368 ~tyteAv~~-vdP~ka~Gs~~~Lw~~faklYe~~~~l~~aRvifeka~~V~y~~v~dLa~vw~~waemElrh~~~~~Al~  446 (835)
T KOG2047|consen  368 NTYTEAVKT-VDPKKAVGSPGTLWVEFAKLYENNGDLDDARVIFEKATKVPYKTVEDLAEVWCAWAEMELRHENFEAALK  446 (835)
T ss_pred             HHHHHHHHc-cCcccCCCChhhHHHHHHHHHHhcCcHHHHHHHHHHhhcCCccchHHHHHHHHHHHHHHHhhhhHHHHHH
Confidence            444444432 1111      12344455555555555555555555444333211   1122222222333444455555


Q ss_pred             HHHHHHHC-----------CCC------CCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcC
Q 003295          484 LCFRLFEK-----------GFT------VNTVTSNALIHGMCEAGNLKEAGKLLMEMLQRGLILDKVTYNTLILGCCKDG  546 (833)
Q Consensus       484 ~~~~~~~~-----------g~~------~~~~~~~~li~~~~~~g~~~~A~~~l~~m~~~g~~~~~~~~~~li~~~~~~g  546 (833)
                      +.++....           +.+      .+...|...++..-..|-++....+++.+.+..+. .+.........+-...
T Consensus       447 lm~~A~~vP~~~~~~~yd~~~pvQ~rlhrSlkiWs~y~DleEs~gtfestk~vYdriidLria-TPqii~NyAmfLEeh~  525 (835)
T KOG2047|consen  447 LMRRATHVPTNPELEYYDNSEPVQARLHRSLKIWSMYADLEESLGTFESTKAVYDRIIDLRIA-TPQIIINYAMFLEEHK  525 (835)
T ss_pred             HHHhhhcCCCchhhhhhcCCCcHHHHHHHhHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHhhH
Confidence            44443321           111      13456777777777788888999999999887655 2222222222333455


Q ss_pred             ChhhHHHHHHHHHHCCCCCCH-HHHHHHHHHHHh---cCCHHHHHHHHHHHhhCCCCCCHhhHHHH--HHHHHccCCHHH
Q 003295          547 KPEEGFKLKEDMIKRGIQPDN-YTYNLLLHGLCS---LGKMEEAIELWEECKRTVFGPDIYTYGVM--IDGFCKADKIEE  620 (833)
Q Consensus       547 ~~~~A~~~~~~m~~~g~~p~~-~~~~~li~~~~~---~g~~~~A~~~~~~~~~~~~~~~~~~~~~l--i~~~~~~g~~~~  620 (833)
                      -++++.+++++-+..-..|++ ..|+..+.-+.+   ..+++.|..+|++..+ |++|...-+-.|  ...--+-|-...
T Consensus       526 yfeesFk~YErgI~LFk~p~v~diW~tYLtkfi~rygg~klEraRdLFEqaL~-~Cpp~~aKtiyLlYA~lEEe~GLar~  604 (835)
T KOG2047|consen  526 YFEESFKAYERGISLFKWPNVYDIWNTYLTKFIKRYGGTKLERARDLFEQALD-GCPPEHAKTIYLLYAKLEEEHGLARH  604 (835)
T ss_pred             HHHHHHHHHHcCCccCCCccHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHh-cCCHHHHHHHHHHHHHHHHHhhHHHH
Confidence            678888888876665334444 345555544433   3568899999999888 666553322222  222234577778


Q ss_pred             HHHHHHHHHHCCCcc--CHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHHHHH---HHHHHHHhcCCHHHHHHHH
Q 003295          621 GETLFNEMISKKMEL--NPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYS---SLIHGLCNIGLIEDAKCLF  695 (833)
Q Consensus       621 A~~~~~~~~~~~~~~--~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~---~li~~~~~~g~~~~A~~~~  695 (833)
                      |..++++.... +++  -...||..|.--...=-+.....+|++.++.  -|+...-.   -..+.-++.|.++.|..++
T Consensus       605 amsiyerat~~-v~~a~~l~myni~I~kaae~yGv~~TR~iYekaIe~--Lp~~~~r~mclrFAdlEtklGEidRARaIy  681 (835)
T KOG2047|consen  605 AMSIYERATSA-VKEAQRLDMYNIYIKKAAEIYGVPRTREIYEKAIES--LPDSKAREMCLRFADLETKLGEIDRARAIY  681 (835)
T ss_pred             HHHHHHHHHhc-CCHHHHHHHHHHHHHHHHHHhCCcccHHHHHHHHHh--CChHHHHHHHHHHHHHhhhhhhHHHHHHHH
Confidence            88888886543 222  2346777776544444455566777777765  34444322   2234446778888888888


Q ss_pred             HHHHHCCCCC--ChhHHHHHHHHHHhcCC
Q 003295          696 DEMRKEGLLP--NVACYTALIGGYCKLGQ  722 (833)
Q Consensus       696 ~~m~~~g~~p--~~~~~~~li~~~~~~g~  722 (833)
                      ..-.+- ++|  +...|.+.=.--.+.|+
T Consensus       682 a~~sq~-~dPr~~~~fW~twk~FEvrHGn  709 (835)
T KOG2047|consen  682 AHGSQI-CDPRVTTEFWDTWKEFEVRHGN  709 (835)
T ss_pred             Hhhhhc-CCCcCChHHHHHHHHHHHhcCC
Confidence            776654 344  45567776666677787

>KOG0547 consensus Translocase of outer mitochondrial membrane complex, subunit TOM70/TOM72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.53  E-value=8.7e-11  Score=118.46  Aligned_cols=423  Identities=15%  Similarity=0.063  Sum_probs=195.8

Q ss_pred             HHHHHHHhcCChhHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCC-hhhHHHHHHHHHhcC
Q 003295          223 FLLNSLVKANEVQKGIEVFETMCRGVSPDVFLFSTAINAFCKRGRIEDAIGLFTKMEELGIAPN-VVTYNNIIHGLCRNG  301 (833)
Q Consensus       223 ~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~~~~~li~~~~~~g  301 (833)
                      ...+-+.++|++++|++.|.+.+.-++.....|.....+|...|++++..+--.+..+.  .|+ +..+..-..++-..|
T Consensus       120 ~~GN~~f~~kkY~eAIkyY~~AI~l~p~epiFYsNraAcY~~lgd~~~Vied~TkALEl--~P~Y~KAl~RRA~A~E~lg  197 (606)
T KOG0547|consen  120 TKGNKFFRNKKYDEAIKYYTQAIELCPDEPIFYSNRAACYESLGDWEKVIEDCTKALEL--NPDYVKALLRRASAHEQLG  197 (606)
T ss_pred             hhhhhhhhcccHHHHHHHHHHHHhcCCCCchhhhhHHHHHHHHhhHHHHHHHHHHHhhc--CcHHHHHHHHHHHHHHhhc
Confidence            34455778899999999999988533333778888888999999999988888888775  344 345666666777777


Q ss_pred             ChhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChhH--------HHHHHHHHHHCCCCCChhhHHHHHHHHHHcCCh
Q 003295          302 RLYEAFHLKEKMVLREVEPSLITYSILINGLIKLEKFDD--------ANFVLKEMSVRGFVPNYVVYNTLIDGYCKKGNI  373 (833)
Q Consensus       302 ~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~--------A~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~  373 (833)
                      ++++|+.=..             -.++..+|....-.--        |....++-.+.+-.|...+ .+.|..|...-..
T Consensus       198 ~~~eal~D~t-------------v~ci~~~F~n~s~~~~~eR~Lkk~a~~ka~e~~k~nr~p~lPS-~~fi~syf~sF~~  263 (606)
T KOG0547|consen  198 KFDEALFDVT-------------VLCILEGFQNASIEPMAERVLKKQAMKKAKEKLKENRPPVLPS-ATFIASYFGSFHA  263 (606)
T ss_pred             cHHHHHHhhh-------------HHHHhhhcccchhHHHHHHHHHHHHHHHHHHhhcccCCCCCCc-HHHHHHHHhhccc
Confidence            7777754222             2222222222221112        2222222222111222222 2222222211000


Q ss_pred             HHHHHHHHHHHhCCCCCChhHHHHHHHHHHh-cCChhHHHHHHHHHHHCC-CC-----CCcccHHHHHHHHHhcCChhHH
Q 003295          374 SEALKIRDDMVSKGMSPNSVTFNSLIHGFCK-SGQMDNAENALEEMLSRG-LS-----INQGAYTSVIKWLCINSRFNSA  446 (833)
Q Consensus       374 ~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~-~g~~~~A~~~l~~~~~~g-~~-----~~~~~~~~li~~~~~~g~~~~A  446 (833)
                      +    ..-.+...+-+.|...-..+=..+.. ...+..|...+.+-.... ..     .|... ..+..+++.       
T Consensus       264 ~----~~~~~~~~~~ksDa~l~~~l~~l~~~~~e~Y~~a~~~~te~~~~~~~~~~~n~~d~~l-e~~A~al~~-------  331 (606)
T KOG0547|consen  264 D----PKPLFDNKSDKSDAALAEALEALEKGLEEGYLKAYDKATEECLGSESSLSVNEIDAEL-EYMAEALLL-------  331 (606)
T ss_pred             c----ccccccCCCccchhhHHHHHHHHHhhCchhHHHHHHHHHHHhhhhhhhccccccchhH-HHHHHHHHH-------
Confidence            0    00000000000011000000000100 012223332222211100 00     00000 111111111       


Q ss_pred             HHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhC
Q 003295          447 LHFTKEMLLRNLRPGDGLLTLLVSGLCKNGKQAEATELCFRLFEKGFTVNTVTSNALIHGMCEAGNLKEAGKLLMEMLQR  526 (833)
Q Consensus       447 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~l~~m~~~  526 (833)
                                           ....+.-.|+...|.+-|+..++....+ ...|-.+...|....+-++.+..|++..+.
T Consensus       332 ---------------------~gtF~fL~g~~~~a~~d~~~~I~l~~~~-~~lyI~~a~~y~d~~~~~~~~~~F~~A~~l  389 (606)
T KOG0547|consen  332 ---------------------RGTFHFLKGDSLGAQEDFDAAIKLDPAF-NSLYIKRAAAYADENQSEKMWKDFNKAEDL  389 (606)
T ss_pred             ---------------------hhhhhhhcCCchhhhhhHHHHHhcCccc-chHHHHHHHHHhhhhccHHHHHHHHHHHhc
Confidence                                 1111223344455555555555443222 122444445555555555555566555555


Q ss_pred             CCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHH
Q 003295          527 GLILDKVTYNTLILGCCKDGKPEEGFKLKEDMIKRGIQPDNYTYNLLLHGLCSLGKMEEAIELWEECKRTVFGPDIYTYG  606 (833)
Q Consensus       527 g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~  606 (833)
                      ++. |+.+|..-.....-.+++++|..-|++.+...++ +...|-.+.-+..+.++++++...|++.+++ ++..+..|+
T Consensus       390 dp~-n~dvYyHRgQm~flL~q~e~A~aDF~Kai~L~pe-~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kkk-FP~~~Evy~  466 (606)
T KOG0547|consen  390 DPE-NPDVYYHRGQMRFLLQQYEEAIADFQKAISLDPE-NAYAYIQLCCALYRQHKIAESMKTFEEAKKK-FPNCPEVYN  466 (606)
T ss_pred             CCC-CCchhHhHHHHHHHHHHHHHHHHHHHHHhhcChh-hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCCCchHHH
Confidence            544 4445544444444555555666656555554322 4444444555555555666666666655543 334455555


Q ss_pred             HHHHHHHccCCHHHHHHHHHHHHHCCCcc-----C--HHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHHHHHHHH
Q 003295          607 VMIDGFCKADKIEEGETLFNEMISKKMEL-----N--PVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLI  679 (833)
Q Consensus       607 ~li~~~~~~g~~~~A~~~~~~~~~~~~~~-----~--~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li  679 (833)
                      .....+...++++.|.+.|+..++..+..     +  +.+--.++.. .-.+++..|.+++++..+... -....|..|.
T Consensus       467 ~fAeiLtDqqqFd~A~k~YD~ai~LE~~~~~~~v~~~plV~Ka~l~~-qwk~d~~~a~~Ll~KA~e~Dp-kce~A~~tla  544 (606)
T KOG0547|consen  467 LFAEILTDQQQFDKAVKQYDKAIELEPREHLIIVNAAPLVHKALLVL-QWKEDINQAENLLRKAIELDP-KCEQAYETLA  544 (606)
T ss_pred             HHHHHHhhHHhHHHHHHHHHHHHhhccccccccccchhhhhhhHhhh-chhhhHHHHHHHHHHHHccCc-hHHHHHHHHH
Confidence            55555656666666666665555442221     1  1111111111 122566666666666665542 2445566666


Q ss_pred             HHHHhcCCHHHHHHHHHHHHH
Q 003295          680 HGLCNIGLIEDAKCLFDEMRK  700 (833)
Q Consensus       680 ~~~~~~g~~~~A~~~~~~m~~  700 (833)
                      ..-.+.|++++|+++|++...
T Consensus       545 q~~lQ~~~i~eAielFEksa~  565 (606)
T KOG0547|consen  545 QFELQRGKIDEAIELFEKSAQ  565 (606)
T ss_pred             HHHHHHhhHHHHHHHHHHHHH
Confidence            666666666666666666543

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.53  E-value=9.5e-10  Score=106.38  Aligned_cols=450  Identities=13%  Similarity=0.106  Sum_probs=257.2

Q ss_pred             HHHHHhcCChhHHHHHHHHhh-cCC--CCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcC
Q 003295          225 LNSLVKANEVQKGIEVFETMC-RGV--SPDVFLFSTAINAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIHGLCRNG  301 (833)
Q Consensus       225 l~~~~~~g~~~~A~~~~~~~~-~~~--~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g  301 (833)
                      ++-+....++..|+.+++-.. -+.  ..+...|  +..++...|++++|..++.-+.+.. .++...+-.|...+.-.|
T Consensus        29 Ledfls~rDytGAislLefk~~~~~EEE~~~~lW--ia~C~fhLgdY~~Al~~Y~~~~~~~-~~~~el~vnLAcc~FyLg  105 (557)
T KOG3785|consen   29 LEDFLSNRDYTGAISLLEFKLNLDREEEDSLQLW--IAHCYFHLGDYEEALNVYTFLMNKD-DAPAELGVNLACCKFYLG  105 (557)
T ss_pred             HHHHHhcccchhHHHHHHHhhccchhhhHHHHHH--HHHHHHhhccHHHHHHHHHHHhccC-CCCcccchhHHHHHHHHH
Confidence            344455677777777777665 121  1233334  6777788899999998888877643 345555655666566678


Q ss_pred             ChhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHHcCChHHHHHHHH
Q 003295          302 RLYEAFHLKEKMVLREVEPSLITYSILINGLIKLEKFDDANFVLKEMSVRGFVPNYVVYNTLIDGYCKKGNISEALKIRD  381 (833)
Q Consensus       302 ~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~A~~~~~  381 (833)
                      .+.+|..+-.+..     .+.-.-..|.+.-.+.++-++-....+.+.+.     ..--.+|.......-.+.+|++++.
T Consensus       106 ~Y~eA~~~~~ka~-----k~pL~~RLlfhlahklndEk~~~~fh~~LqD~-----~EdqLSLAsvhYmR~HYQeAIdvYk  175 (557)
T KOG3785|consen  106 QYIEAKSIAEKAP-----KTPLCIRLLFHLAHKLNDEKRILTFHSSLQDT-----LEDQLSLASVHYMRMHYQEAIDVYK  175 (557)
T ss_pred             HHHHHHHHHhhCC-----CChHHHHHHHHHHHHhCcHHHHHHHHHHHhhh-----HHHHHhHHHHHHHHHHHHHHHHHHH
Confidence            8888887755432     23344445556666777777777666666542     2334556666666677888999998


Q ss_pred             HHHhCCCCCChhHHHHHH-HHHHhcCChhHHHHHHHHHHHCCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHHCCCCC
Q 003295          382 DMVSKGMSPNSVTFNSLI-HGFCKSGQMDNAENALEEMLSRGLSINQGAYTSVIKWLCINSRFNSALHFTKEMLLRNLRP  460 (833)
Q Consensus       382 ~m~~~g~~p~~~~~~~li-~~~~~~g~~~~A~~~l~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~  460 (833)
                      +....  .|+-...|.-+ -+|.|..-++-+.+++.-.... ++.++.+.|..+....+.=.-..|.+-.+++...+...
T Consensus       176 rvL~d--n~ey~alNVy~ALCyyKlDYydvsqevl~vYL~q-~pdStiA~NLkacn~fRl~ngr~ae~E~k~ladN~~~~  252 (557)
T KOG3785|consen  176 RVLQD--NPEYIALNVYMALCYYKLDYYDVSQEVLKVYLRQ-FPDSTIAKNLKACNLFRLINGRTAEDEKKELADNIDQE  252 (557)
T ss_pred             HHHhc--ChhhhhhHHHHHHHHHhcchhhhHHHHHHHHHHh-CCCcHHHHHHHHHHHhhhhccchhHHHHHHHHhccccc
Confidence            88775  34555555433 3567778888888888776654 44455555655555554333333334444443332211


Q ss_pred             ChhhHHHHHHHHHhcC-----CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHH
Q 003295          461 GDGLLTLLVSGLCKNG-----KQAEATELCFRLFEKGFTVNTVTSNALIHGMCEAGNLKEAGKLLMEMLQRGLILDKVTY  535 (833)
Q Consensus       461 ~~~~~~~li~~~~~~g-----~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~l~~m~~~g~~~~~~~~  535 (833)
                           ...+.-+++.+     .-+.|++++-.+.+.    -+..--.|+-.|.+++++++|..+.+++.-.  .|-....
T Consensus       253 -----~~f~~~l~rHNLVvFrngEgALqVLP~L~~~----IPEARlNL~iYyL~q~dVqeA~~L~Kdl~Pt--tP~Eyil  321 (557)
T KOG3785|consen  253 -----YPFIEYLCRHNLVVFRNGEGALQVLPSLMKH----IPEARLNLIIYYLNQNDVQEAISLCKDLDPT--TPYEYIL  321 (557)
T ss_pred             -----chhHHHHHHcCeEEEeCCccHHHhchHHHhh----ChHhhhhheeeecccccHHHHHHHHhhcCCC--ChHHHHH
Confidence                 11222333332     235566666555543    2234445666788888888888887765432  2222222


Q ss_pred             HHHHHHHHhcCC-------hhhHHHHHHHHHHCCCCCCHH-HHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHH
Q 003295          536 NTLILGCCKDGK-------PEEGFKLKEDMIKRGIQPDNY-TYNLLLHGLCSLGKMEEAIELWEECKRTVFGPDIYTYGV  607 (833)
Q Consensus       536 ~~li~~~~~~g~-------~~~A~~~~~~m~~~g~~p~~~-~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~  607 (833)
                      ..+  .+...|+       ..-|.+.|...-+.+..-|.. .-..+..++.-..++++.+-+++.+..--...|...+ .
T Consensus       322 Kgv--v~aalGQe~gSreHlKiAqqffqlVG~Sa~ecDTIpGRQsmAs~fFL~~qFddVl~YlnSi~sYF~NdD~Fn~-N  398 (557)
T KOG3785|consen  322 KGV--VFAALGQETGSREHLKIAQQFFQLVGESALECDTIPGRQSMASYFFLSFQFDDVLTYLNSIESYFTNDDDFNL-N  398 (557)
T ss_pred             HHH--HHHHhhhhcCcHHHHHHHHHHHHHhcccccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcchhhh-H
Confidence            222  2222222       334444454444444332222 2233444455556677777777776654333334333 3


Q ss_pred             HHHHHHccCCHHHHHHHHHHHHHCCCccCHHHHHH-HHHHHHHcCChHHHHHHHHHHHhCCCCCCHHHH-HHHHHHHHhc
Q 003295          608 MIDGFCKADKIEEGETLFNEMISKKMELNPVVYNT-LIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTY-SSLIHGLCNI  685 (833)
Q Consensus       608 li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~-li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~-~~li~~~~~~  685 (833)
                      +..+++..|.+.+|+++|-.+....++ |..+|.+ +..+|.+.++++.|++++-++..   +.+..+. ..+.+.|.+.
T Consensus       399 ~AQAk~atgny~eaEelf~~is~~~ik-n~~~Y~s~LArCyi~nkkP~lAW~~~lk~~t---~~e~fsLLqlIAn~CYk~  474 (557)
T KOG3785|consen  399 LAQAKLATGNYVEAEELFIRISGPEIK-NKILYKSMLARCYIRNKKPQLAWDMMLKTNT---PSERFSLLQLIANDCYKA  474 (557)
T ss_pred             HHHHHHHhcChHHHHHHHhhhcChhhh-hhHHHHHHHHHHHHhcCCchHHHHHHHhcCC---chhHHHHHHHHHHHHHHH
Confidence            667777788888888887766554444 4555544 45667777777777766654432   2233332 3334556677


Q ss_pred             CCHHHHHHHHHHHHHCCCCCChhHH
Q 003295          686 GLIEDAKCLFDEMRKEGLLPNVACY  710 (833)
Q Consensus       686 g~~~~A~~~~~~m~~~g~~p~~~~~  710 (833)
                      +.+--|-+.|+.+..  +.|++..|
T Consensus       475 ~eFyyaaKAFd~lE~--lDP~pEnW  497 (557)
T KOG3785|consen  475 NEFYYAAKAFDELEI--LDPTPENW  497 (557)
T ss_pred             HHHHHHHHhhhHHHc--cCCCcccc
Confidence            777777777776665  35666655

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.53  E-value=4.4e-11  Score=128.62  Aligned_cols=286  Identities=11%  Similarity=0.025  Sum_probs=173.2

Q ss_pred             cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCChhhHHHH
Q 003295          475 NGKQAEATELCFRLFEKGFTVNTVTSNALIHGMCEAGNLKEAGKLLMEMLQRGLILDKVTYNTLILGCCKDGKPEEGFKL  554 (833)
Q Consensus       475 ~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~l~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~  554 (833)
                      .|+++.|.+.+....+.... ....|........+.|+++.|...+.++.+....+...........+...|++++|...
T Consensus        97 eGd~~~A~k~l~~~~~~~~~-p~l~~llaA~aA~~~g~~~~A~~~l~~A~~~~~~~~~~~~l~~a~l~l~~g~~~~Al~~  175 (398)
T PRK10747         97 EGDYQQVEKLMTRNADHAEQ-PVVNYLLAAEAAQQRGDEARANQHLERAAELADNDQLPVEITRVRIQLARNENHAARHG  175 (398)
T ss_pred             CCCHHHHHHHHHHHHhcccc-hHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHCCCHHHHHHH
Confidence            45666666555543332111 12222222334456667777777776666543221111112234556666777777777


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCH-------hhHHHHHHHHHccCCHHHHHHHHHH
Q 003295          555 KEDMIKRGIQPDNYTYNLLLHGLCSLGKMEEAIELWEECKRTVFGPDI-------YTYGVMIDGFCKADKIEEGETLFNE  627 (833)
Q Consensus       555 ~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~-------~~~~~li~~~~~~g~~~~A~~~~~~  627 (833)
                      ++++.+..+. +......+...|.+.|++++|.+++..+.+.+..++.       .+|..++.......+.+...++++.
T Consensus       176 l~~~~~~~P~-~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~~~~~~~~~l~~~w~~  254 (398)
T PRK10747        176 VDKLLEVAPR-HPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQAMADQGSEGLKRWWKN  254 (398)
T ss_pred             HHHHHhcCCC-CHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHh
Confidence            7776666433 5566666666777777777777777766665433221       1222223333333444555555555


Q ss_pred             HHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCh
Q 003295          628 MISKKMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNV  707 (833)
Q Consensus       628 ~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~  707 (833)
                      +.+.- +.++.....+...+...|+.++|.+.+++..+.  +|+....  ++.+....++.+++.+..++..+.. +-|.
T Consensus       255 lp~~~-~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~--~~~~~l~--~l~~~l~~~~~~~al~~~e~~lk~~-P~~~  328 (398)
T PRK10747        255 QSRKT-RHQVALQVAMAEHLIECDDHDTAQQIILDGLKR--QYDERLV--LLIPRLKTNNPEQLEKVLRQQIKQH-GDTP  328 (398)
T ss_pred             CCHHH-hCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHHHH--HHHhhccCCChHHHHHHHHHHHhhC-CCCH
Confidence            43332 236777777788888888888888888877764  4454222  2333445578888888888877752 3455


Q ss_pred             hHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 003295          708 ACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAE  770 (833)
Q Consensus       708 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  770 (833)
                      ..+.++...+.+.|++++|.+.|+++.+  ..|+...+..+...+.+.|+.++|.+++++...
T Consensus       329 ~l~l~lgrl~~~~~~~~~A~~~le~al~--~~P~~~~~~~La~~~~~~g~~~~A~~~~~~~l~  389 (398)
T PRK10747        329 LLWSTLGQLLMKHGEWQEASLAFRAALK--QRPDAYDYAWLADALDRLHKPEEAAAMRRDGLM  389 (398)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHh--cCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            5677778888888888888888888887  367878777888888888888888888887654

>KOG1173 consensus Anaphase-promoting complex (APC), Cdc16 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=99.52  E-value=3.2e-10  Score=116.82  Aligned_cols=508  Identities=14%  Similarity=0.067  Sum_probs=318.1

Q ss_pred             CCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHH
Q 003295          250 PDVFLFSTAINAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIHGLCRNGRLYEAFHLKEKMVLREVEPSLITYSILI  329 (833)
Q Consensus       250 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li  329 (833)
                      .+..-+..+.+-+..+.++.-|.-+-++....+.  |+..--.+..+++-.|++++|..+...-.-.  ..|..+.....
T Consensus        14 ~s~~~~~~~~r~~l~q~~y~~a~f~adkV~~l~~--dp~d~~~~aq~l~~~~~y~ra~~lit~~~le--~~d~~cryL~~   89 (611)
T KOG1173|consen   14 LSLEKYRRLVRDALMQHRYKTALFWADKVAGLTN--DPADIYWLAQVLYLGRQYERAAHLITTYKLE--KRDIACRYLAA   89 (611)
T ss_pred             ccHHHHHHHHHHHHHHHhhhHHHHHHHHHHhccC--ChHHHHHHHHHHHhhhHHHHHHHHHHHhhhh--hhhHHHHHHHH
Confidence            3455566777777778888888888888876654  4444455778888888999888887655432  35777888888


Q ss_pred             HHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChh
Q 003295          330 NGLIKLEKFDDANFVLKEMSVRGFVPNYVVYNTLIDGYCKKGNISEALKIRDDMVSKGMSPNSVTFNSLIHGFCKSGQMD  409 (833)
Q Consensus       330 ~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~  409 (833)
                      ..+.+..++++|..++..-..   .-+...|..-=.  ...-..+.+.    ++....+  ....+-.-...|....+.+
T Consensus        90 ~~l~~lk~~~~al~vl~~~~~---~~~~f~yy~~~~--~~~l~~n~~~----~~~~~~~--essic~lRgk~y~al~n~~  158 (611)
T KOG1173|consen   90 KCLVKLKEWDQALLVLGRGHV---ETNPFSYYEKDA--ANTLELNSAG----EDLMINL--ESSICYLRGKVYVALDNRE  158 (611)
T ss_pred             HHHHHHHHHHHHHHHhcccch---hhcchhhcchhh--hceeccCccc----ccccccc--hhceeeeeeehhhhhccHH
Confidence            888888999998888872210   001111100000  0000000010    0000000  0000000111233334455


Q ss_pred             HHHHHHHHHHHCCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHHCC----CCCChhhHHHHHHHH-HhcCCHHHHHHH
Q 003295          410 NAENALEEMLSRGLSINQGAYTSVIKWLCINSRFNSALHFTKEMLLRN----LRPGDGLLTLLVSGL-CKNGKQAEATEL  484 (833)
Q Consensus       410 ~A~~~l~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~----~~~~~~~~~~li~~~-~~~g~~~~A~~~  484 (833)
                      +|...|.+....    |...+..+...-...  .-.+.+.+..+...+    ...+......+.... ++.-+ ++....
T Consensus       159 ~ar~~Y~~Al~~----D~~c~Ea~~~lvs~~--mlt~~Ee~~ll~~l~~a~~~~ed~e~l~~lyel~~~k~~n-~~~~~r  231 (611)
T KOG1173|consen  159 EARDKYKEALLA----DAKCFEAFEKLVSAH--MLTAQEEFELLESLDLAMLTKEDVERLEILYELKLCKNRN-EESLTR  231 (611)
T ss_pred             HHHHHHHHHHhc----chhhHHHHHHHHHHH--hcchhHHHHHHhcccHHhhhhhHHHHHHHHHHhhhhhhcc-cccccc
Confidence            555555554433    222222211110000  000000000000000    000011111111100 00000 000000


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCC
Q 003295          485 CFRLFEKGFTVNTVTSNALIHGMCEAGNLKEAGKLLMEMLQRGLILDKVTYNTLILGCCKDGKPEEGFKLKEDMIKRGIQ  564 (833)
Q Consensus       485 ~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~l~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~  564 (833)
                      -....-.+...++.....-.+-+...+++++..+++++..+..+. ....+..-|.++...|+..+-..+-.++.+.- +
T Consensus       232 ~~~~sl~~l~~~~dll~~~ad~~y~~c~f~~c~kit~~lle~dpf-h~~~~~~~ia~l~el~~~n~Lf~lsh~LV~~y-P  309 (611)
T KOG1173|consen  232 NEDESLIGLAENLDLLAEKADRLYYGCRFKECLKITEELLEKDPF-HLPCLPLHIACLYELGKSNKLFLLSHKLVDLY-P  309 (611)
T ss_pred             CchhhhhhhhhcHHHHHHHHHHHHHcChHHHHHHHhHHHHhhCCC-CcchHHHHHHHHHHhcccchHHHHHHHHHHhC-C
Confidence            000011123346666667777888899999999999999987544 66667777778899999999999989998874 3


Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCccCHHHHHHHH
Q 003295          565 PDNYTYNLLLHGLCSLGKMEEAIELWEECKRTVFGPDIYTYGVMIDGFCKADKIEEGETLFNEMISKKMELNPVVYNTLI  644 (833)
Q Consensus       565 p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li  644 (833)
                      ..+.+|-++.--|...|+..+|++.|.+....+ +.=...|-.+.+.|.-.|..+.|...+....+.-+. ...-+--+.
T Consensus       310 ~~a~sW~aVg~YYl~i~k~seARry~SKat~lD-~~fgpaWl~fghsfa~e~EhdQAmaaY~tAarl~~G-~hlP~LYlg  387 (611)
T KOG1173|consen  310 SKALSWFAVGCYYLMIGKYSEARRYFSKATTLD-PTFGPAWLAFGHSFAGEGEHDQAMAAYFTAARLMPG-CHLPSLYLG  387 (611)
T ss_pred             CCCcchhhHHHHHHHhcCcHHHHHHHHHHhhcC-ccccHHHHHHhHHhhhcchHHHHHHHHHHHHHhccC-CcchHHHHH
Confidence            377889999988989999999999999876543 112457888899999999999999998887664211 222233344


Q ss_pred             HHHHHcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC--CCC----CChhHHHHHHHHHH
Q 003295          645 RAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKE--GLL----PNVACYTALIGGYC  718 (833)
Q Consensus       645 ~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~--g~~----p~~~~~~~li~~~~  718 (833)
                      --|.+.++...|.+.|.+..... +-|+..++-+.-.....+.+.+|..+|+..+..  .+.    -...+++.|..+|.
T Consensus       388 mey~~t~n~kLAe~Ff~~A~ai~-P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~R  466 (611)
T KOG1173|consen  388 MEYMRTNNLKLAEKFFKQALAIA-PSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYR  466 (611)
T ss_pred             HHHHHhccHHHHHHHHHHHHhcC-CCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHH
Confidence            56778899999999999988763 557888888887777889999999999988732  111    13456889999999


Q ss_pred             hcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 003295          719 KLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISPDSITYNVFMDGH  787 (833)
Q Consensus       719 ~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~  787 (833)
                      +.+++++|+..+++..... +-|..++.+++-.|...|+++.|++.|++.+.  +.||..+...++..+
T Consensus       467 kl~~~~eAI~~~q~aL~l~-~k~~~~~asig~iy~llgnld~Aid~fhKaL~--l~p~n~~~~~lL~~a  532 (611)
T KOG1173|consen  467 KLNKYEEAIDYYQKALLLS-PKDASTHASIGYIYHLLGNLDKAIDHFHKALA--LKPDNIFISELLKLA  532 (611)
T ss_pred             HHhhHHHHHHHHHHHHHcC-CCchhHHHHHHHHHHHhcChHHHHHHHHHHHh--cCCccHHHHHHHHHH
Confidence            9999999999999999864 77889999999999999999999999999988  789886666666544

>PF13429 TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2_B

Probab=99.51  E-value=1e-13  Score=142.31  Aligned_cols=262  Identities=17%  Similarity=0.177  Sum_probs=104.3

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHhhCC-CCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc
Q 003295          502 ALIHGMCEAGNLKEAGKLLMEMLQRG-LILDKVTYNTLILGCCKDGKPEEGFKLKEDMIKRGIQPDNYTYNLLLHGLCSL  580 (833)
Q Consensus       502 ~li~~~~~~g~~~~A~~~l~~m~~~g-~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~  580 (833)
                      .+...+.+.|++++|++++++..... ...|...|..+.......++.+.|...++++...+.. +...+..++.. ...
T Consensus        13 ~~A~~~~~~~~~~~Al~~L~~~~~~~~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~~~-~~~~~~~l~~l-~~~   90 (280)
T PF13429_consen   13 RLARLLYQRGDYEKALEVLKKAAQKIAPPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASDKA-NPQDYERLIQL-LQD   90 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc-ccccccccccc-ccc
Confidence            44666777778888888776544443 2224445555555666677788888888888776544 55556666666 677


Q ss_pred             CCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHHHHCC-CccCHHHHHHHHHHHHHcCChHHHHHH
Q 003295          581 GKMEEAIELWEECKRTVFGPDIYTYGVMIDGFCKADKIEEGETLFNEMISKK-MELNPVVYNTLIRAYCKIGNTTAAFRL  659 (833)
Q Consensus       581 g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~li~~~~~~g~~~~A~~~  659 (833)
                      +++++|.+++....+.  .++...+...+..+.+.++++++.++++.+.... ...+...|..+...+.+.|+.++|.+.
T Consensus        91 ~~~~~A~~~~~~~~~~--~~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~  168 (280)
T PF13429_consen   91 GDPEEALKLAEKAYER--DGDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRD  168 (280)
T ss_dssp             -----------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHH
T ss_pred             cccccccccccccccc--ccccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHH
Confidence            8888888877766554  2455666677777888888888888888876533 245777888888888888888888888


Q ss_pred             HHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHhCCCC
Q 003295          660 SNDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESVLQEMASINIH  739 (833)
Q Consensus       660 ~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~  739 (833)
                      +++..+.. +.|......++..+...|+.+++.+++....+.. +.|...+..+..+|...|+.++|...+++..... +
T Consensus       169 ~~~al~~~-P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~-~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~-p  245 (280)
T PF13429_consen  169 YRKALELD-PDDPDARNALAWLLIDMGDYDEAREALKRLLKAA-PDDPDLWDALAAAYLQLGRYEEALEYLEKALKLN-P  245 (280)
T ss_dssp             HHHHHHH--TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH--HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHHS-T
T ss_pred             HHHHHHcC-CCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHC-cCHHHHHHHHHHHhcccccccccccccccccccc-c
Confidence            88888763 3356677788888888888888888888877753 4566677888888888889999999888888753 5


Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 003295          740 PNKITYTIMIGGYCKLGDMKEAAKLLNVMAE  770 (833)
Q Consensus       740 p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  770 (833)
                      .|......+..++...|+.++|.++..++.+
T Consensus       246 ~d~~~~~~~a~~l~~~g~~~~A~~~~~~~~~  276 (280)
T PF13429_consen  246 DDPLWLLAYADALEQAGRKDEALRLRRQALR  276 (280)
T ss_dssp             T-HHHHHHHHHHHT-----------------
T ss_pred             ccccccccccccccccccccccccccccccc
Confidence            5777888888888888999888888877654

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=99.51  E-value=5.6e-09  Score=111.69  Aligned_cols=486  Identities=14%  Similarity=0.091  Sum_probs=288.7

Q ss_pred             hcCChhHHHHHHHHHHhCCCCCChhhHHHHHHH---HHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHHcCChHH
Q 003295          299 RNGRLYEAFHLKEKMVLREVEPSLITYSILING---LIKLEKFDDANFVLKEMSVRGFVPNYVVYNTLIDGYCKKGNISE  375 (833)
Q Consensus       299 ~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~---~~~~g~~~~A~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~  375 (833)
                      +.++.++++.-+......+..-+..++-.+-.+   |...++.+++  +|-.....-+.|-...+.+.+...        
T Consensus       239 ~~~~~~~~i~s~~~~l~~~w~~~~l~ka~l~~~~~~f~~~~~~Ee~--~Lllli~es~i~Re~~~d~ilslm--------  308 (799)
T KOG4162|consen  239 KLSGPKEAIKSYRRALLRSWSLDPLTKARLYKGFALFLPKSGQEEV--ILLLLIEESLIPRENIEDAILSLM--------  308 (799)
T ss_pred             CCCCchHHHHhhhHHhhcccccchhHHHHHhhcccccCCCCcHHHH--HHHHHHHhhccccccHHHHHHHHH--------
Confidence            345566666666666666666666666555444   3344555555  233332222222222222222110        


Q ss_pred             HHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHH
Q 003295          376 ALKIRDDMVSKGMSPNSVTFNSLIHGFCKSGQMDNAENALEEMLSRGLSINQGAYTSVIKWLCINSRFNSALHFTKEMLL  455 (833)
Q Consensus       376 A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~l~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~  455 (833)
                        -.+.++....++-|...|..|.-+....|+++.+.+.|++.... .......|..+...+...|....|+.++++...
T Consensus       309 --~~~~k~r~~~~qnd~ai~d~Lt~al~~~g~f~~lae~fE~~~~~-~~~~~e~w~~~als~saag~~s~Av~ll~~~~~  385 (799)
T KOG4162|consen  309 --LLLRKLRLKKFQNDAAIFDHLTFALSRCGQFEVLAEQFEQALPF-SFGEHERWYQLALSYSAAGSDSKAVNLLRESLK  385 (799)
T ss_pred             --HHHHHHHHhhhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHhHh-hhhhHHHHHHHHHHHHHhccchHHHHHHHhhcc
Confidence              12222333333446666666766777777888777777776643 223455677777777777777777777777666


Q ss_pred             CCCCCChhhHHHHHHHH--HhcCCHHHHHHHHHHHHHC--CC--CCCHHHHHHHHHHHHhcC-----------CHHHHHH
Q 003295          456 RNLRPGDGLLTLLVSGL--CKNGKQAEATELCFRLFEK--GF--TVNTVTSNALIHGMCEAG-----------NLKEAGK  518 (833)
Q Consensus       456 ~~~~~~~~~~~~li~~~--~~~g~~~~A~~~~~~~~~~--g~--~~~~~~~~~li~~~~~~g-----------~~~~A~~  518 (833)
                      ....|++.+...++...  -+.+.++++.++..+++..  +.  ......|..+.-+|...-           ...++.+
T Consensus       386 ~~~~ps~~s~~Lmasklc~e~l~~~eegldYA~kai~~~~~~~~~l~~~~~l~lGi~y~~~A~~a~~~seR~~~h~kslq  465 (799)
T KOG4162|consen  386 KSEQPSDISVLLMASKLCIERLKLVEEGLDYAQKAISLLGGQRSHLKPRGYLFLGIAYGFQARQANLKSERDALHKKSLQ  465 (799)
T ss_pred             cccCCCcchHHHHHHHHHHhchhhhhhHHHHHHHHHHHhhhhhhhhhhhHHHHHHHHHHhHhhcCCChHHHHHHHHHHHH
Confidence            55555554444444322  3456677777777776652  11  113345555555554321           2356677


Q ss_pred             HHHHHhhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCC
Q 003295          519 LLMEMLQRGLILDKVTYNTLILGCCKDGKPEEGFKLKEDMIKRGIQPDNYTYNLLLHGLCSLGKMEEAIELWEECKRTVF  598 (833)
Q Consensus       519 ~l~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~  598 (833)
                      .+++..+.+.. |......+.--|+..++++.|.+...+.++.+..-+...|..+.-.+...+++.+|+.+.+.....- 
T Consensus       466 ale~av~~d~~-dp~~if~lalq~A~~R~l~sAl~~~~eaL~l~~~~~~~~whLLALvlSa~kr~~~Al~vvd~al~E~-  543 (799)
T KOG4162|consen  466 ALEEAVQFDPT-DPLVIFYLALQYAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLKEALDVVDAALEEF-  543 (799)
T ss_pred             HHHHHHhcCCC-CchHHHHHHHHHHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHh-
Confidence            77777776654 4444444455566777888888888888887666677778877777777888888888877665431 


Q ss_pred             CCCHhhHHHHHHHHHccCCHHHHHHHHHHHHHC----------------------------CCccCHHHHHHHHHHHHHc
Q 003295          599 GPDIYTYGVMIDGFCKADKIEEGETLFNEMISK----------------------------KMELNPVVYNTLIRAYCKI  650 (833)
Q Consensus       599 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~----------------------------~~~~~~~~~~~li~~~~~~  650 (833)
                      ..|......-++.-..-++.++|......++..                            .+.-...++..+..-... 
T Consensus       544 ~~N~~l~~~~~~i~~~~~~~e~~l~t~~~~L~~we~~~~~q~~~~~g~~~~lk~~l~la~~q~~~a~s~sr~ls~l~a~-  622 (799)
T KOG4162|consen  544 GDNHVLMDGKIHIELTFNDREEALDTCIHKLALWEAEYGVQQTLDEGKLLRLKAGLHLALSQPTDAISTSRYLSSLVAS-  622 (799)
T ss_pred             hhhhhhchhhhhhhhhcccHHHHHHHHHHHHHHHHhhhhHhhhhhhhhhhhhhcccccCcccccccchhhHHHHHHHHh-
Confidence            111111111122222344555554443333211                            000011122211111110 


Q ss_pred             CChHHHHHHHHHHHhCCCC--CCH------HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCC
Q 003295          651 GNTTAAFRLSNDMKSRGIL--PTS------VTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQ  722 (833)
Q Consensus       651 g~~~~A~~~~~~m~~~~~~--p~~------~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~  722 (833)
                       +...+..-.. +......  |+.      ..|......+.+.+..++|...+.+..+.. +-....|......+...|.
T Consensus       623 -~~~~~~se~~-Lp~s~~~~~~~~~~~~~~~lwllaa~~~~~~~~~~~a~~CL~Ea~~~~-~l~~~~~~~~G~~~~~~~~  699 (799)
T KOG4162|consen  623 -QLKSAGSELK-LPSSTVLPGPDSLWYLLQKLWLLAADLFLLSGNDDEARSCLLEASKID-PLSASVYYLRGLLLEVKGQ  699 (799)
T ss_pred             -hhhhcccccc-cCcccccCCCCchHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHhcc-hhhHHHHHHhhHHHHHHHh
Confidence             0000000000 1111111  221      234455667788899999998888888742 3456677777788889999


Q ss_pred             hhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHH--HHHHHHHcCCCCCHHHHHHHHHHHhcCCCHHHHHHHH
Q 003295          723 MDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAK--LLNVMAEKGISPDSITYNVFMDGHCKGGNVEEAFKVC  800 (833)
Q Consensus       723 ~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~--~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~  800 (833)
                      .++|.+.|......+ +.++.+..++..++.+.|+..-|..  ++..+++.+ +-++..|..|+..+.+.|+.+.|.+-|
T Consensus       700 ~~EA~~af~~Al~ld-P~hv~s~~Ala~~lle~G~~~la~~~~~L~dalr~d-p~n~eaW~~LG~v~k~~Gd~~~Aaecf  777 (799)
T KOG4162|consen  700 LEEAKEAFLVALALD-PDHVPSMTALAELLLELGSPRLAEKRSLLSDALRLD-PLNHEAWYYLGEVFKKLGDSKQAAECF  777 (799)
T ss_pred             hHHHHHHHHHHHhcC-CCCcHHHHHHHHHHHHhCCcchHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHccchHHHHHHH
Confidence            999999999998754 4456688999999999999888887  999999954 337899999999999999999999999


Q ss_pred             HHHHH
Q 003295          801 DRMLS  805 (833)
Q Consensus       801 ~~m~~  805 (833)
                      ....+
T Consensus       778 ~aa~q  782 (799)
T KOG4162|consen  778 QAALQ  782 (799)
T ss_pred             HHHHh
Confidence            98877

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.47  E-value=3.3e-09  Score=102.73  Aligned_cols=452  Identities=13%  Similarity=0.091  Sum_probs=245.5

Q ss_pred             HhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHHcCChHHHH
Q 003295          298 CRNGRLYEAFHLKEKMVLREVEPSLITYSILINGLIKLEKFDDANFVLKEMSVRGFVPNYVVYNTLIDGYCKKGNISEAL  377 (833)
Q Consensus       298 ~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~A~  377 (833)
                      ....++..|+.+++--...+-+....+-.-+..++.+.|++++|...+.-+..+. .++...+..|..++.-.|.+.+|.
T Consensus        33 ls~rDytGAislLefk~~~~~EEE~~~~lWia~C~fhLgdY~~Al~~Y~~~~~~~-~~~~el~vnLAcc~FyLg~Y~eA~  111 (557)
T KOG3785|consen   33 LSNRDYTGAISLLEFKLNLDREEEDSLQLWIAHCYFHLGDYEEALNVYTFLMNKD-DAPAELGVNLACCKFYLGQYIEAK  111 (557)
T ss_pred             HhcccchhHHHHHHHhhccchhhhHHHHHHHHHHHHhhccHHHHHHHHHHHhccC-CCCcccchhHHHHHHHHHHHHHHH
Confidence            3445666666666554433222222233334455666777777777776665532 345555566666666667777776


Q ss_pred             HHHHHHHhCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHHCC
Q 003295          378 KIRDDMVSKGMSPNSVTFNSLIHGFCKSGQMDNAENALEEMLSRGLSINQGAYTSVIKWLCINSRFNSALHFTKEMLLRN  457 (833)
Q Consensus       378 ~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~l~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~  457 (833)
                      .+.....+     +...-..|.+.-.+.++-++-..+-+.+.+.     ..--.++.......-.+.+|+++++..+..+
T Consensus       112 ~~~~ka~k-----~pL~~RLlfhlahklndEk~~~~fh~~LqD~-----~EdqLSLAsvhYmR~HYQeAIdvYkrvL~dn  181 (557)
T KOG3785|consen  112 SIAEKAPK-----TPLCIRLLFHLAHKLNDEKRILTFHSSLQDT-----LEDQLSLASVHYMRMHYQEAIDVYKRVLQDN  181 (557)
T ss_pred             HHHhhCCC-----ChHHHHHHHHHHHHhCcHHHHHHHHHHHhhh-----HHHHHhHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence            66554332     2222333444445556555555444444321     2233445555555666677777777666543


Q ss_pred             CCCChhhHH-HHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHH
Q 003295          458 LRPGDGLLT-LLVSGLCKNGKQAEATELCFRLFEKGFTVNTVTSNALIHGMCEAGNLKEAGKLLMEMLQRGLILDKVTYN  536 (833)
Q Consensus       458 ~~~~~~~~~-~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~l~~m~~~g~~~~~~~~~  536 (833)
                      ..  -...+ .+.-+|.+..-++-+.+++.-.+.. ++.++..-|..+....+.=.-..|.+-..++.+.+-. .   | 
T Consensus       182 ~e--y~alNVy~ALCyyKlDYydvsqevl~vYL~q-~pdStiA~NLkacn~fRl~ngr~ae~E~k~ladN~~~-~---~-  253 (557)
T KOG3785|consen  182 PE--YIALNVYMALCYYKLDYYDVSQEVLKVYLRQ-FPDSTIAKNLKACNLFRLINGRTAEDEKKELADNIDQ-E---Y-  253 (557)
T ss_pred             hh--hhhhHHHHHHHHHhcchhhhHHHHHHHHHHh-CCCcHHHHHHHHHHHhhhhccchhHHHHHHHHhcccc-c---c-
Confidence            22  22222 2333555666666666666665554 4445566665555544433333344444444443221 0   1 


Q ss_pred             HHHHHHHhc-----CChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHH--
Q 003295          537 TLILGCCKD-----GKPEEGFKLKEDMIKRGIQPDNYTYNLLLHGLCSLGKMEEAIELWEECKRTVFGPDIYTYGVMI--  609 (833)
Q Consensus       537 ~li~~~~~~-----g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li--  609 (833)
                      ..+.-+|+.     .+-+.|++++-.+.+.  -|  ..--.|+--|.+.+++.+|..+.+++.-.  .|-......+.  
T Consensus       254 ~f~~~l~rHNLVvFrngEgALqVLP~L~~~--IP--EARlNL~iYyL~q~dVqeA~~L~Kdl~Pt--tP~EyilKgvv~a  327 (557)
T KOG3785|consen  254 PFIEYLCRHNLVVFRNGEGALQVLPSLMKH--IP--EARLNLIIYYLNQNDVQEAISLCKDLDPT--TPYEYILKGVVFA  327 (557)
T ss_pred             hhHHHHHHcCeEEEeCCccHHHhchHHHhh--Ch--HhhhhheeeecccccHHHHHHHHhhcCCC--ChHHHHHHHHHHH
Confidence            123333443     2446777777666654  22  12233455677888888888877665321  12222111111  


Q ss_pred             ---HHHHccCCHHHHHHHHHHHHHCCCccCHHH-HHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc
Q 003295          610 ---DGFCKADKIEEGETLFNEMISKKMELNPVV-YNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNI  685 (833)
Q Consensus       610 ---~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~-~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~  685 (833)
                         .-......+.-|.+.|+-.-+.+..-|.+. -.++...+.-..++++.+-.++.....-...|...| .+..+.+..
T Consensus       328 alGQe~gSreHlKiAqqffqlVG~Sa~ecDTIpGRQsmAs~fFL~~qFddVl~YlnSi~sYF~NdD~Fn~-N~AQAk~at  406 (557)
T KOG3785|consen  328 ALGQETGSREHLKIAQQFFQLVGESALECDTIPGRQSMASYFFLSFQFDDVLTYLNSIESYFTNDDDFNL-NLAQAKLAT  406 (557)
T ss_pred             HhhhhcCcHHHHHHHHHHHHHhcccccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcchhhh-HHHHHHHHh
Confidence               111122235556666665555544433322 234444555556677777777776665333344444 367788888


Q ss_pred             CCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHH-HHHHHHhcCCHHHHHHH
Q 003295          686 GLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTI-MIGGYCKLGDMKEAAKL  764 (833)
Q Consensus       686 g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~-li~~~~~~g~~~~A~~~  764 (833)
                      |++.+|+++|-......++.+......|..+|.+.++.+-|+.++-++..   +.+..+... +..-|.+.+.+=-|.+.
T Consensus       407 gny~eaEelf~~is~~~ikn~~~Y~s~LArCyi~nkkP~lAW~~~lk~~t---~~e~fsLLqlIAn~CYk~~eFyyaaKA  483 (557)
T KOG3785|consen  407 GNYVEAEELFIRISGPEIKNKILYKSMLARCYIRNKKPQLAWDMMLKTNT---PSERFSLLQLIANDCYKANEFYYAAKA  483 (557)
T ss_pred             cChHHHHHHHhhhcChhhhhhHHHHHHHHHHHHhcCCchHHHHHHHhcCC---chhHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            99999999887776544333333345567888888999888887666542   334444443 34568888888888888


Q ss_pred             HHHHHHcCCCCCHHHH
Q 003295          765 LNVMAEKGISPDSITY  780 (833)
Q Consensus       765 ~~~m~~~g~~p~~~~~  780 (833)
                      |+.+..  +.|++..|
T Consensus       484 Fd~lE~--lDP~pEnW  497 (557)
T KOG3785|consen  484 FDELEI--LDPTPENW  497 (557)
T ss_pred             hhHHHc--cCCCcccc
Confidence            887766  45665544

>KOG1126 consensus DNA-binding cell division cycle control protein [Cell cycle control, cell division, chromosome partitioning]

Probab=99.46  E-value=2.6e-11  Score=127.51  Aligned_cols=282  Identities=13%  Similarity=0.083  Sum_probs=156.6

Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCC--CCCHHHHHHHHHHHHhcCChhhHHHHH
Q 003295          478 QAEATELCFRLFEKGFTVNTVTSNALIHGMCEAGNLKEAGKLLMEMLQRGL--ILDKVTYNTLILGCCKDGKPEEGFKLK  555 (833)
Q Consensus       478 ~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~l~~m~~~g~--~~~~~~~~~li~~~~~~g~~~~A~~~~  555 (833)
                      ..+|...|.++..+ ......+...+..+|...+++++|.++|+.+.+..+  .-+...|.+.+-.+-+    +-++..+
T Consensus       335 ~~~A~~~~~klp~h-~~nt~wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~----~v~Ls~L  409 (638)
T KOG1126|consen  335 CREALNLFEKLPSH-HYNTGWVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQD----EVALSYL  409 (638)
T ss_pred             HHHHHHHHHhhHHh-cCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHh----hHHHHHH
Confidence            45566666664333 222234555566667777777777777776665531  1145556555544322    1122222


Q ss_pred             -HHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCc
Q 003295          556 -EDMIKRGIQPDNYTYNLLLHGLCSLGKMEEAIELWEECKRTVFGPDIYTYGVMIDGFCKADKIEEGETLFNEMISKKME  634 (833)
Q Consensus       556 -~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~  634 (833)
                       +.+++.. +-.+.+|.++.++|.-+++.+.|++.|++..+.+ +....+|+.+.+-+....++|.|...|+..+...+.
T Consensus       410 aq~Li~~~-~~sPesWca~GNcfSLQkdh~~Aik~f~RAiQld-p~faYayTLlGhE~~~~ee~d~a~~~fr~Al~~~~r  487 (638)
T KOG1126|consen  410 AQDLIDTD-PNSPESWCALGNCFSLQKDHDTAIKCFKRAIQLD-PRFAYAYTLLGHESIATEEFDKAMKSFRKALGVDPR  487 (638)
T ss_pred             HHHHHhhC-CCCcHHHHHhcchhhhhhHHHHHHHHHHHhhccC-CccchhhhhcCChhhhhHHHHhHHHHHHhhhcCCch
Confidence             2222221 2255677777777777777777777777766642 114566666666666666677777777666654222


Q ss_pred             cCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhHHHHHH
Q 003295          635 LNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALI  714 (833)
Q Consensus       635 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li  714 (833)
                       +..+|-.+.-.|.+.++++.|.-.|++..+.+ +-+.+....+...+.+.|+.|+|+++++++.... +-|+..--..+
T Consensus       488 -hYnAwYGlG~vy~Kqek~e~Ae~~fqkA~~IN-P~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld-~kn~l~~~~~~  564 (638)
T KOG1126|consen  488 -HYNAWYGLGTVYLKQEKLEFAEFHFQKAVEIN-PSNSVILCHIGRIQHQLKRKDKALQLYEKAIHLD-PKNPLCKYHRA  564 (638)
T ss_pred             -hhHHHHhhhhheeccchhhHHHHHHHhhhcCC-ccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcC-CCCchhHHHHH
Confidence             33334445556666666666666666666654 2245555555556666666666666666666532 12333333344


Q ss_pred             HHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 003295          715 GGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAE  770 (833)
Q Consensus       715 ~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  770 (833)
                      ..+...++.++|+..++++.+. ++.+...|..++..|.+.|+.+.|+.-|.-|.+
T Consensus       565 ~il~~~~~~~eal~~LEeLk~~-vP~es~v~~llgki~k~~~~~~~Al~~f~~A~~  619 (638)
T KOG1126|consen  565 SILFSLGRYVEALQELEELKEL-VPQESSVFALLGKIYKRLGNTDLALLHFSWALD  619 (638)
T ss_pred             HHHHhhcchHHHHHHHHHHHHh-CcchHHHHHHHHHHHHHHccchHHHHhhHHHhc
Confidence            4455566666666666666653 223344555566666666666666666666655

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.46  E-value=4.6e-08  Score=106.87  Aligned_cols=563  Identities=15%  Similarity=0.133  Sum_probs=315.0

Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHhh--cCCCCCHHH-HHHHHHHHHhcCChhHHHHHHHHHHH
Q 003295          204 DVFSIFSSKGIFPSLKTCNFLLNSLVKANEVQKGIEVFETMC--RGVSPDVFL-FSTAINAFCKRGRIEDAIGLFTKMEE  280 (833)
Q Consensus       204 ~~f~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~-~~~li~~~~~~g~~~~A~~~~~~m~~  280 (833)
                      ++-+.+...+.. +.+-|-.+...|.++|-+..|++.|.+..  +.....+.. ----+-.|...-.++++.+.+..|..
T Consensus       593 qVADAILgN~mF-tHyDra~IAqLCEKAGL~qraLehytDl~DIKR~vVhth~L~pEwLv~yFg~lsve~s~eclkaml~  671 (1666)
T KOG0985|consen  593 QVADAILGNDMF-THYDRAEIAQLCEKAGLLQRALEHYTDLYDIKRVVVHTHLLNPEWLVNYFGSLSVEDSLECLKAMLS  671 (1666)
T ss_pred             HHHHHHHhcccc-ccccHHHHHHHHHhcchHHHHHHhcccHHHHHHHHHHhccCCHHHHHHHHHhcCHHHHHHHHHHHHH
Confidence            333434444333 33447778888999999999998887764  111000000 00012334556678999999999998


Q ss_pred             cCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhC-----------CCCCChhhHHHHHHHHHhcCChhHHHHHHHHH-
Q 003295          281 LGIAPNVVTYNNIIHGLCRNGRLYEAFHLKEKMVLR-----------EVEPSLITYSILINGLIKLEKFDDANFVLKEM-  348 (833)
Q Consensus       281 ~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-----------~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m-  348 (833)
                      .++..|..+.-.+..-|+..=-.+.-+++|+....-           ++..|....-..|.+-|+.|++.+..++-++- 
T Consensus       672 ~NirqNlQi~VQvatky~eqlg~~~li~lFE~fks~eGL~yfLgSivn~seDpevh~KYIqAA~kt~QikEvERicresn  751 (1666)
T KOG0985|consen  672 ANIRQNLQIVVQVATKYHEQLGAQALIELFESFKSYEGLYYFLGSIVNFSEDPEVHFKYIQAACKTGQIKEVERICRESN  751 (1666)
T ss_pred             HHHHhhhHHHHHHHHHHHHHhCHHHHHHHHHhhccchhHHHHHHHHhccccCchHHHHHHHHHHhhccHHHHHHHHhccc
Confidence            887777766666666666555555566666655431           24556666677888999999998888776543 


Q ss_pred             -----------HHC---------------CCCCChhhHH------HHHHHHHHcCChHHHHHHHHHHHhCCCCCChh---
Q 003295          349 -----------SVR---------------GFVPNYVVYN------TLIDGYCKKGNISEALKIRDDMVSKGMSPNSV---  393 (833)
Q Consensus       349 -----------~~~---------------g~~p~~~~y~------~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~---  393 (833)
                                 .+.               |+.+|.+.|.      ..|..|.+.=+....-.+...+..-.+.-+..   
T Consensus       752 ~YdpErvKNfLkeAkL~DqlPLiiVCDRf~fVhdlvlYLyrnn~~kyIE~yVQkvNps~~p~VvG~LLD~dC~E~~ik~L  831 (1666)
T KOG0985|consen  752 CYDPERVKNFLKEAKLTDQLPLIIVCDRFDFVHDLVLYLYRNNLQKYIEIYVQKVNPSRTPQVVGALLDVDCSEDFIKNL  831 (1666)
T ss_pred             cCCHHHHHHHHHhccccccCceEEEecccccHHHHHHHHHHhhHHHHHHHHHhhcCCcccchhhhhhhcCCCcHHHHHHH
Confidence                       111               2223333221      12334444333333333333333222211110   


Q ss_pred             --------HHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCcccHHHHHHHHHhcCC-hhHHHHHHHHHHHCCCCCChhh
Q 003295          394 --------TFNSLIHGFCKSGQMDNAENALEEMLSRGLSINQGAYTSVIKWLCINSR-FNSALHFTKEMLLRNLRPGDGL  464 (833)
Q Consensus       394 --------~~~~li~~~~~~g~~~~A~~~l~~~~~~g~~~~~~~~~~li~~~~~~g~-~~~A~~~~~~~~~~~~~~~~~~  464 (833)
                              .-..|+.-.-|.+++.--..+++.....|.. |..++|++...|....+ .+.-+.           .+...
T Consensus       832 i~~v~gq~~~deLv~EvEkRNRLklLlp~LE~~i~eG~~-d~a~hnAlaKIyIDSNNnPE~fLk-----------eN~yY  899 (1666)
T KOG0985|consen  832 ILSVRGQFPVDELVEEVEKRNRLKLLLPWLESLIQEGSQ-DPATHNALAKIYIDSNNNPERFLK-----------ENPYY  899 (1666)
T ss_pred             HHHHhccCChHHHHHHHHhhhhHHHHHHHHHHHHhccCc-chHHHhhhhheeecCCCChHHhcc-----------cCCcc
Confidence                    1122333334455555556667777777765 78888888888776433 222111           11111


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHC----CCCCCHHHHHHHHHHHHhcCCHHHHH-----------HHHHHHhhCCCC
Q 003295          465 LTLLVSGLCKNGKQAEATELCFRLFEK----GFTVNTVTSNALIHGMCEAGNLKEAG-----------KLLMEMLQRGLI  529 (833)
Q Consensus       465 ~~~li~~~~~~g~~~~A~~~~~~~~~~----g~~~~~~~~~~li~~~~~~g~~~~A~-----------~~l~~m~~~g~~  529 (833)
                      -+..+.-||...+.--|.-.+++-.-.    .+...-..|..+.+.+.+..+.+--.           .+.++..+.+++
T Consensus       900 Ds~vVGkYCEKRDP~lA~vaYerGqcD~elI~vcNeNSlfK~~aRYlv~R~D~~LW~~VL~e~n~~rRqLiDqVv~tal~  979 (1666)
T KOG0985|consen  900 DSKVVGKYCEKRDPHLACVAYERGQCDLELINVCNENSLFKSQARYLVERSDPDLWAKVLNEENPYRRQLIDQVVQTALP  979 (1666)
T ss_pred             hhhHHhhhhcccCCceEEEeecccCCcHHHHHhcCchhHHHHHHHHHHhccChHHHHHHHhccChHHHHHHHHHHHhcCC
Confidence            123334444444433222111110000    00001122333333333333333222           233333333221


Q ss_pred             --CCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCC--CCCHHHHHHHHHH---------------------------HH
Q 003295          530 --LDKVTYNTLILGCCKDGKPEEGFKLKEDMIKRGI--QPDNYTYNLLLHG---------------------------LC  578 (833)
Q Consensus       530 --~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~--~p~~~~~~~li~~---------------------------~~  578 (833)
                        -|+...+.-+.++...+-+.+-+++++++.-...  .-+...-|.|+-.                           +.
T Consensus       980 E~~dPe~vS~tVkAfMtadLp~eLIELLEKIvL~~S~Fse~~nLQnLLiLtAikad~trVm~YI~rLdnyDa~~ia~iai 1059 (1666)
T KOG0985|consen  980 ETQDPEEVSVTVKAFMTADLPNELIELLEKIVLDNSVFSENRNLQNLLILTAIKADRTRVMEYINRLDNYDAPDIAEIAI 1059 (1666)
T ss_pred             ccCChHHHHHHHHHHHhcCCcHHHHHHHHHHhcCCcccccchhhhhhHHHHHhhcChHHHHHHHHHhccCCchhHHHHHh
Confidence              2455556667777777777788888877764321  1111122222222                           22


Q ss_pred             hcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHH
Q 003295          579 SLGKMEEAIELWEECKRTVFGPDIYTYGVMIDGFCKADKIEEGETLFNEMISKKMELNPVVYNTLIRAYCKIGNTTAAFR  658 (833)
Q Consensus       579 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~  658 (833)
                      ..+-+++|..+|+..-     .+....+.||.   .-+.++.|.+.-++..      .+..|..+..+-.+.|.+.+|++
T Consensus      1060 ~~~LyEEAF~ifkkf~-----~n~~A~~VLie---~i~~ldRA~efAe~~n------~p~vWsqlakAQL~~~~v~dAie 1125 (1666)
T KOG0985|consen 1060 ENQLYEEAFAIFKKFD-----MNVSAIQVLIE---NIGSLDRAYEFAERCN------EPAVWSQLAKAQLQGGLVKDAIE 1125 (1666)
T ss_pred             hhhHHHHHHHHHHHhc-----ccHHHHHHHHH---HhhhHHHHHHHHHhhC------ChHHHHHHHHHHHhcCchHHHHH
Confidence            2233445555554332     23333333433   2345555555544432      56789999999999999999888


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHhCCC
Q 003295          659 LSNDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESVLQEMASINI  738 (833)
Q Consensus       659 ~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~  738 (833)
                      -|-+.      .|+..|..+++...+.|.+++-..++.-+.+..-+|.+.  +.||-+|++.+++.+-++++       .
T Consensus      1126 Syika------dDps~y~eVi~~a~~~~~~edLv~yL~MaRkk~~E~~id--~eLi~AyAkt~rl~elE~fi-------~ 1190 (1666)
T KOG0985|consen 1126 SYIKA------DDPSNYLEVIDVASRTGKYEDLVKYLLMARKKVREPYID--SELIFAYAKTNRLTELEEFI-------A 1190 (1666)
T ss_pred             HHHhc------CCcHHHHHHHHHHHhcCcHHHHHHHHHHHHHhhcCccch--HHHHHHHHHhchHHHHHHHh-------c
Confidence            77542      366789999999999999999999988888776566554  57888999999988766553       2


Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHHCCCCCCHHHHHHH
Q 003295          739 HPNKITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISPDSITYNVFMDGHCKGGNVEEAFKVCDRMLSEGLSLDEITYTTL  818 (833)
Q Consensus       739 ~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l  818 (833)
                      .||..-...+++-|...|.++.|.-++....         .|..|...+...|.++.|.+.-++.-      +..+|..+
T Consensus      1191 gpN~A~i~~vGdrcf~~~~y~aAkl~y~~vS---------N~a~La~TLV~LgeyQ~AVD~aRKAn------s~ktWK~V 1255 (1666)
T KOG0985|consen 1191 GPNVANIQQVGDRCFEEKMYEAAKLLYSNVS---------NFAKLASTLVYLGEYQGAVDAARKAN------STKTWKEV 1255 (1666)
T ss_pred             CCCchhHHHHhHHHhhhhhhHHHHHHHHHhh---------hHHHHHHHHHHHHHHHHHHHHhhhcc------chhHHHHH
Confidence            6888888888999999999888877666532         36777777777777777766544332      34566655


Q ss_pred             HHhhc
Q 003295          819 IDGWQ  823 (833)
Q Consensus       819 ~~~~~  823 (833)
                      -.+|.
T Consensus      1256 cfaCv 1260 (1666)
T KOG0985|consen 1256 CFACV 1260 (1666)
T ss_pred             HHHHh
Confidence            55543

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=99.44  E-value=2.4e-08  Score=107.05  Aligned_cols=285  Identities=16%  Similarity=0.052  Sum_probs=178.8

Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHH
Q 003295          478 QAEATELCFRLFEKGFTVNTVTSNALIHGMCEAGNLKEAGKLLMEMLQRGLILDKVTYNTLILGCCKDGKPEEGFKLKED  557 (833)
Q Consensus       478 ~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~l~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~  557 (833)
                      ..++++.+++..+.+.. |+.+...+.--|...++++.|.+..++..+.+..-+...|..|.-.+...+++.+|+.+.+.
T Consensus       460 h~kslqale~av~~d~~-dp~~if~lalq~A~~R~l~sAl~~~~eaL~l~~~~~~~~whLLALvlSa~kr~~~Al~vvd~  538 (799)
T KOG4162|consen  460 HKKSLQALEEAVQFDPT-DPLVIFYLALQYAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLKEALDVVDA  538 (799)
T ss_pred             HHHHHHHHHHHHhcCCC-CchHHHHHHHHHHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHHHHHHHHH
Confidence            34566666666665433 22333333444666677777777777777775555777777777777777777777777777


Q ss_pred             HHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhC---------------------C-------CCCCHhhHHHHH
Q 003295          558 MIKRGIQPDNYTYNLLLHGLCSLGKMEEAIELWEECKRT---------------------V-------FGPDIYTYGVMI  609 (833)
Q Consensus       558 m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~---------------------~-------~~~~~~~~~~li  609 (833)
                      ....-.. |......-++.-...++.++|+.....+...                     |       ......++..+.
T Consensus       539 al~E~~~-N~~l~~~~~~i~~~~~~~e~~l~t~~~~L~~we~~~~~q~~~~~g~~~~lk~~l~la~~q~~~a~s~sr~ls  617 (799)
T KOG4162|consen  539 ALEEFGD-NHVLMDGKIHIELTFNDREEALDTCIHKLALWEAEYGVQQTLDEGKLLRLKAGLHLALSQPTDAISTSRYLS  617 (799)
T ss_pred             HHHHhhh-hhhhchhhhhhhhhcccHHHHHHHHHHHHHHHHhhhhHhhhhhhhhhhhhhcccccCcccccccchhhHHHH
Confidence            6654111 1111111122222234444444333222110                     0       001122232222


Q ss_pred             HHHHccCCHHHHHHHHHHHHHCCC--ccC------HHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 003295          610 DGFCKADKIEEGETLFNEMISKKM--ELN------PVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHG  681 (833)
Q Consensus       610 ~~~~~~g~~~~A~~~~~~~~~~~~--~~~------~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~  681 (833)
                      ......+........   +.....  .|+      ...|......+.+.++.++|...+.+..... +-....|......
T Consensus       618 ~l~a~~~~~~~se~~---Lp~s~~~~~~~~~~~~~~~lwllaa~~~~~~~~~~~a~~CL~Ea~~~~-~l~~~~~~~~G~~  693 (799)
T KOG4162|consen  618 SLVASQLKSAGSELK---LPSSTVLPGPDSLWYLLQKLWLLAADLFLLSGNDDEARSCLLEASKID-PLSASVYYLRGLL  693 (799)
T ss_pred             HHHHhhhhhcccccc---cCcccccCCCCchHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHhcc-hhhHHHHHHhhHH
Confidence            222111110000000   111111  122      2356667778889999999998888887653 4466667777788


Q ss_pred             HHhcCCHHHHHHHHHHHHHCCCCC-ChhHHHHHHHHHHhcCChhHHHH--HHHHHHhCCCCCCHHHHHHHHHHHHhcCCH
Q 003295          682 LCNIGLIEDAKCLFDEMRKEGLLP-NVACYTALIGGYCKLGQMDEAES--VLQEMASINIHPNKITYTIMIGGYCKLGDM  758 (833)
Q Consensus       682 ~~~~g~~~~A~~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~--~~~~m~~~g~~p~~~~~~~li~~~~~~g~~  758 (833)
                      +...|..++|.+.|.....-  .| ++....++..++.+.|+..-|..  ++..+.+.+ +.+...|..++..+.+.|+.
T Consensus       694 ~~~~~~~~EA~~af~~Al~l--dP~hv~s~~Ala~~lle~G~~~la~~~~~L~dalr~d-p~n~eaW~~LG~v~k~~Gd~  770 (799)
T KOG4162|consen  694 LEVKGQLEEAKEAFLVALAL--DPDHVPSMTALAELLLELGSPRLAEKRSLLSDALRLD-PLNHEAWYYLGEVFKKLGDS  770 (799)
T ss_pred             HHHHHhhHHHHHHHHHHHhc--CCCCcHHHHHHHHHHHHhCCcchHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHccch
Confidence            88999999999999999884  55 45678899999999998877777  999999976 77899999999999999999


Q ss_pred             HHHHHHHHHHHHc
Q 003295          759 KEAAKLLNVMAEK  771 (833)
Q Consensus       759 ~~A~~~~~~m~~~  771 (833)
                      ++|.+.|..+.+.
T Consensus       771 ~~Aaecf~aa~qL  783 (799)
T KOG4162|consen  771 KQAAECFQAALQL  783 (799)
T ss_pred             HHHHHHHHHHHhh
Confidence            9999999998873

>KOG1126 consensus DNA-binding cell division cycle control protein [Cell cycle control, cell division, chromosome partitioning]

Probab=99.44  E-value=4.4e-11  Score=125.79  Aligned_cols=280  Identities=14%  Similarity=0.105  Sum_probs=214.8

Q ss_pred             hhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCC--CCCHHHHHHHHHHHHhcCCHHHHHHH-
Q 003295          443 FNSALHFTKEMLLRNLRPGDGLLTLLVSGLCKNGKQAEATELCFRLFEKGF--TVNTVTSNALIHGMCEAGNLKEAGKL-  519 (833)
Q Consensus       443 ~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~--~~~~~~~~~li~~~~~~g~~~~A~~~-  519 (833)
                      ..+|+..|... -........+...+..+|...+++++|..+|+.+.+...  ..+..+|.+.+-.+-+.    -++.. 
T Consensus       335 ~~~A~~~~~kl-p~h~~nt~wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~~----v~Ls~L  409 (638)
T KOG1126|consen  335 CREALNLFEKL-PSHHYNTGWVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQDE----VALSYL  409 (638)
T ss_pred             HHHHHHHHHhh-HHhcCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHhh----HHHHHH
Confidence            44555555552 222333336667788888899999999999988877532  23566777776544322    22222 


Q ss_pred             HHHHhhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCC
Q 003295          520 LMEMLQRGLILDKVTYNTLILGCCKDGKPEEGFKLKEDMIKRGIQPDNYTYNLLLHGLCSLGKMEEAIELWEECKRTVFG  599 (833)
Q Consensus       520 l~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~  599 (833)
                      -+++.+.... .+.+|.++.++|.-+++.+.|++.|++.++.... ..++|+.+..=+.....+|.|...|+..+..   
T Consensus       410 aq~Li~~~~~-sPesWca~GNcfSLQkdh~~Aik~f~RAiQldp~-faYayTLlGhE~~~~ee~d~a~~~fr~Al~~---  484 (638)
T KOG1126|consen  410 AQDLIDTDPN-SPESWCALGNCFSLQKDHDTAIKCFKRAIQLDPR-FAYAYTLLGHESIATEEFDKAMKSFRKALGV---  484 (638)
T ss_pred             HHHHHhhCCC-CcHHHHHhcchhhhhhHHHHHHHHHHHhhccCCc-cchhhhhcCChhhhhHHHHhHHHHHHhhhcC---
Confidence            2334443333 7899999999999999999999999999986433 7789999998899999999999999988753   


Q ss_pred             CCHhhHH---HHHHHHHccCCHHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHHHHH
Q 003295          600 PDIYTYG---VMIDGFCKADKIEEGETLFNEMISKKMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYS  676 (833)
Q Consensus       600 ~~~~~~~---~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~  676 (833)
                       |+..|+   .+...|.+.++++.|+-.|++..+.++. +.+....+...+-+.|+.++|++++++......+ |+..--
T Consensus       485 -~~rhYnAwYGlG~vy~Kqek~e~Ae~~fqkA~~INP~-nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~k-n~l~~~  561 (638)
T KOG1126|consen  485 -DPRHYNAWYGLGTVYLKQEKLEFAEFHFQKAVEINPS-NSVILCHIGRIQHQLKRKDKALQLYEKAIHLDPK-NPLCKY  561 (638)
T ss_pred             -CchhhHHHHhhhhheeccchhhHHHHHHHhhhcCCcc-chhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCCC-CchhHH
Confidence             444554   4667899999999999999999988776 7788888888899999999999999999987643 554444


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHCCCCC-ChhHHHHHHHHHHhcCChhHHHHHHHHHHhCC
Q 003295          677 SLIHGLCNIGLIEDAKCLFDEMRKEGLLP-NVACYTALIGGYCKLGQMDEAESVLQEMASIN  737 (833)
Q Consensus       677 ~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g  737 (833)
                      -.+..+...+++++|+..++++.+.  .| +...+..+...|.+.|+.+.|+.-|.-+.+..
T Consensus       562 ~~~~il~~~~~~~eal~~LEeLk~~--vP~es~v~~llgki~k~~~~~~~Al~~f~~A~~ld  621 (638)
T KOG1126|consen  562 HRASILFSLGRYVEALQELEELKEL--VPQESSVFALLGKIYKRLGNTDLALLHFSWALDLD  621 (638)
T ss_pred             HHHHHHHhhcchHHHHHHHHHHHHh--CcchHHHHHHHHHHHHHHccchHHHHhhHHHhcCC
Confidence            5567777889999999999999984  55 45778888999999999999999999888754

>COG3071 HemY Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]

Probab=99.43  E-value=1.1e-09  Score=108.59  Aligned_cols=286  Identities=11%  Similarity=0.054  Sum_probs=184.9

Q ss_pred             cCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHH
Q 003295          510 AGNLKEAGKLLMEMLQRGLILDKVTYNTLILGCCKDGKPEEGFKLKEDMIKRGIQPDNYTYNLLLHGLCSLGKMEEAIEL  589 (833)
Q Consensus       510 ~g~~~~A~~~l~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~  589 (833)
                      .|++..|+++..+-.+.+.. ....|..-..+--..|+.+.+-.++.+..+.-..++...+-+........|+++.|..-
T Consensus        97 eG~~~qAEkl~~rnae~~e~-p~l~~l~aA~AA~qrgd~~~an~yL~eaae~~~~~~l~v~ltrarlll~~~d~~aA~~~  175 (400)
T COG3071          97 EGDFQQAEKLLRRNAEHGEQ-PVLAYLLAAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRARLLLNRRDYPAAREN  175 (400)
T ss_pred             cCcHHHHHHHHHHhhhcCcc-hHHHHHHHHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHHHHHHhCCCchhHHHH
Confidence            46666666666665555444 33444444555555666666666666666553344445555555566666666666666


Q ss_pred             HHHHhhCCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCccCH-------HHHHHHHHHHHHcCChHHHHHHHHH
Q 003295          590 WEECKRTVFGPDIYTYGVMIDGFCKADKIEEGETLFNEMISKKMELNP-------VVYNTLIRAYCKIGNTTAAFRLSND  662 (833)
Q Consensus       590 ~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~-------~~~~~li~~~~~~g~~~~A~~~~~~  662 (833)
                      ..++.+.+ +.+.........+|.+.|++.+...++.++.+.+.-.+.       .+|+.+++-....+..+.-...++.
T Consensus       176 v~~ll~~~-pr~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~le~~a~~glL~q~~~~~~~~gL~~~W~~  254 (400)
T COG3071         176 VDQLLEMT-PRHPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAARLEQQAWEGLLQQARDDNGSEGLKTWWKN  254 (400)
T ss_pred             HHHHHHhC-cCChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHHhccccchHHHHHHHh
Confidence            66665543 234455555666666666666666666666666554332       3455555554444444444445554


Q ss_pred             HHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCH
Q 003295          663 MKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESVLQEMASINIHPNK  742 (833)
Q Consensus       663 m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~  742 (833)
                      ...+ .+.++..-.+++.-+.+.|+.++|.++..+..+++..|+.   ..+ -...+-++.+.=++..++..+. .+.++
T Consensus       255 ~pr~-lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~L---~~~-~~~l~~~d~~~l~k~~e~~l~~-h~~~p  328 (400)
T COG3071         255 QPRK-LRNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPRL---CRL-IPRLRPGDPEPLIKAAEKWLKQ-HPEDP  328 (400)
T ss_pred             ccHH-hhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChhH---HHH-HhhcCCCCchHHHHHHHHHHHh-CCCCh
Confidence            4332 3445666667777888889999999988888887656651   112 2344566766666666666654 24556


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHH
Q 003295          743 ITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISPDSITYNVFMDGHCKGGNVEEAFKVCDRMLS  805 (833)
Q Consensus       743 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  805 (833)
                      ..+.+|+..|.+++.+.+|.+.|+..++  ..|+..+|+.+.+++.+.|+.++|.+.+++.+.
T Consensus       329 ~L~~tLG~L~~k~~~w~kA~~~leaAl~--~~~s~~~~~~la~~~~~~g~~~~A~~~r~e~L~  389 (400)
T COG3071         329 LLLSTLGRLALKNKLWGKASEALEAALK--LRPSASDYAELADALDQLGEPEEAEQVRREALL  389 (400)
T ss_pred             hHHHHHHHHHHHhhHHHHHHHHHHHHHh--cCCChhhHHHHHHHHHHcCChHHHHHHHHHHHH
Confidence            7888889999999999999999998887  468888999999999999999999888887764

>COG2956 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]

Probab=99.43  E-value=4.2e-10  Score=107.90  Aligned_cols=293  Identities=13%  Similarity=0.075  Sum_probs=223.9

Q ss_pred             hcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCC---HHHHHHHHHHHHhcCCHHH
Q 003295          509 EAGNLKEAGKLLMEMLQRGLILDKVTYNTLILGCCKDGKPEEGFKLKEDMIKRGIQPD---NYTYNLLLHGLCSLGKMEE  585 (833)
Q Consensus       509 ~~g~~~~A~~~l~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~---~~~~~~li~~~~~~g~~~~  585 (833)
                      -..+.++|.++|-+|.+.... ...+.-+|.+.|.+.|..|.|+.+...+.++.--+.   ......|..-|...|-+|.
T Consensus        47 Ls~Q~dKAvdlF~e~l~~d~~-t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~spdlT~~qr~lAl~qL~~Dym~aGl~DR  125 (389)
T COG2956          47 LSNQPDKAVDLFLEMLQEDPE-TFEAHLTLGNLFRSRGEVDRAIRIHQTLLESPDLTFEQRLLALQQLGRDYMAAGLLDR  125 (389)
T ss_pred             hhcCcchHHHHHHHHHhcCch-hhHHHHHHHHHHHhcchHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHHhhhhhH
Confidence            357889999999999987433 455567789999999999999999999987621111   2345567778899999999


Q ss_pred             HHHHHHHHhhCCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCccCH----HHHHHHHHHHHHcCChHHHHHHHH
Q 003295          586 AIELWEECKRTVFGPDIYTYGVMIDGFCKADKIEEGETLFNEMISKKMELNP----VVYNTLIRAYCKIGNTTAAFRLSN  661 (833)
Q Consensus       586 A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~----~~~~~li~~~~~~g~~~~A~~~~~  661 (833)
                      |.++|..+.+.+ .--......|+..|-+..+|++|+++-+++.+.+..+..    ..|.-+...+....+.+.|..+++
T Consensus       126 AE~~f~~L~de~-efa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~~~~~d~A~~~l~  204 (389)
T COG2956         126 AEDIFNQLVDEG-EFAEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALASSDVDRARELLK  204 (389)
T ss_pred             HHHHHHHHhcch-hhhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhhhhhHHHHHHHHH
Confidence            999999988754 233556778899999999999999999999988766543    345666666777789999999999


Q ss_pred             HHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCC
Q 003295          662 DMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESVLQEMASINIHPN  741 (833)
Q Consensus       662 ~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~  741 (833)
                      +..+.+. ..+..-..+.+.....|+++.|.+.++...+.+..--..+...|..+|...|+.++....+.++.+..  ++
T Consensus       205 kAlqa~~-~cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L~~~Y~~lg~~~~~~~fL~~~~~~~--~g  281 (389)
T COG2956         205 KALQADK-KCVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVLEMLYECYAQLGKPAEGLNFLRRAMETN--TG  281 (389)
T ss_pred             HHHhhCc-cceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHcc--CC
Confidence            9988753 34455556778889999999999999999987533345678889999999999999999999998853  44


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhc---CCCHHHHHHHHHHHHHCCC
Q 003295          742 KITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISPDSITYNVFMDGHCK---GGNVEEAFKVCDRMLSEGL  808 (833)
Q Consensus       742 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~---~g~~~~A~~~~~~m~~~g~  808 (833)
                      ...-..+...-....-.+.|..++.+-+.+  .|+...+..|+..-..   .|...+-...++.|....+
T Consensus       282 ~~~~l~l~~lie~~~G~~~Aq~~l~~Ql~r--~Pt~~gf~rl~~~~l~daeeg~~k~sL~~lr~mvge~l  349 (389)
T COG2956         282 ADAELMLADLIELQEGIDAAQAYLTRQLRR--KPTMRGFHRLMDYHLADAEEGRAKESLDLLRDMVGEQL  349 (389)
T ss_pred             ccHHHHHHHHHHHhhChHHHHHHHHHHHhh--CCcHHHHHHHHHhhhccccccchhhhHHHHHHHHHHHH
Confidence            444445554444455567777777666663  6999888888887643   4567777788888876533

>COG2956 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]

Probab=99.43  E-value=8e-10  Score=106.01  Aligned_cols=288  Identities=12%  Similarity=0.071  Sum_probs=135.3

Q ss_pred             CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCH---HHHHHHHHHHHhcCChhhHH
Q 003295          476 GKQAEATELCFRLFEKGFTVNTVTSNALIHGMCEAGNLKEAGKLLMEMLQRGLILDK---VTYNTLILGCCKDGKPEEGF  552 (833)
Q Consensus       476 g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~l~~m~~~g~~~~~---~~~~~li~~~~~~g~~~~A~  552 (833)
                      ++.++|.+.|-+|.+.. +....+.-+|.+.|-+.|..+.|+.+-+.+.++.--+..   .....|..-|...|-+|.|.
T Consensus        49 ~Q~dKAvdlF~e~l~~d-~~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~spdlT~~qr~lAl~qL~~Dym~aGl~DRAE  127 (389)
T COG2956          49 NQPDKAVDLFLEMLQED-PETFEAHLTLGNLFRSRGEVDRAIRIHQTLLESPDLTFEQRLLALQQLGRDYMAAGLLDRAE  127 (389)
T ss_pred             cCcchHHHHHHHHHhcC-chhhHHHHHHHHHHHhcchHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHHhhhhhHHH
Confidence            44555555555555531 113334445555555566666666655555544111111   12233444455555566666


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCC----HhhHHHHHHHHHccCCHHHHHHHHHHH
Q 003295          553 KLKEDMIKRGIQPDNYTYNLLLHGLCSLGKMEEAIELWEECKRTVFGPD----IYTYGVMIDGFCKADKIEEGETLFNEM  628 (833)
Q Consensus       553 ~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~----~~~~~~li~~~~~~g~~~~A~~~~~~~  628 (833)
                      .+|..+.+.+. .-......|+..|-...+|++|++.-+++.+.+-.+.    ..-|--+...+....+.+.|..++.+.
T Consensus       128 ~~f~~L~de~e-fa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~~~~~d~A~~~l~kA  206 (389)
T COG2956         128 DIFNQLVDEGE-FAEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALASSDVDRARELLKKA  206 (389)
T ss_pred             HHHHHHhcchh-hhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHH
Confidence            66655555421 1334445555555555666666655555555432222    112333333334445555555555555


Q ss_pred             HHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChh
Q 003295          629 ISKKMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVA  708 (833)
Q Consensus       629 ~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~  708 (833)
                      .+..++ .+..--.+.+.+...|+++.|.+.++...+.+..--..+...|..+|.+.|+.++...++.++.+..  +...
T Consensus       207 lqa~~~-cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L~~~Y~~lg~~~~~~~fL~~~~~~~--~g~~  283 (389)
T COG2956         207 LQADKK-CVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVLEMLYECYAQLGKPAEGLNFLRRAMETN--TGAD  283 (389)
T ss_pred             HhhCcc-ceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHcc--CCcc
Confidence            554333 3333344445555556666666666655555433333444555555556666666665555555532  2222


Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh---cCCHHHHHHHHHHHHH
Q 003295          709 CYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCK---LGDMKEAAKLLNVMAE  770 (833)
Q Consensus       709 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~---~g~~~~A~~~~~~m~~  770 (833)
                      .-..+...-....-.+.|...+.+-...  +|+...+..++..-..   .|..++-...++.|+.
T Consensus       284 ~~l~l~~lie~~~G~~~Aq~~l~~Ql~r--~Pt~~gf~rl~~~~l~daeeg~~k~sL~~lr~mvg  346 (389)
T COG2956         284 AELMLADLIELQEGIDAAQAYLTRQLRR--KPTMRGFHRLMDYHLADAEEGRAKESLDLLRDMVG  346 (389)
T ss_pred             HHHHHHHHHHHhhChHHHHHHHHHHHhh--CCcHHHHHHHHHhhhccccccchhhhHHHHHHHHH
Confidence            2222222222222334444433333332  4555555555544322   2333444444444443

>COG3071 HemY Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]

Probab=99.43  E-value=1.6e-09  Score=107.52  Aligned_cols=252  Identities=13%  Similarity=0.100  Sum_probs=125.1

Q ss_pred             cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCChhhHHHH
Q 003295          475 NGKQAEATELCFRLFEKGFTVNTVTSNALIHGMCEAGNLKEAGKLLMEMLQRGLILDKVTYNTLILGCCKDGKPEEGFKL  554 (833)
Q Consensus       475 ~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~l~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~  554 (833)
                      .|+.+.+-.++.++.+....++...+-+........|+++.|..-++++.+.++. +.........+|.+.|++.+...+
T Consensus       131 rgd~~~an~yL~eaae~~~~~~l~v~ltrarlll~~~d~~aA~~~v~~ll~~~pr-~~~vlrLa~r~y~~~g~~~~ll~~  209 (400)
T COG3071         131 RGDEDRANRYLAEAAELAGDDTLAVELTRARLLLNRRDYPAARENVDQLLEMTPR-HPEVLRLALRAYIRLGAWQALLAI  209 (400)
T ss_pred             cccHHHHHHHHHHHhccCCCchHHHHHHHHHHHHhCCCchhHHHHHHHHHHhCcC-ChHHHHHHHHHHHHhccHHHHHHH
Confidence            3333333333333333322223333444444444444444444444444444433 344444444444444555444444


Q ss_pred             HHHHHHCCCCCCH-------HHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHccCCHHHHHHHHHH
Q 003295          555 KEDMIKRGIQPDN-------YTYNLLLHGLCSLGKMEEAIELWEECKRTVFGPDIYTYGVMIDGFCKADKIEEGETLFNE  627 (833)
Q Consensus       555 ~~~m~~~g~~p~~-------~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~  627 (833)
                      +..+.+.|.-.|.       .+|..+++-....+..+.-...|+...+. ...++..-..++.-+.++|+.++|.++..+
T Consensus       210 l~~L~ka~~l~~~e~~~le~~a~~glL~q~~~~~~~~gL~~~W~~~pr~-lr~~p~l~~~~a~~li~l~~~~~A~~~i~~  288 (400)
T COG3071         210 LPKLRKAGLLSDEEAARLEQQAWEGLLQQARDDNGSEGLKTWWKNQPRK-LRNDPELVVAYAERLIRLGDHDEAQEIIED  288 (400)
T ss_pred             HHHHHHccCCChHHHHHHHHHHHHHHHHHHhccccchHHHHHHHhccHH-hhcChhHHHHHHHHHHHcCChHHHHHHHHH
Confidence            4444444433222       24445555444444444444455544332 122344444555555666666666666666


Q ss_pred             HHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCh
Q 003295          628 MISKKMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNV  707 (833)
Q Consensus       628 ~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~  707 (833)
                      ..+++..|...    ..-.+.+-++.+.-.+..++..+.. +.++..+.+|...|.+.+.+.+|...|+...+.  .|+.
T Consensus       289 ~Lk~~~D~~L~----~~~~~l~~~d~~~l~k~~e~~l~~h-~~~p~L~~tLG~L~~k~~~w~kA~~~leaAl~~--~~s~  361 (400)
T COG3071         289 ALKRQWDPRLC----RLIPRLRPGDPEPLIKAAEKWLKQH-PEDPLLLSTLGRLALKNKLWGKASEALEAALKL--RPSA  361 (400)
T ss_pred             HHHhccChhHH----HHHhhcCCCCchHHHHHHHHHHHhC-CCChhHHHHHHHHHHHhhHHHHHHHHHHHHHhc--CCCh
Confidence            66655444311    1112234455555555555444431 234455666666666666666666666666653  4666


Q ss_pred             hHHHHHHHHHHhcCChhHHHHHHHHHHh
Q 003295          708 ACYTALIGGYCKLGQMDEAESVLQEMAS  735 (833)
Q Consensus       708 ~~~~~li~~~~~~g~~~~A~~~~~~m~~  735 (833)
                      .+|+.+.+++.+.|+..+|.+..++...
T Consensus       362 ~~~~~la~~~~~~g~~~~A~~~r~e~L~  389 (400)
T COG3071         362 SDYAELADALDQLGEPEEAEQVRREALL  389 (400)
T ss_pred             hhHHHHHHHHHHcCChHHHHHHHHHHHH
Confidence            6666666666666666666666666553

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.40  E-value=1.1e-08  Score=106.16  Aligned_cols=459  Identities=17%  Similarity=0.159  Sum_probs=231.4

Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHH--HH--H
Q 003295          256 STAINAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIHGLCRNGRLYEAFHLKEKMVLREVEPSLITYSIL--IN--G  331 (833)
Q Consensus       256 ~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~l--i~--~  331 (833)
                      -+=++.+...|++++|.+...+++..+.. |...+..=+-++.+.+++++|+.+.+.-..      ..+++..  =.  +
T Consensus        16 ~t~ln~~~~~~e~e~a~k~~~Kil~~~pd-d~~a~~cKvValIq~~ky~~ALk~ikk~~~------~~~~~~~~fEKAYc   88 (652)
T KOG2376|consen   16 LTDLNRHGKNGEYEEAVKTANKILSIVPD-DEDAIRCKVVALIQLDKYEDALKLIKKNGA------LLVINSFFFEKAYC   88 (652)
T ss_pred             HHHHHHhccchHHHHHHHHHHHHHhcCCC-cHhhHhhhHhhhhhhhHHHHHHHHHHhcch------hhhcchhhHHHHHH
Confidence            34556677778888888888888776522 444555555566777888888755443221      1112222  23  3


Q ss_pred             HHhcCChhHHHHHHHHHHHCCCCCCh-hhHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCChhHHHHHHHHHHh-cCChh
Q 003295          332 LIKLEKFDDANFVLKEMSVRGFVPNY-VVYNTLIDGYCKKGNISEALKIRDDMVSKGMSPNSVTFNSLIHGFCK-SGQMD  409 (833)
Q Consensus       332 ~~~~g~~~~A~~~~~~m~~~g~~p~~-~~y~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~-~g~~~  409 (833)
                      ..+.++.++|...++     |..++. .+...-...+.+.|++++|..+|+.+.+.+.+    .+...+++-+- .+-.-
T Consensus        89 ~Yrlnk~Dealk~~~-----~~~~~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~d----d~d~~~r~nl~a~~a~l  159 (652)
T KOG2376|consen   89 EYRLNKLDEALKTLK-----GLDRLDDKLLELRAQVLYRLERYDEALDIYQHLAKNNSD----DQDEERRANLLAVAAAL  159 (652)
T ss_pred             HHHcccHHHHHHHHh-----cccccchHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCc----hHHHHHHHHHHHHHHhh
Confidence            346777777777776     333332 24444455667777888888888777765432    22222222111 11001


Q ss_pred             HHHHHHHHHHHCCCCCCcccHHHH---HHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHH
Q 003295          410 NAENALEEMLSRGLSINQGAYTSV---IKWLCINSRFNSALHFTKEMLLRNLRPGDGLLTLLVSGLCKNGKQAEATELCF  486 (833)
Q Consensus       410 ~A~~~l~~~~~~g~~~~~~~~~~l---i~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~  486 (833)
                      .+. +   +......| ..+|..+   ...+...|++.+|++++......+.+           .++ .++..  .    
T Consensus       160 ~~~-~---~q~v~~v~-e~syel~yN~Ac~~i~~gky~qA~elL~kA~~~~~e-----------~l~-~~d~~--e----  216 (652)
T KOG2376|consen  160 QVQ-L---LQSVPEVP-EDSYELLYNTACILIENGKYNQAIELLEKALRICRE-----------KLE-DEDTN--E----  216 (652)
T ss_pred             hHH-H---HHhccCCC-cchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHH-----------hhc-ccccc--h----
Confidence            110 1   11111111 2233333   23344456666666665554221100           000 00000  0    


Q ss_pred             HHHHCCCCCCH-HHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHH----HHHHHHHHhcCChh-hHHHHHHHHHH
Q 003295          487 RLFEKGFTVNT-VTSNALIHGMCEAGNLKEAGKLLMEMLQRGLILDKVTY----NTLILGCCKDGKPE-EGFKLKEDMIK  560 (833)
Q Consensus       487 ~~~~~g~~~~~-~~~~~li~~~~~~g~~~~A~~~l~~m~~~g~~~~~~~~----~~li~~~~~~g~~~-~A~~~~~~m~~  560 (833)
                          .++.... ..--.|.-.+-..|+.++|..++...++.++. |....    |.|+..-....-++ .++..++....
T Consensus       217 ----Eeie~el~~IrvQlayVlQ~~Gqt~ea~~iy~~~i~~~~~-D~~~~Av~~NNLva~~~d~~~~d~~~l~~k~~~~~  291 (652)
T KOG2376|consen  217 ----EEIEEELNPIRVQLAYVLQLQGQTAEASSIYVDIIKRNPA-DEPSLAVAVNNLVALSKDQNYFDGDLLKSKKSQVF  291 (652)
T ss_pred             ----hhHHHHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhcCC-CchHHHHHhcchhhhccccccCchHHHHHHHHHHH
Confidence                0000000 12233455566778888888888887777654 44222    22222111111111 12222221111


Q ss_pred             C-----------CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHH-HH-HccCCHHHHHHHHHH
Q 003295          561 R-----------GIQPDNYTYNLLLHGLCSLGKMEEAIELWEECKRTVFGPDIYTYGVMID-GF-CKADKIEEGETLFNE  627 (833)
Q Consensus       561 ~-----------g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~-~~-~~~g~~~~A~~~~~~  627 (833)
                      .           ...-....=+.++..|.  +..+.+.++......  ..|.. .+..++. ++ ++......|.+++..
T Consensus       292 ~l~~~~l~~Ls~~qk~~i~~N~~lL~l~t--nk~~q~r~~~a~lp~--~~p~~-~~~~ll~~~t~~~~~~~~ka~e~L~~  366 (652)
T KOG2376|consen  292 KLAEFLLSKLSKKQKQAIYRNNALLALFT--NKMDQVRELSASLPG--MSPES-LFPILLQEATKVREKKHKKAIELLLQ  366 (652)
T ss_pred             HhHHHHHHHHHHHHHHHHHHHHHHHHHHh--hhHHHHHHHHHhCCc--cCchH-HHHHHHHHHHHHHHHHHhhhHHHHHH
Confidence            1           00001111122222222  333344443333221  12332 2333332 22 223357778888877


Q ss_pred             HHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHH--------HHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 003295          628 MISKKMELNPVVYNTLIRAYCKIGNTTAAFRLSN--------DMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMR  699 (833)
Q Consensus       628 ~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~--------~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~  699 (833)
                      ..+..+.-...+.-.++......|+++.|++++.        .+.+.+..|-  +...+...+.+.++-+.|..++.+.+
T Consensus       367 ~~~~~p~~s~~v~L~~aQl~is~gn~~~A~~il~~~~~~~~ss~~~~~~~P~--~V~aiv~l~~~~~~~~~a~~vl~~Ai  444 (652)
T KOG2376|consen  367 FADGHPEKSKVVLLLRAQLKISQGNPEVALEILSLFLESWKSSILEAKHLPG--TVGAIVALYYKIKDNDSASAVLDSAI  444 (652)
T ss_pred             HhccCCchhHHHHHHHHHHHHhcCCHHHHHHHHHHHhhhhhhhhhhhccChh--HHHHHHHHHHhccCCccHHHHHHHHH
Confidence            7776555446666777777888899999988888        4444444444  34456666777777777777777765


Q ss_pred             HC--CCCCChhHHHH----HHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 003295          700 KE--GLLPNVACYTA----LIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNV  767 (833)
Q Consensus       700 ~~--g~~p~~~~~~~----li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~  767 (833)
                      ..  .-.+.......    ++..-.+.|+-++|..+++++.+.+ ++|..+...++.+|++. +.+.|..+-..
T Consensus       445 ~~~~~~~t~s~~l~~~~~~aa~f~lr~G~~~ea~s~leel~k~n-~~d~~~l~~lV~a~~~~-d~eka~~l~k~  516 (652)
T KOG2376|consen  445 KWWRKQQTGSIALLSLMREAAEFKLRHGNEEEASSLLEELVKFN-PNDTDLLVQLVTAYARL-DPEKAESLSKK  516 (652)
T ss_pred             HHHHHhcccchHHHhHHHHHhHHHHhcCchHHHHHHHHHHHHhC-CchHHHHHHHHHHHHhc-CHHHHHHHhhc
Confidence            42  11122222333    3333446788889999999988864 67788888888888766 56777766554

>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]

Probab=99.39  E-value=4.4e-08  Score=102.97  Aligned_cols=470  Identities=16%  Similarity=0.136  Sum_probs=225.4

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHH
Q 003295          290 YNNIIHGLCRNGRLYEAFHLKEKMVLREVEPSLITYSILINGLIKLEKFDDANFVLKEMSVRGFVPNYVVYNTLIDGYCK  369 (833)
Q Consensus       290 ~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~y~~li~~~~~  369 (833)
                      +..++..| ..+++...+++.+.+.++ .+.-..|.....-.++..|+-++|......-....+. +.+.|..+.-.+-.
T Consensus        11 F~~~lk~y-E~kQYkkgLK~~~~iL~k-~~eHgeslAmkGL~L~~lg~~~ea~~~vr~glr~d~~-S~vCwHv~gl~~R~   87 (700)
T KOG1156|consen   11 FRRALKCY-ETKQYKKGLKLIKQILKK-FPEHGESLAMKGLTLNCLGKKEEAYELVRLGLRNDLK-SHVCWHVLGLLQRS   87 (700)
T ss_pred             HHHHHHHH-HHHHHHhHHHHHHHHHHh-CCccchhHHhccchhhcccchHHHHHHHHHHhccCcc-cchhHHHHHHHHhh
Confidence            44455544 456667777766666653 2223334333334455667777776666655554332 45666666666666


Q ss_pred             cCChHHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCcccHHHHHHHHHhcCChhHHHHH
Q 003295          370 KGNISEALKIRDDMVSKGMSPNSVTFNSLIHGFCKSGQMDNAENALEEMLSRGLSINQGAYTSVIKWLCINSRFNSALHF  449 (833)
Q Consensus       370 ~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~l~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~  449 (833)
                      ..++++|++.|......+.. |...|.-+.-...+.|+++.....-.++.+. .+-....|..++.++.-.|+...|..+
T Consensus        88 dK~Y~eaiKcy~nAl~~~~d-N~qilrDlslLQ~QmRd~~~~~~tr~~LLql-~~~~ra~w~~~Avs~~L~g~y~~A~~i  165 (700)
T KOG1156|consen   88 DKKYDEAIKCYRNALKIEKD-NLQILRDLSLLQIQMRDYEGYLETRNQLLQL-RPSQRASWIGFAVAQHLLGEYKMALEI  165 (700)
T ss_pred             hhhHHHHHHHHHHHHhcCCC-cHHHHHHHHHHHHHHHhhhhHHHHHHHHHHh-hhhhHHHHHHHHHHHHHHHHHHHHHHH
Confidence            66777777777766664322 4555555555555566666665555555543 122344555555555566666666666


Q ss_pred             HHHHHHCCC-CCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCC
Q 003295          450 TKEMLLRNL-RPGDGLLTLLVSGLCKNGKQAEATELCFRLFEKGFTVNTVTSNALIHGMCEAGNLKEAGKLLMEMLQRGL  528 (833)
Q Consensus       450 ~~~~~~~~~-~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~l~~m~~~g~  528 (833)
                      +.+..+... .|+...+......+                             --.....+.|..++|.+.+..-... +
T Consensus       166 l~ef~~t~~~~~s~~~~e~se~~L-----------------------------y~n~i~~E~g~~q~ale~L~~~e~~-i  215 (700)
T KOG1156|consen  166 LEEFEKTQNTSPSKEDYEHSELLL-----------------------------YQNQILIEAGSLQKALEHLLDNEKQ-I  215 (700)
T ss_pred             HHHHHHhhccCCCHHHHHHHHHHH-----------------------------HHHHHHHHcccHHHHHHHHHhhhhH-H
Confidence            655554431 22222221111100                             0112233445555555555443322 1


Q ss_pred             CCCHHHH-HHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHH-HHhcCCHHHHH-HHHHHHhhCCCCCCHhhH
Q 003295          529 ILDKVTY-NTLILGCCKDGKPEEGFKLKEDMIKRGIQPDNYTYNLLLHG-LCSLGKMEEAI-ELWEECKRTVFGPDIYTY  605 (833)
Q Consensus       529 ~~~~~~~-~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~-~~~~g~~~~A~-~~~~~~~~~~~~~~~~~~  605 (833)
                       .|...+ .+-...+.+.+++++|..++..++..  .||..-|...... +.+-.+.-++. .+|....+.- +.....-
T Consensus       216 -~Dkla~~e~ka~l~~kl~~lEeA~~~y~~Ll~r--nPdn~~Yy~~l~~~lgk~~d~~~~lk~ly~~ls~~y-~r~e~p~  291 (700)
T KOG1156|consen  216 -VDKLAFEETKADLLMKLGQLEEAVKVYRRLLER--NPDNLDYYEGLEKALGKIKDMLEALKALYAILSEKY-PRHECPR  291 (700)
T ss_pred             -HHHHHHhhhHHHHHHHHhhHHhHHHHHHHHHhh--CchhHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhcC-cccccch
Confidence             122222 22334455566666666666666654  3444444333322 22222222333 3444333321 1000000


Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHh----CC----------CCCC
Q 003295          606 GVMIDGFCKADKIEEGETLFNEMISKKMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMKS----RG----------ILPT  671 (833)
Q Consensus       606 ~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~----~~----------~~p~  671 (833)
                      ..=+....-..-.+..-+++..+.+.|+++   ++..+...|-.-...+--.++...+..    .|          -+|.
T Consensus       292 Rlplsvl~~eel~~~vdkyL~~~l~Kg~p~---vf~dl~SLyk~p~k~~~le~Lvt~y~~~L~~~~~f~~~D~~~~E~Pt  368 (700)
T KOG1156|consen  292 RLPLSVLNGEELKEIVDKYLRPLLSKGVPS---VFKDLRSLYKDPEKVAFLEKLVTSYQHSLSGTGMFNFLDDGKQEPPT  368 (700)
T ss_pred             hccHHHhCcchhHHHHHHHHHHHhhcCCCc---hhhhhHHHHhchhHhHHHHHHHHHHHhhcccccCCCcccccccCCch
Confidence            000111111111222333444444554432   222222222211111111111111111    00          1333


Q ss_pred             HH--HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCh-hHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHH
Q 003295          672 SV--TYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNV-ACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIM  748 (833)
Q Consensus       672 ~~--~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l  748 (833)
                      ..  ++-.++..+-+.|+++.|..+++.++.+  .|+. ..|..-...+...|++++|..++++..+.+ .+|...-.--
T Consensus       369 tllWt~y~laqh~D~~g~~~~A~~yId~AIdH--TPTliEly~~KaRI~kH~G~l~eAa~~l~ea~elD-~aDR~INsKc  445 (700)
T KOG1156|consen  369 TLLWTLYFLAQHYDKLGDYEVALEYIDLAIDH--TPTLIELYLVKARIFKHAGLLDEAAAWLDEAQELD-TADRAINSKC  445 (700)
T ss_pred             HHHHHHHHHHHHHHHcccHHHHHHHHHHHhcc--CchHHHHHHHHHHHHHhcCChHHHHHHHHHHHhcc-chhHHHHHHH
Confidence            33  2344556666777777777777777764  4554 344455566777777777777777777765 4454443344


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHcCCCC--CH----HHHHH--HHHHHhcCCCHHHHHHHHHHHH
Q 003295          749 IGGYCKLGDMKEAAKLLNVMAEKGISP--DS----ITYNV--FMDGHCKGGNVEEAFKVCDRML  804 (833)
Q Consensus       749 i~~~~~~g~~~~A~~~~~~m~~~g~~p--~~----~~~~~--l~~~~~~~g~~~~A~~~~~~m~  804 (833)
                      +.-..+.++.++|.++.......|...  |.    -.|..  =+.+|.++|++-+|++-|..+.
T Consensus       446 AKYmLrAn~i~eA~~~~skFTr~~~~~~~~L~~mqcmWf~~E~g~ay~r~~k~g~ALKkfh~i~  509 (700)
T KOG1156|consen  446 AKYMLRANEIEEAEEVLSKFTREGFGAVNNLAEMQCMWFQLEDGEAYLRQNKLGLALKKFHEIE  509 (700)
T ss_pred             HHHHHHccccHHHHHHHHHhhhcccchhhhHHHhhhHHHhHhhhHHHHHHHHHHHHHHHHhhHH
Confidence            445556777777777777776655311  10    11222  2456667777766666555543

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.38  E-value=5.9e-07  Score=98.50  Aligned_cols=243  Identities=19%  Similarity=0.187  Sum_probs=136.3

Q ss_pred             CCChHHHHHHHHhhhhcCCCCCCHHHHHHHHHHHHhCCCchhHHHHHHHHHcCCCCccccCCCcchHHHHHHHHhhhhcc
Q 003295           94 NVNPKTALKFFYFASQSCNFRFTVRSYCLLIRLLLFSNLLSPARLLLIRLIDGKMPVLYASNPSIRHIEIASQMVDLNVT  173 (833)
Q Consensus        94 ~~~~~~a~~ff~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~a~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  173 (833)
                      ...|+.|-++.    .+..|.|--  +..+++++-++|....|...+..+-+-.                 ++...... 
T Consensus       589 ~~aPqVADAIL----gN~mFtHyD--ra~IAqLCEKAGL~qraLehytDl~DIK-----------------R~vVhth~-  644 (1666)
T KOG0985|consen  589 VHAPQVADAIL----GNDMFTHYD--RAEIAQLCEKAGLLQRALEHYTDLYDIK-----------------RVVVHTHL-  644 (1666)
T ss_pred             ccchHHHHHHH----hcccccccc--HHHHHHHHHhcchHHHHHHhcccHHHHH-----------------HHHHHhcc-
Confidence            34566665554    233465554  6678888889998887766554432110                 00000000 


Q ss_pred             cCCcchhhhHHHHHHHHHHhhhccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHhh--cC----
Q 003295          174 SEPALGVQIADLLVHVYCTQFKNLGFGYAIDVFSIFSSKGIFPSLKTCNFLLNSLVKANEVQKGIEVFETMC--RG----  247 (833)
Q Consensus       174 ~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~f~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~--~~----  247 (833)
                          ..   -+-|+.    .+....+++++++++.|...+++.+..++-.+..-|..+=-.+..+++|+...  +|    
T Consensus       645 ----L~---pEwLv~----yFg~lsve~s~eclkaml~~NirqNlQi~VQvatky~eqlg~~~li~lFE~fks~eGL~yf  713 (1666)
T KOG0985|consen  645 ----LN---PEWLVN----YFGSLSVEDSLECLKAMLSANIRQNLQIVVQVATKYHEQLGAQALIELFESFKSYEGLYYF  713 (1666)
T ss_pred             ----CC---HHHHHH----HHHhcCHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCHHHHHHHHHhhccchhHHHH
Confidence                00   111111    12345678888888888888887787777777777776666666677776654  23    


Q ss_pred             ------CCCCHHHHHHHHHHHHhcCChhHHHHHHHHH------------HH---------------cCCCCChhhH----
Q 003295          248 ------VSPDVFLFSTAINAFCKRGRIEDAIGLFTKM------------EE---------------LGIAPNVVTY----  290 (833)
Q Consensus       248 ------~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m------------~~---------------~g~~p~~~~~----  290 (833)
                            +..|.......|.+-|+.|.+.|..++-++-            .+               .|+.+|.+.|    
T Consensus       714 LgSivn~seDpevh~KYIqAA~kt~QikEvERicresn~YdpErvKNfLkeAkL~DqlPLiiVCDRf~fVhdlvlYLyrn  793 (1666)
T KOG0985|consen  714 LGSIVNFSEDPEVHFKYIQAACKTGQIKEVERICRESNCYDPERVKNFLKEAKLTDQLPLIIVCDRFDFVHDLVLYLYRN  793 (1666)
T ss_pred             HHHHhccccCchHHHHHHHHHHhhccHHHHHHHHhccccCCHHHHHHHHHhccccccCceEEEecccccHHHHHHHHHHh
Confidence                  4556666667899999999999888776552            11               1222333322    


Q ss_pred             --HHHHHHHHhcCChhHHHHHHHHHHhCCCCCChh-----------hHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCh
Q 003295          291 --NNIIHGLCRNGRLYEAFHLKEKMVLREVEPSLI-----------TYSILINGLIKLEKFDDANFVLKEMSVRGFVPNY  357 (833)
Q Consensus       291 --~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~-----------t~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~  357 (833)
                        -..|..|.+.=+....-.+...+....+..|..           .-..|+.-.-+.+++.--...++.....|.. |.
T Consensus       794 n~~kyIE~yVQkvNps~~p~VvG~LLD~dC~E~~ik~Li~~v~gq~~~deLv~EvEkRNRLklLlp~LE~~i~eG~~-d~  872 (1666)
T KOG0985|consen  794 NLQKYIEIYVQKVNPSRTPQVVGALLDVDCSEDFIKNLILSVRGQFPVDELVEEVEKRNRLKLLLPWLESLIQEGSQ-DP  872 (1666)
T ss_pred             hHHHHHHHHHhhcCCcccchhhhhhhcCCCcHHHHHHHHHHHhccCChHHHHHHHHhhhhHHHHHHHHHHHHhccCc-ch
Confidence              123344444333333333333333332221111           1122333344556666666777777788876 88


Q ss_pred             hhHHHHHHHHHHcCC
Q 003295          358 VVYNTLIDGYCKKGN  372 (833)
Q Consensus       358 ~~y~~li~~~~~~g~  372 (833)
                      .+||+|...|...++
T Consensus       873 a~hnAlaKIyIDSNN  887 (1666)
T KOG0985|consen  873 ATHNALAKIYIDSNN  887 (1666)
T ss_pred             HHHhhhhheeecCCC
Confidence            888888888776544

>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]

Probab=99.36  E-value=9.5e-08  Score=100.52  Aligned_cols=460  Identities=15%  Similarity=0.116  Sum_probs=230.4

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHHh
Q 003295          255 FSTAINAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIHGLCRNGRLYEAFHLKEKMVLREVEPSLITYSILINGLIK  334 (833)
Q Consensus       255 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~  334 (833)
                      |..++.+| ..+++...+++.+.+.+. ..-...|....+-.++..|+-++|....+...... ..+.+.|.++.-.+..
T Consensus        11 F~~~lk~y-E~kQYkkgLK~~~~iL~k-~~eHgeslAmkGL~L~~lg~~~ea~~~vr~glr~d-~~S~vCwHv~gl~~R~   87 (700)
T KOG1156|consen   11 FRRALKCY-ETKQYKKGLKLIKQILKK-FPEHGESLAMKGLTLNCLGKKEEAYELVRLGLRND-LKSHVCWHVLGLLQRS   87 (700)
T ss_pred             HHHHHHHH-HHHHHHhHHHHHHHHHHh-CCccchhHHhccchhhcccchHHHHHHHHHHhccC-cccchhHHHHHHHHhh
Confidence            33344433 456667777777766663 22233444444444566677777777776665532 3455667777766667


Q ss_pred             cCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChhHHHHH
Q 003295          335 LEKFDDANFVLKEMSVRGFVPNYVVYNTLIDGYCKKGNISEALKIRDDMVSKGMSPNSVTFNSLIHGFCKSGQMDNAENA  414 (833)
Q Consensus       335 ~g~~~~A~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~  414 (833)
                      ..++++|+..|......+.. |...|.-|.-.-.+.|+++.....-....+..+. ....|..++.++.-.|+...|..+
T Consensus        88 dK~Y~eaiKcy~nAl~~~~d-N~qilrDlslLQ~QmRd~~~~~~tr~~LLql~~~-~ra~w~~~Avs~~L~g~y~~A~~i  165 (700)
T KOG1156|consen   88 DKKYDEAIKCYRNALKIEKD-NLQILRDLSLLQIQMRDYEGYLETRNQLLQLRPS-QRASWIGFAVAQHLLGEYKMALEI  165 (700)
T ss_pred             hhhHHHHHHHHHHHHhcCCC-cHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhhhh-hHHHHHHHHHHHHHHHHHHHHHHH
Confidence            77777777777777765322 4566666665566667777666666666554221 445666677777777777777777


Q ss_pred             HHHHHHCCC-CCCcccHHHHHH------HHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHH
Q 003295          415 LEEMLSRGL-SINQGAYTSVIK------WLCINSRFNSALHFTKEMLLRNLRPGDGLLTLLVSGLCKNGKQAEATELCFR  487 (833)
Q Consensus       415 l~~~~~~g~-~~~~~~~~~li~------~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~  487 (833)
                      +++..+... .|+...+.-...      .....|.+++|++.+..-.                                 
T Consensus       166 l~ef~~t~~~~~s~~~~e~se~~Ly~n~i~~E~g~~q~ale~L~~~e---------------------------------  212 (700)
T KOG1156|consen  166 LEEFEKTQNTSPSKEDYEHSELLLYQNQILIEAGSLQKALEHLLDNE---------------------------------  212 (700)
T ss_pred             HHHHHHhhccCCCHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHhhh---------------------------------
Confidence            777766532 334433332222      2233444455544433221                                 


Q ss_pred             HHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHH-HHHHhcCChhhHH-HHHHHHHHCC---
Q 003295          488 LFEKGFTVNTVTSNALIHGMCEAGNLKEAGKLLMEMLQRGLILDKVTYNTLI-LGCCKDGKPEEGF-KLKEDMIKRG---  562 (833)
Q Consensus       488 ~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~l~~m~~~g~~~~~~~~~~li-~~~~~~g~~~~A~-~~~~~m~~~g---  562 (833)
                        .. +......-..-...+.+.+++++|..++..++.++  ||...|.... .++.+-.+.-+++ .+|...-+.-   
T Consensus       213 --~~-i~Dkla~~e~ka~l~~kl~~lEeA~~~y~~Ll~rn--Pdn~~Yy~~l~~~lgk~~d~~~~lk~ly~~ls~~y~r~  287 (700)
T KOG1156|consen  213 --KQ-IVDKLAFEETKADLLMKLGQLEEAVKVYRRLLERN--PDNLDYYEGLEKALGKIKDMLEALKALYAILSEKYPRH  287 (700)
T ss_pred             --hH-HHHHHHHhhhHHHHHHHHhhHHhHHHHHHHHHhhC--chhHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhcCccc
Confidence              11 00011111223334445555555555555555543  2333333222 2222222222222 2333322210   


Q ss_pred             CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHHH----HCC------
Q 003295          563 IQPDNYTYNLLLHGLCSLGKMEEAIELWEECKRTVFGPDIYTYGVMIDGFCKADKIEEGETLFNEMI----SKK------  632 (833)
Q Consensus       563 ~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~----~~~------  632 (833)
                      -.|-....+.    .....-.+..-.++....+.|+++-   +..+...|-...+.+-..++.-++.    ..|      
T Consensus       288 e~p~Rlplsv----l~~eel~~~vdkyL~~~l~Kg~p~v---f~dl~SLyk~p~k~~~le~Lvt~y~~~L~~~~~f~~~D  360 (700)
T KOG1156|consen  288 ECPRRLPLSV----LNGEELKEIVDKYLRPLLSKGVPSV---FKDLRSLYKDPEKVAFLEKLVTSYQHSLSGTGMFNFLD  360 (700)
T ss_pred             ccchhccHHH----hCcchhHHHHHHHHHHHhhcCCCch---hhhhHHHHhchhHhHHHHHHHHHHHhhcccccCCCccc
Confidence            0010000110    0001111222233333444443321   1222222211111110011111110    000      


Q ss_pred             ----CccCHHHHH--HHHHHHHHcCChHHHHHHHHHHHhCCCCCCHH-HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC
Q 003295          633 ----MELNPVVYN--TLIRAYCKIGNTTAAFRLSNDMKSRGILPTSV-TYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLP  705 (833)
Q Consensus       633 ----~~~~~~~~~--~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~-~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p  705 (833)
                          -+|....|.  .++..+-+.|+++.|....+.....  .|+.+ .|..=.+.+...|.+++|..++++..+.+ .|
T Consensus       361 ~~~~E~PttllWt~y~laqh~D~~g~~~~A~~yId~AIdH--TPTliEly~~KaRI~kH~G~l~eAa~~l~ea~elD-~a  437 (700)
T KOG1156|consen  361 DGKQEPPTTLLWTLYFLAQHYDKLGDYEVALEYIDLAIDH--TPTLIELYLVKARIFKHAGLLDEAAAWLDEAQELD-TA  437 (700)
T ss_pred             ccccCCchHHHHHHHHHHHHHHHcccHHHHHHHHHHHhcc--CchHHHHHHHHHHHHHhcCChHHHHHHHHHHHhcc-ch
Confidence                134444443  4566677778888888888877765  44433 34444567778888888888888887764 45


Q ss_pred             ChhHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHH--------HHHHH--HHHHHhcCCHHHHHHHHHHHH
Q 003295          706 NVACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKI--------TYTIM--IGGYCKLGDMKEAAKLLNVMA  769 (833)
Q Consensus       706 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~--------~~~~l--i~~~~~~g~~~~A~~~~~~m~  769 (833)
                      |..+-.--+.-..++++.++|.++.......|.  +..        +|-.+  +.+|.+.|++..|++-|....
T Consensus       438 DR~INsKcAKYmLrAn~i~eA~~~~skFTr~~~--~~~~~L~~mqcmWf~~E~g~ay~r~~k~g~ALKkfh~i~  509 (700)
T KOG1156|consen  438 DRAINSKCAKYMLRANEIEEAEEVLSKFTREGF--GAVNNLAEMQCMWFQLEDGEAYLRQNKLGLALKKFHEIE  509 (700)
T ss_pred             hHHHHHHHHHHHHHccccHHHHHHHHHhhhccc--chhhhHHHhhhHHHhHhhhHHHHHHHHHHHHHHHHhhHH
Confidence            655544555666677888888888877776653  221        23333  345777777777776665543

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.36  E-value=8.2e-08  Score=99.86  Aligned_cols=220  Identities=16%  Similarity=0.138  Sum_probs=132.6

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHH--HHHHH
Q 003295          220 TCNFLLNSLVKANEVQKGIEVFETMCRGVSPDVFLFSTAINAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNN--IIHGL  297 (833)
Q Consensus       220 ~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~--li~~~  297 (833)
                      .+-+=++.+...|++++|.+...+++.+.+.+...+.+-+-++.+.+++++|+.+.+.-..      ..+++.  +=.+|
T Consensus        14 ~l~t~ln~~~~~~e~e~a~k~~~Kil~~~pdd~~a~~cKvValIq~~ky~~ALk~ikk~~~------~~~~~~~~fEKAY   87 (652)
T KOG2376|consen   14 ALLTDLNRHGKNGEYEEAVKTANKILSIVPDDEDAIRCKVVALIQLDKYEDALKLIKKNGA------LLVINSFFFEKAY   87 (652)
T ss_pred             HHHHHHHHhccchHHHHHHHHHHHHHhcCCCcHhhHhhhHhhhhhhhHHHHHHHHHHhcch------hhhcchhhHHHHH
Confidence            3334456667888999999999999877778888888899999999999999965554332      112222  24555


Q ss_pred             H--hcCChhHHHHHHHHHHhCCCCCC-hhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHH-HcCCh
Q 003295          298 C--RNGRLYEAFHLKEKMVLREVEPS-LITYSILINGLIKLEKFDDANFVLKEMSVRGFVPNYVVYNTLIDGYC-KKGNI  373 (833)
Q Consensus       298 ~--~~g~~~~A~~~~~~m~~~~~~p~-~~t~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~y~~li~~~~-~~g~~  373 (833)
                      |  +.++.++|+..++     |+.++ ..+...-...+.+.|++++|..+|+.+.+.+..    .+...+.+-+ ..+-.
T Consensus        88 c~Yrlnk~Dealk~~~-----~~~~~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~d----d~d~~~r~nl~a~~a~  158 (652)
T KOG2376|consen   88 CEYRLNKLDEALKTLK-----GLDRLDDKLLELRAQVLYRLERYDEALDIYQHLAKNNSD----DQDEERRANLLAVAAA  158 (652)
T ss_pred             HHHHcccHHHHHHHHh-----cccccchHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCc----hHHHHHHHHHHHHHHh
Confidence            5  7889999999887     33333 346666677888999999999999999876432    2222222111 11111


Q ss_pred             HHHHHHHHHHHhCCCCCChhHHHHHHH---HHHhcCChhHHHHHHHHHHHCCC---C----CCcc-------cHHHHHHH
Q 003295          374 SEALKIRDDMVSKGMSPNSVTFNSLIH---GFCKSGQMDNAENALEEMLSRGL---S----INQG-------AYTSVIKW  436 (833)
Q Consensus       374 ~~A~~~~~~m~~~g~~p~~~~~~~li~---~~~~~g~~~~A~~~l~~~~~~g~---~----~~~~-------~~~~li~~  436 (833)
                      ..+. +.+   .....| ..+|..+.+   .+...|++.+|+++++.....+.   .    -+..       +-.-+.-+
T Consensus       159 l~~~-~~q---~v~~v~-e~syel~yN~Ac~~i~~gky~qA~elL~kA~~~~~e~l~~~d~~eEeie~el~~IrvQlayV  233 (652)
T KOG2376|consen  159 LQVQ-LLQ---SVPEVP-EDSYELLYNTACILIENGKYNQAIELLEKALRICREKLEDEDTNEEEIEEELNPIRVQLAYV  233 (652)
T ss_pred             hhHH-HHH---hccCCC-cchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHHHHHH
Confidence            1111 222   222223 234444443   45568999999999988843211   0    0000       11123334


Q ss_pred             HHhcCChhHHHHHHHHHHHCCCC
Q 003295          437 LCINSRFNSALHFTKEMLLRNLR  459 (833)
Q Consensus       437 ~~~~g~~~~A~~~~~~~~~~~~~  459 (833)
                      +...|+.++|.+++...+..+..
T Consensus       234 lQ~~Gqt~ea~~iy~~~i~~~~~  256 (652)
T KOG2376|consen  234 LQLQGQTAEASSIYVDIIKRNPA  256 (652)
T ss_pred             HHHhcchHHHHHHHHHHHHhcCC
Confidence            45566666666666666665543

>PRK12370 invasion protein regulator; Provisional

Probab=99.35  E-value=4e-10  Score=126.75  Aligned_cols=216  Identities=14%  Similarity=0.064  Sum_probs=137.9

Q ss_pred             cCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH---------hcCChhHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCC
Q 003295          197 LGFGYAIDVFSIFSSKGIFPSLKTCNFLLNSLV---------KANEVQKGIEVFETMCRGVSPDVFLFSTAINAFCKRGR  267 (833)
Q Consensus       197 ~~~~~A~~~f~~~~~~~~~p~~~~~~~ll~~~~---------~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  267 (833)
                      +.++.|++.|++..+.++. +...|..+..++.         ..+++++|...+++++.-.|.+..++..+...+...|+
T Consensus       275 ~~~~~A~~~~~~Al~ldP~-~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~Al~ldP~~~~a~~~lg~~~~~~g~  353 (553)
T PRK12370        275 YSLQQALKLLTQCVNMSPN-SIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKATELDHNNPQALGLLGLINTIHSE  353 (553)
T ss_pred             HHHHHHHHHHHHHHhcCCc-cHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHccC
Confidence            3456777778777766544 4455555544433         22346778888877775556677777777777777788


Q ss_pred             hhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCh-hhHHHHHHHHHhcCChhHHHHHHH
Q 003295          268 IEDAIGLFTKMEELGIAPNVVTYNNIIHGLCRNGRLYEAFHLKEKMVLREVEPSL-ITYSILINGLIKLEKFDDANFVLK  346 (833)
Q Consensus       268 ~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~-~t~~~li~~~~~~g~~~~A~~~~~  346 (833)
                      +++|...|++..+.++. +...|..+...+...|++++|...++++.+..  |+. ..+..++..+...|++++|...++
T Consensus       354 ~~~A~~~~~~Al~l~P~-~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l~--P~~~~~~~~~~~~~~~~g~~eeA~~~~~  430 (553)
T PRK12370        354 YIVGSLLFKQANLLSPI-SADIKYYYGWNLFMAGQLEEALQTINECLKLD--PTRAAAGITKLWITYYHTGIDDAIRLGD  430 (553)
T ss_pred             HHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CCChhhHHHHHHHHHhccCHHHHHHHHH
Confidence            88888888887776422 45567777777777888888888888777653  332 223334444566777777887777


Q ss_pred             HHHHCCCCCChhhHHHHHHHHHHcCChHHHHHHHHHHHhCCCCC-ChhHHHHHHHHHHhcCChhHHHHHHHHHHH
Q 003295          347 EMSVRGFVPNYVVYNTLIDGYCKKGNISEALKIRDDMVSKGMSP-NSVTFNSLIHGFCKSGQMDNAENALEEMLS  420 (833)
Q Consensus       347 ~m~~~g~~p~~~~y~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~~l~~~~~  420 (833)
                      +..+....-+...+..+...|...|++++|.+.++++...  .| +....+.+...|++.|  ++|...++.+.+
T Consensus       431 ~~l~~~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g--~~a~~~l~~ll~  501 (553)
T PRK12370        431 ELRSQHLQDNPILLSMQVMFLSLKGKHELARKLTKEISTQ--EITGLIAVNLLYAEYCQNS--ERALPTIREFLE  501 (553)
T ss_pred             HHHHhccccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhc--cchhHHHHHHHHHHHhccH--HHHHHHHHHHHH
Confidence            7765432113444666667777778888888877776554  22 3334455555666666  366666666554

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.31  E-value=1.3e-09  Score=108.90  Aligned_cols=200  Identities=15%  Similarity=0.108  Sum_probs=136.9

Q ss_pred             HhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 003295          602 IYTYGVMIDGFCKADKIEEGETLFNEMISKKMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHG  681 (833)
Q Consensus       602 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~  681 (833)
                      ...+..+...+...|++++|...+++..+..+. +...+..+...+...|++++|.+.+++..+.. +.+...+..+...
T Consensus        31 ~~~~~~la~~~~~~~~~~~A~~~~~~~l~~~p~-~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~~~~  108 (234)
T TIGR02521        31 AKIRVQLALGYLEQGDLEVAKENLDKALEHDPD-DYLAYLALALYYQQLGELEKAEDSFRRALTLN-PNNGDVLNNYGTF  108 (234)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHH
Confidence            344555666666677777777777766655433 45666667777777777777777777776653 3345566666777


Q ss_pred             HHhcCCHHHHHHHHHHHHHCCC-CCChhHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHH
Q 003295          682 LCNIGLIEDAKCLFDEMRKEGL-LPNVACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKE  760 (833)
Q Consensus       682 ~~~~g~~~~A~~~~~~m~~~g~-~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~  760 (833)
                      +...|++++|.+.++++.+... ......+..+...+...|++++|...+++..+.. +.+...+..+...+...|++++
T Consensus       109 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~  187 (234)
T TIGR02521       109 LCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQID-PQRPESLLELAELYYLRGQYKD  187 (234)
T ss_pred             HHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCChHHHHHHHHHHHHcCCHHH
Confidence            7777777777777777776421 1233456667777778888888888888877653 3445677777888888888888


Q ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHH
Q 003295          761 AAKLLNVMAEKGISPDSITYNVFMDGHCKGGNVEEAFKVCDRMLS  805 (833)
Q Consensus       761 A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  805 (833)
                      |...++++.+. .+.+...+..++..+...|+.++|..+.+.+..
T Consensus       188 A~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  231 (234)
T TIGR02521       188 ARAYLERYQQT-YNQTAESLWLGIRIARALGDVAAAQRYGAQLQK  231 (234)
T ss_pred             HHHHHHHHHHh-CCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            88888887775 234556666777777778888888887776654

Members of this family are designated PilF in ref (PubMed:8973346) and PilW in ref (PubMed:15612916). This outer membrane protein is required both for pilus stability and for pilus function such as adherence to human cells. Members of this family contain copies of the TPR (tetratricopeptide repeat) domain.

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.30  E-value=1.2e-09  Score=109.24  Aligned_cols=201  Identities=14%  Similarity=0.073  Sum_probs=146.3

Q ss_pred             CHHHHHHHHHHHHhcCChhHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHH
Q 003295          217 SLKTCNFLLNSLVKANEVQKGIEVFETMCRGVSPDVFLFSTAINAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIHG  296 (833)
Q Consensus       217 ~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~  296 (833)
                      ....+..+...+.+.|++++|...|+++....+.+...+..+...+...|++++|.+.+++..+.... +...+..+...
T Consensus        30 ~~~~~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~-~~~~~~~~~~~  108 (234)
T TIGR02521        30 AAKIRVQLALGYLEQGDLEVAKENLDKALEHDPDDYLAYLALALYYQQLGELEKAEDSFRRALTLNPN-NGDVLNNYGTF  108 (234)
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC-CHHHHHHHHHH
Confidence            35566777788888888888888888887545566777888888888888888888888888876432 45667777888


Q ss_pred             HHhcCChhHHHHHHHHHHhCCCC-CChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHHcCChHH
Q 003295          297 LCRNGRLYEAFHLKEKMVLREVE-PSLITYSILINGLIKLEKFDDANFVLKEMSVRGFVPNYVVYNTLIDGYCKKGNISE  375 (833)
Q Consensus       297 ~~~~g~~~~A~~~~~~m~~~~~~-p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~  375 (833)
                      +...|++++|.+.+++....... .....+..+...+...|++++|...+++....... +...+..+...+.+.|++++
T Consensus       109 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~la~~~~~~~~~~~  187 (234)
T TIGR02521       109 LCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQIDPQ-RPESLLELAELYYLRGQYKD  187 (234)
T ss_pred             HHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcC-ChHHHHHHHHHHHHcCCHHH
Confidence            88888888888888888764221 23345666777777888888888888887765321 35567777777888888888


Q ss_pred             HHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHH
Q 003295          376 ALKIRDDMVSKGMSPNSVTFNSLIHGFCKSGQMDNAENALEEMLS  420 (833)
Q Consensus       376 A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~l~~~~~  420 (833)
                      |.+.+++..+. .+.+...+..++..+...|+.++|..+.+.+..
T Consensus       188 A~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  231 (234)
T TIGR02521       188 ARAYLERYQQT-YNQTAESLWLGIRIARALGDVAAAQRYGAQLQK  231 (234)
T ss_pred             HHHHHHHHHHh-CCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            88888877765 233555666667777777888888777766654

Members of this family are designated PilF in ref (PubMed:8973346) and PilW in ref (PubMed:15612916). This outer membrane protein is required both for pilus stability and for pilus function such as adherence to human cells. Members of this family contain copies of the TPR (tetratricopeptide repeat) domain.

>PF13041 PPR_2: PPR repeat family

Probab=99.30  E-value=5.1e-12  Score=90.45  Aligned_cols=49  Identities=49%  Similarity=0.878  Sum_probs=21.1

Q ss_pred             CChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHH
Q 003295          285 PNVVTYNNIIHGLCRNGRLYEAFHLKEKMVLREVEPSLITYSILINGLI  333 (833)
Q Consensus       285 p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~  333 (833)
                      ||+++||++|++|++.|++++|.++|++|.+.|+.||..||+++|++||
T Consensus         1 P~~~~yn~li~~~~~~~~~~~a~~l~~~M~~~g~~P~~~Ty~~li~~~~   49 (50)
T PF13041_consen    1 PDVVTYNTLISGYCKAGKFEEALKLFKEMKKRGIKPDSYTYNILINGLC   49 (50)
T ss_pred             CchHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHc
Confidence            3444444444444444444444444444444444444444444444443

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=99.29  E-value=2.8e-07  Score=98.84  Aligned_cols=135  Identities=16%  Similarity=0.075  Sum_probs=91.8

Q ss_pred             hccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHhh--cCC--------CCCHHHHHHHHHHHHh
Q 003295          195 KNLGFGYAIDVFSIFSSKGIFPSLKTCNFLLNSLVKANEVQKGIEVFETMC--RGV--------SPDVFLFSTAINAFCK  264 (833)
Q Consensus       195 ~~~~~~~A~~~f~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~--~~~--------~~~~~~~~~li~~~~~  264 (833)
                      -.|+.+.|.+..+.+.      +..+|..|.+.+++.++++-|.-.+-.|.  +|.        .++ .+=..+...-..
T Consensus       740 tiG~MD~AfksI~~Ik------S~~vW~nmA~McVkT~RLDVAkVClGhm~~aRgaRAlR~a~q~~~-e~eakvAvLAie  812 (1416)
T KOG3617|consen  740 TIGSMDAAFKSIQFIK------SDSVWDNMASMCVKTRRLDVAKVCLGHMKNARGARALRRAQQNGE-EDEAKVAVLAIE  812 (1416)
T ss_pred             EeccHHHHHHHHHHHh------hhHHHHHHHHHhhhhccccHHHHhhhhhhhhhhHHHHHHHHhCCc-chhhHHHHHHHH
Confidence            3577777776655443      56789999999999999998887776664  231        121 221222233356


Q ss_pred             cCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChhHHHHH
Q 003295          265 RGRIEDAIGLFTKMEELGIAPNVVTYNNIIHGLCRNGRLYEAFHLKEKMVLREVEPSLITYSILINGLIKLEKFDDANFV  344 (833)
Q Consensus       265 ~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~  344 (833)
                      .|.+++|..+|.+-++         |..|=..|-..|++++|.++-+.--..   .=-.||.....-+-..++.+.|++.
T Consensus       813 LgMlEeA~~lYr~ckR---------~DLlNKlyQs~g~w~eA~eiAE~~DRi---HLr~Tyy~yA~~Lear~Di~~Aley  880 (1416)
T KOG3617|consen  813 LGMLEEALILYRQCKR---------YDLLNKLYQSQGMWSEAFEIAETKDRI---HLRNTYYNYAKYLEARRDIEAALEY  880 (1416)
T ss_pred             HhhHHHHHHHHHHHHH---------HHHHHHHHHhcccHHHHHHHHhhccce---ehhhhHHHHHHHHHhhccHHHHHHH
Confidence            7999999999998876         445556677889999999886543221   1234666667777778889999888


Q ss_pred             HHHH
Q 003295          345 LKEM  348 (833)
Q Consensus       345 ~~~m  348 (833)
                      |++.
T Consensus       881 yEK~  884 (1416)
T KOG3617|consen  881 YEKA  884 (1416)
T ss_pred             HHhc
Confidence            8864

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=99.28  E-value=8.3e-07  Score=95.41  Aligned_cols=404  Identities=14%  Similarity=0.115  Sum_probs=224.8

Q ss_pred             CCHHHHHHHHHHHHhCCCchhHHHHHHHHHcCCCCccccCCCcchHHHHHHHHhhhhcccCCcchhhhHHHHHHHHHHhh
Q 003295          115 FTVRSYCLLIRLLLFSNLLSPARLLLIRLIDGKMPVLYASNPSIRHIEIASQMVDLNVTSEPALGVQIADLLVHVYCTQF  194 (833)
Q Consensus       115 ~~~~~~~~l~~~l~~~~~~~~a~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  194 (833)
                      -+-..|..|++.+++.++++.|.-.+..|-...           ...++.++..+    .+ .....     +.++  ..
T Consensus       755 kS~~vW~nmA~McVkT~RLDVAkVClGhm~~aR-----------gaRAlR~a~q~----~~-e~eak-----vAvL--Ai  811 (1416)
T KOG3617|consen  755 KSDSVWDNMASMCVKTRRLDVAKVCLGHMKNAR-----------GARALRRAQQN----GE-EDEAK-----VAVL--AI  811 (1416)
T ss_pred             hhhHHHHHHHHHhhhhccccHHHHhhhhhhhhh-----------hHHHHHHHHhC----Cc-chhhH-----HHHH--HH
Confidence            345578899999999999999988888876533           11122222110    00 01111     1111  12


Q ss_pred             hccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHH
Q 003295          195 KNLGFGYAIDVFSIFSSKGIFPSLKTCNFLLNSLVKANEVQKGIEVFETMCRGVSPDVFLFSTAINAFCKRGRIEDAIGL  274 (833)
Q Consensus       195 ~~~~~~~A~~~f~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~  274 (833)
                      ..|.+++|..+|++-.+.         ..|=..|...|++++|.++-+.--+ + .=..||.....-+-..++.+.|++.
T Consensus       812 eLgMlEeA~~lYr~ckR~---------DLlNKlyQs~g~w~eA~eiAE~~DR-i-HLr~Tyy~yA~~Lear~Di~~Aley  880 (1416)
T KOG3617|consen  812 ELGMLEEALILYRQCKRY---------DLLNKLYQSQGMWSEAFEIAETKDR-I-HLRNTYYNYAKYLEARRDIEAALEY  880 (1416)
T ss_pred             HHhhHHHHHHHHHHHHHH---------HHHHHHHHhcccHHHHHHHHhhccc-e-ehhhhHHHHHHHHHhhccHHHHHHH
Confidence            457789999999886653         3444556678999999888764321 1 2235677777778888999999999


Q ss_pred             HHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHH-HHHHHhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCC
Q 003295          275 FTKMEELGIAPNVVTYNNIIHGLCRNGRLYEAFHL-KEKMVLREVEPSLITYSILINGLIKLEKFDDANFVLKEMSVRGF  353 (833)
Q Consensus       275 ~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~-~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~g~  353 (833)
                      |++....    --.++. ++.      +.-.+++. .+++      .|...|.-...-+-..|+++.|+.++....+   
T Consensus       881 yEK~~~h----afev~r-mL~------e~p~~~e~Yv~~~------~d~~L~~WWgqYlES~GemdaAl~~Y~~A~D---  940 (1416)
T KOG3617|consen  881 YEKAGVH----AFEVFR-MLK------EYPKQIEQYVRRK------RDESLYSWWGQYLESVGEMDAALSFYSSAKD---  940 (1416)
T ss_pred             HHhcCCh----HHHHHH-HHH------hChHHHHHHHHhc------cchHHHHHHHHHHhcccchHHHHHHHHHhhh---
Confidence            9875321    111111 111      11222222 2222      2334444455555567778888777776654   


Q ss_pred             CCChhhHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCcccHHHH
Q 003295          354 VPNYVVYNTLIDGYCKKGNISEALKIRDDMVSKGMSPNSVTFNSLIHGFCKSGQMDNAENALEEMLSRGLSINQGAYTSV  433 (833)
Q Consensus       354 ~p~~~~y~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~l~~~~~~g~~~~~~~~~~l  433 (833)
                            |-+++...|-.|+.++|-++-++-.      |....-.|.+.|-..|++.+|..+|.++..         +...
T Consensus       941 ------~fs~VrI~C~qGk~~kAa~iA~esg------d~AAcYhlaR~YEn~g~v~~Av~FfTrAqa---------fsnA  999 (1416)
T KOG3617|consen  941 ------YFSMVRIKCIQGKTDKAARIAEESG------DKAACYHLARMYENDGDVVKAVKFFTRAQA---------FSNA  999 (1416)
T ss_pred             ------hhhheeeEeeccCchHHHHHHHhcc------cHHHHHHHHHHhhhhHHHHHHHHHHHHHHH---------HHHH
Confidence                  5667777777788888777766532      445555677777777888888777776543         3333


Q ss_pred             HHHHHhcCChhH---------------HHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHH--------HHH
Q 003295          434 IKWLCINSRFNS---------------ALHFTKEMLLRNLRPGDGLLTLLVSGLCKNGKQAEATELCFR--------LFE  490 (833)
Q Consensus       434 i~~~~~~g~~~~---------------A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~--------~~~  490 (833)
                      |+.+-.++.-|+               |-+.|.+.   |     .-....+..|-+.|.+.+|+++.-+        ++.
T Consensus      1000 IRlcKEnd~~d~L~nlal~s~~~d~v~aArYyEe~---g-----~~~~~AVmLYHkAGm~~kALelAF~tqQf~aL~lIa 1071 (1416)
T KOG3617|consen 1000 IRLCKENDMKDRLANLALMSGGSDLVSAARYYEEL---G-----GYAHKAVMLYHKAGMIGKALELAFRTQQFSALDLIA 1071 (1416)
T ss_pred             HHHHHhcCHHHHHHHHHhhcCchhHHHHHHHHHHc---c-----hhhhHHHHHHHhhcchHHHHHHHHhhcccHHHHHHH
Confidence            333222222111               11111111   0     0112233445566666666554322        111


Q ss_pred             C--CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCC-CCCCH
Q 003295          491 K--GFTVNTVTSNALIHGMCEAGNLKEAGKLLMEMLQRGLILDKVTYNTLILGCCKDGKPEEGFKLKEDMIKRG-IQPDN  567 (833)
Q Consensus       491 ~--g~~~~~~~~~~li~~~~~~g~~~~A~~~l~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g-~~p~~  567 (833)
                      +  ....|+...+.-.+.++...++++|..++-..++.         ...+ .+|+..+..-..++-+.|.-.. -.|+.
T Consensus      1072 ~DLd~~sDp~ll~RcadFF~~~~qyekAV~lL~~ar~~---------~~Al-qlC~~~nv~vtee~aE~mTp~Kd~~~~e 1141 (1416)
T KOG3617|consen 1072 KDLDAGSDPKLLRRCADFFENNQQYEKAVNLLCLAREF---------SGAL-QLCKNRNVRVTEEFAELMTPTKDDMPNE 1141 (1416)
T ss_pred             HhcCCCCCHHHHHHHHHHHHhHHHHHHHHHHHHHHHHH---------HHHH-HHHhcCCCchhHHHHHhcCcCcCCCccH
Confidence            1  23346667777777777777888887777665542         1112 3444555444444444443211 22333


Q ss_pred             ----HHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHccCCHHH
Q 003295          568 ----YTYNLLLHGLCSLGKMEEAIELWEECKRTVFGPDIYTYGVMIDGFCKADKIEE  620 (833)
Q Consensus       568 ----~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  620 (833)
                          ..+..+...|.+.|.+..|-+-|-+.-.+         -.-+.++.+.|+.++
T Consensus      1142 ~~R~~vLeqvae~c~qQG~Yh~AtKKfTQAGdK---------l~AMraLLKSGdt~K 1189 (1416)
T KOG3617|consen 1142 QERKQVLEQVAELCLQQGAYHAATKKFTQAGDK---------LSAMRALLKSGDTQK 1189 (1416)
T ss_pred             HHHHHHHHHHHHHHHhccchHHHHHHHhhhhhH---------HHHHHHHHhcCCcce
Confidence                34556677888888888887777654321         123455666666554

>PF13041 PPR_2: PPR repeat family

Probab=99.28  E-value=7.8e-12  Score=89.47  Aligned_cols=50  Identities=46%  Similarity=0.972  Sum_probs=44.9

Q ss_pred             CCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHh
Q 003295          250 PDVFLFSTAINAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIHGLCR  299 (833)
Q Consensus       250 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~  299 (833)
                      ||+++||++|++|++.|++++|.++|++|.+.|+.||..||+++|++|||
T Consensus         1 P~~~~yn~li~~~~~~~~~~~a~~l~~~M~~~g~~P~~~Ty~~li~~~~k   50 (50)
T PF13041_consen    1 PDVVTYNTLISGYCKAGKFEEALKLFKEMKKRGIKPDSYTYNILINGLCK   50 (50)
T ss_pred             CchHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHcC
Confidence            78889999999999999999999999999999999999999999998875

>PRK12370 invasion protein regulator; Provisional

Probab=99.28  E-value=1.6e-09  Score=121.99  Aligned_cols=214  Identities=13%  Similarity=0.013  Sum_probs=113.9

Q ss_pred             CCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHH
Q 003295          581 GKMEEAIELWEECKRTVFGPDIYTYGVMIDGFCKADKIEEGETLFNEMISKKMELNPVVYNTLIRAYCKIGNTTAAFRLS  660 (833)
Q Consensus       581 g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~  660 (833)
                      +++++|...++++.+.. +.+...+..+...+...|++++|...|++.++..+. +...+..+...+...|++++|...+
T Consensus       318 ~~~~~A~~~~~~Al~ld-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~P~-~~~a~~~lg~~l~~~G~~~eAi~~~  395 (553)
T PRK12370        318 NAMIKAKEHAIKATELD-HNNPQALGLLGLINTIHSEYIVGSLLFKQANLLSPI-SADIKYYYGWNLFMAGQLEEALQTI  395 (553)
T ss_pred             hHHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            33556666666665543 224555555555666666666666666666665433 4555666666666666666666666


Q ss_pred             HHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC-ChhHHHHHHHHHHhcCChhHHHHHHHHHHhCCCC
Q 003295          661 NDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLP-NVACYTALIGGYCKLGQMDEAESVLQEMASINIH  739 (833)
Q Consensus       661 ~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~  739 (833)
                      ++..+.... +...+..++..+...|++++|...++++.+.. +| +...+..+..++...|+.++|...++++...  .
T Consensus       396 ~~Al~l~P~-~~~~~~~~~~~~~~~g~~eeA~~~~~~~l~~~-~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~--~  471 (553)
T PRK12370        396 NECLKLDPT-RAAAGITKLWITYYHTGIDDAIRLGDELRSQH-LQDNPILLSMQVMFLSLKGKHELARKLTKEISTQ--E  471 (553)
T ss_pred             HHHHhcCCC-ChhhHHHHHHHHHhccCHHHHHHHHHHHHHhc-cccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhc--c
Confidence            666665322 22222233334455666677777766666542 23 3344555666666677777777776665542  2


Q ss_pred             CC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHc-CCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHH
Q 003295          740 PN-KITYTIMIGGYCKLGDMKEAAKLLNVMAEK-GISPDSITYNVFMDGHCKGGNVEEAFKVCDRMLS  805 (833)
Q Consensus       740 p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  805 (833)
                      |+ ....+.+...|+..|  ++|...++++.+. ...+....+.  ...+.-.|+.+.+..+ +++.+
T Consensus       472 ~~~~~~~~~l~~~~~~~g--~~a~~~l~~ll~~~~~~~~~~~~~--~~~~~~~g~~~~~~~~-~~~~~  534 (553)
T PRK12370        472 ITGLIAVNLLYAEYCQNS--ERALPTIREFLESEQRIDNNPGLL--PLVLVAHGEAIAEKMW-NKFKN  534 (553)
T ss_pred             chhHHHHHHHHHHHhccH--HHHHHHHHHHHHHhhHhhcCchHH--HHHHHHHhhhHHHHHH-HHhhc
Confidence            32 334444445555555  3555555555442 1112222222  2223334555555554 55554

>PF12569 NARP1: NMDA receptor-regulated protein 1 ; InterPro: IPR021183 This group represents N-terminal acetyltransferase A (NatA) auxiliary subunit and represents a non-catalytic component of the NatA N-terminal acetyltransferase, which catalyzes acetylation of proteins beginning with Met-Ser, Met-Gly and Met-Ala

Probab=99.25  E-value=1.2e-07  Score=102.79  Aligned_cols=306  Identities=17%  Similarity=0.111  Sum_probs=172.7

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHHcCCCCC-hhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHH-HHHHHh-
Q 003295          258 AINAFCKRGRIEDAIGLFTKMEELGIAPN-VVTYNNIIHGLCRNGRLYEAFHLKEKMVLREVEPSLITYSIL-INGLIK-  334 (833)
Q Consensus       258 li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~l-i~~~~~-  334 (833)
                      ....+...|++++|++.+++-...  -+| ...+......+.+.|+.++|...+..+++.+  ||...|... ..+..- 
T Consensus        10 ~~~il~e~g~~~~AL~~L~~~~~~--I~Dk~~~~E~rA~ll~kLg~~~eA~~~y~~Li~rN--Pdn~~Yy~~L~~~~g~~   85 (517)
T PF12569_consen   10 KNSILEEAGDYEEALEHLEKNEKQ--ILDKLAVLEKRAELLLKLGRKEEAEKIYRELIDRN--PDNYDYYRGLEEALGLQ   85 (517)
T ss_pred             HHHHHHHCCCHHHHHHHHHhhhhh--CCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC--CCcHHHHHHHHHHHhhh
Confidence            345566778888888887775543  234 3444556677777788888888888887764  555554433 333311 


Q ss_pred             ----cCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHHcCChH-HHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChh
Q 003295          335 ----LEKFDDANFVLKEMSVRGFVPNYVVYNTLIDGYCKKGNIS-EALKIRDDMVSKGMSPNSVTFNSLIHGFCKSGQMD  409 (833)
Q Consensus       335 ----~g~~~~A~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~-~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~  409 (833)
                          ..+.+....+++++...-  |......-+.-.+..-..+. .+..++..+..+|++   .+++.|-..|....+.+
T Consensus        86 ~~~~~~~~~~~~~~y~~l~~~y--p~s~~~~rl~L~~~~g~~F~~~~~~yl~~~l~KgvP---slF~~lk~Ly~d~~K~~  160 (517)
T PF12569_consen   86 LQLSDEDVEKLLELYDELAEKY--PRSDAPRRLPLDFLEGDEFKERLDEYLRPQLRKGVP---SLFSNLKPLYKDPEKAA  160 (517)
T ss_pred             cccccccHHHHHHHHHHHHHhC--ccccchhHhhcccCCHHHHHHHHHHHHHHHHhcCCc---hHHHHHHHHHcChhHHH
Confidence                124566667777776552  33222222222222212222 344555666666654   24445555555444433


Q ss_pred             HHHHHHHHHHHCCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCh--hhHHHHHHHHHhcCCHHHHHHHHHH
Q 003295          410 NAENALEEMLSRGLSINQGAYTSVIKWLCINSRFNSALHFTKEMLLRNLRPGD--GLLTLLVSGLCKNGKQAEATELCFR  487 (833)
Q Consensus       410 ~A~~~l~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~--~~~~~li~~~~~~g~~~~A~~~~~~  487 (833)
                      -..+++.......-.               .+.+...-      ....-.|..  .++..+...|-..|++++|++.+++
T Consensus       161 ~i~~l~~~~~~~l~~---------------~~~~~~~~------~~~~~~p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~  219 (517)
T PF12569_consen  161 IIESLVEEYVNSLES---------------NGSFSNGD------DEEKEPPSTLLWTLYFLAQHYDYLGDYEKALEYIDK  219 (517)
T ss_pred             HHHHHHHHHHHhhcc---------------cCCCCCcc------ccccCCchHHHHHHHHHHHHHHHhCCHHHHHHHHHH
Confidence            334444433321000               00000000      000011222  2445556667777777888887777


Q ss_pred             HHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCH
Q 003295          488 LFEKGFTVNTVTSNALIHGMCEAGNLKEAGKLLMEMLQRGLILDKVTYNTLILGCCKDGKPEEGFKLKEDMIKRGIQPDN  567 (833)
Q Consensus       488 ~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~l~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~  567 (833)
                      .+++.+. .+..|..-...+-+.|++++|.+.++...+.+.. |...-+..+..+.+.|++++|.+++....+.+..|-.
T Consensus       220 aI~htPt-~~ely~~KarilKh~G~~~~Aa~~~~~Ar~LD~~-DRyiNsK~aKy~LRa~~~e~A~~~~~~Ftr~~~~~~~  297 (517)
T PF12569_consen  220 AIEHTPT-LVELYMTKARILKHAGDLKEAAEAMDEARELDLA-DRYINSKCAKYLLRAGRIEEAEKTASLFTREDVDPLS  297 (517)
T ss_pred             HHhcCCC-cHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCChh-hHHHHHHHHHHHHHCCCHHHHHHHHHhhcCCCCCccc
Confidence            7776432 4667777777888888888888888888777665 6666677777777888888888888777766543321


Q ss_pred             --------HHHHHHHHHHHhcCCHHHHHHHHHHHhh
Q 003295          568 --------YTYNLLLHGLCSLGKMEEAIELWEECKR  595 (833)
Q Consensus       568 --------~~~~~li~~~~~~g~~~~A~~~~~~~~~  595 (833)
                              +-......+|.+.|++..|++.|..+.+
T Consensus       298 ~L~~mQc~Wf~~e~a~a~~r~~~~~~ALk~~~~v~k  333 (517)
T PF12569_consen  298 NLNDMQCMWFETECAEAYLRQGDYGLALKRFHAVLK  333 (517)
T ss_pred             CHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence                    1123345677777777777776665544

N-terminal acetylation plays a role in normal eukaryotic translation and processing, protect against proteolytic degradation and protein turnover. NAT1 anchors ARD1 and NAT5 to the ribosome and may present the N- terminal of nascent polypeptides for acetylation [], [].

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=99.25  E-value=2.6e-07  Score=101.58  Aligned_cols=581  Identities=10%  Similarity=-0.034  Sum_probs=303.4

Q ss_pred             HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHH
Q 003295          199 FGYAIDVFSIFSSKGIFPSLKTCNFLLNSLVKANEVQKGIEVFETMCRGVSPDVFLFSTAINAFCKRGRIEDAIGLFTKM  278 (833)
Q Consensus       199 ~~~A~~~f~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m  278 (833)
                      ...|+..|-+..+.+.. =..+|..|...|...-+...|.+.|+.+..-...|...+-.....|.+..++++|..+.-..
T Consensus       474 ~~~al~ali~alrld~~-~apaf~~LG~iYrd~~Dm~RA~kCf~KAFeLDatdaeaaaa~adtyae~~~we~a~~I~l~~  552 (1238)
T KOG1127|consen  474 SALALHALIRALRLDVS-LAPAFAFLGQIYRDSDDMKRAKKCFDKAFELDATDAEAAAASADTYAEESTWEEAFEICLRA  552 (1238)
T ss_pred             HHHHHHHHHHHHhcccc-hhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCchhhhhHHHHHHHhhccccHHHHHHHHHHH
Confidence            45566666555555433 24466677777766667777777777776545566677777777777777777777763333


Q ss_pred             HHcCCC-CChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCC-
Q 003295          279 EELGIA-PNVVTYNNIIHGLCRNGRLYEAFHLKEKMVLREVEPSLITYSILINGLIKLEKFDDANFVLKEMSVRGFVPN-  356 (833)
Q Consensus       279 ~~~g~~-p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-  356 (833)
                      .+.... .-...|.-+.-.|...++...|...|+...... +.|...|..+..+|.+.|++..|.++|.+....  .|+ 
T Consensus       553 ~qka~a~~~k~nW~~rG~yyLea~n~h~aV~~fQsALR~d-PkD~n~W~gLGeAY~~sGry~~AlKvF~kAs~L--rP~s  629 (1238)
T KOG1127|consen  553 AQKAPAFACKENWVQRGPYYLEAHNLHGAVCEFQSALRTD-PKDYNLWLGLGEAYPESGRYSHALKVFTKASLL--RPLS  629 (1238)
T ss_pred             hhhchHHHHHhhhhhccccccCccchhhHHHHHHHHhcCC-chhHHHHHHHHHHHHhcCceehHHHhhhhhHhc--CcHh
Confidence            222100 001122223344556677777777777776653 446677777777777777777777777776654  333 


Q ss_pred             hhhHHHHHHHHHHcCChHHHHHHHHHHHhCC------CCCChhHHHHHHHHHHhcCChhHHHHHHHHHHHC-------CC
Q 003295          357 YVVYNTLIDGYCKKGNISEALKIRDDMVSKG------MSPNSVTFNSLIHGFCKSGQMDNAENALEEMLSR-------GL  423 (833)
Q Consensus       357 ~~~y~~li~~~~~~g~~~~A~~~~~~m~~~g------~~p~~~~~~~li~~~~~~g~~~~A~~~l~~~~~~-------g~  423 (833)
                      .+.---..-..|..|++.+|...+......-      ..--..++-.+...+.-.|-...|..+++.-++.       ..
T Consensus       630 ~y~~fk~A~~ecd~GkYkeald~l~~ii~~~s~e~~~q~gLaE~~ir~akd~~~~gf~~kavd~~eksie~f~~~l~h~~  709 (1238)
T KOG1127|consen  630 KYGRFKEAVMECDNGKYKEALDALGLIIYAFSLERTGQNGLAESVIRDAKDSAITGFQKKAVDFFEKSIESFIVSLIHSL  709 (1238)
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHhh
Confidence            2222223334566777777777776655420      0001112222222233334444444444443321       11


Q ss_pred             CCCcccHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCH---H---HHHHHHHHHHHCCCCCCH
Q 003295          424 SINQGAYTSVIKWLCINSRFNSALHFTKEMLLRNLRPGDGLLTLLVSGLCKNGKQ---A---EATELCFRLFEKGFTVNT  497 (833)
Q Consensus       424 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~---~---~A~~~~~~~~~~g~~~~~  497 (833)
                      ..+...|..+.+          |..+|-... .+ .|+......+..-.-+.+..   +   -+.+.+-.-.  ....+.
T Consensus       710 ~~~~~~Wi~asd----------ac~~f~q~e-~~-~vn~h~l~il~~q~e~~~~l~~~d~l~Lg~~c~~~hl--sl~~~~  775 (1238)
T KOG1127|consen  710 QSDRLQWIVASD----------ACYIFSQEE-PS-IVNMHYLIILSKQLEKTGALKKNDLLFLGYECGIAHL--SLAIHM  775 (1238)
T ss_pred             hhhHHHHHHHhH----------HHHHHHHhc-cc-chHHHHHHHHHHHHHhcccCcchhHHHHHHHHhhHHH--HHhhcc
Confidence            111111111111          111111111 00 12221111111111111211   1   0111111100  111234


Q ss_pred             HHHHHHHHHHHh--------cCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHH
Q 003295          498 VTSNALIHGMCE--------AGNLKEAGKLLMEMLQRGLILDKVTYNTLILGCCKDGKPEEGFKLKEDMIKRGIQPDNYT  569 (833)
Q Consensus       498 ~~~~~li~~~~~--------~g~~~~A~~~l~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~  569 (833)
                      .+|..|+..|.+        ..+...|+..+.+..+..-. +..+|+.|.-. ...|++.-|..-|-+-+... +....+
T Consensus       776 ~~WyNLGinylr~f~~l~et~~~~~~Ai~c~KkaV~L~an-n~~~WnaLGVl-sg~gnva~aQHCfIks~~se-p~~~~~  852 (1238)
T KOG1127|consen  776 YPWYNLGINYLRYFLLLGETMKDACTAIRCCKKAVSLCAN-NEGLWNALGVL-SGIGNVACAQHCFIKSRFSE-PTCHCQ  852 (1238)
T ss_pred             chHHHHhHHHHHHHHHcCCcchhHHHHHHHHHHHHHHhhc-cHHHHHHHHHh-hccchhhhhhhhhhhhhhcc-ccchhh
Confidence            556666555544        12334677777777665433 66777776655 44566666666665555542 236677


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHHH----HCCCccCHHHHHHHHH
Q 003295          570 YNLLLHGLCSLGKMEEAIELWEECKRTVFGPDIYTYGVMIDGFCKADKIEEGETLFNEMI----SKKMELNPVVYNTLIR  645 (833)
Q Consensus       570 ~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~----~~~~~~~~~~~~~li~  645 (833)
                      |..+...+.+..+++.|...|....... +.|...|-.........|+.-++..+|..--    ..|-.++..-|-....
T Consensus       853 W~NlgvL~l~n~d~E~A~~af~~~qSLd-P~nl~~WlG~Ali~eavG~ii~~~~lfaHs~el~~~~gka~~f~Yw~c~te  931 (1238)
T KOG1127|consen  853 WLNLGVLVLENQDFEHAEPAFSSVQSLD-PLNLVQWLGEALIPEAVGRIIERLILFAHSDELCSKEGKAKKFQYWLCATE  931 (1238)
T ss_pred             eeccceeEEecccHHHhhHHHHhhhhcC-chhhHHHHHHHHhHHHHHHHHHHHHHHHhhHHhhccccccchhhHHHHHHH
Confidence            8778888888889999999988877653 3355566555555556777777777776521    1233344444444444


Q ss_pred             HHHHcCChHHHHHHHHHHHh---------CCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC-CCCCChhHHHH---
Q 003295          646 AYCKIGNTTAAFRLSNDMKS---------RGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKE-GLLPNVACYTA---  712 (833)
Q Consensus       646 ~~~~~g~~~~A~~~~~~m~~---------~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-g~~p~~~~~~~---  712 (833)
                      ....+|+.++-+...+++..         .+.+.+...|........+.+.++.|.++..+.+.- ...-+...|+.   
T Consensus       932 ~h~~Ng~~e~~I~t~~ki~sAs~al~~yf~~~p~~~fAy~~~gstlEhL~ey~~a~ela~RliglLe~k~d~sqynvak~ 1011 (1238)
T KOG1127|consen  932 IHLQNGNIEESINTARKISSASLALSYYFLGHPQLCFAYAANGSTLEHLEEYRAALELATRLIGLLELKLDESQYNVAKP 1011 (1238)
T ss_pred             HHHhccchHHHHHHhhhhhhhHHHHHHHHhcCcchhHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhh
Confidence            45566665554443333221         134556667777777777777777777776665431 11234444553   


Q ss_pred             -HHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc-CCCCCH-HHHHHHHHHHhc
Q 003295          713 -LIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAEK-GISPDS-ITYNVFMDGHCK  789 (833)
Q Consensus       713 -li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-g~~p~~-~~~~~l~~~~~~  789 (833)
                       +...++..|.++.|..-+.....   ..+..+-..-+.. .-.|+++++.+.|+++..- .-..|. +....++.....
T Consensus      1012 ~~gRL~lslgefe~A~~a~~~~~~---evdEdi~gt~l~l-Ffkndf~~sl~~fe~aLsis~se~d~vvLl~kva~~~g~ 1087 (1238)
T KOG1127|consen 1012 DAGRLELSLGEFESAKKASWKEWM---EVDEDIRGTDLTL-FFKNDFFSSLEFFEQALSISNSESDKVVLLCKVAVCMGL 1087 (1238)
T ss_pred             hhhhhhhhhcchhhHhhhhcccch---hHHHHHhhhhHHH-HHHhHHHHHHHHHHHHhhhcccccchhhhhHHHHHHHhh
Confidence             33445556677655544332211   1122222222222 3467888888888888762 111232 344555556666


Q ss_pred             CCCHHHHHHHHHHHHH
Q 003295          790 GGNVEEAFKVCDRMLS  805 (833)
Q Consensus       790 ~g~~~~A~~~~~~m~~  805 (833)
                      ++.-+.|...+-+...
T Consensus      1088 ~~~k~~A~~lLfe~~~ 1103 (1238)
T KOG1127|consen 1088 ARQKNDAQFLLFEVKS 1103 (1238)
T ss_pred             cccchHHHHHHHHHHH
Confidence            7777777776666554

>KOG1129 consensus TPR repeat-containing protein [General function prediction only]

Probab=99.24  E-value=1.1e-09  Score=104.93  Aligned_cols=228  Identities=14%  Similarity=0.072  Sum_probs=105.8

Q ss_pred             HHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhH-HHHHHHHHc
Q 003295          536 NTLILGCCKDGKPEEGFKLKEDMIKRGIQPDNYTYNLLLHGLCSLGKMEEAIELWEECKRTVFGPDIYTY-GVMIDGFCK  614 (833)
Q Consensus       536 ~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~-~~li~~~~~  614 (833)
                      +.+..+|.+.|.+.+|.+.+...++.  .|-+.||-.|-..|.+..+...|+.++.+-.+.  .|..+|| ......+..
T Consensus       227 ~Q~gkCylrLgm~r~AekqlqssL~q--~~~~dTfllLskvY~ridQP~~AL~~~~~gld~--fP~~VT~l~g~ARi~ea  302 (478)
T KOG1129|consen  227 QQMGKCYLRLGMPRRAEKQLQSSLTQ--FPHPDTFLLLSKVYQRIDQPERALLVIGEGLDS--FPFDVTYLLGQARIHEA  302 (478)
T ss_pred             HHHHHHHHHhcChhhhHHHHHHHhhc--CCchhHHHHHHHHHHHhccHHHHHHHHhhhhhc--CCchhhhhhhhHHHHHH
Confidence            34455555555555555555555544  333444455555555555555555555554443  2222232 223344444


Q ss_pred             cCCHHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHH
Q 003295          615 ADKIEEGETLFNEMISKKMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCL  694 (833)
Q Consensus       615 ~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~  694 (833)
                      .++.++|.++++...+.... ++.....+...|.-.++++-|+..++++.+.|+. +...|+.+.-+|.-.+.+|-++.-
T Consensus       303 m~~~~~a~~lYk~vlk~~~~-nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~~-speLf~NigLCC~yaqQ~D~~L~s  380 (478)
T KOG1129|consen  303 MEQQEDALQLYKLVLKLHPI-NVEAIACIAVGYFYDNNPEMALRYYRRILQMGAQ-SPELFCNIGLCCLYAQQIDLVLPS  380 (478)
T ss_pred             HHhHHHHHHHHHHHHhcCCc-cceeeeeeeeccccCCChHHHHHHHHHHHHhcCC-ChHHHhhHHHHHHhhcchhhhHHH
Confidence            45555555555555444322 3444444444444445555555555555555433 444444444444445555555555


Q ss_pred             HHHHHHCCCCCC--hhHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 003295          695 FDEMRKEGLLPN--VACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAE  770 (833)
Q Consensus       695 ~~~m~~~g~~p~--~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  770 (833)
                      |++....--.|+  ..+|..+.......|++.-|.+.|+-....+ ..+...++.|.-.-.+.|++++|..+++.+..
T Consensus       381 f~RAlstat~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d-~~h~ealnNLavL~~r~G~i~~Arsll~~A~s  457 (478)
T KOG1129|consen  381 FQRALSTATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTSD-AQHGEALNNLAVLAARSGDILGARSLLNAAKS  457 (478)
T ss_pred             HHHHHhhccCcchhhhhhhccceeEEeccchHHHHHHHHHHhccC-cchHHHHHhHHHHHhhcCchHHHHHHHHHhhh
Confidence            554443321222  1234444444444455555555554444332 22334444444444445555555555444443

>KOG1129 consensus TPR repeat-containing protein [General function prediction only]

Probab=99.24  E-value=8.6e-10  Score=105.62  Aligned_cols=238  Identities=12%  Similarity=0.023  Sum_probs=202.7

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCccCHHHHHHHHH
Q 003295          566 DNYTYNLLLHGLCSLGKMEEAIELWEECKRTVFGPDIYTYGVMIDGFCKADKIEEGETLFNEMISKKMELNPVVYNTLIR  645 (833)
Q Consensus       566 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~  645 (833)
                      |-+.-+.+..+|.+.|.+.+|.+.++...+.  .|-+.||..|-..|.+..+.+.|+.++.+-++.-+. |+.....+..
T Consensus       222 dwwWk~Q~gkCylrLgm~r~AekqlqssL~q--~~~~dTfllLskvY~ridQP~~AL~~~~~gld~fP~-~VT~l~g~AR  298 (478)
T KOG1129|consen  222 DWWWKQQMGKCYLRLGMPRRAEKQLQSSLTQ--FPHPDTFLLLSKVYQRIDQPERALLVIGEGLDSFPF-DVTYLLGQAR  298 (478)
T ss_pred             hHHHHHHHHHHHHHhcChhhhHHHHHHHhhc--CCchhHHHHHHHHHHHhccHHHHHHHHhhhhhcCCc-hhhhhhhhHH
Confidence            4444567889999999999999999998876  578889999999999999999999999999887433 4444556777


Q ss_pred             HHHHcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCChhH
Q 003295          646 AYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDE  725 (833)
Q Consensus       646 ~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~  725 (833)
                      .+...++.++|.++++...+.. +.++....++..+|.-.++.|-|+.+++++++.|+ -+...|+.+.-+|.-.+++|-
T Consensus       299 i~eam~~~~~a~~lYk~vlk~~-~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~-~speLf~NigLCC~yaqQ~D~  376 (478)
T KOG1129|consen  299 IHEAMEQQEDALQLYKLVLKLH-PINVEAIACIAVGYFYDNNPEMALRYYRRILQMGA-QSPELFCNIGLCCLYAQQIDL  376 (478)
T ss_pred             HHHHHHhHHHHHHHHHHHHhcC-CccceeeeeeeeccccCCChHHHHHHHHHHHHhcC-CChHHHhhHHHHHHhhcchhh
Confidence            8888999999999999998874 45777778888889999999999999999999984 578889999888889999999


Q ss_pred             HHHHHHHHHhCCCCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHH
Q 003295          726 AESVLQEMASINIHPN--KITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISPDSITYNVFMDGHCKGGNVEEAFKVCDRM  803 (833)
Q Consensus       726 A~~~~~~m~~~g~~p~--~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m  803 (833)
                      ++.-|++..+.--.|+  ...|..+.......|++.-|.+-|+-.+..+ ..+...++.|.-.-.+.|+.++|..++...
T Consensus       377 ~L~sf~RAlstat~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d-~~h~ealnNLavL~~r~G~i~~Arsll~~A  455 (478)
T KOG1129|consen  377 VLPSFQRALSTATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTSD-AQHGEALNNLAVLAARSGDILGARSLLNAA  455 (478)
T ss_pred             hHHHHHHHHhhccCcchhhhhhhccceeEEeccchHHHHHHHHHHhccC-cchHHHHHhHHHHHhhcCchHHHHHHHHHh
Confidence            9999999987544455  3579999999999999999999999988753 235588999999899999999999999988


Q ss_pred             HHCCCCCC
Q 003295          804 LSEGLSLD  811 (833)
Q Consensus       804 ~~~g~~p~  811 (833)
                      ..  +.|+
T Consensus       456 ~s--~~P~  461 (478)
T KOG1129|consen  456 KS--VMPD  461 (478)
T ss_pred             hh--hCcc
Confidence            77  6666

>KOG1174 consensus Anaphase-promoting complex (APC), subunit 7 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=99.22  E-value=5.1e-07  Score=89.79  Aligned_cols=293  Identities=13%  Similarity=0.043  Sum_probs=184.8

Q ss_pred             hcCCHHHHHHHHHHHHHC-CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCChhhHH
Q 003295          474 KNGKQAEATELCFRLFEK-GFTVNTVTSNALIHGMCEAGNLKEAGKLLMEMLQRGLILDKVTYNTLILGCCKDGKPEEGF  552 (833)
Q Consensus       474 ~~g~~~~A~~~~~~~~~~-g~~~~~~~~~~li~~~~~~g~~~~A~~~l~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~  552 (833)
                      -.++...|...+-.+... -++.|+.....+..++...|+.++|...|++....++. +....-.....+.+.|+.+...
T Consensus       208 ~~~~hs~a~~t~l~le~~~~lr~NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~~dpy-~i~~MD~Ya~LL~~eg~~e~~~  286 (564)
T KOG1174|consen  208 FNFKHSDASQTFLMLHDNTTLRCNEHLMMALGKCLYYNGDYFQAEDIFSSTLCANPD-NVEAMDLYAVLLGQEGGCEQDS  286 (564)
T ss_pred             HhcccchhhhHHHHHHhhccCCccHHHHHHHhhhhhhhcCchHHHHHHHHHhhCChh-hhhhHHHHHHHHHhccCHhhHH
Confidence            344444444444333332 35557777788888888888888888888887765322 2222222233445677777777


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHHHHCC
Q 003295          553 KLKEDMIKRGIQPDNYTYNLLLHGLCSLGKMEEAIELWEECKRTVFGPDIYTYGVMIDGFCKADKIEEGETLFNEMISKK  632 (833)
Q Consensus       553 ~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~  632 (833)
                      .+...+....- -....|..-+......++++.|+.+-++.++.. +.+...|-.-...+...|+.++|.-.|+..+...
T Consensus       287 ~L~~~Lf~~~~-~ta~~wfV~~~~l~~~K~~~rAL~~~eK~I~~~-~r~~~alilKG~lL~~~~R~~~A~IaFR~Aq~La  364 (564)
T KOG1174|consen  287 ALMDYLFAKVK-YTASHWFVHAQLLYDEKKFERALNFVEKCIDSE-PRNHEALILKGRLLIALERHTQAVIAFRTAQMLA  364 (564)
T ss_pred             HHHHHHHhhhh-cchhhhhhhhhhhhhhhhHHHHHHHHHHHhccC-cccchHHHhccHHHHhccchHHHHHHHHHHHhcc
Confidence            77766665421 122223333334445677777877777776643 2233344334456677788888888888777664


Q ss_pred             CccCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHHHHHHHH-HHHHh-cCCHHHHHHHHHHHHHCCCCCCh-hH
Q 003295          633 MELNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLI-HGLCN-IGLIEDAKCLFDEMRKEGLLPNV-AC  709 (833)
Q Consensus       633 ~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li-~~~~~-~g~~~~A~~~~~~m~~~g~~p~~-~~  709 (833)
                      +- +...|..++..|...|++.+|..+-+...+. ++.+..+.+.+. ..|.- ...-++|.+++++..+.  .|+- ..
T Consensus       365 p~-rL~~Y~GL~hsYLA~~~~kEA~~~An~~~~~-~~~sA~~LtL~g~~V~~~dp~~rEKAKkf~ek~L~~--~P~Y~~A  440 (564)
T KOG1174|consen  365 PY-RLEIYRGLFHSYLAQKRFKEANALANWTIRL-FQNSARSLTLFGTLVLFPDPRMREKAKKFAEKSLKI--NPIYTPA  440 (564)
T ss_pred             hh-hHHHHHHHHHHHHhhchHHHHHHHHHHHHHH-hhcchhhhhhhcceeeccCchhHHHHHHHHHhhhcc--CCccHHH
Confidence            33 6778888888888888888877766665543 233555555442 22222 22346788888877763  4543 44


Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCH
Q 003295          710 YTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISPDS  777 (833)
Q Consensus       710 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~  777 (833)
                      .+.+...+...|+.++++.++++...  ..||....+.|.+.+...+.+.+|.+.|..++.  +.|+.
T Consensus       441 V~~~AEL~~~Eg~~~D~i~LLe~~L~--~~~D~~LH~~Lgd~~~A~Ne~Q~am~~y~~ALr--~dP~~  504 (564)
T KOG1174|consen  441 VNLIAELCQVEGPTKDIIKLLEKHLI--IFPDVNLHNHLGDIMRAQNEPQKAMEYYYKALR--QDPKS  504 (564)
T ss_pred             HHHHHHHHHhhCccchHHHHHHHHHh--hccccHHHHHHHHHHHHhhhHHHHHHHHHHHHh--cCccc
Confidence            56667777778888888888888776  467888888888888888888888888888777  44543

>PF12569 NARP1: NMDA receptor-regulated protein 1 ; InterPro: IPR021183 This group represents N-terminal acetyltransferase A (NatA) auxiliary subunit and represents a non-catalytic component of the NatA N-terminal acetyltransferase, which catalyzes acetylation of proteins beginning with Met-Ser, Met-Gly and Met-Ala

Probab=99.22  E-value=2.5e-07  Score=100.50  Aligned_cols=130  Identities=14%  Similarity=0.064  Sum_probs=97.5

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 003295          499 TSNALIHGMCEAGNLKEAGKLLMEMLQRGLILDKVTYNTLILGCCKDGKPEEGFKLKEDMIKRGIQPDNYTYNLLLHGLC  578 (833)
Q Consensus       499 ~~~~li~~~~~~g~~~~A~~~l~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~  578 (833)
                      ++.-+...|...|++++|++.+++.++..+. .+..|..-...+-+.|++++|.+.++........ |...-+-.+..+.
T Consensus       196 ~~~~lAqhyd~~g~~~~Al~~Id~aI~htPt-~~ely~~KarilKh~G~~~~Aa~~~~~Ar~LD~~-DRyiNsK~aKy~L  273 (517)
T PF12569_consen  196 TLYFLAQHYDYLGDYEKALEYIDKAIEHTPT-LVELYMTKARILKHAGDLKEAAEAMDEARELDLA-DRYINSKCAKYLL  273 (517)
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHhcCCC-cHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCChh-hHHHHHHHHHHHH
Confidence            4466678888889999999999988888554 5677888888888899999999999988887655 6676677778888


Q ss_pred             hcCCHHHHHHHHHHHhhCCCCCCHhh--------HHHHHHHHHccCCHHHHHHHHHHHHH
Q 003295          579 SLGKMEEAIELWEECKRTVFGPDIYT--------YGVMIDGFCKADKIEEGETLFNEMIS  630 (833)
Q Consensus       579 ~~g~~~~A~~~~~~~~~~~~~~~~~~--------~~~li~~~~~~g~~~~A~~~~~~~~~  630 (833)
                      +.|++++|.+++....+.+..|....        ......+|.+.|++..|++.|..+.+
T Consensus       274 Ra~~~e~A~~~~~~Ftr~~~~~~~~L~~mQc~Wf~~e~a~a~~r~~~~~~ALk~~~~v~k  333 (517)
T PF12569_consen  274 RAGRIEEAEKTASLFTREDVDPLSNLNDMQCMWFETECAEAYLRQGDYGLALKRFHAVLK  333 (517)
T ss_pred             HCCCHHHHHHHHHhhcCCCCCcccCHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            88999999998888877654332211        12345667778888888777666554

N-terminal acetylation plays a role in normal eukaryotic translation and processing, protect against proteolytic degradation and protein turnover. NAT1 anchors ARD1 and NAT5 to the ribosome and may present the N- terminal of nascent polypeptides for acetylation [], [].

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=99.22  E-value=6e-07  Score=98.83  Aligned_cols=624  Identities=11%  Similarity=-0.012  Sum_probs=296.9

Q ss_pred             hhHHHHHHHHHHhhhccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHhhcCCCCC--HHHHHHH
Q 003295          181 QIADLLVHVYCTQFKNLGFGYAIDVFSIFSSKGIFPSLKTCNFLLNSLVKANEVQKGIEVFETMCRGVSPD--VFLFSTA  258 (833)
Q Consensus       181 ~~~~~l~~~~~~~~~~~~~~~A~~~f~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~--~~~~~~l  258 (833)
                      +.+..|...|+...   +...|.++|+..-+.+.. +..++-...+.|++...+++|..+.-...+..+--  ...|.-.
T Consensus       493 paf~~LG~iYrd~~---Dm~RA~kCf~KAFeLDat-daeaaaa~adtyae~~~we~a~~I~l~~~qka~a~~~k~nW~~r  568 (1238)
T KOG1127|consen  493 PAFAFLGQIYRDSD---DMKRAKKCFDKAFELDAT-DAEAAAASADTYAEESTWEEAFEICLRAAQKAPAFACKENWVQR  568 (1238)
T ss_pred             HHHHHHHHHHHHHH---HHHHHHHHHHHHhcCCch-hhhhHHHHHHHhhccccHHHHHHHHHHHhhhchHHHHHhhhhhc
Confidence            45667777776432   445788999988777655 78889999999999999999999843332211111  2234345


Q ss_pred             HHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCh-hhHHHHHHHHHhcCC
Q 003295          259 INAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIHGLCRNGRLYEAFHLKEKMVLREVEPSL-ITYSILINGLIKLEK  337 (833)
Q Consensus       259 i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~-~t~~~li~~~~~~g~  337 (833)
                      .-.|.+.++...|..-|+...+..+. |...|..++.+|.+.|++..|.++|.++...  .|+. +.---.....|..|+
T Consensus       569 G~yyLea~n~h~aV~~fQsALR~dPk-D~n~W~gLGeAY~~sGry~~AlKvF~kAs~L--rP~s~y~~fk~A~~ecd~Gk  645 (1238)
T KOG1127|consen  569 GPYYLEAHNLHGAVCEFQSALRTDPK-DYNLWLGLGEAYPESGRYSHALKVFTKASLL--RPLSKYGRFKEAVMECDNGK  645 (1238)
T ss_pred             cccccCccchhhHHHHHHHHhcCCch-hHHHHHHHHHHHHhcCceehHHHhhhhhHhc--CcHhHHHHHHHHHHHHHhhh
Confidence            55677889999999999999886543 7788999999999999999999999998875  3443 222223344578899


Q ss_pred             hhHHHHHHHHHHHC------CCCCChhhHHHHHHHHHHcCChHHHHHHHHHHHh-------CCCCCChhHHHHHHHHHH-
Q 003295          338 FDDANFVLKEMSVR------GFVPNYVVYNTLIDGYCKKGNISEALKIRDDMVS-------KGMSPNSVTFNSLIHGFC-  403 (833)
Q Consensus       338 ~~~A~~~~~~m~~~------g~~p~~~~y~~li~~~~~~g~~~~A~~~~~~m~~-------~g~~p~~~~~~~li~~~~-  403 (833)
                      +.+|...+......      +..--..++..+...+.-.|-..+|...+++-++       .....+...|-.+.+++. 
T Consensus       646 Ykeald~l~~ii~~~s~e~~~q~gLaE~~ir~akd~~~~gf~~kavd~~eksie~f~~~l~h~~~~~~~~Wi~asdac~~  725 (1238)
T KOG1127|consen  646 YKEALDALGLIIYAFSLERTGQNGLAESVIRDAKDSAITGFQKKAVDFFEKSIESFIVSLIHSLQSDRLQWIVASDACYI  725 (1238)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHhhhhhHHHHHHHhHHHHH
Confidence            99999998887643      1111122333333333344444444444444332       211122333322222211 


Q ss_pred             --hcCChhH----HHHH-HHHHHHCC--------------------CCCCcccHHHHHHHHHh------cC--ChhHHHH
Q 003295          404 --KSGQMDN----AENA-LEEMLSRG--------------------LSINQGAYTSVIKWLCI------NS--RFNSALH  448 (833)
Q Consensus       404 --~~g~~~~----A~~~-l~~~~~~g--------------------~~~~~~~~~~li~~~~~------~g--~~~~A~~  448 (833)
                        ... .+-    -..+ +.+....+                    ...+..+|..++..|.+      .+  +...|+.
T Consensus       726 f~q~e-~~~vn~h~l~il~~q~e~~~~l~~~d~l~Lg~~c~~~hlsl~~~~~~WyNLGinylr~f~~l~et~~~~~~Ai~  804 (1238)
T KOG1127|consen  726 FSQEE-PSIVNMHYLIILSKQLEKTGALKKNDLLFLGYECGIAHLSLAIHMYPWYNLGINYLRYFLLLGETMKDACTAIR  804 (1238)
T ss_pred             HHHhc-ccchHHHHHHHHHHHHHhcccCcchhHHHHHHHHhhHHHHHhhccchHHHHhHHHHHHHHHcCCcchhHHHHHH
Confidence              100 000    0000 11111111                    11223334444333332      01  1123334


Q ss_pred             HHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCC
Q 003295          449 FTKEMLLRNLRPGDGLLTLLVSGLCKNGKQAEATELCFRLFEKGFTVNTVTSNALIHGMCEAGNLKEAGKLLMEMLQRGL  528 (833)
Q Consensus       449 ~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~l~~m~~~g~  528 (833)
                      .++..++... .+..+++.|.-. ...|.+.-|..-|-+-... .+.+..+|..+...+.+..+++.|...|.......+
T Consensus       805 c~KkaV~L~a-nn~~~WnaLGVl-sg~gnva~aQHCfIks~~s-ep~~~~~W~NlgvL~l~n~d~E~A~~af~~~qSLdP  881 (1238)
T KOG1127|consen  805 CCKKAVSLCA-NNEGLWNALGVL-SGIGNVACAQHCFIKSRFS-EPTCHCQWLNLGVLVLENQDFEHAEPAFSSVQSLDP  881 (1238)
T ss_pred             HHHHHHHHhh-ccHHHHHHHHHh-hccchhhhhhhhhhhhhhc-cccchhheeccceeEEecccHHHhhHHHHhhhhcCc
Confidence            4433333211 122233333222 3334444444333333222 122444555555555555555555555555555443


Q ss_pred             CCCHHHHHHHHHHHHhcCChhhHHHHHHHH--HH--CCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhh---------
Q 003295          529 ILDKVTYNTLILGCCKDGKPEEGFKLKEDM--IK--RGIQPDNYTYNLLLHGLCSLGKMEEAIELWEECKR---------  595 (833)
Q Consensus       529 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~m--~~--~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---------  595 (833)
                      . |...|-.........|+.-++..+|..-  ..  .|--++..-+..........|+.++-+...+.+..         
T Consensus       882 ~-nl~~WlG~Ali~eavG~ii~~~~lfaHs~el~~~~gka~~f~Yw~c~te~h~~Ng~~e~~I~t~~ki~sAs~al~~yf  960 (1238)
T KOG1127|consen  882 L-NLVQWLGEALIPEAVGRIIERLILFAHSDELCSKEGKAKKFQYWLCATEIHLQNGNIEESINTARKISSASLALSYYF  960 (1238)
T ss_pred             h-hhHHHHHHHHhHHHHHHHHHHHHHHHhhHHhhccccccchhhHHHHHHHHHHhccchHHHHHHhhhhhhhHHHHHHHH
Confidence            3 4444444444444455555555555441  11  11222322222222233344444443333333221         


Q ss_pred             CCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHHHHC-CCccCHHHHHHH----HHHHHHcCChHHHHHHHHHHHhCCCCC
Q 003295          596 TVFGPDIYTYGVMIDGFCKADKIEEGETLFNEMISK-KMELNPVVYNTL----IRAYCKIGNTTAAFRLSNDMKSRGILP  670 (833)
Q Consensus       596 ~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~~l----i~~~~~~g~~~~A~~~~~~m~~~~~~p  670 (833)
                      .+.+.+...|.......-+.+.+.+|.+...+.+.. ..+-+...|+..    ...++..|.++.|..-+.....   ..
T Consensus       961 ~~~p~~~fAy~~~gstlEhL~ey~~a~ela~RliglLe~k~d~sqynvak~~~gRL~lslgefe~A~~a~~~~~~---ev 1037 (1238)
T KOG1127|consen  961 LGHPQLCFAYAANGSTLEHLEEYRAALELATRLIGLLELKLDESQYNVAKPDAGRLELSLGEFESAKKASWKEWM---EV 1037 (1238)
T ss_pred             hcCcchhHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhhhcchhhHhhhhcccch---hH
Confidence            112223334444444444444444444444443211 011233334422    1222233333322222211110   00


Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC-CCCCC-hhHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHH
Q 003295          671 TSVTYSSLIHGLCNIGLIEDAKCLFDEMRKE-GLLPN-VACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIM  748 (833)
Q Consensus       671 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-g~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l  748 (833)
                      +...-..-+. ..-.++++++.+.|+++..- .-..+ ++....++.+....+.-+.|...+-+..... +|+..+.-.+
T Consensus      1038 dEdi~gt~l~-lFfkndf~~sl~~fe~aLsis~se~d~vvLl~kva~~~g~~~~k~~A~~lLfe~~~ls-~~~~~sll~L 1115 (1238)
T KOG1127|consen 1038 DEDIRGTDLT-LFFKNDFFSSLEFFEQALSISNSESDKVVLLCKVAVCMGLARQKNDAQFLLFEVKSLS-KVQASSLLPL 1115 (1238)
T ss_pred             HHHHhhhhHH-HHHHhHHHHHHHHHHHHhhhcccccchhhhhHHHHHHHhhcccchHHHHHHHHHHHhC-ccchhhHHHH
Confidence            1111111111 12346666777777766542 11222 2334444455556666666666655555442 4555555555


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHc----CCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHHCCCCCC-HHHHHHHHHhhc
Q 003295          749 IGGYCKLGDMKEAAKLLNVMAEK----GISPDSITYNVFMDGHCKGGNVEEAFKVCDRMLSEGLSLD-EITYTTLIDGWQ  823 (833)
Q Consensus       749 i~~~~~~g~~~~A~~~~~~m~~~----g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~~~~~l~~~~~  823 (833)
                      ...+.-..+-.....+.+++...    -+.-+.....  -..|.+.|+-....+.+++..-  ..|. ...|..|-.-|.
T Consensus      1116 ~A~~ild~da~~ssaileel~kl~k~e~~~~~~~ll~--e~i~~~~~r~~~vk~~~qr~~h--~~P~~~~~WslL~vrya 1191 (1238)
T KOG1127|consen 1116 PAVYILDADAHGSSAILEELEKLLKLEWFCWPPGLLK--ELIYALQGRSVAVKKQIQRAVH--SNPGDPALWSLLSVRYA 1191 (1238)
T ss_pred             HHHHHHhhhhhhhHHHHHHHHHhhhhHHhccChhHHH--HHHHHHhhhhHHHHHHHHHHHh--cCCCChHHHHHHHHHHH
Confidence            44444333333333333333321    1111111111  1235567787778888888776  3444 677776654444


Q ss_pred             cC
Q 003295          824 SS  825 (833)
Q Consensus       824 ~~  825 (833)
                      ++
T Consensus      1192 ~~ 1193 (1238)
T KOG1127|consen 1192 QR 1193 (1238)
T ss_pred             HH
Confidence            33

>KOG1174 consensus Anaphase-promoting complex (APC), subunit 7 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=99.18  E-value=1.6e-06  Score=86.41  Aligned_cols=292  Identities=14%  Similarity=0.029  Sum_probs=217.9

Q ss_pred             HhcCCHHHHHHHHHHHhhCC-CCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCH-HHHHHHHHHHHhcCCHHH
Q 003295          508 CEAGNLKEAGKLLMEMLQRG-LILDKVTYNTLILGCCKDGKPEEGFKLKEDMIKRGIQPDN-YTYNLLLHGLCSLGKMEE  585 (833)
Q Consensus       508 ~~~g~~~~A~~~l~~m~~~g-~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-~~~~~li~~~~~~g~~~~  585 (833)
                      +-.++...|...+--+.... ++-|......+...+...|+.++|...|++....  .|+. .......-.+.+.|+.++
T Consensus       207 ~~~~~hs~a~~t~l~le~~~~lr~NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~~--dpy~i~~MD~Ya~LL~~eg~~e~  284 (564)
T KOG1174|consen  207 MFNFKHSDASQTFLMLHDNTTLRCNEHLMMALGKCLYYNGDYFQAEDIFSSTLCA--NPDNVEAMDLYAVLLGQEGGCEQ  284 (564)
T ss_pred             HHhcccchhhhHHHHHHhhccCCccHHHHHHHhhhhhhhcCchHHHHHHHHHhhC--ChhhhhhHHHHHHHHHhccCHhh
Confidence            33455555555444443333 3446677888999999999999999999998875  3332 222333445567788888


Q ss_pred             HHHHHHHHhhCCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHh
Q 003295          586 AIELWEECKRTVFGPDIYTYGVMIDGFCKADKIEEGETLFNEMISKKMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMKS  665 (833)
Q Consensus       586 A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  665 (833)
                      ...+...+.... +-....|-.-........+++.|+.+-++.++.... +...|-.-...+...|++++|.-.|+..+.
T Consensus       285 ~~~L~~~Lf~~~-~~ta~~wfV~~~~l~~~K~~~rAL~~~eK~I~~~~r-~~~alilKG~lL~~~~R~~~A~IaFR~Aq~  362 (564)
T KOG1174|consen  285 DSALMDYLFAKV-KYTASHWFVHAQLLYDEKKFERALNFVEKCIDSEPR-NHEALILKGRLLIALERHTQAVIAFRTAQM  362 (564)
T ss_pred             HHHHHHHHHhhh-hcchhhhhhhhhhhhhhhhHHHHHHHHHHHhccCcc-cchHHHhccHHHHhccchHHHHHHHHHHHh
Confidence            888777766532 123333444445556688999999999999887544 566666667788899999999999999887


Q ss_pred             CCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhHHHHHH-HHHHh-cCChhHHHHHHHHHHhCCCCCCH-
Q 003295          666 RGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALI-GGYCK-LGQMDEAESVLQEMASINIHPNK-  742 (833)
Q Consensus       666 ~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li-~~~~~-~g~~~~A~~~~~~m~~~g~~p~~-  742 (833)
                      .. +-+...|..|+..|...|++.+|..+-....+. ++.+..+.+.+. ..+.- ...-++|.+++++...  +.|+. 
T Consensus       363 La-p~rL~~Y~GL~hsYLA~~~~kEA~~~An~~~~~-~~~sA~~LtL~g~~V~~~dp~~rEKAKkf~ek~L~--~~P~Y~  438 (564)
T KOG1174|consen  363 LA-PYRLEIYRGLFHSYLAQKRFKEANALANWTIRL-FQNSARSLTLFGTLVLFPDPRMREKAKKFAEKSLK--INPIYT  438 (564)
T ss_pred             cc-hhhHHHHHHHHHHHHhhchHHHHHHHHHHHHHH-hhcchhhhhhhcceeeccCchhHHHHHHHHHhhhc--cCCccH
Confidence            63 347889999999999999999999888877764 344566666553 33332 2335889999998886  45664 


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHHCCCCCC
Q 003295          743 ITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISPDSITYNVFMDGHCKGGNVEEAFKVCDRMLSEGLSLD  811 (833)
Q Consensus       743 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~p~  811 (833)
                      ...+.+...|...|++++++.++++.+.  ..||....+.|+..+...+.+++|.+.|...+.  +.|.
T Consensus       439 ~AV~~~AEL~~~Eg~~~D~i~LLe~~L~--~~~D~~LH~~Lgd~~~A~Ne~Q~am~~y~~ALr--~dP~  503 (564)
T KOG1174|consen  439 PAVNLIAELCQVEGPTKDIIKLLEKHLI--IFPDVNLHNHLGDIMRAQNEPQKAMEYYYKALR--QDPK  503 (564)
T ss_pred             HHHHHHHHHHHhhCccchHHHHHHHHHh--hccccHHHHHHHHHHHHhhhHHHHHHHHHHHHh--cCcc
Confidence            4677888889999999999999999988  579999999999999999999999999999988  5666

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.18  E-value=1.6e-08  Score=108.01  Aligned_cols=253  Identities=21%  Similarity=0.179  Sum_probs=180.4

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHhhC-----CC-CCCHh-hHHHHHHHHHccCCHHHHHHHHHHHHHC-----CCc
Q 003295          567 NYTYNLLLHGLCSLGKMEEAIELWEECKRT-----VF-GPDIY-TYGVMIDGFCKADKIEEGETLFNEMISK-----KME  634 (833)
Q Consensus       567 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~-----~~-~~~~~-~~~~li~~~~~~g~~~~A~~~~~~~~~~-----~~~  634 (833)
                      ..+...+...|...|+++.|..+++...+.     |. .|... ..+.+...|...+++++|..+|++++..     |..
T Consensus       199 ~~~~~~La~~y~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~AL~i~e~~~G~~  278 (508)
T KOG1840|consen  199 LRTLRNLAEMYAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLYEEALTIREEVFGED  278 (508)
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHhcCCC
Confidence            345666888888889999998888877653     21 12222 2334667788899999999999888753     221


Q ss_pred             --cCHHHHHHHHHHHHHcCChHHHHHHHHHHHhC-----CC-CCCHH-HHHHHHHHHHhcCCHHHHHHHHHHHHHC---C
Q 003295          635 --LNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSR-----GI-LPTSV-TYSSLIHGLCNIGLIEDAKCLFDEMRKE---G  702 (833)
Q Consensus       635 --~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-----~~-~p~~~-~~~~li~~~~~~g~~~~A~~~~~~m~~~---g  702 (833)
                        .-..+++.|..+|++.|++++|...+++..+.     +. .|... .++.++..++..+++++|..+++...+.   -
T Consensus       279 h~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~i~~~~  358 (508)
T KOG1840|consen  279 HPAVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQKALKIYLDA  358 (508)
T ss_pred             CHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhh
Confidence              12356777778899999999988888776532     21 22222 3667778889999999999999987653   1


Q ss_pred             CCC----ChhHHHHHHHHHHhcCChhHHHHHHHHHHhC-----C--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH-
Q 003295          703 LLP----NVACYTALIGGYCKLGQMDEAESVLQEMASI-----N--IHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAE-  770 (833)
Q Consensus       703 ~~p----~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-----g--~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~-  770 (833)
                      ..+    -..+++.|...|.+.|++++|++++++++..     |  ..-....++.|...|.+.+++.+|.++|.+... 
T Consensus       359 ~g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l~~~~~~i  438 (508)
T KOG1840|consen  359 PGEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEEAEQLFEEAKDI  438 (508)
T ss_pred             ccccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccchHHHHHHHHHHH
Confidence            112    2367899999999999999999999998752     1  112245788899999999999999999988653 


Q ss_pred             ---cCC-CCCH-HHHHHHHHHHhcCCCHHHHHHHHHHHHH------CCCCCCHHHHHHHH
Q 003295          771 ---KGI-SPDS-ITYNVFMDGHCKGGNVEEAFKVCDRMLS------EGLSLDEITYTTLI  819 (833)
Q Consensus       771 ---~g~-~p~~-~~~~~l~~~~~~~g~~~~A~~~~~~m~~------~g~~p~~~~~~~l~  819 (833)
                         .|. .|+. .+|..|+..|.+.|++++|.++.+....      .+..|+........
T Consensus       439 ~~~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  498 (508)
T KOG1840|consen  439 MKLCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVLNAREQRLGTASPTVEDEKLRL  498 (508)
T ss_pred             HHHhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHcCCCCCcchhHHHHhh
Confidence               221 2333 6899999999999999999999887763      13445544444433

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.16  E-value=2e-08  Score=107.33  Aligned_cols=203  Identities=24%  Similarity=0.189  Sum_probs=99.2

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHC-----CC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHH
Q 003295          467 LLVSGLCKNGKQAEATELCFRLFEK-----GF--TVNTVTSNALIHGMCEAGNLKEAGKLLMEMLQRGLILDKVTYNTLI  539 (833)
Q Consensus       467 ~li~~~~~~g~~~~A~~~~~~~~~~-----g~--~~~~~~~~~li~~~~~~g~~~~A~~~l~~m~~~g~~~~~~~~~~li  539 (833)
                      .+...|...+++++|..+|++++..     |.  +.-..+++.|...|++.|++++|...+++..+.             
T Consensus       246 ~~a~~y~~~~k~~eAv~ly~~AL~i~e~~~G~~h~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I-------------  312 (508)
T KOG1840|consen  246 ILALVYRSLGKYDEAVNLYEEALTIREEVFGEDHPAVAATLNNLAVLYYKQGKFAEAEEYCERALEI-------------  312 (508)
T ss_pred             HHHHHHHHhccHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHH-------------
Confidence            3555666677777777766665542     21  112346677777788888888887777665432             


Q ss_pred             HHHHhcCChhhHHHHHHHHHHCCC-CCCH-HHHHHHHHHHHhcCCHHHHHHHHHHHhhC---CCCCC----HhhHHHHHH
Q 003295          540 LGCCKDGKPEEGFKLKEDMIKRGI-QPDN-YTYNLLLHGLCSLGKMEEAIELWEECKRT---VFGPD----IYTYGVMID  610 (833)
Q Consensus       540 ~~~~~~g~~~~A~~~~~~m~~~g~-~p~~-~~~~~li~~~~~~g~~~~A~~~~~~~~~~---~~~~~----~~~~~~li~  610 (833)
                                     ++.  ..|. .|.+ ..++.+...++..+++++|..+++...+.   -+.++    ..+++.|..
T Consensus       313 ---------------~~~--~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~i~~~~~g~~~~~~a~~~~nl~~  375 (508)
T KOG1840|consen  313 ---------------YEK--LLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQKALKIYLDAPGEDNVNLAKIYANLAE  375 (508)
T ss_pred             ---------------HHH--hhccChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhhccccchHHHHHHHHHHH
Confidence                           111  0000 0111 12333444444555555555555433221   01111    234555555


Q ss_pred             HHHccCCHHHHHHHHHHHHHCC-------CccCHHHHHHHHHHHHHcCChHHHHHHHHHHHh----CC--CCCCHHHHHH
Q 003295          611 GFCKADKIEEGETLFNEMISKK-------MELNPVVYNTLIRAYCKIGNTTAAFRLSNDMKS----RG--ILPTSVTYSS  677 (833)
Q Consensus       611 ~~~~~g~~~~A~~~~~~~~~~~-------~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~----~~--~~p~~~~~~~  677 (833)
                      .|.+.|++++|++++++.+...       ..-....++.+...|.+.+++.+|.++|.+...    .|  .+....+|..
T Consensus       376 l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l~~~~~~i~~~~g~~~~~~~~~~~n  455 (508)
T KOG1840|consen  376 LYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEEAEQLFEEAKDIMKLCGPDHPDVTYTYLN  455 (508)
T ss_pred             HHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccchHHHHHHHHHHHHHHhCCCCCchHHHHHH
Confidence            5555555555555555554320       001123444555555555555555555544321    11  1112344555


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHH
Q 003295          678 LIHGLCNIGLIEDAKCLFDEMR  699 (833)
Q Consensus       678 li~~~~~~g~~~~A~~~~~~m~  699 (833)
                      |...|...|++++|.++.+...
T Consensus       456 L~~~Y~~~g~~e~a~~~~~~~~  477 (508)
T KOG1840|consen  456 LAALYRAQGNYEAAEELEEKVL  477 (508)
T ss_pred             HHHHHHHcccHHHHHHHHHHHH
Confidence            6666666666666666655554

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.12  E-value=2.8e-08  Score=102.28  Aligned_cols=218  Identities=12%  Similarity=-0.045  Sum_probs=152.6

Q ss_pred             CHHHHHHHHHHHHhCCC-CC--CHHHHHHHHHHHHhcCChhHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHH
Q 003295          198 GFGYAIDVFSIFSSKGI-FP--SLKTCNFLLNSLVKANEVQKGIEVFETMCRGVSPDVFLFSTAINAFCKRGRIEDAIGL  274 (833)
Q Consensus       198 ~~~~A~~~f~~~~~~~~-~p--~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~  274 (833)
                      ..+.++.-+.+++.... .|  ....|..+...+.+.|+.++|...|++.++..|.+...|+.+...+...|++++|...
T Consensus        41 ~~e~~i~~~~~~l~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~P~~~~a~~~lg~~~~~~g~~~~A~~~  120 (296)
T PRK11189         41 QQEVILARLNQILASRDLTDEERAQLHYERGVLYDSLGLRALARNDFSQALALRPDMADAYNYLGIYLTQAGNFDAAYEA  120 (296)
T ss_pred             HHHHHHHHHHHHHccccCCcHhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHCCCHHHHHHH
Confidence            34567777766665322 22  2456788888899999999999999999866677889999999999999999999999


Q ss_pred             HHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCC
Q 003295          275 FTKMEELGIAPNVVTYNNIIHGLCRNGRLYEAFHLKEKMVLREVEPSLITYSILINGLIKLEKFDDANFVLKEMSVRGFV  354 (833)
Q Consensus       275 ~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~g~~  354 (833)
                      |++..+..+. +..+|..++..+...|++++|.+.|++..+..  |+..............++.++|...|++..... .
T Consensus       121 ~~~Al~l~P~-~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~~--P~~~~~~~~~~l~~~~~~~~~A~~~l~~~~~~~-~  196 (296)
T PRK11189        121 FDSVLELDPT-YNYAYLNRGIALYYGGRYELAQDDLLAFYQDD--PNDPYRALWLYLAESKLDPKQAKENLKQRYEKL-D  196 (296)
T ss_pred             HHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHccCCHHHHHHHHHHHHhhC-C
Confidence            9999886433 46678888888889999999999999998763  443322222223345678999999997765432 2


Q ss_pred             CChhhHHHHHHHHHHcCChHHHHHHHHHHHhC---CC--CC-ChhHHHHHHHHHHhcCChhHHHHHHHHHHHCCC
Q 003295          355 PNYVVYNTLIDGYCKKGNISEALKIRDDMVSK---GM--SP-NSVTFNSLIHGFCKSGQMDNAENALEEMLSRGL  423 (833)
Q Consensus       355 p~~~~y~~li~~~~~~g~~~~A~~~~~~m~~~---g~--~p-~~~~~~~li~~~~~~g~~~~A~~~l~~~~~~g~  423 (833)
                      |+...+ .  ..+...|+..++ +.++.+.+.   .+  .| ....|..+...+.+.|++++|...|++..+.++
T Consensus       197 ~~~~~~-~--~~~~~lg~~~~~-~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~~~  267 (296)
T PRK11189        197 KEQWGW-N--IVEFYLGKISEE-TLMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALANNV  267 (296)
T ss_pred             ccccHH-H--HHHHHccCCCHH-HHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC
Confidence            333222 2  233345666554 344444421   11  11 235788888888899999999999998887653

>COG3063 PilF Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=99.10  E-value=8.2e-08  Score=88.44  Aligned_cols=206  Identities=15%  Similarity=0.070  Sum_probs=148.3

Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh
Q 003295          605 YGVMIDGFCKADKIEEGETLFNEMISKKMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCN  684 (833)
Q Consensus       605 ~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~  684 (833)
                      ...|.-+|...|+...|..-+++.++..+. +..+|..+...|.+.|..+.|.+.|++..+.. +-+-.+.|.....+|.
T Consensus        38 rlqLal~YL~~gd~~~A~~nlekAL~~DPs-~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~-p~~GdVLNNYG~FLC~  115 (250)
T COG3063          38 RLQLALGYLQQGDYAQAKKNLEKALEHDPS-YYLAHLVRAHYYQKLGENDLADESYRKALSLA-PNNGDVLNNYGAFLCA  115 (250)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHcCChhhHHHHHHHHHhcC-CCccchhhhhhHHHHh
Confidence            444566777888888888888888877655 67778888888888888888888888887764 3355667777777888


Q ss_pred             cCCHHHHHHHHHHHHHCCCC-CChhHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 003295          685 IGLIEDAKCLFDEMRKEGLL-PNVACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAK  763 (833)
Q Consensus       685 ~g~~~~A~~~~~~m~~~g~~-p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~  763 (833)
                      .|++++|...|++....-.- --..+|..+.-+..+.|+.+.|...|++..+.. +-...+...+.....+.|++-.|..
T Consensus       116 qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~d-p~~~~~~l~~a~~~~~~~~y~~Ar~  194 (250)
T COG3063         116 QGRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELD-PQFPPALLELARLHYKAGDYAPARL  194 (250)
T ss_pred             CCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhC-cCCChHHHHHHHHHHhcccchHHHH
Confidence            88888888888888774111 123567777777778888888888888888754 4445667777788888888888888


Q ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHHCCCCCCHHHHH
Q 003295          764 LLNVMAEKGISPDSITYNVFMDGHCKGGNVEEAFKVCDRMLSEGLSLDEITYT  816 (833)
Q Consensus       764 ~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~  816 (833)
                      +++.....+ .++.......|+.--+.|+.+.|.++=..+..  .-|....|-
T Consensus       195 ~~~~~~~~~-~~~A~sL~L~iriak~~gd~~~a~~Y~~qL~r--~fP~s~e~q  244 (250)
T COG3063         195 YLERYQQRG-GAQAESLLLGIRIAKRLGDRAAAQRYQAQLQR--LFPYSEEYQ  244 (250)
T ss_pred             HHHHHHhcc-cccHHHHHHHHHHHHHhccHHHHHHHHHHHHH--hCCCcHHHH
Confidence            888877765 37777777777777777887777776555554  345544443

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=99.09  E-value=2.1e-06  Score=91.13  Aligned_cols=193  Identities=18%  Similarity=0.160  Sum_probs=101.4

Q ss_pred             HHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHccCCH
Q 003295          539 ILGCCKDGKPEEGFKLKEDMIKRGIQPDNYTYNLLLHGLCSLGKMEEAIELWEECKRTVFGPDIYTYGVMIDGFCKADKI  618 (833)
Q Consensus       539 i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~  618 (833)
                      +.+......+.+|+.+++.+..+..  -..-|..+.+-|...|+++.|.++|-+.-         .++--|++|.+.|+|
T Consensus       739 ieaai~akew~kai~ildniqdqk~--~s~yy~~iadhyan~~dfe~ae~lf~e~~---------~~~dai~my~k~~kw  807 (1636)
T KOG3616|consen  739 IEAAIGAKEWKKAISILDNIQDQKT--ASGYYGEIADHYANKGDFEIAEELFTEAD---------LFKDAIDMYGKAGKW  807 (1636)
T ss_pred             HHHHhhhhhhhhhHhHHHHhhhhcc--ccccchHHHHHhccchhHHHHHHHHHhcc---------hhHHHHHHHhccccH
Confidence            3344455566666666666655422  22334555566666666666666664321         234455666666666


Q ss_pred             HHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 003295          619 EEGETLFNEMISKKMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEM  698 (833)
Q Consensus       619 ~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m  698 (833)
                      +.|.++-.+..  |+......|-+-..-+-+.|++.+|.++|-..   | .|+.     .|..|-+.|..+..+++.++-
T Consensus       808 ~da~kla~e~~--~~e~t~~~yiakaedldehgkf~eaeqlyiti---~-~p~~-----aiqmydk~~~~ddmirlv~k~  876 (1636)
T KOG3616|consen  808 EDAFKLAEECH--GPEATISLYIAKAEDLDEHGKFAEAEQLYITI---G-EPDK-----AIQMYDKHGLDDDMIRLVEKH  876 (1636)
T ss_pred             HHHHHHHHHhc--CchhHHHHHHHhHHhHHhhcchhhhhheeEEc---c-CchH-----HHHHHHhhCcchHHHHHHHHh
Confidence            66666655442  33444455555555555666666666555332   2 2222     344555666666655555443


Q ss_pred             HHCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 003295          699 RKEGLLPNVACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLL  765 (833)
Q Consensus       699 ~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~  765 (833)
                      .-.   .-..|...+..-|-..|++..|+..|-+..+         |.+-+..|...+.+++|.++.
T Consensus       877 h~d---~l~dt~~~f~~e~e~~g~lkaae~~flea~d---------~kaavnmyk~s~lw~dayria  931 (1636)
T KOG3616|consen  877 HGD---HLHDTHKHFAKELEAEGDLKAAEEHFLEAGD---------FKAAVNMYKASELWEDAYRIA  931 (1636)
T ss_pred             Chh---hhhHHHHHHHHHHHhccChhHHHHHHHhhhh---------HHHHHHHhhhhhhHHHHHHHH
Confidence            211   1122334455556666666666666555432         334455566666666665543

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=99.06  E-value=1.3e-05  Score=85.41  Aligned_cols=492  Identities=15%  Similarity=0.108  Sum_probs=205.6

Q ss_pred             HHHHHHhcCChhHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCh
Q 003295          224 LLNSLVKANEVQKGIEVFETMCRGVSPDVFLFSTAINAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIHGLCRNGRL  303 (833)
Q Consensus       224 ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~  303 (833)
                      -|..|.+.|....|......- .....|.....-+..++.+..-++.|-++|+++..    |     ...+..|-+..-+
T Consensus       621 aiqlyika~~p~~a~~~a~n~-~~l~~de~il~~ia~alik~elydkagdlfeki~d----~-----dkale~fkkgdaf  690 (1636)
T KOG3616|consen  621 AIQLYIKAGKPAKAARAALND-EELLADEEILEHIAAALIKGELYDKAGDLFEKIHD----F-----DKALECFKKGDAF  690 (1636)
T ss_pred             HHHHHHHcCCchHHHHhhcCH-HHhhccHHHHHHHHHHHHhhHHHHhhhhHHHHhhC----H-----HHHHHHHHcccHH
Confidence            345555555555444332111 11233444455555555555555555555555542    1     1122222222233


Q ss_pred             hHHHHHHHHHHhCCCCCChhhH-HHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHHcCChHHHHHHHHH
Q 003295          304 YEAFHLKEKMVLREVEPSLITY-SILINGLIKLEKFDDANFVLKEMSVRGFVPNYVVYNTLIDGYCKKGNISEALKIRDD  382 (833)
Q Consensus       304 ~~A~~~~~~m~~~~~~p~~~t~-~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~A~~~~~~  382 (833)
                      .+|+++-+-..    +..+++. ......+...|+++.|...|-+...         .-.-+.+......+.+|+.+++.
T Consensus       691 ~kaielarfaf----p~evv~lee~wg~hl~~~~q~daainhfiea~~---------~~kaieaai~akew~kai~ildn  757 (1636)
T KOG3616|consen  691 GKAIELARFAF----PEEVVKLEEAWGDHLEQIGQLDAAINHFIEANC---------LIKAIEAAIGAKEWKKAISILDN  757 (1636)
T ss_pred             HHHHHHHHhhC----cHHHhhHHHHHhHHHHHHHhHHHHHHHHHHhhh---------HHHHHHHHhhhhhhhhhHhHHHH
Confidence            34444332211    1122221 1122333444555555544443321         11123333444555556655555


Q ss_pred             HHhCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCh
Q 003295          383 MVSKGMSPNSVTFNSLIHGFCKSGQMDNAENALEEMLSRGLSINQGAYTSVIKWLCINSRFNSALHFTKEMLLRNLRPGD  462 (833)
Q Consensus       383 m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~l~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~  462 (833)
                      +..+..  -.--|..+.+.|...|+++.|.++|.+.         ..++..|..|.+.|++++|.++-.+.  .|.....
T Consensus       758 iqdqk~--~s~yy~~iadhyan~~dfe~ae~lf~e~---------~~~~dai~my~k~~kw~da~kla~e~--~~~e~t~  824 (1636)
T KOG3616|consen  758 IQDQKT--ASGYYGEIADHYANKGDFEIAEELFTEA---------DLFKDAIDMYGKAGKWEDAFKLAEEC--HGPEATI  824 (1636)
T ss_pred             hhhhcc--ccccchHHHHHhccchhHHHHHHHHHhc---------chhHHHHHHHhccccHHHHHHHHHHh--cCchhHH
Confidence            544321  1223444555555566666666555442         23445555555555555555544332  2222223


Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHH
Q 003295          463 GLLTLLVSGLCKNGKQAEATELCFRLFEKGFTVNTVTSNALIHGMCEAGNLKEAGKLLMEMLQRGLILDKVTYNTLILGC  542 (833)
Q Consensus       463 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~l~~m~~~g~~~~~~~~~~li~~~  542 (833)
                      ..|..-..-+-+.|++.+|.+++-.+.+    |     ...|.+|-+.|..++.+++..+-...-   -..|...+..-+
T Consensus       825 ~~yiakaedldehgkf~eaeqlyiti~~----p-----~~aiqmydk~~~~ddmirlv~k~h~d~---l~dt~~~f~~e~  892 (1636)
T KOG3616|consen  825 SLYIAKAEDLDEHGKFAEAEQLYITIGE----P-----DKAIQMYDKHGLDDDMIRLVEKHHGDH---LHDTHKHFAKEL  892 (1636)
T ss_pred             HHHHHhHHhHHhhcchhhhhheeEEccC----c-----hHHHHHHHhhCcchHHHHHHHHhChhh---hhHHHHHHHHHH
Confidence            3333334444455555555554432221    1     123444555555555555544432110   123333444444


Q ss_pred             HhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHccCCHHHHH
Q 003295          543 CKDGKPEEGFKLKEDMIKRGIQPDNYTYNLLLHGLCSLGKMEEAIELWEECKRTVFGPDIYTYGVMIDGFCKADKIEEGE  622 (833)
Q Consensus       543 ~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~  622 (833)
                      -..|+...|...|-+.-+         |.+-++.|-..+-+++|.++-+   ..| ..+..-  .+.-.+.+.=--+.|.
T Consensus       893 e~~g~lkaae~~flea~d---------~kaavnmyk~s~lw~dayriak---teg-g~n~~k--~v~flwaksiggdaav  957 (1636)
T KOG3616|consen  893 EAEGDLKAAEEHFLEAGD---------FKAAVNMYKASELWEDAYRIAK---TEG-GANAEK--HVAFLWAKSIGGDAAV  957 (1636)
T ss_pred             HhccChhHHHHHHHhhhh---------HHHHHHHhhhhhhHHHHHHHHh---ccc-cccHHH--HHHHHHHHhhCcHHHH
Confidence            555555555544433221         2333344444444444433321   111 011110  1111122222223333


Q ss_pred             HHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC
Q 003295          623 TLFNEMISKKMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEG  702 (833)
Q Consensus       623 ~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g  702 (833)
                      +++++.   |      ....-|+--+..+.++-|+++-+-..+.. .|.+  ...+...+...|++++|-+.+-+.++.+
T Consensus       958 kllnk~---g------ll~~~id~a~d~~afd~afdlari~~k~k-~~~v--hlk~a~~ledegk~edaskhyveaikln 1025 (1636)
T KOG3616|consen  958 KLLNKH---G------LLEAAIDFAADNCAFDFAFDLARIAAKDK-MGEV--HLKLAMFLEDEGKFEDASKHYVEAIKLN 1025 (1636)
T ss_pred             HHHHhh---h------hHHHHhhhhhcccchhhHHHHHHHhhhcc-Cccc--hhHHhhhhhhccchhhhhHhhHHHhhcc
Confidence            333321   0      11222333455566666666665554432 1222  2223334556777777777776666532


Q ss_pred             CCCChhHHHHH-----HHHHHhcC-ChhHHHHHHHHHH--------hCCCCCC--HHHHHHHHHHHHhcCCHHHHHHHHH
Q 003295          703 LLPNVACYTAL-----IGGYCKLG-QMDEAESVLQEMA--------SINIHPN--KITYTIMIGGYCKLGDMKEAAKLLN  766 (833)
Q Consensus       703 ~~p~~~~~~~l-----i~~~~~~g-~~~~A~~~~~~m~--------~~g~~p~--~~~~~~li~~~~~~g~~~~A~~~~~  766 (833)
                        .-..||...     =.-+.+.| +.++|..+|-.-.        ....-|+  ...|..-.++-...|++.+|..++-
T Consensus      1026 --tynitwcqavpsrfd~e~ir~gnkpe~av~mfi~dndwa~aervae~h~~~~l~dv~tgqar~aiee~d~~kae~fll 1103 (1636)
T KOG3616|consen 1026 --TYNITWCQAVPSRFDAEFIRAGNKPEEAVEMFIHDNDWAAAERVAEAHCEDLLADVLTGQARGAIEEGDFLKAEGFLL 1103 (1636)
T ss_pred             --cccchhhhcccchhhHHHHHcCCChHHHHHHhhhcccHHHHHHHHHhhChhhhHHHHhhhhhccccccchhhhhhhee
Confidence              111111110     01122333 3444444432100        0001222  2234445555666777777776655


Q ss_pred             HHHHcCCCCCHHHHHHHHHHHhcCCCHHHHHHHHH
Q 003295          767 VMAEKGISPDSITYNVFMDGHCKGGNVEEAFKVCD  801 (833)
Q Consensus       767 ~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~  801 (833)
                      ++.    +|+..     ++.|...+.|..|+++.+
T Consensus      1104 ran----kp~i~-----l~yf~e~~lw~dalri~k 1129 (1636)
T KOG3616|consen 1104 RAN----KPDIA-----LNYFIEAELWPDALRIAK 1129 (1636)
T ss_pred             ecC----CCchH-----HHHHHHhccChHHHHHHH
Confidence            432    35542     233455666666665543

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.05  E-value=1.1e-07  Score=97.97  Aligned_cols=217  Identities=13%  Similarity=-0.024  Sum_probs=106.8

Q ss_pred             cCChhhHHHHHHHHHHCCC-CC--CHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHccCCHHHH
Q 003295          545 DGKPEEGFKLKEDMIKRGI-QP--DNYTYNLLLHGLCSLGKMEEAIELWEECKRTVFGPDIYTYGVMIDGFCKADKIEEG  621 (833)
Q Consensus       545 ~g~~~~A~~~~~~m~~~g~-~p--~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A  621 (833)
                      .+..+.++.-+.+++.... .|  ....|..+...+.+.|+.++|...|++..+.. +.+...|+.+...+...|++++|
T Consensus        39 ~~~~e~~i~~~~~~l~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~~~~~g~~~~A  117 (296)
T PRK11189         39 TLQQEVILARLNQILASRDLTDEERAQLHYERGVLYDSLGLRALARNDFSQALALR-PDMADAYNYLGIYLTQAGNFDAA  117 (296)
T ss_pred             chHHHHHHHHHHHHHccccCCcHhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHCCCHHHH
Confidence            3445566666666664321 11  12345555556666666666666666665543 23455566666666666666666


Q ss_pred             HHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 003295          622 ETLFNEMISKKMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKE  701 (833)
Q Consensus       622 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  701 (833)
                      ...|+..++..+. +..+|..+..++...|++++|++.+++..+..  |+..........+...++.++|...|.+....
T Consensus       118 ~~~~~~Al~l~P~-~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~~--P~~~~~~~~~~l~~~~~~~~~A~~~l~~~~~~  194 (296)
T PRK11189        118 YEAFDSVLELDPT-YNYAYLNRGIALYYGGRYELAQDDLLAFYQDD--PNDPYRALWLYLAESKLDPKQAKENLKQRYEK  194 (296)
T ss_pred             HHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHccCCHHHHHHHHHHHHhh
Confidence            6666666655433 44555556666666666666666666665542  22211111111223345566666666554432


Q ss_pred             CCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHhC---C--C-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 003295          702 GLLPNVACYTALIGGYCKLGQMDEAESVLQEMASI---N--I-HPNKITYTIMIGGYCKLGDMKEAAKLLNVMAE  770 (833)
Q Consensus       702 g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~---g--~-~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  770 (833)
                      . .|+...+   .......|+..++ +.++.+.+.   .  + +.....|..++..+.+.|++++|+..|+++++
T Consensus       195 ~-~~~~~~~---~~~~~~lg~~~~~-~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~  264 (296)
T PRK11189        195 L-DKEQWGW---NIVEFYLGKISEE-TLMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALA  264 (296)
T ss_pred             C-CccccHH---HHHHHHccCCCHH-HHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            1 2222111   1122234444433 233333311   0  0 01123555556666666666666666666655

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=99.04  E-value=1.6e-06  Score=89.86  Aligned_cols=106  Identities=25%  Similarity=0.221  Sum_probs=80.1

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCC-hhhHHHHHHHHHhcC
Q 003295          258 AINAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIHGLCRNGRLYEAFHLKEKMVLREVEPS-LITYSILINGLIKLE  336 (833)
Q Consensus       258 li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~-~~t~~~li~~~~~~g  336 (833)
                      -.++.+..|+++.|...|.+.+...+. |-+.|..-..+|.+.|++++|.+=-.+-++.  .|+ ...|+-...++.-.|
T Consensus         8 kgnaa~s~~d~~~ai~~~t~ai~l~p~-nhvlySnrsaa~a~~~~~~~al~da~k~~~l--~p~w~kgy~r~Gaa~~~lg   84 (539)
T KOG0548|consen    8 KGNAAFSSGDFETAIRLFTEAIMLSPT-NHVLYSNRSAAYASLGSYEKALKDATKTRRL--NPDWAKGYSRKGAALFGLG   84 (539)
T ss_pred             HHHhhcccccHHHHHHHHHHHHccCCC-ccchhcchHHHHHHHhhHHHHHHHHHHHHhc--CCchhhHHHHhHHHHHhcc
Confidence            356677889999999999888876543 7788888888889999998888766665554  444 466888888888888


Q ss_pred             ChhHHHHHHHHHHHCCCCCChhhHHHHHHHH
Q 003295          337 KFDDANFVLKEMSVRGFVPNYVVYNTLIDGY  367 (833)
Q Consensus       337 ~~~~A~~~~~~m~~~g~~p~~~~y~~li~~~  367 (833)
                      ++++|+.-|.+=++... .|...++.|.+++
T Consensus        85 ~~~eA~~ay~~GL~~d~-~n~~L~~gl~~a~  114 (539)
T KOG0548|consen   85 DYEEAILAYSEGLEKDP-SNKQLKTGLAQAY  114 (539)
T ss_pred             cHHHHHHHHHHHhhcCC-chHHHHHhHHHhh
Confidence            99999988888877632 2456667777766

>COG3063 PilF Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=99.00  E-value=3.8e-07  Score=84.17  Aligned_cols=209  Identities=16%  Similarity=0.074  Sum_probs=162.2

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCccCHHHHHHHHHHHH
Q 003295          569 TYNLLLHGLCSLGKMEEAIELWEECKRTVFGPDIYTYGVMIDGFCKADKIEEGETLFNEMISKKMELNPVVYNTLIRAYC  648 (833)
Q Consensus       569 ~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~  648 (833)
                      +...|.-+|...|+...|..-+++.++.. +.+..+|..+...|.+.|+.+.|.+.|++.++..+. +..+.|.....+|
T Consensus        37 arlqLal~YL~~gd~~~A~~nlekAL~~D-Ps~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~p~-~GdVLNNYG~FLC  114 (250)
T COG3063          37 ARLQLALGYLQQGDYAQAKKNLEKALEHD-PSYYLAHLVRAHYYQKLGENDLADESYRKALSLAPN-NGDVLNNYGAFLC  114 (250)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCChhhHHHHHHHHHhcCCC-ccchhhhhhHHHH
Confidence            34456667888888888888888888764 334667888888888888888888888888887665 7778888888889


Q ss_pred             HcCChHHHHHHHHHHHhCC-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCChhHHH
Q 003295          649 KIGNTTAAFRLSNDMKSRG-ILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAE  727 (833)
Q Consensus       649 ~~g~~~~A~~~~~~m~~~~-~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~  727 (833)
                      ..|++++|...|++....- ...-..+|..+.-+..+.|+.+.|...|++.++.. +-...+.-.+.....+.|++-.|.
T Consensus       115 ~qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~d-p~~~~~~l~~a~~~~~~~~y~~Ar  193 (250)
T COG3063         115 AQGRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELD-PQFPPALLELARLHYKAGDYAPAR  193 (250)
T ss_pred             hCCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhC-cCCChHHHHHHHHHHhcccchHHH
Confidence            9999999999998887752 12234577778777888999999999999998863 234456677888888899999999


Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHH
Q 003295          728 SVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISPDSITYNVF  783 (833)
Q Consensus       728 ~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l  783 (833)
                      .+++.....+ .++..+....|+.-...|+.+.|-++=..+..  .-|...-|...
T Consensus       194 ~~~~~~~~~~-~~~A~sL~L~iriak~~gd~~~a~~Y~~qL~r--~fP~s~e~q~f  246 (250)
T COG3063         194 LYLERYQQRG-GAQAESLLLGIRIAKRLGDRAAAQRYQAQLQR--LFPYSEEYQTF  246 (250)
T ss_pred             HHHHHHHhcc-cccHHHHHHHHHHHHHhccHHHHHHHHHHHHH--hCCCcHHHHhH
Confidence            9999888776 48888888888888888998888887777666  35665555443

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=98.99  E-value=1.8e-06  Score=89.37  Aligned_cols=221  Identities=15%  Similarity=0.051  Sum_probs=119.5

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHH-------HH
Q 003295          432 SVIKWLCINSRFNSALHFTKEMLLRNLRPGDGLLTLLVSGLCKNGKQAEATELCFRLFEKGFTVNTVTSNA-------LI  504 (833)
Q Consensus       432 ~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~-------li  504 (833)
                      .+.+...+..+++.|++-+.......  .+..-++....+|...|++.++.......++.|.. ...-|+.       +.
T Consensus       229 ~lgnaaykkk~f~~a~q~y~~a~el~--~~it~~~n~aA~~~e~~~~~~c~~~c~~a~E~gre-~rad~klIak~~~r~g  305 (539)
T KOG0548|consen  229 ELGNAAYKKKDFETAIQHYAKALELA--TDITYLNNIAAVYLERGKYAECIELCEKAVEVGRE-LRADYKLIAKALARLG  305 (539)
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHhHh--hhhHHHHHHHHHHHhccHHHHhhcchHHHHHHhHH-HHHHHHHHHHHHHHhh
Confidence            34444455555555555555544443  23333444445555555555555555554444322 1111221       23


Q ss_pred             HHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHH
Q 003295          505 HGMCEAGNLKEAGKLLMEMLQRGLILDKVTYNTLILGCCKDGKPEEGFKLKEDMIKRGIQPDNYTYNLLLHGLCSLGKME  584 (833)
Q Consensus       505 ~~~~~~g~~~~A~~~l~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~  584 (833)
                      ..|.+.++++.|+..|.+.......|+.         ..+....+++.+..+...-.+... ..-...-...+.+.|++.
T Consensus       306 ~a~~k~~~~~~ai~~~~kaLte~Rt~~~---------ls~lk~~Ek~~k~~e~~a~~~pe~-A~e~r~kGne~Fk~gdy~  375 (539)
T KOG0548|consen  306 NAYTKREDYEGAIKYYQKALTEHRTPDL---------LSKLKEAEKALKEAERKAYINPEK-AEEEREKGNEAFKKGDYP  375 (539)
T ss_pred             hhhhhHHhHHHHHHHHHHHhhhhcCHHH---------HHHHHHHHHHHHHHHHHHhhChhH-HHHHHHHHHHHHhccCHH
Confidence            3455556677777777765554333222         122333445555444444332221 111222255566777777


Q ss_pred             HHHHHHHHHhhCCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHH
Q 003295          585 EAIELWEECKRTVFGPDIYTYGVMIDGFCKADKIEEGETLFNEMISKKMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMK  664 (833)
Q Consensus       585 ~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~  664 (833)
                      .|...|.+++... +.|...|....-+|.+.|.+..|+.-.+..++..+. ....|..-..++....++++|.+.|.+.+
T Consensus       376 ~Av~~YteAIkr~-P~Da~lYsNRAac~~kL~~~~~aL~Da~~~ieL~p~-~~kgy~RKg~al~~mk~ydkAleay~eal  453 (539)
T KOG0548|consen  376 EAVKHYTEAIKRD-PEDARLYSNRAACYLKLGEYPEALKDAKKCIELDPN-FIKAYLRKGAALRAMKEYDKALEAYQEAL  453 (539)
T ss_pred             HHHHHHHHHHhcC-CchhHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCch-HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            7777777776664 445667777777777777777777776666666332 44455555566666677777888777777


Q ss_pred             hCC
Q 003295          665 SRG  667 (833)
Q Consensus       665 ~~~  667 (833)
                      +..
T Consensus       454 e~d  456 (539)
T KOG0548|consen  454 ELD  456 (539)
T ss_pred             hcC
Confidence            663

>cd05804 StaR_like StaR_like; a well-conserved protein found in bacteria, plants, and animals

Probab=98.99  E-value=2.5e-06  Score=91.37  Aligned_cols=304  Identities=13%  Similarity=0.042  Sum_probs=146.4

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHhhCCC-CCCH-HHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 003295          499 TSNALIHGMCEAGNLKEAGKLLMEMLQRGL-ILDK-VTYNTLILGCCKDGKPEEGFKLKEDMIKRGIQPDNYTYNLLLHG  576 (833)
Q Consensus       499 ~~~~li~~~~~~g~~~~A~~~l~~m~~~g~-~~~~-~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~  576 (833)
                      .|..+...+...|+.+++...+....+... .++. .........+...|++++|.+.+++.++..+. |...+.. ...
T Consensus         8 a~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~a~~~~~~g~~~~A~~~~~~~l~~~P~-~~~a~~~-~~~   85 (355)
T cd05804           8 GHAAAALLLLLGGERPAAAAKAAAAAQALAARATERERAHVEALSAWIAGDLPKALALLEQLLDDYPR-DLLALKL-HLG   85 (355)
T ss_pred             HHHHHHHHHHhcCCcchHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCC-cHHHHHH-hHH
Confidence            344444444445555554444444333221 1111 11111222334556666666666666655322 3323321 111


Q ss_pred             HH----hcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCC
Q 003295          577 LC----SLGKMEEAIELWEECKRTVFGPDIYTYGVMIDGFCKADKIEEGETLFNEMISKKMELNPVVYNTLIRAYCKIGN  652 (833)
Q Consensus       577 ~~----~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  652 (833)
                      +.    ..+..+.+.+.+.... ...+........+...+...|++++|...+++..+..+. +...+..+...+...|+
T Consensus        86 ~~~~~~~~~~~~~~~~~l~~~~-~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~p~-~~~~~~~la~i~~~~g~  163 (355)
T cd05804          86 AFGLGDFSGMRDHVARVLPLWA-PENPDYWYLLGMLAFGLEEAGQYDRAEEAARRALELNPD-DAWAVHAVAHVLEMQGR  163 (355)
T ss_pred             HHHhcccccCchhHHHHHhccC-cCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC-CcHHHHHHHHHHHHcCC
Confidence            11    1233344444433311 111112233334455666677777777777777766543 45566666777777777


Q ss_pred             hHHHHHHHHHHHhCCC-CCCH--HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC-CCChhHH-H--HHHHHHHhcCChhH
Q 003295          653 TTAAFRLSNDMKSRGI-LPTS--VTYSSLIHGLCNIGLIEDAKCLFDEMRKEGL-LPNVACY-T--ALIGGYCKLGQMDE  725 (833)
Q Consensus       653 ~~~A~~~~~~m~~~~~-~p~~--~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~-~p~~~~~-~--~li~~~~~~g~~~~  725 (833)
                      +++|...+++...... .++.  ..|..+...+...|++++|..+++++..... .+..... +  .++.-+...|..+.
T Consensus       164 ~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~~  243 (355)
T cd05804         164 FKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAALAIYDTHIAPSAESDPALDLLDAASLLWRLELAGHVDV  243 (355)
T ss_pred             HHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHHHHHHHHhccccCCChHHHHhhHHHHHHHHHhcCCCCh
Confidence            7777777776665421 1222  2344566667777777777777777654321 1111111 1  22233333444333


Q ss_pred             HHHH--HHHHHhCCC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC-------C-CHHHHHHHHHHHhcCCCH
Q 003295          726 AESV--LQEMASINI--HPNKITYTIMIGGYCKLGDMKEAAKLLNVMAEKGIS-------P-DSITYNVFMDGHCKGGNV  793 (833)
Q Consensus       726 A~~~--~~~m~~~g~--~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~-------p-~~~~~~~l~~~~~~~g~~  793 (833)
                      +.+.  +........  ............++...|+.++|...++.+......       . ..........++...|++
T Consensus       244 ~~~w~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~a~~~L~~l~~~~~~~~~~~~~~~~~~~~~l~A~~~~~~g~~  323 (355)
T cd05804         244 GDRWEDLADYAAWHFPDHGLAFNDLHAALALAGAGDKDALDKLLAALKGRASSADDNKQPARDVGLPLAEALYAFAEGNY  323 (355)
T ss_pred             HHHHHHHHHHHHhhcCcccchHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhccCchhhhHHhhhHHHHHHHHHHHcCCH
Confidence            3332  111111000  111122224566677777888888887777552211       0 122333344455677888


Q ss_pred             HHHHHHHHHHHHC
Q 003295          794 EEAFKVCDRMLSE  806 (833)
Q Consensus       794 ~~A~~~~~~m~~~  806 (833)
                      ++|.+.+.+.+..
T Consensus       324 ~~A~~~L~~al~~  336 (355)
T cd05804         324 ATALELLGPVRDD  336 (355)
T ss_pred             HHHHHHHHHHHHH
Confidence            8888888777653

A family member from Streptomyces toyocaensis, StaR is part of a gene cluster involved in the biosynthesis of glycopeptide antibiotics (GPAs), specifically A47934. It has been speculated that StaR could be a flavoprotein hydroxylating a tyrosine sidechain. Some family members have been annotated as proteins containing tetratricopeptide (TPR) repeats, which may at least indicate mostly alpha-helical secondary structure.

>cd05804 StaR_like StaR_like; a well-conserved protein found in bacteria, plants, and animals

Probab=98.97  E-value=2.1e-06  Score=91.93  Aligned_cols=92  Identities=12%  Similarity=0.081  Sum_probs=45.0

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHHcCChHHHHHHHHHHHhCCC-CCCh--hHHHHHHHHHH
Q 003295          327 ILINGLIKLEKFDDANFVLKEMSVRGFVPNYVVYNTLIDGYCKKGNISEALKIRDDMVSKGM-SPNS--VTFNSLIHGFC  403 (833)
Q Consensus       327 ~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~A~~~~~~m~~~g~-~p~~--~~~~~li~~~~  403 (833)
                      .+...+...|++++|...+++..+... .+...+..+...|...|++++|...+++...... .|+.  ..|..+...+.
T Consensus       119 ~~a~~~~~~G~~~~A~~~~~~al~~~p-~~~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~  197 (355)
T cd05804         119 MLAFGLEEAGQYDRAEEAARRALELNP-DDAWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYL  197 (355)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhhCC-CCcHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHH
Confidence            333445555555555555555555421 1234445555555555555555555555544321 1111  12334455555


Q ss_pred             hcCChhHHHHHHHHHH
Q 003295          404 KSGQMDNAENALEEML  419 (833)
Q Consensus       404 ~~g~~~~A~~~l~~~~  419 (833)
                      ..|++++|.++++++.
T Consensus       198 ~~G~~~~A~~~~~~~~  213 (355)
T cd05804         198 ERGDYEAALAIYDTHI  213 (355)
T ss_pred             HCCCHHHHHHHHHHHh
Confidence            5555555555555553

A family member from Streptomyces toyocaensis, StaR is part of a gene cluster involved in the biosynthesis of glycopeptide antibiotics (GPAs), specifically A47934. It has been speculated that StaR could be a flavoprotein hydroxylating a tyrosine sidechain. Some family members have been annotated as proteins containing tetratricopeptide (TPR) repeats, which may at least indicate mostly alpha-helical secondary structure.

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.94  E-value=1.7e-06  Score=82.35  Aligned_cols=193  Identities=12%  Similarity=0.142  Sum_probs=115.9

Q ss_pred             HHHHHHHHhcCChhHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHH-HHHHHHhc
Q 003295          222 NFLLNSLVKANEVQKGIEVFETMCRGVSPDVFLFSTAINAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNN-IIHGLCRN  300 (833)
Q Consensus       222 ~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~-li~~~~~~  300 (833)
                      .+.+..+.+..++++|++++..-.+..+.+....+.+..+|....++.+|.+.++++-..  .|...-|.. -...+.+.
T Consensus        14 taviy~lI~d~ry~DaI~~l~s~~Er~p~~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~ql--~P~~~qYrlY~AQSLY~A   91 (459)
T KOG4340|consen   14 TAVVYRLIRDARYADAIQLLGSELERSPRSRAGLSLLGYCYYRLQEFALAAECYEQLGQL--HPELEQYRLYQAQSLYKA   91 (459)
T ss_pred             HHHHHHHHHHhhHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhh--ChHHHHHHHHHHHHHHHh
Confidence            444555566667777777776666445556777777777777777777777777777654  344444432 12344566


Q ss_pred             CChhHHHHHHHHHHhCCCCCChhhHHHHHH--HHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHHcCChHHHHH
Q 003295          301 GRLYEAFHLKEKMVLREVEPSLITYSILIN--GLIKLEKFDDANFVLKEMSVRGFVPNYVVYNTLIDGYCKKGNISEALK  378 (833)
Q Consensus       301 g~~~~A~~~~~~m~~~~~~p~~~t~~~li~--~~~~~g~~~~A~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~A~~  378 (833)
                      +.+.+|+.+...|...   |+...-..-+.  .....+++..+..+.++....|   +..+.+.......+.|++++|.+
T Consensus        92 ~i~ADALrV~~~~~D~---~~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~en---~Ad~~in~gCllykegqyEaAvq  165 (459)
T KOG4340|consen   92 CIYADALRVAFLLLDN---PALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPSEN---EADGQINLGCLLYKEGQYEAAVQ  165 (459)
T ss_pred             cccHHHHHHHHHhcCC---HHHHHHHHHHHHHHhcccccCcchHHHHHhccCCC---ccchhccchheeeccccHHHHHH
Confidence            7777777777666542   22222111111  2234667777777777665322   33444444445567777888877


Q ss_pred             HHHHHHhC-CCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCC
Q 003295          379 IRDDMVSK-GMSPNSVTFNSLIHGFCKSGQMDNAENALEEMLSRGLS  424 (833)
Q Consensus       379 ~~~~m~~~-g~~p~~~~~~~li~~~~~~g~~~~A~~~l~~~~~~g~~  424 (833)
                      -|+...+- |.+ ....||..+ +..+.|+++.|.+...+++++|+.
T Consensus       166 kFqaAlqvsGyq-pllAYniAL-aHy~~~qyasALk~iSEIieRG~r  210 (459)
T KOG4340|consen  166 KFQAALQVSGYQ-PLLAYNLAL-AHYSSRQYASALKHISEIIERGIR  210 (459)
T ss_pred             HHHHHHhhcCCC-chhHHHHHH-HHHhhhhHHHHHHHHHHHHHhhhh
Confidence            77777663 444 445666444 344557777777777777777654

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=98.94  E-value=0.00015  Score=79.90  Aligned_cols=137  Identities=14%  Similarity=0.164  Sum_probs=86.8

Q ss_pred             HHhcCChhHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHH
Q 003295          228 LVKANEVQKGIEVFETMCRGVSPDVFLFSTAINAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIHGLCRNGRLYEAF  307 (833)
Q Consensus       228 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~  307 (833)
                      ....+++..|.....+..+..|...++-..-.-.+.+.|+.++|..+++.....+.. |..|...+-..|.+.|+.++|.
T Consensus        19 ~ld~~qfkkal~~~~kllkk~Pn~~~a~vLkaLsl~r~gk~~ea~~~Le~~~~~~~~-D~~tLq~l~~~y~d~~~~d~~~   97 (932)
T KOG2053|consen   19 LLDSSQFKKALAKLGKLLKKHPNALYAKVLKALSLFRLGKGDEALKLLEALYGLKGT-DDLTLQFLQNVYRDLGKLDEAV   97 (932)
T ss_pred             HhhhHHHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHhcCchhHHHHHhhhccCCCC-chHHHHHHHHHHHHHhhhhHHH
Confidence            345577888888887777433333333322233356788888888888777666544 7778888888888888888888


Q ss_pred             HHHHHHHhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHH
Q 003295          308 HLKEKMVLREVEPSLITYSILINGLIKLEKFDDANFVLKEMSVRGFVPNYVVYNTLIDGYC  368 (833)
Q Consensus       308 ~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~y~~li~~~~  368 (833)
                      .+|++....  .|+..-...+..+|.+.+.+.+-.+.--+|.+. +.-+.+.+=++++.+.
T Consensus        98 ~~Ye~~~~~--~P~eell~~lFmayvR~~~yk~qQkaa~~LyK~-~pk~~yyfWsV~Slil  155 (932)
T KOG2053|consen   98 HLYERANQK--YPSEELLYHLFMAYVREKSYKKQQKAALQLYKN-FPKRAYYFWSVISLIL  155 (932)
T ss_pred             HHHHHHHhh--CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCcccchHHHHHHHHH
Confidence            888888765  466666666777777777776644444444432 1223343334444443

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=98.92  E-value=0.00014  Score=75.71  Aligned_cols=428  Identities=12%  Similarity=0.112  Sum_probs=246.8

Q ss_pred             hCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhH
Q 003295          211 SKGIFPSLKTCNFLLNSLVKANEVQKGIEVFETMCRGVSPDVFLFSTAINAFCKRGRIEDAIGLFTKMEELGIAPNVVTY  290 (833)
Q Consensus       211 ~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~  290 (833)
                      +.++. |+.+|+.||.-+..+ .++++++.|+++..-++-....|..-|..-.+..+++...++|.+-+..-  -+...|
T Consensus        14 e~nP~-di~sw~~lire~qt~-~~~~~R~~YEq~~~~FP~s~r~W~~yi~~El~skdfe~VEkLF~RCLvkv--LnlDLW   89 (656)
T KOG1914|consen   14 EENPY-DIDSWSQLIREAQTQ-PIDKVRETYEQLVNVFPSSPRAWKLYIERELASKDFESVEKLFSRCLVKV--LNLDLW   89 (656)
T ss_pred             hcCCc-cHHHHHHHHHHHccC-CHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHH--hhHhHH
Confidence            33444 788999999877655 89999999999987777778889999999999999999999999877653  356667


Q ss_pred             HHHHHHHHh-cCChhHHH----HHHHHH-HhCCCCCCh-hhHHHHHHHH---------HhcCChhHHHHHHHHHHHCCCC
Q 003295          291 NNIIHGLCR-NGRLYEAF----HLKEKM-VLREVEPSL-ITYSILINGL---------IKLEKFDDANFVLKEMSVRGFV  354 (833)
Q Consensus       291 ~~li~~~~~-~g~~~~A~----~~~~~m-~~~~~~p~~-~t~~~li~~~---------~~~g~~~~A~~~~~~m~~~g~~  354 (833)
                      ...++--.+ .|+...+.    +.|+-. .+.|+.+-. ..|+..+..+         ....+++..+++++++...-+.
T Consensus        90 ~lYl~YVR~~~~~~~~~r~~m~qAy~f~l~kig~di~s~siW~eYi~FL~~vea~gk~ee~QRI~~vRriYqral~tPm~  169 (656)
T KOG1914|consen   90 KLYLSYVRETKGKLFGYREKMVQAYDFALEKIGMDIKSYSIWDEYINFLEGVEAVGKYEENQRITAVRRIYQRALVTPMH  169 (656)
T ss_pred             HHHHHHHHHHccCcchHHHHHHHHHHHHHHHhccCcccchhHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHhcCccc
Confidence            666653322 23333322    223322 233433322 3355555432         3344566677777777653211


Q ss_pred             CChhhHH------HHHHHH-------HHcCChHHHHHHHHHHHh--CCCCCChhH---------------HHHHHHHHHh
Q 003295          355 PNYVVYN------TLIDGY-------CKKGNISEALKIRDDMVS--KGMSPNSVT---------------FNSLIHGFCK  404 (833)
Q Consensus       355 p~~~~y~------~li~~~-------~~~g~~~~A~~~~~~m~~--~g~~p~~~~---------------~~~li~~~~~  404 (833)
                      .=...|+      .=|+..       -+...+..|.++++++..  +|+..+..+               |-.+|..--.
T Consensus       170 nlEkLW~DY~~fE~~IN~~tarK~i~e~s~~Ym~AR~~~qel~~lt~GL~r~~~~vp~~~T~~e~~qv~~W~n~I~wEks  249 (656)
T KOG1914|consen  170 NLEKLWKDYEAFEQEINIITARKFIGERSPEYMNARRVYQELQNLTRGLNRNAPAVPPKGTKDEIQQVELWKNWIKWEKS  249 (656)
T ss_pred             cHHHHHHHHHHHHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHHHHHhhhcccCCCCCCCCChHHHHHHHHHHHHHHHHhc
Confidence            0011111      111100       122345556666665542  333222111               2222221111


Q ss_pred             cCChhHHHHHHHHHHHCCCCCCcccHHHHHHHHHhc-CChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCC------
Q 003295          405 SGQMDNAENALEEMLSRGLSINQGAYTSVIKWLCIN-SRFNSALHFTKEMLLRNLRPGDGLLTLLVSGLCKNGK------  477 (833)
Q Consensus       405 ~g~~~~A~~~l~~~~~~g~~~~~~~~~~li~~~~~~-g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~------  477 (833)
                      ++-.-+-...+..-.       ..+|...+..+... .-+-++...+.+.               -+.+...|+      
T Consensus       250 NpL~t~~~~~~~~Rv-------~yayeQ~ll~l~~~peiWy~~s~yl~~~---------------s~l~~~~~d~~~a~~  307 (656)
T KOG1914|consen  250 NPLRTLDGTMLTRRV-------MYAYEQCLLYLGYHPEIWYDYSMYLIEI---------------SDLLTEKGDVPDAKS  307 (656)
T ss_pred             CCcccccccHHHHHH-------HHHHHHHHHHHhcCHHHHHHHHHHHHHh---------------hHHHHHhcccccchh
Confidence            110000000000000       00011111000000 0011111111111               111222222      


Q ss_pred             -HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC---CHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCChhhHHH
Q 003295          478 -QAEATELCFRLFEKGFTVNTVTSNALIHGMCEAG---NLKEAGKLLMEMLQRGLILDKVTYNTLILGCCKDGKPEEGFK  553 (833)
Q Consensus       478 -~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g---~~~~A~~~l~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~  553 (833)
                       -+++..++++.++.-...+..+|..+.+.--..-   +.+.....++++...-..--..+|..+++...+..-++.|..
T Consensus       308 ~t~e~~~~yEr~I~~l~~~~~~Ly~~~a~~eE~~~~~n~~~~~~~~~~~ll~~~~~~~tLv~~~~mn~irR~eGlkaaR~  387 (656)
T KOG1914|consen  308 LTDEAASIYERAIEGLLKENKLLYFALADYEESRYDDNKEKKVHEIYNKLLKIEDIDLTLVYCQYMNFIRRAEGLKAARK  387 (656)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHhcccchhhhhHHHHHHHHhhhccCCceehhHHHHHHHHhhhHHHHHH
Confidence             4567777777666544445556666554322222   366677777777665433344667888888888888999999


Q ss_pred             HHHHHHHCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHHHHCC
Q 003295          554 LKEDMIKRGIQP-DNYTYNLLLHGLCSLGKMEEAIELWEECKRTVFGPDIYTYGVMIDGFCKADKIEEGETLFNEMISKK  632 (833)
Q Consensus       554 ~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~  632 (833)
                      +|.+..+.+..+ +++..++++.-+|. ++..-|.++|+.=.+. +..++.--...++.+...++-..|..+|+..+..+
T Consensus       388 iF~kaR~~~r~~hhVfVa~A~mEy~cs-kD~~~AfrIFeLGLkk-f~d~p~yv~~YldfL~~lNdd~N~R~LFEr~l~s~  465 (656)
T KOG1914|consen  388 IFKKAREDKRTRHHVFVAAALMEYYCS-KDKETAFRIFELGLKK-FGDSPEYVLKYLDFLSHLNDDNNARALFERVLTSV  465 (656)
T ss_pred             HHHHHhhccCCcchhhHHHHHHHHHhc-CChhHHHHHHHHHHHh-cCCChHHHHHHHHHHHHhCcchhHHHHHHHHHhcc
Confidence            999999988777 78888888888875 7788999999875543 23344445667888888999999999999999885


Q ss_pred             CccC--HHHHHHHHHHHHHcCChHHHHHHHHHHHhC
Q 003295          633 MELN--PVVYNTLIRAYCKIGNTTAAFRLSNDMKSR  666 (833)
Q Consensus       633 ~~~~--~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  666 (833)
                      ..++  ...|..+++--..-|+...+.++-+++...
T Consensus       466 l~~~ks~~Iw~r~l~yES~vGdL~si~~lekR~~~a  501 (656)
T KOG1914|consen  466 LSADKSKEIWDRMLEYESNVGDLNSILKLEKRRFTA  501 (656)
T ss_pred             CChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHHHh
Confidence            4443  578999999999999999999988887654

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.89  E-value=1.9e-05  Score=96.13  Aligned_cols=303  Identities=15%  Similarity=0.054  Sum_probs=127.5

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHCCCC------CC--HHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCH----HHHH
Q 003295          469 VSGLCKNGKQAEATELCFRLFEKGFT------VN--TVTSNALIHGMCEAGNLKEAGKLLMEMLQRGLILDK----VTYN  536 (833)
Q Consensus       469 i~~~~~~g~~~~A~~~~~~~~~~g~~------~~--~~~~~~li~~~~~~g~~~~A~~~l~~m~~~g~~~~~----~~~~  536 (833)
                      ...+...|++++|...+....+.-..      +.  ......+...+...|++++|...+++..+.-...+.    ...+
T Consensus       416 a~~~~~~g~~~~a~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~a~~  495 (903)
T PRK04841        416 AWLAQSQHRYSEVNTLLARAEQELKDRNIELDGTLQAEFNALRAQVAINDGDPEEAERLAELALAELPLTWYYSRIVATS  495 (903)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhccccCcccchhHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCccHHHHHHHHH
Confidence            33444556666666666555432100      01  111112223344556666666666655442111111    1233


Q ss_pred             HHHHHHHhcCChhhHHHHHHHHHHCCCC-----CCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhC----CCC--C-CHhh
Q 003295          537 TLILGCCKDGKPEEGFKLKEDMIKRGIQ-----PDNYTYNLLLHGLCSLGKMEEAIELWEECKRT----VFG--P-DIYT  604 (833)
Q Consensus       537 ~li~~~~~~g~~~~A~~~~~~m~~~g~~-----p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~----~~~--~-~~~~  604 (833)
                      .+...+...|++++|...+++.......     ....++..+...+...|++++|...+++....    +..  + ....
T Consensus       496 ~lg~~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  575 (903)
T PRK04841        496 VLGEVHHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEILFAQGFLQAAYETQEKAFQLIEEQHLEQLPMHEFL  575 (903)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccccHHHHH
Confidence            3444445566666666666555432110     01123333444555556666666665554331    110  0 1122


Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHHC----CCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCC-CCHHHH----
Q 003295          605 YGVMIDGFCKADKIEEGETLFNEMISK----KMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGIL-PTSVTY----  675 (833)
Q Consensus       605 ~~~li~~~~~~g~~~~A~~~~~~~~~~----~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~-p~~~~~----  675 (833)
                      +..+...+...|++++|...+.+....    +.......+..+...+...|+.++|.+.+++....... .....+    
T Consensus       576 ~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~  655 (903)
T PRK04841        576 LRIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKISLARGDLDNARRYLNRLENLLGNGRYHSDWIANA  655 (903)
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccHhHhhHH
Confidence            233334444556666666555554432    10111222333444455556666665555554331000 000000    


Q ss_pred             -HHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC---hhHHHHHHHHHHhcCChhHHHHHHHHHHhC----CCCCC-HHHHH
Q 003295          676 -SSLIHGLCNIGLIEDAKCLFDEMRKEGLLPN---VACYTALIGGYCKLGQMDEAESVLQEMASI----NIHPN-KITYT  746 (833)
Q Consensus       676 -~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~---~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----g~~p~-~~~~~  746 (833)
                       ...+..+...|+.+.|..++...........   ...+..+..++...|+.++|...+++....    |...+ ..++.
T Consensus       656 ~~~~~~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~l~~al~~~~~~g~~~~~a~~~~  735 (903)
T PRK04841        656 DKVRLIYWQMTGDKEAAANWLRQAPKPEFANNHFLQGQWRNIARAQILLGQFDEAEIILEELNENARSLRLMSDLNRNLI  735 (903)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHhcCCCCCccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCchHHHHHHHH
Confidence             0011222335555555555544332110000   001223444455555566665555555431    21111 12344


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHc
Q 003295          747 IMIGGYCKLGDMKEAAKLLNVMAEK  771 (833)
Q Consensus       747 ~li~~~~~~g~~~~A~~~~~~m~~~  771 (833)
                      .+..++.+.|+.++|...+.++.+.
T Consensus       736 ~la~a~~~~G~~~~A~~~L~~Al~l  760 (903)
T PRK04841        736 LLNQLYWQQGRKSEAQRVLLEALKL  760 (903)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            4445555556666666666665553

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.86  E-value=1.2e-05  Score=76.68  Aligned_cols=317  Identities=19%  Similarity=0.129  Sum_probs=210.0

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHH-HHHHH
Q 003295          254 LFSTAINAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIHGLCRNGRLYEAFHLKEKMVLREVEPSLITYSI-LINGL  332 (833)
Q Consensus       254 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~-li~~~  332 (833)
                      -+++.+.-+.+..++++|.+++..-.++... +......|...|....++..|-+.++++-..  .|...-|.. -...+
T Consensus        12 eftaviy~lI~d~ry~DaI~~l~s~~Er~p~-~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~ql--~P~~~qYrlY~AQSL   88 (459)
T KOG4340|consen   12 EFTAVVYRLIRDARYADAIQLLGSELERSPR-SRAGLSLLGYCYYRLQEFALAAECYEQLGQL--HPELEQYRLYQAQSL   88 (459)
T ss_pred             chHHHHHHHHHHhhHHHHHHHHHHHHhcCcc-chHHHHHHHHHHHHHHHHHHHHHHHHHHHhh--ChHHHHHHHHHHHHH
Confidence            3667777888899999999999888876432 6777888889999999999999999998764  466555543 34667


Q ss_pred             HhcCChhHHHHHHHHHHHCCCCCChhhHHHHHH--HHHHcCChHHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChhH
Q 003295          333 IKLEKFDDANFVLKEMSVRGFVPNYVVYNTLID--GYCKKGNISEALKIRDDMVSKGMSPNSVTFNSLIHGFCKSGQMDN  410 (833)
Q Consensus       333 ~~~g~~~~A~~~~~~m~~~g~~p~~~~y~~li~--~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~  410 (833)
                      .+.+.+.+|..+...|.+.   |+...-..-+.  .....+++..+..+.++....|   +..+.+...-...+.|++++
T Consensus        89 Y~A~i~ADALrV~~~~~D~---~~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~en---~Ad~~in~gCllykegqyEa  162 (459)
T KOG4340|consen   89 YKACIYADALRVAFLLLDN---PALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPSEN---EADGQINLGCLLYKEGQYEA  162 (459)
T ss_pred             HHhcccHHHHHHHHHhcCC---HHHHHHHHHHHHHHhcccccCcchHHHHHhccCCC---ccchhccchheeeccccHHH
Confidence            7889999999999988753   23222222222  2345788888888888876532   44455555556678999999


Q ss_pred             HHHHHHHHHHCCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhh----HHHHHHHHHhcCCHHHHHHHHH
Q 003295          411 AENALEEMLSRGLSINQGAYTSVIKWLCINSRFNSALHFTKEMLLRNLRPGDGL----LTLLVSGLCKNGKQAEATELCF  486 (833)
Q Consensus       411 A~~~l~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~----~~~li~~~~~~g~~~~A~~~~~  486 (833)
                      |.+-|....+.+--.....|+. .-++.+.|+++.|++...+++.+|++..+..    .+-.++.-.- |+   ...+..
T Consensus       163 AvqkFqaAlqvsGyqpllAYni-ALaHy~~~qyasALk~iSEIieRG~r~HPElgIGm~tegiDvrsv-gN---t~~lh~  237 (459)
T KOG4340|consen  163 AVQKFQAALQVSGYQPLLAYNL-ALAHYSSRQYASALKHISEIIERGIRQHPELGIGMTTEGIDVRSV-GN---TLVLHQ  237 (459)
T ss_pred             HHHHHHHHHhhcCCCchhHHHH-HHHHHhhhhHHHHHHHHHHHHHhhhhcCCccCccceeccCchhcc-cc---hHHHHH
Confidence            9999999888654444555554 4456678889999999999998887643221    1111110000 00   000000


Q ss_pred             HHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCC-CCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCC
Q 003295          487 RLFEKGFTVNTVTSNALIHGMCEAGNLKEAGKLLMEMLQRG-LILDKVTYNTLILGCCKDGKPEEGFKLKEDMIKRGIQP  565 (833)
Q Consensus       487 ~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~l~~m~~~g-~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p  565 (833)
                      ..       =+..+|.-...+.+.|+++.|.+.+.+|.-+. -..|++|...+.-. -..+++.+..+-+.-++...+- 
T Consensus       238 Sa-------l~eAfNLKaAIeyq~~n~eAA~eaLtDmPPRaE~elDPvTLHN~Al~-n~~~~p~~g~~KLqFLL~~nPf-  308 (459)
T KOG4340|consen  238 SA-------LVEAFNLKAAIEYQLRNYEAAQEALTDMPPRAEEELDPVTLHNQALM-NMDARPTEGFEKLQFLLQQNPF-  308 (459)
T ss_pred             HH-------HHHHhhhhhhhhhhcccHHHHHHHhhcCCCcccccCCchhhhHHHHh-cccCCccccHHHHHHHHhcCCC-
Confidence            00       12234545556778889999999998887543 33466766544322 1245666666667777766543 


Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 003295          566 DNYTYNLLLHGLCSLGKMEEAIELWEEC  593 (833)
Q Consensus       566 ~~~~~~~li~~~~~~g~~~~A~~~~~~~  593 (833)
                      ...||..++-.||+..-++.|-+++.+-
T Consensus       309 P~ETFANlLllyCKNeyf~lAADvLAEn  336 (459)
T KOG4340|consen  309 PPETFANLLLLYCKNEYFDLAADVLAEN  336 (459)
T ss_pred             ChHHHHHHHHHHhhhHHHhHHHHHHhhC
Confidence            4577888888888888888888877653

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=98.85  E-value=5.8e-05  Score=73.70  Aligned_cols=328  Identities=14%  Similarity=0.093  Sum_probs=171.8

Q ss_pred             CChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHH---HHHHHHcCChHHHHHHHHHHHhCCCCCChhHH-
Q 003295          320 PSLITYSILINGLIKLEKFDDANFVLKEMSVRGFVPNYVVYNTL---IDGYCKKGNISEALKIRDDMVSKGMSPNSVTF-  395 (833)
Q Consensus       320 p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~y~~l---i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~-  395 (833)
                      .|+.-...+.+.+...|++.+|+..|....+-    |+..|.++   ...|...|+-..|+.=+...++.  +||-..- 
T Consensus        36 advekhlElGk~lla~~Q~sDALt~yHaAve~----dp~~Y~aifrRaT~yLAmGksk~al~Dl~rVlel--KpDF~~AR  109 (504)
T KOG0624|consen   36 ADVEKHLELGKELLARGQLSDALTHYHAAVEG----DPNNYQAIFRRATVYLAMGKSKAALQDLSRVLEL--KPDFMAAR  109 (504)
T ss_pred             HHHHHHHHHHHHHHHhhhHHHHHHHHHHHHcC----CchhHHHHHHHHHHHhhhcCCccchhhHHHHHhc--CccHHHHH
Confidence            34555566777777888888888888877764    33334443   44677777777777777777764  5664321 


Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHHCCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhc
Q 003295          396 NSLIHGFCKSGQMDNAENALEEMLSRGLSINQGAYTSVIKWLCINSRFNSALHFTKEMLLRNLRPGDGLLTLLVSGLCKN  475 (833)
Q Consensus       396 ~~li~~~~~~g~~~~A~~~l~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~  475 (833)
                      ..-...+.+.|.+++|..-|+..++....  ..   ....++.+.--.++-                ......+..+...
T Consensus       110 iQRg~vllK~Gele~A~~DF~~vl~~~~s--~~---~~~eaqskl~~~~e~----------------~~l~~ql~s~~~~  168 (504)
T KOG0624|consen  110 IQRGVVLLKQGELEQAEADFDQVLQHEPS--NG---LVLEAQSKLALIQEH----------------WVLVQQLKSASGS  168 (504)
T ss_pred             HHhchhhhhcccHHHHHHHHHHHHhcCCC--cc---hhHHHHHHHHhHHHH----------------HHHHHHHHHHhcC
Confidence            11223566777777777777777664321  10   011111111000000                0112223334445


Q ss_pred             CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCChhhHHHHH
Q 003295          476 GKQAEATELCFRLFEKGFTVNTVTSNALIHGMCEAGNLKEAGKLLMEMLQRGLILDKVTYNTLILGCCKDGKPEEGFKLK  555 (833)
Q Consensus       476 g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~l~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~  555 (833)
                      |+...|++....+++. .+-|...|..-..+|...|+...|+.-++...+..-. +..++..+-..+...|+.+.++...
T Consensus       169 GD~~~ai~~i~~llEi-~~Wda~l~~~Rakc~i~~~e~k~AI~Dlk~askLs~D-nTe~~ykis~L~Y~vgd~~~sL~~i  246 (504)
T KOG0624|consen  169 GDCQNAIEMITHLLEI-QPWDASLRQARAKCYIAEGEPKKAIHDLKQASKLSQD-NTEGHYKISQLLYTVGDAENSLKEI  246 (504)
T ss_pred             CchhhHHHHHHHHHhc-CcchhHHHHHHHHHHHhcCcHHHHHHHHHHHHhcccc-chHHHHHHHHHHHhhhhHHHHHHHH
Confidence            5555555555555554 2234455555555555555555555555444443222 4444444444555555555555555


Q ss_pred             HHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCcc
Q 003295          556 EDMIKRGIQPDNYTYNLLLHGLCSLGKMEEAIELWEECKRTVFGPDIYTYGVMIDGFCKADKIEEGETLFNEMISKKMEL  635 (833)
Q Consensus       556 ~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~  635 (833)
                      ++-++.  .||...+...   |-   .+.+..+.++.|.+                ....++|.++.+..+...+..+..
T Consensus       247 RECLKl--dpdHK~Cf~~---YK---klkKv~K~les~e~----------------~ie~~~~t~cle~ge~vlk~ep~~  302 (504)
T KOG0624|consen  247 RECLKL--DPDHKLCFPF---YK---KLKKVVKSLESAEQ----------------AIEEKHWTECLEAGEKVLKNEPEE  302 (504)
T ss_pred             HHHHcc--CcchhhHHHH---HH---HHHHHHHHHHHHHH----------------HHhhhhHHHHHHHHHHHHhcCCcc
Confidence            555443  3332211111   11   11111222222211                223566666666666666664443


Q ss_pred             CHHHHH---HHHHHHHHcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 003295          636 NPVVYN---TLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKE  701 (833)
Q Consensus       636 ~~~~~~---~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  701 (833)
                      ..+.|+   .+-.++...|++.+|++...+.++.. +.|..++.--..+|.-...++.|+.-|+.+.+.
T Consensus       303 ~~ir~~~~r~~c~C~~~d~~~~eAiqqC~evL~~d-~~dv~~l~dRAeA~l~dE~YD~AI~dye~A~e~  370 (504)
T KOG0624|consen  303 TMIRYNGFRVLCTCYREDEQFGEAIQQCKEVLDID-PDDVQVLCDRAEAYLGDEMYDDAIHDYEKALEL  370 (504)
T ss_pred             cceeeeeeheeeecccccCCHHHHHHHHHHHHhcC-chHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhc
Confidence            333333   34455566677777777777776652 234666666677777777777777777777764

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=98.80  E-value=3.7e-05  Score=75.06  Aligned_cols=325  Identities=13%  Similarity=0.088  Sum_probs=187.6

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhh-HHHHHHHHHh
Q 003295          221 CNFLLNSLVKANEVQKGIEVFETMCRGVSPDVFLFSTAINAFCKRGRIEDAIGLFTKMEELGIAPNVVT-YNNIIHGLCR  299 (833)
Q Consensus       221 ~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~-~~~li~~~~~  299 (833)
                      -.-+...+...|++..|+.-|...+.|.|.+-.++..-...|...|+-..|+.=|.+.++.  .||-.. --.-...+.+
T Consensus        41 hlElGk~lla~~Q~sDALt~yHaAve~dp~~Y~aifrRaT~yLAmGksk~al~Dl~rVlel--KpDF~~ARiQRg~vllK  118 (504)
T KOG0624|consen   41 HLELGKELLARGQLSDALTHYHAAVEGDPNNYQAIFRRATVYLAMGKSKAALQDLSRVLEL--KPDFMAARIQRGVVLLK  118 (504)
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHcCCchhHHHHHHHHHHHhhhcCCccchhhHHHHHhc--CccHHHHHHHhchhhhh
Confidence            3445667778899999999999998887777777777888899999999999999998875  566332 1223345678


Q ss_pred             cCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHHcCChHHHHHH
Q 003295          300 NGRLYEAFHLKEKMVLREVEPSLITYSILINGLIKLEKFDDANFVLKEMSVRGFVPNYVVYNTLIDGYCKKGNISEALKI  379 (833)
Q Consensus       300 ~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~A~~~  379 (833)
                      .|++++|..-|+..+...  |+..+   ...++.+.-       ..+++..         ....+..+.-.|+...|++.
T Consensus       119 ~Gele~A~~DF~~vl~~~--~s~~~---~~eaqskl~-------~~~e~~~---------l~~ql~s~~~~GD~~~ai~~  177 (504)
T KOG0624|consen  119 QGELEQAEADFDQVLQHE--PSNGL---VLEAQSKLA-------LIQEHWV---------LVQQLKSASGSGDCQNAIEM  177 (504)
T ss_pred             cccHHHHHHHHHHHHhcC--CCcch---hHHHHHHHH-------hHHHHHH---------HHHHHHHHhcCCchhhHHHH
Confidence            899999999998888763  33221   111111111       1111111         11222334457788888888


Q ss_pred             HHHHHhCCCCC-ChhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHHCCC
Q 003295          380 RDDMVSKGMSP-NSVTFNSLIHGFCKSGQMDNAENALEEMLSRGLSINQGAYTSVIKWLCINSRFNSALHFTKEMLLRNL  458 (833)
Q Consensus       380 ~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~~l~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~  458 (833)
                      ...+++-  .| |...|..-..+|...|++..|+.-++...+. -..+..++..+-..+...|+.+.++...++.++.++
T Consensus       178 i~~llEi--~~Wda~l~~~Rakc~i~~~e~k~AI~Dlk~askL-s~DnTe~~ykis~L~Y~vgd~~~sL~~iRECLKldp  254 (504)
T KOG0624|consen  178 ITHLLEI--QPWDASLRQARAKCYIAEGEPKKAIHDLKQASKL-SQDNTEGHYKISQLLYTVGDAENSLKEIRECLKLDP  254 (504)
T ss_pred             HHHHHhc--CcchhHHHHHHHHHHHhcCcHHHHHHHHHHHHhc-cccchHHHHHHHHHHHhhhhHHHHHHHHHHHHccCc
Confidence            8888774  33 6666777777888888888888777776654 234566666677777777777777777777665443


Q ss_pred             CCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHH---
Q 003295          459 RPGDGLLTLLVSGLCKNGKQAEATELCFRLFEKGFTVNTVTSNALIHGMCEAGNLKEAGKLLMEMLQRGLILDKVTY---  535 (833)
Q Consensus       459 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~l~~m~~~g~~~~~~~~---  535 (833)
                      .  ......   .|-+..   +....++.+                ....+.+++.++.+-.+...+..+....+.+   
T Consensus       255 d--HK~Cf~---~YKklk---Kv~K~les~----------------e~~ie~~~~t~cle~ge~vlk~ep~~~~ir~~~~  310 (504)
T KOG0624|consen  255 D--HKLCFP---FYKKLK---KVVKSLESA----------------EQAIEEKHWTECLEAGEKVLKNEPEETMIRYNGF  310 (504)
T ss_pred             c--hhhHHH---HHHHHH---HHHHHHHHH----------------HHHHhhhhHHHHHHHHHHHHhcCCcccceeeeee
Confidence            2  111000   011111   111111111                1122344555555555555554333222222   


Q ss_pred             HHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhC
Q 003295          536 NTLILGCCKDGKPEEGFKLKEDMIKRGIQPDNYTYNLLLHGLCSLGKMEEAIELWEECKRT  596 (833)
Q Consensus       536 ~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~  596 (833)
                      ..+-.++...+++.+|++...+.++... .|+.++.--..+|.-...+++|+.-|+...+.
T Consensus       311 r~~c~C~~~d~~~~eAiqqC~evL~~d~-~dv~~l~dRAeA~l~dE~YD~AI~dye~A~e~  370 (504)
T KOG0624|consen  311 RVLCTCYREDEQFGEAIQQCKEVLDIDP-DDVQVLCDRAEAYLGDEMYDDAIHDYEKALEL  370 (504)
T ss_pred             heeeecccccCCHHHHHHHHHHHHhcCc-hHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhc
Confidence            2233344445556666666655555421 13555555555555555666666666555543

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.78  E-value=2.5e-05  Score=95.03  Aligned_cols=371  Identities=12%  Similarity=0.080  Sum_probs=216.8

Q ss_pred             HHHHHHcCChHHHHHHHHHHHhCCCCCCh-hHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCcccHHHHHHHHHhcCC
Q 003295          364 IDGYCKKGNISEALKIRDDMVSKGMSPNS-VTFNSLIHGFCKSGQMDNAENALEEMLSRGLSINQGAYTSVIKWLCINSR  442 (833)
Q Consensus       364 i~~~~~~g~~~~A~~~~~~m~~~g~~p~~-~~~~~li~~~~~~g~~~~A~~~l~~~~~~g~~~~~~~~~~li~~~~~~g~  442 (833)
                      ...+...|++.+|.........   .+.. .............|+++.+..+++.+.......+..........+...|+
T Consensus       348 a~~~~~~g~~~~Al~~a~~a~d---~~~~~~ll~~~a~~l~~~g~~~~l~~~l~~lp~~~~~~~~~l~~~~a~~~~~~g~  424 (903)
T PRK04841        348 AEAWLAQGFPSEAIHHALAAGD---AQLLRDILLQHGWSLFNQGELSLLEECLNALPWEVLLENPRLVLLQAWLAQSQHR  424 (903)
T ss_pred             HHHHHHCCCHHHHHHHHHHCCC---HHHHHHHHHHhHHHHHhcCChHHHHHHHHhCCHHHHhcCcchHHHHHHHHHHCCC
Confidence            4445566776666654433221   1000 01111222344567777766666654221111223333444455566788


Q ss_pred             hhHHHHHHHHHHHCCCC------CC--hhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC----HHHHHHHHHHHHhc
Q 003295          443 FNSALHFTKEMLLRNLR------PG--DGLLTLLVSGLCKNGKQAEATELCFRLFEKGFTVN----TVTSNALIHGMCEA  510 (833)
Q Consensus       443 ~~~A~~~~~~~~~~~~~------~~--~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~----~~~~~~li~~~~~~  510 (833)
                      +++|...+......-..      +.  ......+...+...|++++|...+++..+.-...+    ....+.+...+...
T Consensus       425 ~~~a~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~a~~~lg~~~~~~  504 (903)
T PRK04841        425 YSEVNTLLARAEQELKDRNIELDGTLQAEFNALRAQVAINDGDPEEAERLAELALAELPLTWYYSRIVATSVLGEVHHCK  504 (903)
T ss_pred             HHHHHHHHHHHHHhccccCcccchhHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHHc
Confidence            88888877766543111      11  11122233455678889999888888776322212    13456666777888


Q ss_pred             CCHHHHHHHHHHHhhC----CCC-CCHHHHHHHHHHHHhcCChhhHHHHHHHHHHC----CCC--C-CHHHHHHHHHHHH
Q 003295          511 GNLKEAGKLLMEMLQR----GLI-LDKVTYNTLILGCCKDGKPEEGFKLKEDMIKR----GIQ--P-DNYTYNLLLHGLC  578 (833)
Q Consensus       511 g~~~~A~~~l~~m~~~----g~~-~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----g~~--p-~~~~~~~li~~~~  578 (833)
                      |++++|...+.+....    |.. ....++..+...+...|++++|...+++....    +..  + ....+..+...+.
T Consensus       505 G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~  584 (903)
T PRK04841        505 GELARALAMMQQTEQMARQHDVYHYALWSLLQQSEILFAQGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQLLW  584 (903)
T ss_pred             CCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHH
Confidence            9999998888887643    111 11234455666777889999998888876653    211  1 2233445566677


Q ss_pred             hcCCHHHHHHHHHHHhhCC--CCC--CHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCcc-CHHHH-----HHHHHHHH
Q 003295          579 SLGKMEEAIELWEECKRTV--FGP--DIYTYGVMIDGFCKADKIEEGETLFNEMISKKMEL-NPVVY-----NTLIRAYC  648 (833)
Q Consensus       579 ~~g~~~~A~~~~~~~~~~~--~~~--~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~-~~~~~-----~~li~~~~  648 (833)
                      ..|++++|...+.+.....  ..+  ....+..+...+...|+.++|...+.+........ ....+     ...+..+.
T Consensus       585 ~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~  664 (903)
T PRK04841        585 EWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKISLARGDLDNARRYLNRLENLLGNGRYHSDWIANADKVRLIYWQ  664 (903)
T ss_pred             HhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccHhHhhHHHHHHHHHHH
Confidence            7799999998888765421  111  13344445667778899999988888875421110 11111     11224445


Q ss_pred             HcCChHHHHHHHHHHHhCCCCCCH---HHHHHHHHHHHhcCCHHHHHHHHHHHHHC----CCCCC-hhHHHHHHHHHHhc
Q 003295          649 KIGNTTAAFRLSNDMKSRGILPTS---VTYSSLIHGLCNIGLIEDAKCLFDEMRKE----GLLPN-VACYTALIGGYCKL  720 (833)
Q Consensus       649 ~~g~~~~A~~~~~~m~~~~~~p~~---~~~~~li~~~~~~g~~~~A~~~~~~m~~~----g~~p~-~~~~~~li~~~~~~  720 (833)
                      ..|+.+.|.+.+............   ..+..+..++...|+.++|...+++....    |...+ ..++..+..++.+.
T Consensus       665 ~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~l~~al~~~~~~g~~~~~a~~~~~la~a~~~~  744 (903)
T PRK04841        665 MTGDKEAAANWLRQAPKPEFANNHFLQGQWRNIARAQILLGQFDEAEIILEELNENARSLRLMSDLNRNLILLNQLYWQQ  744 (903)
T ss_pred             HCCCHHHHHHHHHhcCCCCCccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHHHc
Confidence            678888888887765542211111   11345666778889999999999887653    32222 24566677788899


Q ss_pred             CChhHHHHHHHHHHhCC
Q 003295          721 GQMDEAESVLQEMASIN  737 (833)
Q Consensus       721 g~~~~A~~~~~~m~~~g  737 (833)
                      |+.++|...+.+..+..
T Consensus       745 G~~~~A~~~L~~Al~la  761 (903)
T PRK04841        745 GRKSEAQRVLLEALKLA  761 (903)
T ss_pred             CCHHHHHHHHHHHHHHh
Confidence            99999999999988753

>PF12854 PPR_1: PPR repeat

Probab=98.77  E-value=7.1e-09  Score=66.28  Aligned_cols=32  Identities=53%  Similarity=1.009  Sum_probs=16.3

Q ss_pred             CCCCChhhHHHHHHHHHhcCChhHHHHHHHHH
Q 003295          282 GIAPNVVTYNNIIHGLCRNGRLYEAFHLKEKM  313 (833)
Q Consensus       282 g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m  313 (833)
                      |+.||++|||+||++||+.|++++|.++|++|
T Consensus         2 G~~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~M   33 (34)
T PF12854_consen    2 GCEPDVVTYNTLIDGYCKAGRVDEAFELFDEM   33 (34)
T ss_pred             CCCCcHhHHHHHHHHHHHCCCHHHHHHHHHhC
Confidence            44455555555555555555555555555544

>KOG1125 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.76  E-value=7.1e-07  Score=93.14  Aligned_cols=256  Identities=15%  Similarity=0.093  Sum_probs=162.8

Q ss_pred             HHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHccCCHH
Q 003295          540 LGCCKDGKPEEGFKLKEDMIKRGIQPDNYTYNLLLHGLCSLGKMEEAIELWEECKRTVFGPDIYTYGVMIDGFCKADKIE  619 (833)
Q Consensus       540 ~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~  619 (833)
                      .-+.+.|++.+|.-.|+..++..+. +...|..|.......++-..|+..+.+..+.. +-+....-.|.-.|...|.-.
T Consensus       293 ~~lm~nG~L~~A~LafEAAVkqdP~-haeAW~~LG~~qaENE~E~~ai~AL~rcl~Ld-P~NleaLmaLAVSytNeg~q~  370 (579)
T KOG1125|consen  293 CNLMKNGDLSEAALAFEAAVKQDPQ-HAEAWQKLGITQAENENEQNAISALRRCLELD-PTNLEALMALAVSYTNEGLQN  370 (579)
T ss_pred             HHHHhcCCchHHHHHHHHHHhhChH-HHHHHHHhhhHhhhccchHHHHHHHHHHHhcC-CccHHHHHHHHHHHhhhhhHH
Confidence            3456778888888888888877544 66777777777777777777777777777653 234556666667777777777


Q ss_pred             HHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH-
Q 003295          620 EGETLFNEMISKKMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEM-  698 (833)
Q Consensus       620 ~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-  698 (833)
                      +|++.+++.+...++     |..+..+ ...++.+.-          +-.++...             +....++|-++ 
T Consensus       371 ~Al~~L~~Wi~~~p~-----y~~l~~a-~~~~~~~~~----------~s~~~~~~-------------l~~i~~~fLeaa  421 (579)
T KOG1125|consen  371 QALKMLDKWIRNKPK-----YVHLVSA-GENEDFENT----------KSFLDSSH-------------LAHIQELFLEAA  421 (579)
T ss_pred             HHHHHHHHHHHhCcc-----chhcccc-CccccccCC----------cCCCCHHH-------------HHHHHHHHHHHH
Confidence            777777777665432     0000000 000000000          00112211             22333444444 


Q ss_pred             HHCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCH-
Q 003295          699 RKEGLLPNVACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISPDS-  777 (833)
Q Consensus       699 ~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-  777 (833)
                      ...+..+|..++..|.-.|.-.|++++|...|+.++... +-|...||-|+..+....+.++|+..|+++++  +.|+- 
T Consensus       422 ~~~~~~~DpdvQ~~LGVLy~ls~efdraiDcf~~AL~v~-Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALq--LqP~yV  498 (579)
T KOG1125|consen  422 RQLPTKIDPDVQSGLGVLYNLSGEFDRAVDCFEAALQVK-PNDYLLWNRLGATLANGNRSEEAISAYNRALQ--LQPGYV  498 (579)
T ss_pred             HhCCCCCChhHHhhhHHHHhcchHHHHHHHHHHHHHhcC-CchHHHHHHhhHHhcCCcccHHHHHHHHHHHh--cCCCee
Confidence            344545677778888888888888888888888888753 44567888888888888888888888888888  67764 


Q ss_pred             HHHHHHHHHHhcCCCHHHHHHHHHHHHHC---CCC------CCHHHHHHHHHhhccCCCCc
Q 003295          778 ITYNVFMDGHCKGGNVEEAFKVCDRMLSE---GLS------LDEITYTTLIDGWQSSTITN  829 (833)
Q Consensus       778 ~~~~~l~~~~~~~g~~~~A~~~~~~m~~~---g~~------p~~~~~~~l~~~~~~~~~~~  829 (833)
                      .+...|+-+|...|.++||.+.|-+.+..   +-.      ++...|.+|--++.-.+..|
T Consensus       499 R~RyNlgIS~mNlG~ykEA~~hlL~AL~mq~ks~~~~~~~~~se~iw~tLR~als~~~~~D  559 (579)
T KOG1125|consen  499 RVRYNLGISCMNLGAYKEAVKHLLEALSMQRKSRNHNKAPMASENIWQTLRLALSAMNRSD  559 (579)
T ss_pred             eeehhhhhhhhhhhhHHHHHHHHHHHHHhhhcccccccCCcchHHHHHHHHHHHHHcCCch
Confidence            46667777888888888888888776542   111      12356776666665544444

>PF04733 Coatomer_E: Coatomer epsilon subunit; InterPro: IPR006822 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=98.73  E-value=4.8e-07  Score=91.55  Aligned_cols=149  Identities=18%  Similarity=0.186  Sum_probs=67.9

Q ss_pred             HHHccCCHHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cC
Q 003295          611 GFCKADKIEEGETLFNEMISKKMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCN----IG  686 (833)
Q Consensus       611 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~----~g  686 (833)
                      .+...|++++|++++++.      .+.......+..|.+.++++.|.+.++.|.+.+  .|.. ...+..++..    .+
T Consensus       111 i~~~~~~~~~AL~~l~~~------~~lE~~al~Vqi~L~~~R~dlA~k~l~~~~~~~--eD~~-l~qLa~awv~l~~g~e  181 (290)
T PF04733_consen  111 ILFHEGDYEEALKLLHKG------GSLELLALAVQILLKMNRPDLAEKELKNMQQID--EDSI-LTQLAEAWVNLATGGE  181 (290)
T ss_dssp             HHCCCCHHHHHHCCCTTT------TCHHHHHHHHHHHHHTT-HHHHHHHHHHHHCCS--CCHH-HHHHHHHHHHHHHTTT
T ss_pred             HHHHcCCHHHHHHHHHcc------CcccHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CcHH-HHHHHHHHHHHHhCch
Confidence            344455555555544332      134444445555555555555555555555432  2222 2222222211    12


Q ss_pred             CHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCH-HHHHHHH
Q 003295          687 LIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDM-KEAAKLL  765 (833)
Q Consensus       687 ~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~-~~A~~~~  765 (833)
                      .+.+|..+|+++.+. ..+++.+.+.+..++...|++++|.+++++..+.+ +-|..+...++.+....|+. +.+.+++
T Consensus       182 ~~~~A~y~f~El~~~-~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~-~~~~d~LaNliv~~~~~gk~~~~~~~~l  259 (290)
T PF04733_consen  182 KYQDAFYIFEELSDK-FGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKD-PNDPDTLANLIVCSLHLGKPTEAAERYL  259 (290)
T ss_dssp             CCCHHHHHHHHHHCC-S--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC--CCHHHHHHHHHHHHHHTT-TCHHHHHHH
T ss_pred             hHHHHHHHHHHHHhc-cCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhc-cCCHHHHHHHHHHHHHhCCChhHHHHHH
Confidence            355555555555443 23455555555555555555555555555555432 23344444455555555554 3444455


Q ss_pred             HHHHH
Q 003295          766 NVMAE  770 (833)
Q Consensus       766 ~~m~~  770 (833)
                      .++..
T Consensus       260 ~qL~~  264 (290)
T PF04733_consen  260 SQLKQ  264 (290)
T ss_dssp             HHCHH
T ss_pred             HHHHH
Confidence            55444

This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the epsilon subunit of the coatomer complex, which is involved in the regulation of intracellular protein trafficking between the endoplasmic reticulum and the Golgi complex []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006890 retrograde vesicle-mediated transport, Golgi to ER, 0030126 COPI vesicle coat; PDB: 3MV2_B 3MV3_F 3MKR_A.

>PF04733 Coatomer_E: Coatomer epsilon subunit; InterPro: IPR006822 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=98.70  E-value=4.8e-07  Score=91.56  Aligned_cols=248  Identities=13%  Similarity=0.109  Sum_probs=161.6

Q ss_pred             HHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHccCCHHHH
Q 003295          542 CCKDGKPEEGFKLKEDMIKRGIQPDNYTYNLLLHGLCSLGKMEEAIELWEECKRTVFGPDIYTYGVMIDGFCKADKIEEG  621 (833)
Q Consensus       542 ~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A  621 (833)
                      +.-.|++..++.-.+ ........+......+.+++...|+++.++.   ++.... .|.......+...+...++-+.+
T Consensus        11 ~fy~G~Y~~~i~e~~-~~~~~~~~~~e~~~~~~Rs~iAlg~~~~vl~---ei~~~~-~~~l~av~~la~y~~~~~~~e~~   85 (290)
T PF04733_consen   11 QFYLGNYQQCINEAS-LKSFSPENKLERDFYQYRSYIALGQYDSVLS---EIKKSS-SPELQAVRLLAEYLSSPSDKESA   85 (290)
T ss_dssp             HHCTT-HHHHCHHHH-CHTSTCHHHHHHHHHHHHHHHHTT-HHHHHH---HS-TTS-SCCCHHHHHHHHHHCTSTTHHCH
T ss_pred             HHHhhhHHHHHHHhh-ccCCCchhHHHHHHHHHHHHHHcCChhHHHH---HhccCC-ChhHHHHHHHHHHHhCccchHHH
Confidence            334577777665554 2222222233445566777778887765443   333322 55555555554444443455566


Q ss_pred             HHHHHHHHHCCCc-cCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 003295          622 ETLFNEMISKKME-LNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRK  700 (833)
Q Consensus       622 ~~~~~~~~~~~~~-~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  700 (833)
                      +.-+++....... .+..........+...|++++|+++++..      .+.......+..+.+.++++.|.+.++.|.+
T Consensus        86 l~~l~~~~~~~~~~~~~~~~~~~A~i~~~~~~~~~AL~~l~~~------~~lE~~al~Vqi~L~~~R~dlA~k~l~~~~~  159 (290)
T PF04733_consen   86 LEELKELLADQAGESNEIVQLLAATILFHEGDYEEALKLLHKG------GSLELLALAVQILLKMNRPDLAEKELKNMQQ  159 (290)
T ss_dssp             HHHHHHCCCTS---CHHHHHHHHHHHHCCCCHHHHHHCCCTTT------TCHHHHHHHHHHHHHTT-HHHHHHHHHHHHC
T ss_pred             HHHHHHHHHhccccccHHHHHHHHHHHHHcCCHHHHHHHHHcc------CcccHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            6555554433322 23333334445667789999999988642      3667777888999999999999999999987


Q ss_pred             CCCCCChhHHHHHHHHHHh----cCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC
Q 003295          701 EGLLPNVACYTALIGGYCK----LGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISPD  776 (833)
Q Consensus       701 ~g~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~  776 (833)
                      .  ..|.. ...+..++..    .+++.+|..+|+++.+. .++++.+.+.+..++...|++++|.++++++.+.+ +-|
T Consensus       160 ~--~eD~~-l~qLa~awv~l~~g~e~~~~A~y~f~El~~~-~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~-~~~  234 (290)
T PF04733_consen  160 I--DEDSI-LTQLAEAWVNLATGGEKYQDAFYIFEELSDK-FGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKD-PND  234 (290)
T ss_dssp             C--SCCHH-HHHHHHHHHHHHHTTTCCCHHHHHHHHHHCC-S--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC--CCH
T ss_pred             c--CCcHH-HHHHHHHHHHHHhCchhHHHHHHHHHHHHhc-cCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhc-cCC
Confidence            4  34543 3334444432    34699999999998875 57899999999999999999999999999988753 336


Q ss_pred             HHHHHHHHHHHhcCCCH-HHHHHHHHHHHH
Q 003295          777 SITYNVFMDGHCKGGNV-EEAFKVCDRMLS  805 (833)
Q Consensus       777 ~~~~~~l~~~~~~~g~~-~~A~~~~~~m~~  805 (833)
                      ..+...++-.....|+. +.+.+++.++..
T Consensus       235 ~d~LaNliv~~~~~gk~~~~~~~~l~qL~~  264 (290)
T PF04733_consen  235 PDTLANLIVCSLHLGKPTEAAERYLSQLKQ  264 (290)
T ss_dssp             HHHHHHHHHHHHHTT-TCHHHHHHHHHCHH
T ss_pred             HHHHHHHHHHHHHhCCChhHHHHHHHHHHH
Confidence            67888888888888988 667788888876

This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the epsilon subunit of the coatomer complex, which is involved in the regulation of intracellular protein trafficking between the endoplasmic reticulum and the Golgi complex []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006890 retrograde vesicle-mediated transport, Golgi to ER, 0030126 COPI vesicle coat; PDB: 3MV2_B 3MV3_F 3MKR_A.

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=98.68  E-value=0.00083  Score=70.08  Aligned_cols=429  Identities=13%  Similarity=0.123  Sum_probs=215.4

Q ss_pred             hcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCC-hhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChh
Q 003295          245 CRGVSPDVFLFSTAINAFCKRGRIEDAIGLFTKMEELGIAPN-VVTYNNIIHGLCRNGRLYEAFHLKEKMVLREVEPSLI  323 (833)
Q Consensus       245 ~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~  323 (833)
                      ++..|-|..+|+.||+-+..+ .++++++.++++...  .|+ ...|..-|.+..+..+++....+|.+-..+-  -+..
T Consensus        13 ie~nP~di~sw~~lire~qt~-~~~~~R~~YEq~~~~--FP~s~r~W~~yi~~El~skdfe~VEkLF~RCLvkv--LnlD   87 (656)
T KOG1914|consen   13 IEENPYDIDSWSQLIREAQTQ-PIDKVRETYEQLVNV--FPSSPRAWKLYIERELASKDFESVEKLFSRCLVKV--LNLD   87 (656)
T ss_pred             HhcCCccHHHHHHHHHHHccC-CHHHHHHHHHHHhcc--CCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHH--hhHh
Confidence            345678899999999877666 899999999998863  444 5678888888888999999999999888763  3566


Q ss_pred             hHHHHHHHHHh-cCChhHHH----HHHHHH-HHCCCCCC-hhhHHHHHHHH---------HHcCChHHHHHHHHHHHhCC
Q 003295          324 TYSILINGLIK-LEKFDDAN----FVLKEM-SVRGFVPN-YVVYNTLIDGY---------CKKGNISEALKIRDDMVSKG  387 (833)
Q Consensus       324 t~~~li~~~~~-~g~~~~A~----~~~~~m-~~~g~~p~-~~~y~~li~~~---------~~~g~~~~A~~~~~~m~~~g  387 (833)
                      .|...|.--.+ .|+...+.    +.|+-. .+.|+.+- -..|+.-+..+         ..+.+++...+++.++...-
T Consensus        88 LW~lYl~YVR~~~~~~~~~r~~m~qAy~f~l~kig~di~s~siW~eYi~FL~~vea~gk~ee~QRI~~vRriYqral~tP  167 (656)
T KOG1914|consen   88 LWKLYLSYVRETKGKLFGYREKMVQAYDFALEKIGMDIKSYSIWDEYINFLEGVEAVGKYEENQRITAVRRIYQRALVTP  167 (656)
T ss_pred             HHHHHHHHHHHHccCcchHHHHHHHHHHHHHHHhccCcccchhHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHhcCc
Confidence            66666653322 23333322    223322 34454332 22344444322         23345556666777766532


Q ss_pred             CCCCh-hHHHHHHHH-----------H--HhcCChhHHHHHHHHHHH--CCCCCCcccHHHHHHHHHhcCChhHH--HHH
Q 003295          388 MSPNS-VTFNSLIHG-----------F--CKSGQMDNAENALEEMLS--RGLSINQGAYTSVIKWLCINSRFNSA--LHF  449 (833)
Q Consensus       388 ~~p~~-~~~~~li~~-----------~--~~~g~~~~A~~~l~~~~~--~g~~~~~~~~~~li~~~~~~g~~~~A--~~~  449 (833)
                      +. +. ..|+-....           +  -+...+-.|.++++++..  +|+..+..+       .-..|--++.  .++
T Consensus       168 m~-nlEkLW~DY~~fE~~IN~~tarK~i~e~s~~Ym~AR~~~qel~~lt~GL~r~~~~-------vp~~~T~~e~~qv~~  239 (656)
T KOG1914|consen  168 MH-NLEKLWKDYEAFEQEINIITARKFIGERSPEYMNARRVYQELQNLTRGLNRNAPA-------VPPKGTKDEIQQVEL  239 (656)
T ss_pred             cc-cHHHHHHHHHHHHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHHHHHhhhcccCCC-------CCCCCChHHHHHHHH
Confidence            22 21 123211100           0  011123334444444322  222211111       0000001111  111


Q ss_pred             HHHHHH----CCCC-CChhhHHHHHHHHHhcCCHHHHHHHHHHHH-HCCCCCCHHHH-----HHHHHHHHhcCCH-----
Q 003295          450 TKEMLL----RNLR-PGDGLLTLLVSGLCKNGKQAEATELCFRLF-EKGFTVNTVTS-----NALIHGMCEAGNL-----  513 (833)
Q Consensus       450 ~~~~~~----~~~~-~~~~~~~~li~~~~~~g~~~~A~~~~~~~~-~~g~~~~~~~~-----~~li~~~~~~g~~-----  513 (833)
                      +...++    .+.. .+.....            ....-.+++.+ --+..|++...     ....+.+...|+.     
T Consensus       240 W~n~I~wEksNpL~t~~~~~~~------------~Rv~yayeQ~ll~l~~~peiWy~~s~yl~~~s~l~~~~~d~~~a~~  307 (656)
T KOG1914|consen  240 WKNWIKWEKSNPLRTLDGTMLT------------RRVMYAYEQCLLYLGYHPEIWYDYSMYLIEISDLLTEKGDVPDAKS  307 (656)
T ss_pred             HHHHHHHHhcCCcccccccHHH------------HHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhhHHHHHhcccccchh
Confidence            111111    1111 0000000            00001111111 11122221100     0011122333332     


Q ss_pred             --HHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhc---CChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 003295          514 --KEAGKLLMEMLQRGLILDKVTYNTLILGCCKD---GKPEEGFKLKEDMIKRGIQPDNYTYNLLLHGLCSLGKMEEAIE  588 (833)
Q Consensus       514 --~~A~~~l~~m~~~g~~~~~~~~~~li~~~~~~---g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~  588 (833)
                        +++..+++...+.-..-+...|..+.+---..   .+.+.....+++++..-..--..+|..+++...+..-++.|..
T Consensus       308 ~t~e~~~~yEr~I~~l~~~~~~Ly~~~a~~eE~~~~~n~~~~~~~~~~~ll~~~~~~~tLv~~~~mn~irR~eGlkaaR~  387 (656)
T KOG1914|consen  308 LTDEAASIYERAIEGLLKENKLLYFALADYEESRYDDNKEKKVHEIYNKLLKIEDIDLTLVYCQYMNFIRRAEGLKAARK  387 (656)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHhcccchhhhhHHHHHHHHhhhccCCceehhHHHHHHHHhhhHHHHHH
Confidence              34444444433321111222333222211111   1244455555555544222223456667777777777778888


Q ss_pred             HHHHHhhCCCCC-CHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCC
Q 003295          589 LWEECKRTVFGP-DIYTYGVMIDGFCKADKIEEGETLFNEMISKKMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRG  667 (833)
Q Consensus       589 ~~~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~  667 (833)
                      +|.++.+.+..+ ++.++++++.-|| .++.+-|.++|+--++.-.. ++.--...++-+...++-..|..+|++....+
T Consensus       388 iF~kaR~~~r~~hhVfVa~A~mEy~c-skD~~~AfrIFeLGLkkf~d-~p~yv~~YldfL~~lNdd~N~R~LFEr~l~s~  465 (656)
T KOG1914|consen  388 IFKKAREDKRTRHHVFVAAALMEYYC-SKDKETAFRIFELGLKKFGD-SPEYVLKYLDFLSHLNDDNNARALFERVLTSV  465 (656)
T ss_pred             HHHHHhhccCCcchhhHHHHHHHHHh-cCChhHHHHHHHHHHHhcCC-ChHHHHHHHHHHHHhCcchhHHHHHHHHHhcc
Confidence            888877766665 6667777777776 56677777777766555322 44555566777777777777888888877765


Q ss_pred             CCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 003295          668 ILPT--SVTYSSLIHGLCNIGLIEDAKCLFDEMRK  700 (833)
Q Consensus       668 ~~p~--~~~~~~li~~~~~~g~~~~A~~~~~~m~~  700 (833)
                      +.++  ...|..++.--+.-|++..+.++-+++..
T Consensus       466 l~~~ks~~Iw~r~l~yES~vGdL~si~~lekR~~~  500 (656)
T KOG1914|consen  466 LSADKSKEIWDRMLEYESNVGDLNSILKLEKRRFT  500 (656)
T ss_pred             CChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHHH
Confidence            5443  35677777777777887777777766654

>PF12854 PPR_1: PPR repeat

Probab=98.68  E-value=2.3e-08  Score=63.92  Aligned_cols=34  Identities=44%  Similarity=0.973  Sum_probs=26.6

Q ss_pred             cCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHH
Q 003295          246 RGVSPDVFLFSTAINAFCKRGRIEDAIGLFTKME  279 (833)
Q Consensus       246 ~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~  279 (833)
                      +|++||.+|||++|++||+.|++++|.++|++|.
T Consensus         1 ~G~~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~M~   34 (34)
T PF12854_consen    1 RGCEPDVVTYNTLIDGYCKAGRVDEAFELFDEMK   34 (34)
T ss_pred             CCCCCcHhHHHHHHHHHHHCCCHHHHHHHHHhCc
Confidence            3677888888888888888888888888888773

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=98.68  E-value=0.0014  Score=72.60  Aligned_cols=532  Identities=14%  Similarity=0.089  Sum_probs=266.1

Q ss_pred             hhhccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHH--HHhcCChhHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhH
Q 003295          193 QFKNLGFGYAIDVFSIFSSKGIFPSLKTCNFLLNS--LVKANEVQKGIEVFETMCRGVSPDVFLFSTAINAFCKRGRIED  270 (833)
Q Consensus       193 ~~~~~~~~~A~~~f~~~~~~~~~p~~~~~~~ll~~--~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  270 (833)
                      ....+.+..|++-...+.++-  |+. .|...+.+  +.|.|+.++|...++....-...|..|...+-.+|-..|+.++
T Consensus        19 ~ld~~qfkkal~~~~kllkk~--Pn~-~~a~vLkaLsl~r~gk~~ea~~~Le~~~~~~~~D~~tLq~l~~~y~d~~~~d~   95 (932)
T KOG2053|consen   19 LLDSSQFKKALAKLGKLLKKH--PNA-LYAKVLKALSLFRLGKGDEALKLLEALYGLKGTDDLTLQFLQNVYRDLGKLDE   95 (932)
T ss_pred             HhhhHHHHHHHHHHHHHHHHC--CCc-HHHHHHHHHHHHHhcCchhHHHHHhhhccCCCCchHHHHHHHHHHHHHhhhhH
Confidence            345677889998887765543  222 23333443  4589999999988877762223388899999999999999999


Q ss_pred             HHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhc-CChhH---------
Q 003295          271 AIGLFTKMEELGIAPNVVTYNNIIHGLCRNGRLYEAFHLKEKMVLREVEPSLITYSILINGLIKL-EKFDD---------  340 (833)
Q Consensus       271 A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~-g~~~~---------  340 (833)
                      |..++++..+.  .|+......+-.+|.|.+.+.+-.+.--++-+. .+.+.+.+=++++.+... ...++         
T Consensus        96 ~~~~Ye~~~~~--~P~eell~~lFmayvR~~~yk~qQkaa~~LyK~-~pk~~yyfWsV~Slilqs~~~~~~~~~~i~l~L  172 (932)
T KOG2053|consen   96 AVHLYERANQK--YPSEELLYHLFMAYVREKSYKKQQKAALQLYKN-FPKRAYYFWSVISLILQSIFSENELLDPILLAL  172 (932)
T ss_pred             HHHHHHHHHhh--CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCcccchHHHHHHHHHHhccCCcccccchhHHH
Confidence            99999999875  577777777888899988887655544444442 334444444444444332 22222         


Q ss_pred             HHHHHHHHHHCC-CCCChhhHHHHHHHHHHcCChHHHHHHHHH-HHhCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHH
Q 003295          341 ANFVLKEMSVRG-FVPNYVVYNTLIDGYCKKGNISEALKIRDD-MVSKGMSPNSVTFNSLIHGFCKSGQMDNAENALEEM  418 (833)
Q Consensus       341 A~~~~~~m~~~g-~~p~~~~y~~li~~~~~~g~~~~A~~~~~~-m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~l~~~  418 (833)
                      |...++.+.+.+ -.-+..-.-.-...+-..|++++|.+++.. ..+.-..-+...-+--+..+...+++.+..++-.++
T Consensus       173 A~~m~~~~l~~~gk~~s~aE~~Lyl~iL~~~~k~~eal~~l~~~la~~l~~~~~~l~~~~~dllk~l~~w~~l~~l~~~L  252 (932)
T KOG2053|consen  173 AEKMVQKLLEKKGKIESEAEIILYLLILELQGKYQEALEFLAITLAEKLTSANLYLENKKLDLLKLLNRWQELFELSSRL  252 (932)
T ss_pred             HHHHHHHHhccCCccchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhccccchHHHHHHHHHHHHhcChHHHHHHHHHH
Confidence            344455555443 111111111112234467888888888833 333322224444455667777888888888888888


Q ss_pred             HHCCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHHCC-CCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH
Q 003295          419 LSRGLSINQGAYTSVIKWLCINSRFNSALHFTKEMLLRN-LRPGDGLLTLLVSGLCKNGKQAEATELCFRLFEKGFTVNT  497 (833)
Q Consensus       419 ~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~  497 (833)
                      ...|...    |...++.+             .++++.. ..|-...       ....+..+...+...+.......-..
T Consensus       253 l~k~~Dd----y~~~~~sv-------------~klLe~~~~~~a~~~-------~s~~~~l~~~~ek~~~~i~~~~Rgp~  308 (932)
T KOG2053|consen  253 LEKGNDD----YKIYTDSV-------------FKLLELLNKEPAEAA-------HSLSKSLDECIEKAQKNIGSKSRGPY  308 (932)
T ss_pred             HHhCCcc----hHHHHHHH-------------HHHHHhcccccchhh-------hhhhhhHHHHHHHHHHhhcccccCcH
Confidence            8776321    33333321             1111111 1111100       11112222222222222222111000


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCC-------------CHHHHHHHHHHHHhcCC-hhhHHHHHHHHHHCCC
Q 003295          498 VTSNALIHGMCEAGNLKEAGKLLMEMLQRGLIL-------------DKVTYNTLILGCCKDGK-PEEGFKLKEDMIKRGI  563 (833)
Q Consensus       498 ~~~~~li~~~~~~g~~~~A~~~l~~m~~~g~~~-------------~~~~~~~li~~~~~~g~-~~~A~~~~~~m~~~g~  563 (833)
                      .++--+..-+-.-|+.+++...|-+-  -|-.|             +..-...++..+....+ ...+.+.+.+      
T Consensus       309 LA~lel~kr~~~~gd~ee~~~~y~~k--fg~kpcc~~Dl~~yl~~l~~~q~~~l~~~l~~~~~~~s~~~k~l~~------  380 (932)
T KOG2053|consen  309 LARLELDKRYKLIGDSEEMLSYYFKK--FGDKPCCAIDLNHYLGHLNIDQLKSLMSKLVLADDDSSGDEKVLQQ------  380 (932)
T ss_pred             HHHHHHHHHhcccCChHHHHHHHHHH--hCCCcHhHhhHHHhhccCCHHHHHHHHHHhhccCCcchhhHHHHHH------
Confidence            11111111122334444443332211  11110             11111222222222111 1111111111      


Q ss_pred             CCCHHHHHHHHHHHHh---cCCHHHHHHHHHHHh---hC------CCCCC---------HhhHHHHHHHHHccCCHH---
Q 003295          564 QPDNYTYNLLLHGLCS---LGKMEEAIELWEECK---RT------VFGPD---------IYTYGVMIDGFCKADKIE---  619 (833)
Q Consensus       564 ~p~~~~~~~li~~~~~---~g~~~~A~~~~~~~~---~~------~~~~~---------~~~~~~li~~~~~~g~~~---  619 (833)
                          .+.+..+...+-   .=..+.-..++.+..   +.      +..|.         .-+.+.|++.+.+.++..   
T Consensus       381 ----h~c~l~~~rl~G~~~~l~ad~i~a~~~kl~~~ye~gls~~K~ll~TE~~~g~~~llLav~~Lid~~rktnd~~~l~  456 (932)
T KOG2053|consen  381 ----HLCVLLLLRLLGLYEKLPADSILAYVRKLKLTYEKGLSLSKDLLPTEYSFGDELLLLAVNHLIDLWRKTNDLTDLF  456 (932)
T ss_pred             ----HHHHHHHHHHhhccccCChHHHHHHHHHHHHHHhccccccccccccccccHHHHHHHHHHHHHHHHHhcCcHHHHH
Confidence                011111111110   001111111111111   11      11222         223466778888887754   


Q ss_pred             HHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 003295          620 EGETLFNEMISKKMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMR  699 (833)
Q Consensus       620 ~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~  699 (833)
                      +|+-+++........ |..+--.+|..|+-.|-+..|.++|+.+.-+.+..|...|.. ..-+...|++..+...+....
T Consensus       457 eaI~LLE~glt~s~h-nf~~KLlLiriY~~lGa~p~a~~~y~tLdIK~IQ~DTlgh~~-~~~~~t~g~~~~~s~~~~~~l  534 (932)
T KOG2053|consen  457 EAITLLENGLTKSPH-NFQTKLLLIRIYSYLGAFPDAYELYKTLDIKNIQTDTLGHLI-FRRAETSGRSSFASNTFNEHL  534 (932)
T ss_pred             HHHHHHHHHhhcCCc-cHHHHHHHHHHHHHhcCChhHHHHHHhcchHHhhhccchHHH-HHHHHhcccchhHHHHHHHHH
Confidence            566666666655433 566666788899999999999999999887777777665533 344556677777777766655


Q ss_pred             HCCCCCChhHHHHHHHHHHhcCChhHHHHHHH---HHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 003295          700 KEGLLPNVACYTALIGGYCKLGQMDEAESVLQ---EMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMA  769 (833)
Q Consensus       700 ~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~---~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~  769 (833)
                      +-=-..-..+-..+..+| +.|.+.+..++..   ++......--..+=+..++..+..++.++-...+..|.
T Consensus       535 kfy~~~~kE~~eyI~~AY-r~g~ySkI~em~~fr~rL~~S~q~~a~~VE~~~l~ll~~~~~~~q~~~~~~~~~  606 (932)
T KOG2053|consen  535 KFYDSSLKETPEYIALAY-RRGAYSKIPEMLAFRDRLMHSLQKWACRVENLQLSLLCNADRGTQLLKLLESMK  606 (932)
T ss_pred             HHHhhhhhhhHHHHHHHH-HcCchhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCcHHHHHHHHhccc
Confidence            420001112222233333 5666665554432   33221111112233556666677777777766666654

>KOG1125 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.66  E-value=4.2e-06  Score=87.55  Aligned_cols=219  Identities=16%  Similarity=0.099  Sum_probs=138.1

Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCChhh
Q 003295          471 GLCKNGKQAEATELCFRLFEKGFTVNTVTSNALIHGMCEAGNLKEAGKLLMEMLQRGLILDKVTYNTLILGCCKDGKPEE  550 (833)
Q Consensus       471 ~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~l~~m~~~g~~~~~~~~~~li~~~~~~g~~~~  550 (833)
                      -+.+.|++.+|.-.|+..++..+. +...|.-|.......++-..|+..+.+..+..+. |......|.-.|...|.-.+
T Consensus       294 ~lm~nG~L~~A~LafEAAVkqdP~-haeAW~~LG~~qaENE~E~~ai~AL~rcl~LdP~-NleaLmaLAVSytNeg~q~~  371 (579)
T KOG1125|consen  294 NLMKNGDLSEAALAFEAAVKQDPQ-HAEAWQKLGITQAENENEQNAISALRRCLELDPT-NLEALMALAVSYTNEGLQNQ  371 (579)
T ss_pred             HHHhcCCchHHHHHHHHHHhhChH-HHHHHHHhhhHhhhccchHHHHHHHHHHHhcCCc-cHHHHHHHHHHHhhhhhHHH
Confidence            345677788888888887776433 7788988988888899999999999999988776 78888888888888998899


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHH-----------HHHHhcCCHHHHHHHHHHHh-hCCCCCCHhhHHHHHHHHHccCCH
Q 003295          551 GFKLKEDMIKRGIQPDNYTYNLLL-----------HGLCSLGKMEEAIELWEECK-RTVFGPDIYTYGVMIDGFCKADKI  618 (833)
Q Consensus       551 A~~~~~~m~~~g~~p~~~~~~~li-----------~~~~~~g~~~~A~~~~~~~~-~~~~~~~~~~~~~li~~~~~~g~~  618 (833)
                      |++.++..+...++     |..+.           ..+..........++|-++. ..+..+|+.++..|.-.|.-.|++
T Consensus       372 Al~~L~~Wi~~~p~-----y~~l~~a~~~~~~~~~~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~ef  446 (579)
T KOG1125|consen  372 ALKMLDKWIRNKPK-----YVHLVSAGENEDFENTKSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEF  446 (579)
T ss_pred             HHHHHHHHHHhCcc-----chhccccCccccccCCcCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHH
Confidence            99999988775322     00000           01111111223333333332 333335555666666666666666


Q ss_pred             HHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCH-HHHHHHHHHHHhcCCHHHHHHHHHH
Q 003295          619 EEGETLFNEMISKKMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTS-VTYSSLIHGLCNIGLIEDAKCLFDE  697 (833)
Q Consensus       619 ~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~-~~~~~li~~~~~~g~~~~A~~~~~~  697 (833)
                      ++|+..|+..+...+. |...||.|...++...+.++|+..|.+.++.  +|.- .+...|.-.|...|.+++|.+.|-+
T Consensus       447 draiDcf~~AL~v~Pn-d~~lWNRLGAtLAN~~~s~EAIsAY~rALqL--qP~yVR~RyNlgIS~mNlG~ykEA~~hlL~  523 (579)
T KOG1125|consen  447 DRAVDCFEAALQVKPN-DYLLWNRLGATLANGNRSEEAISAYNRALQL--QPGYVRVRYNLGISCMNLGAYKEAVKHLLE  523 (579)
T ss_pred             HHHHHHHHHHHhcCCc-hHHHHHHhhHHhcCCcccHHHHHHHHHHHhc--CCCeeeeehhhhhhhhhhhhHHHHHHHHHH
Confidence            6666666666665544 5666666666666666666666666666654  3322 2222344455566666666665555


Q ss_pred             HH
Q 003295          698 MR  699 (833)
Q Consensus       698 m~  699 (833)
                      ++
T Consensus       524 AL  525 (579)
T KOG1125|consen  524 AL  525 (579)
T ss_pred             HH
Confidence            44

>PLN02789 farnesyltranstransferase

Probab=98.61  E-value=2.3e-05  Score=80.49  Aligned_cols=203  Identities=13%  Similarity=0.094  Sum_probs=105.4

Q ss_pred             cCChhHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcC-ChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCh--hHHH
Q 003295          231 ANEVQKGIEVFETMCRGVSPDVFLFSTAINAFCKRG-RIEDAIGLFTKMEELGIAPNVVTYNNIIHGLCRNGRL--YEAF  307 (833)
Q Consensus       231 ~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g-~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~--~~A~  307 (833)
                      .++.++|+..+.+++.-.|.+..+|+....++.+.| ++++++..++++.+.... +..+|+...-.+.+.|+.  ++++
T Consensus        50 ~e~serAL~lt~~aI~lnP~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~npk-nyqaW~~R~~~l~~l~~~~~~~el  128 (320)
T PLN02789         50 DERSPRALDLTADVIRLNPGNYTVWHFRRLCLEALDADLEEELDFAEDVAEDNPK-NYQIWHHRRWLAEKLGPDAANKEL  128 (320)
T ss_pred             CCCCHHHHHHHHHHHHHCchhHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHCCc-chHHhHHHHHHHHHcCchhhHHHH
Confidence            455666666666666444445555655555555555 456666666666655332 333455443334444442  4556


Q ss_pred             HHHHHHHhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHHc---CCh----HHHHHHH
Q 003295          308 HLKEKMVLREVEPSLITYSILINGLIKLEKFDDANFVLKEMSVRGFVPNYVVYNTLIDGYCKK---GNI----SEALKIR  380 (833)
Q Consensus       308 ~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~y~~li~~~~~~---g~~----~~A~~~~  380 (833)
                      .+++++.+.. +.|..+|+...-.+.+.|+++++++.++++++.++. |..+|+-....+.+.   |..    +++.+..
T Consensus       129 ~~~~kal~~d-pkNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d~~-N~sAW~~R~~vl~~~~~l~~~~~~~e~el~y~  206 (320)
T PLN02789        129 EFTRKILSLD-AKNYHAWSHRQWVLRTLGGWEDELEYCHQLLEEDVR-NNSAWNQRYFVITRSPLLGGLEAMRDSELKYT  206 (320)
T ss_pred             HHHHHHHHhC-cccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHCCC-chhHHHHHHHHHHhccccccccccHHHHHHHH
Confidence            6666666543 345566666666666666666666666666665433 444454444333332   222    3455555


Q ss_pred             HHHHhCCCCCChhHHHHHHHHHHhc----CChhHHHHHHHHHHHCCCCCCcccHHHHHHHHH
Q 003295          381 DDMVSKGMSPNSVTFNSLIHGFCKS----GQMDNAENALEEMLSRGLSINQGAYTSVIKWLC  438 (833)
Q Consensus       381 ~~m~~~g~~p~~~~~~~li~~~~~~----g~~~~A~~~l~~~~~~g~~~~~~~~~~li~~~~  438 (833)
                      .+++...+. |...|+.+...+...    ++..+|.+.+.+....+ +.+..+...+++.|+
T Consensus       207 ~~aI~~~P~-N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~~~~-~~s~~al~~l~d~~~  266 (320)
T PLN02789        207 IDAILANPR-NESPWRYLRGLFKDDKEALVSDPEVSSVCLEVLSKD-SNHVFALSDLLDLLC  266 (320)
T ss_pred             HHHHHhCCC-CcCHHHHHHHHHhcCCcccccchhHHHHHHHhhccc-CCcHHHHHHHHHHHH
Confidence            555554332 556666666666552    23344555555544432 113333444444444

>KOG1128 consensus Uncharacterized conserved protein, contains TPR repeats [General function prediction only]

Probab=98.56  E-value=1.3e-05  Score=86.13  Aligned_cols=217  Identities=18%  Similarity=0.174  Sum_probs=169.8

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCccCHHHHHHHHHHH
Q 003295          568 YTYNLLLHGLCSLGKMEEAIELWEECKRTVFGPDIYTYGVMIDGFCKADKIEEGETLFNEMISKKMELNPVVYNTLIRAY  647 (833)
Q Consensus       568 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~  647 (833)
                      ..-..+...+.+.|-...|..+|++..         .|...|.+|+..|+..+|..+..+.+++  +|++..|..+.+..
T Consensus       399 q~q~~laell~slGitksAl~I~Erle---------mw~~vi~CY~~lg~~~kaeei~~q~lek--~~d~~lyc~LGDv~  467 (777)
T KOG1128|consen  399 QLQRLLAELLLSLGITKSALVIFERLE---------MWDPVILCYLLLGQHGKAEEINRQELEK--DPDPRLYCLLGDVL  467 (777)
T ss_pred             hHHHHHHHHHHHcchHHHHHHHHHhHH---------HHHHHHHHHHHhcccchHHHHHHHHhcC--CCcchhHHHhhhhc
Confidence            334556778888899999999998654         4566788899999999999998888874  67889998888888


Q ss_pred             HHcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCChhHHH
Q 003295          648 CKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAE  727 (833)
Q Consensus       648 ~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~  727 (833)
                      ....-+++|.++.+.....       .-..+.......++++++.+.|+.-.+.. +--..+|-.+..+..+.++++.|.
T Consensus       468 ~d~s~yEkawElsn~~sar-------A~r~~~~~~~~~~~fs~~~~hle~sl~~n-plq~~~wf~~G~~ALqlek~q~av  539 (777)
T KOG1128|consen  468 HDPSLYEKAWELSNYISAR-------AQRSLALLILSNKDFSEADKHLERSLEIN-PLQLGTWFGLGCAALQLEKEQAAV  539 (777)
T ss_pred             cChHHHHHHHHHhhhhhHH-------HHHhhccccccchhHHHHHHHHHHHhhcC-ccchhHHHhccHHHHHHhhhHHHH
Confidence            7777788888888765432       11122222334688999999998877742 335678888888888899999999


Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHH
Q 003295          728 SVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISPDSITYNVFMDGHCKGGNVEEAFKVCDRMLS  805 (833)
Q Consensus       728 ~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  805 (833)
                      +.|....... +.+...||.+..+|.+.|+..+|...++++.+.+ .-+-..|...+....+.|.+++|++.+.++..
T Consensus       540 ~aF~rcvtL~-Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn-~~~w~iWENymlvsvdvge~eda~~A~~rll~  615 (777)
T KOG1128|consen  540 KAFHRCVTLE-PDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCN-YQHWQIWENYMLVSVDVGEFEDAIKAYHRLLD  615 (777)
T ss_pred             HHHHHHhhcC-CCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcC-CCCCeeeechhhhhhhcccHHHHHHHHHHHHH
Confidence            9999988753 4456789999999999999999999999998865 44556777777788899999999999999877

>PLN02789 farnesyltranstransferase

Probab=98.56  E-value=9.4e-05  Score=76.05  Aligned_cols=203  Identities=11%  Similarity=0.073  Sum_probs=101.6

Q ss_pred             CChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC-CHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHccCC--HHHHH
Q 003295          546 GKPEEGFKLKEDMIKRGIQPDNYTYNLLLHGLCSLG-KMEEAIELWEECKRTVFGPDIYTYGVMIDGFCKADK--IEEGE  622 (833)
Q Consensus       546 g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g-~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~--~~~A~  622 (833)
                      ++.++|+.+..++++.... +..+|+.....+...| ++++++..++++.+.. +.+..+|+.....+.+.|+  .+++.
T Consensus        51 e~serAL~lt~~aI~lnP~-~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~n-pknyqaW~~R~~~l~~l~~~~~~~el  128 (320)
T PLN02789         51 ERSPRALDLTADVIRLNPG-NYTVWHFRRLCLEALDADLEEELDFAEDVAEDN-PKNYQIWHHRRWLAEKLGPDAANKEL  128 (320)
T ss_pred             CCCHHHHHHHHHHHHHCch-hHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHC-CcchHHhHHHHHHHHHcCchhhHHHH
Confidence            4455555555555554222 2333433333444444 3455555555555442 2233334333333333333  24556


Q ss_pred             HHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc---CC----HHHHHHHH
Q 003295          623 TLFNEMISKKMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNI---GL----IEDAKCLF  695 (833)
Q Consensus       623 ~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~---g~----~~~A~~~~  695 (833)
                      .+++++++..++ |..+|+....++.+.|+++++++.++++++.+.. +...|+.....+.+.   |.    .+++.++.
T Consensus       129 ~~~~kal~~dpk-Ny~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d~~-N~sAW~~R~~vl~~~~~l~~~~~~~e~el~y~  206 (320)
T PLN02789        129 EFTRKILSLDAK-NYHAWSHRQWVLRTLGGWEDELEYCHQLLEEDVR-NNSAWNQRYFVITRSPLLGGLEAMRDSELKYT  206 (320)
T ss_pred             HHHHHHHHhCcc-cHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHCCC-chhHHHHHHHHHHhccccccccccHHHHHHHH
Confidence            666666665544 5666666666666666666666666666665432 444444444433332   11    23455555


Q ss_pred             HHHHHCCCCCChhHHHHHHHHHHhc----CChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh
Q 003295          696 DEMRKEGLLPNVACYTALIGGYCKL----GQMDEAESVLQEMASINIHPNKITYTIMIGGYCK  754 (833)
Q Consensus       696 ~~m~~~g~~p~~~~~~~li~~~~~~----g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~  754 (833)
                      .+++... +-|...|+.+...+...    ++..+|.+.+.+....+ +.+......|++.|+.
T Consensus       207 ~~aI~~~-P~N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~~~~-~~s~~al~~l~d~~~~  267 (320)
T PLN02789        207 IDAILAN-PRNESPWRYLRGLFKDDKEALVSDPEVSSVCLEVLSKD-SNHVFALSDLLDLLCE  267 (320)
T ss_pred             HHHHHhC-CCCcCHHHHHHHHHhcCCcccccchhHHHHHHHhhccc-CCcHHHHHHHHHHHHh
Confidence            5555542 33556666666666552    33455666666655432 3345556666666654

>KOG1070 consensus rRNA processing protein Rrp5 [RNA processing and modification]

Probab=98.55  E-value=2e-05  Score=90.15  Aligned_cols=215  Identities=13%  Similarity=0.105  Sum_probs=154.2

Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHhhcCC--CC---CHHHHHHHHHHHHhcCChhHHHHHHHHH
Q 003295          204 DVFSIFSSKGIFPSLKTCNFLLNSLVKANEVQKGIEVFETMCRGV--SP---DVFLFSTAINAFCKRGRIEDAIGLFTKM  278 (833)
Q Consensus       204 ~~f~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~--~~---~~~~~~~li~~~~~~g~~~~A~~~~~~m  278 (833)
                      +-|++.....+. +...|-.-|.-....++.+.|++++++++...  ..   -...|.++++..-.-|.-+...++|+++
T Consensus      1445 eDferlvrssPN-SSi~WI~YMaf~LelsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRA 1523 (1710)
T KOG1070|consen 1445 EDFERLVRSSPN-SSILWIRYMAFHLELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESLKKVFERA 1523 (1710)
T ss_pred             HHHHHHHhcCCC-cchHHHHHHHHHhhhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHH
Confidence            335555444433 56677777777888888888888888887322  11   2345777777666677777888888888


Q ss_pred             HHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCC--
Q 003295          279 EELGIAPNVVTYNNIIHGLCRNGRLYEAFHLKEKMVLREVEPSLITYSILINGLIKLEKFDDANFVLKEMSVRGFVPN--  356 (833)
Q Consensus       279 ~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~--  356 (833)
                      .+.  .-...+|..|...|.+.+.+++|.++++.|.++- ......|...+..+.++++-++|..++.+..+.  .|-  
T Consensus      1524 cqy--cd~~~V~~~L~~iy~k~ek~~~A~ell~~m~KKF-~q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~--lPk~e 1598 (1710)
T KOG1070|consen 1524 CQY--CDAYTVHLKLLGIYEKSEKNDEADELLRLMLKKF-GQTRKVWIMYADFLLRQNEAEAARELLKRALKS--LPKQE 1598 (1710)
T ss_pred             HHh--cchHHHHHHHHHHHHHhhcchhHHHHHHHHHHHh-cchhhHHHHHHHHHhcccHHHHHHHHHHHHHhh--cchhh
Confidence            774  2123467788888888888888888888888752 356677888888888888888888888888765  333  


Q ss_pred             -hhhHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCC
Q 003295          357 -YVVYNTLIDGYCKKGNISEALKIRDDMVSKGMSPNSVTFNSLIHGFCKSGQMDNAENALEEMLSRGLSI  425 (833)
Q Consensus       357 -~~~y~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~l~~~~~~g~~~  425 (833)
                       +......+..-.+.|+.+.+..+|+..+..-++ -...|+..|+.-.+.|+.+.++.+|+++...++.+
T Consensus      1599 Hv~~IskfAqLEFk~GDaeRGRtlfEgll~ayPK-RtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~ 1667 (1710)
T KOG1070|consen 1599 HVEFISKFAQLEFKYGDAERGRTLFEGLLSAYPK-RTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSI 1667 (1710)
T ss_pred             hHHHHHHHHHHHhhcCCchhhHHHHHHHHhhCcc-chhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCCh
Confidence             333444555666788888888888888776433 45678888888888888888888888888877654

>KOG1070 consensus rRNA processing protein Rrp5 [RNA processing and modification]

Probab=98.48  E-value=7.8e-05  Score=85.63  Aligned_cols=220  Identities=16%  Similarity=0.134  Sum_probs=105.8

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHhhCC-CCC---CHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCccCHHHHHHH
Q 003295          568 YTYNLLLHGLCSLGKMEEAIELWEECKRTV-FGP---DIYTYGVMIDGFCKADKIEEGETLFNEMISKKMELNPVVYNTL  643 (833)
Q Consensus       568 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~~-~~~---~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l  643 (833)
                      ..|-..|......++.++|+++.++++..- +..   -.-.|.++++....-|.-+...++|+++.+..  -....|..|
T Consensus      1459 i~WI~YMaf~LelsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqyc--d~~~V~~~L 1536 (1710)
T KOG1070|consen 1459 ILWIRYMAFHLELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQYC--DAYTVHLKL 1536 (1710)
T ss_pred             hHHHHHHHHHhhhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHhc--chHHHHHHH
Confidence            344444444444555555555555444321 100   11233344444444444444555555554431  123345555


Q ss_pred             HHHHHHcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC---hhHHHHHHHHHHhc
Q 003295          644 IRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPN---VACYTALIGGYCKL  720 (833)
Q Consensus       644 i~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~---~~~~~~li~~~~~~  720 (833)
                      ...|.+.+..++|.++++.|.++ ..-....|...+..+.+..+-+.|..++.++++.  -|.   .....-.+..-.+.
T Consensus      1537 ~~iy~k~ek~~~A~ell~~m~KK-F~q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~--lPk~eHv~~IskfAqLEFk~ 1613 (1710)
T KOG1070|consen 1537 LGIYEKSEKNDEADELLRLMLKK-FGQTRKVWIMYADFLLRQNEAEAARELLKRALKS--LPKQEHVEFISKFAQLEFKY 1613 (1710)
T ss_pred             HHHHHHhhcchhHHHHHHHHHHH-hcchhhHHHHHHHHHhcccHHHHHHHHHHHHHhh--cchhhhHHHHHHHHHHHhhc
Confidence            55555555555555555555554 1234445555555555555555555555555553  232   22223333444455


Q ss_pred             CChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCH--HHHHHHHHHHhcCCCH
Q 003295          721 GQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISPDS--ITYNVFMDGHCKGGNV  793 (833)
Q Consensus       721 g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~--~~~~~l~~~~~~~g~~  793 (833)
                      |+.+.+..+|+..... .|--...|+.+++.=.++|+.+.+..+|++++..++.|..  ..|...+..=-..|+-
T Consensus      1614 GDaeRGRtlfEgll~a-yPKRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~kkmKfffKkwLeyEk~~Gde 1687 (1710)
T KOG1070|consen 1614 GDAERGRTLFEGLLSA-YPKRTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSIKKMKFFFKKWLEYEKSHGDE 1687 (1710)
T ss_pred             CCchhhHHHHHHHHhh-CccchhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCChhHhHHHHHHHHHHHHhcCch
Confidence            6666666666555543 1333455666666666666666666666666665555532  3444444443444443

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.46  E-value=1.8e-05  Score=79.06  Aligned_cols=185  Identities=15%  Similarity=0.073  Sum_probs=115.6

Q ss_pred             CHHHHHHHHHHHHhcCChhHHHHHHHHhhcCCCCCH---HHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCh--hhHH
Q 003295          217 SLKTCNFLLNSLVKANEVQKGIEVFETMCRGVSPDV---FLFSTAINAFCKRGRIEDAIGLFTKMEELGIAPNV--VTYN  291 (833)
Q Consensus       217 ~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~---~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~--~~~~  291 (833)
                      ....+..+...+.+.|++++|...|+++....+.+.   .++..+..++.+.|++++|...++++.+..+....  .++.
T Consensus        32 ~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~  111 (235)
T TIGR03302        32 PAEELYEEAKEALDSGDYTEAIKYFEALESRYPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPNHPDADYAYY  111 (235)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCchHHHHH
Confidence            455666677777778888888888887774333332   45666777888888888888888888765332111  1344


Q ss_pred             HHHHHHHhc--------CChhHHHHHHHHHHhCCCCCCh-hhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHH
Q 003295          292 NIIHGLCRN--------GRLYEAFHLKEKMVLREVEPSL-ITYSILINGLIKLEKFDDANFVLKEMSVRGFVPNYVVYNT  362 (833)
Q Consensus       292 ~li~~~~~~--------g~~~~A~~~~~~m~~~~~~p~~-~t~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~y~~  362 (833)
                      .+...+...        |++++|.+.|+++...  .|+. ..+..+.... .   ...       ..       ......
T Consensus       112 ~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~p~~~~~~~a~~~~~-~---~~~-------~~-------~~~~~~  171 (235)
T TIGR03302       112 LRGLSNYNQIDRVDRDQTAAREAFEAFQELIRR--YPNSEYAPDAKKRMD-Y---LRN-------RL-------AGKELY  171 (235)
T ss_pred             HHHHHHHHhcccccCCHHHHHHHHHHHHHHHHH--CCCChhHHHHHHHHH-H---HHH-------HH-------HHHHHH
Confidence            445555443        6778888888888765  2332 2222221110 0   000       00       011224


Q ss_pred             HHHHHHHcCChHHHHHHHHHHHhCCC-CC-ChhHHHHHHHHHHhcCChhHHHHHHHHHHHC
Q 003295          363 LIDGYCKKGNISEALKIRDDMVSKGM-SP-NSVTFNSLIHGFCKSGQMDNAENALEEMLSR  421 (833)
Q Consensus       363 li~~~~~~g~~~~A~~~~~~m~~~g~-~p-~~~~~~~li~~~~~~g~~~~A~~~l~~~~~~  421 (833)
                      +...|.+.|++++|...+++..+... .| ....+..+...+.+.|++++|...++.+...
T Consensus       172 ~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~  232 (235)
T TIGR03302       172 VARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGAN  232 (235)
T ss_pred             HHHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            56678888888888888888876532 12 3457778888888888888888888877654

Members of this protein family include YfiO, a near-essential protein of the outer membrane, part of a complex involved in protein insertion into the bacterial outer membrane. Many proteins in this family are annotated as ComL, based on the involvement of this protein in natural transformation with exogenous DNA in Neisseria gonorrhoeae. This protein family shows sequence similarity to, but is distinct from, the tol-pal system protein YbgF (TIGR02795).

>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional

Probab=98.46  E-value=2.7e-05  Score=74.38  Aligned_cols=118  Identities=9%  Similarity=0.095  Sum_probs=59.7

Q ss_pred             cCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHH-HhcCC--HHHH
Q 003295          685 IGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGY-CKLGD--MKEA  761 (833)
Q Consensus       685 ~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~-~~~g~--~~~A  761 (833)
                      .++.+++...+++.++.. +.|...|..+...|...|++++|...+++..+.. +.+...+..+..++ ...|+  .++|
T Consensus        52 ~~~~~~~i~~l~~~L~~~-P~~~~~w~~Lg~~~~~~g~~~~A~~a~~~Al~l~-P~~~~~~~~lA~aL~~~~g~~~~~~A  129 (198)
T PRK10370         52 QQTPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWRNDYDNALLAYRQALQLR-GENAELYAALATVLYYQAGQHMTPQT  129 (198)
T ss_pred             chhHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCCCCcHHH
Confidence            334445555555544432 3344555555555555555555555555555542 33444555555542 34444  3555


Q ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHH
Q 003295          762 AKLLNVMAEKGISPDSITYNVFMDGHCKGGNVEEAFKVCDRMLS  805 (833)
Q Consensus       762 ~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  805 (833)
                      .++++++++.+ +-+..++..++..+.+.|++++|+..|+++++
T Consensus       130 ~~~l~~al~~d-P~~~~al~~LA~~~~~~g~~~~Ai~~~~~aL~  172 (198)
T PRK10370        130 REMIDKALALD-ANEVTALMLLASDAFMQADYAQAIELWQKVLD  172 (198)
T ss_pred             HHHHHHHHHhC-CCChhHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            55555555532 11444555555555555555555555555554

>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional

Probab=98.44  E-value=0.008  Score=69.29  Aligned_cols=238  Identities=14%  Similarity=0.117  Sum_probs=145.5

Q ss_pred             CHHHHHHHHHHHHhcCChhHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHH
Q 003295          217 SLKTCNFLLNSLVKANEVQKGIEVFETMCRGVSPDVFLFSTAINAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIHG  296 (833)
Q Consensus       217 ~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~  296 (833)
                      +...|..|+..+...+++++|..+.+....-.|.....|..+.-.+.+.++..++..+  .+..               .
T Consensus        30 n~~a~~~Li~~~~~~~~~deai~i~~~~l~~~P~~i~~yy~~G~l~~q~~~~~~~~lv--~~l~---------------~   92 (906)
T PRK14720         30 KFKELDDLIDAYKSENLTDEAKDICEEHLKEHKKSISALYISGILSLSRRPLNDSNLL--NLID---------------S   92 (906)
T ss_pred             hHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCcceehHHHHHHHHHhhcchhhhhhh--hhhh---------------h
Confidence            4667888888888889999999988866643444444444444467777776666655  3332               2


Q ss_pred             HHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHHcCChHHH
Q 003295          297 LCRNGRLYEAFHLKEKMVLREVEPSLITYSILINGLIKLEKFDDANFVLKEMSVRGFVPNYVVYNTLIDGYCKKGNISEA  376 (833)
Q Consensus       297 ~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~A  376 (833)
                      .....++.-...+...|...  .-+...+..+..+|-+.|+.++|..+++++.+... -|..+.|.+...|... ++++|
T Consensus        93 ~~~~~~~~~ve~~~~~i~~~--~~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D~-~n~~aLNn~AY~~ae~-dL~KA  168 (906)
T PRK14720         93 FSQNLKWAIVEHICDKILLY--GENKLALRTLAEAYAKLNENKKLKGVWERLVKADR-DNPEIVKKLATSYEEE-DKEKA  168 (906)
T ss_pred             cccccchhHHHHHHHHHHhh--hhhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcCc-ccHHHHHHHHHHHHHh-hHHHH
Confidence            22222332222223333332  23444667788888888888888888888887753 2677788888888888 88888


Q ss_pred             HHHHHHHHhCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHHC
Q 003295          377 LKIRDDMVSKGMSPNSVTFNSLIHGFCKSGQMDNAENALEEMLSRGLSINQGAYTSVIKWLCINSRFNSALHFTKEMLLR  456 (833)
Q Consensus       377 ~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~l~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~  456 (833)
                      .+++.+.+..               |...+++.++.+++.++..... .+...+..+.                +.+...
T Consensus       169 ~~m~~KAV~~---------------~i~~kq~~~~~e~W~k~~~~~~-~d~d~f~~i~----------------~ki~~~  216 (906)
T PRK14720        169 ITYLKKAIYR---------------FIKKKQYVGIEEIWSKLVHYNS-DDFDFFLRIE----------------RKVLGH  216 (906)
T ss_pred             HHHHHHHHHH---------------HHhhhcchHHHHHHHHHHhcCc-ccchHHHHHH----------------HHHHhh
Confidence            8888776653               5666677788888887776522 1222222222                222111


Q ss_pred             -CCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 003295          457 -NLRPGDGLLTLLVSGLCKNGKQAEATELCFRLFEKGFTVNTVTSNALIHGMC  508 (833)
Q Consensus       457 -~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~  508 (833)
                       +..--..++..+-..|.+..+++++..+++.+++.... |.....-++.+|.
T Consensus       217 ~~~~~~~~~~~~l~~~y~~~~~~~~~i~iLK~iL~~~~~-n~~a~~~l~~~y~  268 (906)
T PRK14720        217 REFTRLVGLLEDLYEPYKALEDWDEVIYILKKILEHDNK-NNKAREELIRFYK  268 (906)
T ss_pred             hccchhHHHHHHHHHHHhhhhhhhHHHHHHHHHHhcCCc-chhhHHHHHHHHH
Confidence             11112234445556666777777777777777776443 5556666666665

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.40  E-value=2.9e-05  Score=77.48  Aligned_cols=188  Identities=12%  Similarity=0.008  Sum_probs=131.9

Q ss_pred             CCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCC-CC-hhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCh--hhH
Q 003295          250 PDVFLFSTAINAFCKRGRIEDAIGLFTKMEELGIA-PN-VVTYNNIIHGLCRNGRLYEAFHLKEKMVLREVEPSL--ITY  325 (833)
Q Consensus       250 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~-p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~--~t~  325 (833)
                      .....+..++..+.+.|++++|...|+++....+. |. ..++..+...+.+.|++++|...++++.+.......  .++
T Consensus        31 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~  110 (235)
T TIGR03302        31 WPAEELYEEAKEALDSGDYTEAIKYFEALESRYPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPNHPDADYAY  110 (235)
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCchHHHH
Confidence            44667788888999999999999999999876322 11 246777888999999999999999999876321111  145


Q ss_pred             HHHHHHHHhc--------CChhHHHHHHHHHHHCCCCCCh-hhHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCChhHHH
Q 003295          326 SILINGLIKL--------EKFDDANFVLKEMSVRGFVPNY-VVYNTLIDGYCKKGNISEALKIRDDMVSKGMSPNSVTFN  396 (833)
Q Consensus       326 ~~li~~~~~~--------g~~~~A~~~~~~m~~~g~~p~~-~~y~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~  396 (833)
                      ..+...+...        |++++|.+.|+++.+.  .|+. ..+..+....    ....      ...        ....
T Consensus       111 ~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~p~~~~~~~a~~~~~----~~~~------~~~--------~~~~  170 (235)
T TIGR03302       111 YLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRR--YPNSEYAPDAKKRMD----YLRN------RLA--------GKEL  170 (235)
T ss_pred             HHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHH--CCCChhHHHHHHHHH----HHHH------HHH--------HHHH
Confidence            5555555544        6788899999988876  3442 2222221110    0000      000        1122


Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHHCCC--CCCcccHHHHHHHHHhcCChhHHHHHHHHHHHCC
Q 003295          397 SLIHGFCKSGQMDNAENALEEMLSRGL--SINQGAYTSVIKWLCINSRFNSALHFTKEMLLRN  457 (833)
Q Consensus       397 ~li~~~~~~g~~~~A~~~l~~~~~~g~--~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~  457 (833)
                      .+...+.+.|++++|...++++.+...  +.....+..++..+.+.|++++|...++.+..+.
T Consensus       171 ~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~~  233 (235)
T TIGR03302       171 YVARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGANY  233 (235)
T ss_pred             HHHHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC
Confidence            566779999999999999999987632  2235688999999999999999999998887664

Members of this protein family include YfiO, a near-essential protein of the outer membrane, part of a complex involved in protein insertion into the bacterial outer membrane. Many proteins in this family are annotated as ComL, based on the involvement of this protein in natural transformation with exogenous DNA in Neisseria gonorrhoeae. This protein family shows sequence similarity to, but is distinct from, the tol-pal system protein YbgF (TIGR02795).

>KOG1128 consensus Uncharacterized conserved protein, contains TPR repeats [General function prediction only]

Probab=98.40  E-value=7.1e-05  Score=80.66  Aligned_cols=216  Identities=18%  Similarity=0.110  Sum_probs=145.5

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHH
Q 003295          464 LLTLLVSGLCKNGKQAEATELCFRLFEKGFTVNTVTSNALIHGMCEAGNLKEAGKLLMEMLQRGLILDKVTYNTLILGCC  543 (833)
Q Consensus       464 ~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~l~~m~~~g~~~~~~~~~~li~~~~  543 (833)
                      .-..+...+...|-..+|..+++++.         .|...+.+|+..|+..+|..+..+-.++  +||...|..+.+...
T Consensus       400 ~q~~laell~slGitksAl~I~Erle---------mw~~vi~CY~~lg~~~kaeei~~q~lek--~~d~~lyc~LGDv~~  468 (777)
T KOG1128|consen  400 LQRLLAELLLSLGITKSALVIFERLE---------MWDPVILCYLLLGQHGKAEEINRQELEK--DPDPRLYCLLGDVLH  468 (777)
T ss_pred             HHHHHHHHHHHcchHHHHHHHHHhHH---------HHHHHHHHHHHhcccchHHHHHHHHhcC--CCcchhHHHhhhhcc
Confidence            33456667777777788887777653         3566777788888888888777777663  457777777776665


Q ss_pred             hcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHccCCHHHHHH
Q 003295          544 KDGKPEEGFKLKEDMIKRGIQPDNYTYNLLLHGLCSLGKMEEAIELWEECKRTVFGPDIYTYGVMIDGFCKADKIEEGET  623 (833)
Q Consensus       544 ~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~  623 (833)
                      ...-+++|.++.+..-..       .-..+.....+.++++++.+.|+.-.+.. +.-..+|-.+..+..+.++++.|.+
T Consensus       469 d~s~yEkawElsn~~sar-------A~r~~~~~~~~~~~fs~~~~hle~sl~~n-plq~~~wf~~G~~ALqlek~q~av~  540 (777)
T KOG1128|consen  469 DPSLYEKAWELSNYISAR-------AQRSLALLILSNKDFSEADKHLERSLEIN-PLQLGTWFGLGCAALQLEKEQAAVK  540 (777)
T ss_pred             ChHHHHHHHHHhhhhhHH-------HHHhhccccccchhHHHHHHHHHHHhhcC-ccchhHHHhccHHHHHHhhhHHHHH
Confidence            555566676666654322       22222333444677888888777766543 2345566666666777788888888


Q ss_pred             HHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 003295          624 LFNEMISKKMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRK  700 (833)
Q Consensus       624 ~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  700 (833)
                      .|.......+. +...||.+-.+|.+.|+..+|+..+++..+.+ .-+...|...+....+.|.+++|++.+.++..
T Consensus       541 aF~rcvtL~Pd-~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn-~~~w~iWENymlvsvdvge~eda~~A~~rll~  615 (777)
T KOG1128|consen  541 AFHRCVTLEPD-NAEAWNNLSTAYIRLKKKKRAFRKLKEALKCN-YQHWQIWENYMLVSVDVGEFEDAIKAYHRLLD  615 (777)
T ss_pred             HHHHHhhcCCC-chhhhhhhhHHHHHHhhhHHHHHHHHHHhhcC-CCCCeeeechhhhhhhcccHHHHHHHHHHHHH
Confidence            88777766444 56778888888888888888888888877766 33445555555566777888888887777754

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.39  E-value=1.1e-05  Score=72.81  Aligned_cols=91  Identities=8%  Similarity=-0.119  Sum_probs=45.2

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCC
Q 003295          713 LIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISPDSITYNVFMDGHCKGGN  792 (833)
Q Consensus       713 li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~  792 (833)
                      +...+...|++++|...|+...... +.+...|..++.++...|++++|+..|+++.+.+ +.+..++..++.++...|+
T Consensus        30 ~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~-p~~~~a~~~lg~~l~~~g~  107 (144)
T PRK15359         30 SGYASWQEGDYSRAVIDFSWLVMAQ-PWSWRAHIALAGTWMMLKEYTTAINFYGHALMLD-ASHPEPVYQTGVCLKMMGE  107 (144)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCcHHHHHHHHHHHHcCC
Confidence            3444445555555555555555432 3344455555555555555555555555555421 1234455555555555555


Q ss_pred             HHHHHHHHHHHHH
Q 003295          793 VEEAFKVCDRMLS  805 (833)
Q Consensus       793 ~~~A~~~~~~m~~  805 (833)
                      .++|+..|+..++
T Consensus       108 ~~eAi~~~~~Al~  120 (144)
T PRK15359        108 PGLAREAFQTAIK  120 (144)
T ss_pred             HHHHHHHHHHHHH
Confidence            5555555555544

>COG5010 TadD Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]

Probab=98.38  E-value=6.3e-05  Score=71.48  Aligned_cols=160  Identities=16%  Similarity=0.119  Sum_probs=120.2

Q ss_pred             HHHHHHHHhcCChhHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcC
Q 003295          222 NFLLNSLVKANEVQKGIEVFETMCRGVSPDVFLFSTAINAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIHGLCRNG  301 (833)
Q Consensus       222 ~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g  301 (833)
                      ..+-..+...|+-+.+..+........+.|.......+....+.|++.+|...|.+..... .+|-.+|+.+.-+|-+.|
T Consensus        70 ~~~a~a~~~~G~a~~~l~~~~~~~~~~~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l~-p~d~~~~~~lgaaldq~G  148 (257)
T COG5010          70 AKLATALYLRGDADSSLAVLQKSAIAYPKDRELLAAQGKNQIRNGNFGEAVSVLRKAARLA-PTDWEAWNLLGAALDQLG  148 (257)
T ss_pred             HHHHHHHHhcccccchHHHHhhhhccCcccHHHHHHHHHHHHHhcchHHHHHHHHHHhccC-CCChhhhhHHHHHHHHcc
Confidence            5556667777888888877777765566677777778888888888888888888887654 357788888888888888


Q ss_pred             ChhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHHcCChHHHHHHHH
Q 003295          302 RLYEAFHLKEKMVLREVEPSLITYSILINGLIKLEKFDDANFVLKEMSVRGFVPNYVVYNTLIDGYCKKGNISEALKIRD  381 (833)
Q Consensus       302 ~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~A~~~~~  381 (833)
                      ++++|..-|.+..+.. .-+...+|.|.-.+.-.|+.+.|..++......+.. |...-..|.-.....|++++|..+..
T Consensus       149 r~~~Ar~ay~qAl~L~-~~~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~~a-d~~v~~NLAl~~~~~g~~~~A~~i~~  226 (257)
T COG5010         149 RFDEARRAYRQALELA-PNEPSIANNLGMSLLLRGDLEDAETLLLPAYLSPAA-DSRVRQNLALVVGLQGDFREAEDIAV  226 (257)
T ss_pred             ChhHHHHHHHHHHHhc-cCCchhhhhHHHHHHHcCCHHHHHHHHHHHHhCCCC-chHHHHHHHHHHhhcCChHHHHhhcc
Confidence            8888888888887752 335566777777778888888888888888766433 55666667777778888888887765


Q ss_pred             HHH
Q 003295          382 DMV  384 (833)
Q Consensus       382 ~m~  384 (833)
                      .-.
T Consensus       227 ~e~  229 (257)
T COG5010         227 QEL  229 (257)
T ss_pred             ccc
Confidence            544

>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional

Probab=98.38  E-value=0.0002  Score=81.96  Aligned_cols=240  Identities=11%  Similarity=0.051  Sum_probs=175.6

Q ss_pred             CCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCh-hhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHH
Q 003295          248 VSPDVFLFSTAINAFCKRGRIEDAIGLFTKMEELGIAPNV-VTYNNIIHGLCRNGRLYEAFHLKEKMVLREVEPSLITYS  326 (833)
Q Consensus       248 ~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~  326 (833)
                      .+.+...+..|+..+...|++++|.++.+...+.  .|+. ..|-.++..+.+.++.+++..+  .+..           
T Consensus        27 ~p~n~~a~~~Li~~~~~~~~~deai~i~~~~l~~--~P~~i~~yy~~G~l~~q~~~~~~~~lv--~~l~-----------   91 (906)
T PRK14720         27 SLSKFKELDDLIDAYKSENLTDEAKDICEEHLKE--HKKSISALYISGILSLSRRPLNDSNLL--NLID-----------   91 (906)
T ss_pred             CcchHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh--CCcceehHHHHHHHHHhhcchhhhhhh--hhhh-----------
Confidence            4556788999999999999999999999987775  4553 3444444467777887776665  3332           


Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcC
Q 003295          327 ILINGLIKLEKFDDANFVLKEMSVRGFVPNYVVYNTLIDGYCKKGNISEALKIRDDMVSKGMSPNSVTFNSLIHGFCKSG  406 (833)
Q Consensus       327 ~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g  406 (833)
                          .+....++.-..-+...|.+.  .-+...+.+|..+|-+.|+.++|.++++++++..+. |..+.|.+...|... 
T Consensus        92 ----~~~~~~~~~~ve~~~~~i~~~--~~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D~~-n~~aLNn~AY~~ae~-  163 (906)
T PRK14720         92 ----SFSQNLKWAIVEHICDKILLY--GENKLALRTLAEAYAKLNENKKLKGVWERLVKADRD-NPEIVKKLATSYEEE-  163 (906)
T ss_pred             ----hcccccchhHHHHHHHHHHhh--hhhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcCcc-cHHHHHHHHHHHHHh-
Confidence                222333343333333344443  224568889999999999999999999999998744 888999999999999 


Q ss_pred             ChhHHHHHHHHHHHCCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHH
Q 003295          407 QMDNAENALEEMLSRGLSINQGAYTSVIKWLCINSRFNSALHFTKEMLLRNLRPGDGLLTLLVSGLCKNGKQAEATELCF  486 (833)
Q Consensus       407 ~~~~A~~~l~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~  486 (833)
                      ++++|.+++.++...               +...+++..+.+++.++....+.                 +++.-..+.+
T Consensus       164 dL~KA~~m~~KAV~~---------------~i~~kq~~~~~e~W~k~~~~~~~-----------------d~d~f~~i~~  211 (906)
T PRK14720        164 DKEKAITYLKKAIYR---------------FIKKKQYVGIEEIWSKLVHYNSD-----------------DFDFFLRIER  211 (906)
T ss_pred             hHHHHHHHHHHHHHH---------------HHhhhcchHHHHHHHHHHhcCcc-----------------cchHHHHHHH
Confidence            999999999988764               67777899999999988876543                 2223333333


Q ss_pred             HHHHC-CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHH
Q 003295          487 RLFEK-GFTVNTVTSNALIHGMCEAGNLKEAGKLLMEMLQRGLILDKVTYNTLILGCC  543 (833)
Q Consensus       487 ~~~~~-g~~~~~~~~~~li~~~~~~g~~~~A~~~l~~m~~~g~~~~~~~~~~li~~~~  543 (833)
                      .+... |..--+.++-.+-..|-+.++++++..+|+.+.+.... |.....-++.+|.
T Consensus       212 ki~~~~~~~~~~~~~~~l~~~y~~~~~~~~~i~iLK~iL~~~~~-n~~a~~~l~~~y~  268 (906)
T PRK14720        212 KVLGHREFTRLVGLLEDLYEPYKALEDWDEVIYILKKILEHDNK-NNKAREELIRFYK  268 (906)
T ss_pred             HHHhhhccchhHHHHHHHHHHHhhhhhhhHHHHHHHHHHhcCCc-chhhHHHHHHHHH
Confidence            43333 33345566777788899999999999999999998766 7777888888876

>COG5010 TadD Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]

Probab=98.36  E-value=8.9e-05  Score=70.48  Aligned_cols=125  Identities=13%  Similarity=0.069  Sum_probs=54.7

Q ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhHHHHHHHH
Q 003295          637 PVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGG  716 (833)
Q Consensus       637 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~  716 (833)
                      ....+..+....+.|++.+|...+.+..... ++|..+|+.+.-+|.+.|+.++|..-|.+..+.- .-+...++.+...
T Consensus       100 ~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l~-p~d~~~~~~lgaaldq~Gr~~~Ar~ay~qAl~L~-~~~p~~~nNlgms  177 (257)
T COG5010         100 RELLAAQGKNQIRNGNFGEAVSVLRKAARLA-PTDWEAWNLLGAALDQLGRFDEARRAYRQALELA-PNEPSIANNLGMS  177 (257)
T ss_pred             HHHHHHHHHHHHHhcchHHHHHHHHHHhccC-CCChhhhhHHHHHHHHccChhHHHHHHHHHHHhc-cCCchhhhhHHHH
Confidence            3333334444444444444444444444432 3344444444444444444444444444444421 1123334444444


Q ss_pred             HHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHH
Q 003295          717 YCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKL  764 (833)
Q Consensus       717 ~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~  764 (833)
                      |.-.|+.+.|..++......+ .-|...-..+.......|++++|.++
T Consensus       178 ~~L~gd~~~A~~lll~a~l~~-~ad~~v~~NLAl~~~~~g~~~~A~~i  224 (257)
T COG5010         178 LLLRGDLEDAETLLLPAYLSP-AADSRVRQNLALVVGLQGDFREAEDI  224 (257)
T ss_pred             HHHcCCHHHHHHHHHHHHhCC-CCchHHHHHHHHHHhhcCChHHHHhh
Confidence            444444444444444444332 22333334444444444444444443

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.35  E-value=0.00017  Score=81.89  Aligned_cols=132  Identities=14%  Similarity=0.105  Sum_probs=61.3

Q ss_pred             CHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 003295          601 DIYTYGVMIDGFCKADKIEEGETLFNEMISKKMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIH  680 (833)
Q Consensus       601 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~  680 (833)
                      +...+..|.....+.|+.++|+.+++...+..+. +......++..+.+.+++++|+...++..... +-+......+..
T Consensus        85 ~~~~~~~La~i~~~~g~~~ea~~~l~~~~~~~Pd-~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~-p~~~~~~~~~a~  162 (694)
T PRK15179         85 TELFQVLVARALEAAHRSDEGLAVWRGIHQRFPD-SSEAFILMLRGVKRQQGIEAGRAEIELYFSGG-SSSAREILLEAK  162 (694)
T ss_pred             cHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCCC-cHHHHHHHHHHHHHhccHHHHHHHHHHHhhcC-CCCHHHHHHHHH
Confidence            3444444445555555555555555555444332 33444444444555555555555555544442 123333344444


Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHh
Q 003295          681 GLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESVLQEMAS  735 (833)
Q Consensus       681 ~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  735 (833)
                      ++.+.|++++|..+|+++...+ +-+..++..+...+-+.|+.++|...|++..+
T Consensus       163 ~l~~~g~~~~A~~~y~~~~~~~-p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~  216 (694)
T PRK15179        163 SWDEIGQSEQADACFERLSRQH-PEFENGYVGWAQSLTRRGALWRARDVLQAGLD  216 (694)
T ss_pred             HHHHhcchHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            4444555555555555554421 12234444444444455555555555555443

>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional

Probab=98.30  E-value=3.1e-05  Score=74.03  Aligned_cols=113  Identities=9%  Similarity=0.065  Sum_probs=51.5

Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHhhcCCCCCHHHHHHHHHHH-HhcCC--hhHHHHHHHH
Q 003295          201 YAIDVFSIFSSKGIFPSLKTCNFLLNSLVKANEVQKGIEVFETMCRGVSPDVFLFSTAINAF-CKRGR--IEDAIGLFTK  277 (833)
Q Consensus       201 ~A~~~f~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~-~~~g~--~~~A~~~~~~  277 (833)
                      +++..++..++.++. +...|..|...|...|++++|...|++..+-.+.+...+..+..++ ...|+  .++|.+++++
T Consensus        57 ~~i~~l~~~L~~~P~-~~~~w~~Lg~~~~~~g~~~~A~~a~~~Al~l~P~~~~~~~~lA~aL~~~~g~~~~~~A~~~l~~  135 (198)
T PRK10370         57 AQLQALQDKIRANPQ-NSEQWALLGEYYLWRNDYDNALLAYRQALQLRGENAELYAALATVLYYQAGQHMTPQTREMIDK  135 (198)
T ss_pred             HHHHHHHHHHHHCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCCCCcHHHHHHHHH
Confidence            333444443333332 4444555555555555555555555544433334444444444432 33343  2455555555


Q ss_pred             HHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHh
Q 003295          278 MEELGIAPNVVTYNNIIHGLCRNGRLYEAFHLKEKMVL  315 (833)
Q Consensus       278 m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  315 (833)
                      ..+.++. +..++..+...+.+.|++++|+..++++.+
T Consensus       136 al~~dP~-~~~al~~LA~~~~~~g~~~~Ai~~~~~aL~  172 (198)
T PRK10370        136 ALALDAN-EVTALMLLASDAFMQADYAQAIELWQKVLD  172 (198)
T ss_pred             HHHhCCC-ChhHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            5444322 344444444444455555555555555444

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.28  E-value=6.3e-05  Score=67.89  Aligned_cols=92  Identities=11%  Similarity=-0.063  Sum_probs=49.9

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC
Q 003295          677 SLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLG  756 (833)
Q Consensus       677 ~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g  756 (833)
                      .+...+...|++++|...|+.+.... +.+...|..+..++.+.|++++|...|++..+.+ +.+...+..++.++...|
T Consensus        29 ~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~-p~~~~a~~~lg~~l~~~g  106 (144)
T PRK15359         29 ASGYASWQEGDYSRAVIDFSWLVMAQ-PWSWRAHIALAGTWMMLKEYTTAINFYGHALMLD-ASHPEPVYQTGVCLKMMG  106 (144)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCcHHHHHHHHHHHHcC
Confidence            34444555555555555555555532 2244555555555555555555555555555543 344555555555555555


Q ss_pred             CHHHHHHHHHHHHH
Q 003295          757 DMKEAAKLLNVMAE  770 (833)
Q Consensus       757 ~~~~A~~~~~~m~~  770 (833)
                      ++++|+..+++.++
T Consensus       107 ~~~eAi~~~~~Al~  120 (144)
T PRK15359        107 EPGLAREAFQTAIK  120 (144)
T ss_pred             CHHHHHHHHHHHHH
Confidence            55555555555555

>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]

Probab=98.27  E-value=0.00026  Score=73.21  Aligned_cols=200  Identities=18%  Similarity=0.152  Sum_probs=132.4

Q ss_pred             CChhHHHHHHHHhh---cCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHH
Q 003295          232 NEVQKGIEVFETMC---RGVSPDVFLFSTAINAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIHGLCRNGRLYEAFH  308 (833)
Q Consensus       232 g~~~~A~~~~~~~~---~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~  308 (833)
                      .++.++...-+++.   ....|+...+...+.+......-..+..++.+-.+.  .-...-|..-+. +...|.+++|+.
T Consensus       251 ~RIa~lr~ra~q~p~~~~~d~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~--~~~aa~YG~A~~-~~~~~~~d~A~~  327 (484)
T COG4783         251 ERIADLRNRAEQSPPYNKLDSPDFQLARARIRAKYEALPNQQAADLLAKRSKR--GGLAAQYGRALQ-TYLAGQYDEALK  327 (484)
T ss_pred             hHHHHHHHHHHhCCCCCCCCCccHHHHHHHHHHHhccccccchHHHHHHHhCc--cchHHHHHHHHH-HHHhcccchHHH
Confidence            35566666666666   345667777777777666555544444444444331  112233444444 346788888888


Q ss_pred             HHHHHHhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCC-hhhHHHHHHHHHHcCChHHHHHHHHHHHhCC
Q 003295          309 LKEKMVLREVEPSLITYSILINGLIKLEKFDDANFVLKEMSVRGFVPN-YVVYNTLIDGYCKKGNISEALKIRDDMVSKG  387 (833)
Q Consensus       309 ~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~~y~~li~~~~~~g~~~~A~~~~~~m~~~g  387 (833)
                      .++.+... .+.|++.+......+.+.++.++|.+.++.+...  .|+ ......+..+|.+.|++.+|..+++......
T Consensus       328 ~l~~L~~~-~P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l--~P~~~~l~~~~a~all~~g~~~eai~~L~~~~~~~  404 (484)
T COG4783         328 LLQPLIAA-QPDNPYYLELAGDILLEANKAKEAIERLKKALAL--DPNSPLLQLNLAQALLKGGKPQEAIRILNRYLFND  404 (484)
T ss_pred             HHHHHHHh-CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhc--CCCccHHHHHHHHHHHhcCChHHHHHHHHHHhhcC
Confidence            88887765 2344555556667788888888888888888876  555 5566667778888888888888888877664


Q ss_pred             CCCChhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHHC
Q 003295          388 MSPNSVTFNSLIHGFCKSGQMDNAENALEEMLSRGLSINQGAYTSVIKWLCINSRFNSALHFTKEMLLR  456 (833)
Q Consensus       388 ~~p~~~~~~~li~~~~~~g~~~~A~~~l~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~  456 (833)
                      .. |...|..|..+|...|+..+|.....+                  .+...|+++.|+.++....+.
T Consensus       405 p~-dp~~w~~LAqay~~~g~~~~a~~A~AE------------------~~~~~G~~~~A~~~l~~A~~~  454 (484)
T COG4783         405 PE-DPNGWDLLAQAYAELGNRAEALLARAE------------------GYALAGRLEQAIIFLMRASQQ  454 (484)
T ss_pred             CC-CchHHHHHHHHHHHhCchHHHHHHHHH------------------HHHhCCCHHHHHHHHHHHHHh
Confidence            33 777888888888888888877765554                  344566677776666665544

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.26  E-value=0.00028  Score=80.16  Aligned_cols=161  Identities=11%  Similarity=0.114  Sum_probs=108.2

Q ss_pred             CHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhHHHHHHH
Q 003295          636 NPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIG  715 (833)
Q Consensus       636 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~  715 (833)
                      ++..+..|.....+.|++++|..+++...+.. +-+......+...+.+.+++++|...+++..... +-+......+..
T Consensus        85 ~~~~~~~La~i~~~~g~~~ea~~~l~~~~~~~-Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~-p~~~~~~~~~a~  162 (694)
T PRK15179         85 TELFQVLVARALEAAHRSDEGLAVWRGIHQRF-PDSSEAFILMLRGVKRQQGIEAGRAEIELYFSGG-SSSAREILLEAK  162 (694)
T ss_pred             cHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhC-CCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhcC-CCCHHHHHHHHH
Confidence            57777777777778888888888888777752 2244455666777777888888888888777753 334456666777


Q ss_pred             HHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCCHHH
Q 003295          716 GYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISPDSITYNVFMDGHCKGGNVEE  795 (833)
Q Consensus       716 ~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~  795 (833)
                      ++.+.|++++|..+|+++...+ +.+..++..+..++.+.|+.++|...|+++.+. ..|....|+.++      ++...
T Consensus       163 ~l~~~g~~~~A~~~y~~~~~~~-p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~-~~~~~~~~~~~~------~~~~~  234 (694)
T PRK15179        163 SWDEIGQSEQADACFERLSRQH-PEFENGYVGWAQSLTRRGALWRARDVLQAGLDA-IGDGARKLTRRL------VDLNA  234 (694)
T ss_pred             HHHHhcchHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-hCcchHHHHHHH------HHHHH
Confidence            7777888888888888877632 444677777777788888888888888887764 344455555443      23333


Q ss_pred             HHHHHHHHHHC
Q 003295          796 AFKVCDRMLSE  806 (833)
Q Consensus       796 A~~~~~~m~~~  806 (833)
                      -..+++++.-.
T Consensus       235 ~~~~~~~~~~~  245 (694)
T PRK15179        235 DLAALRRLGVE  245 (694)
T ss_pred             HHHHHHHcCcc
Confidence            44455555443

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=98.24  E-value=3.4e-05  Score=69.29  Aligned_cols=96  Identities=21%  Similarity=0.145  Sum_probs=57.4

Q ss_pred             hHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 003295          708 ACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISPDSITYNVFMDGH  787 (833)
Q Consensus       708 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~  787 (833)
                      .....+...+.+.|++++|.+.++++.+.+ +.+...|..+...+...|++++|...+++..+.+ +.+..++..+...+
T Consensus        18 ~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~   95 (135)
T TIGR02552        18 EQIYALAYNLYQQGRYDEALKLFQLLAAYD-PYNSRYWLGLAACCQMLKEYEEAIDAYALAAALD-PDDPRPYFHAAECL   95 (135)
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC-CCChHHHHHHHHHH
Confidence            334445555566666666666666665543 4455566666666666666666666666665532 23455566666666


Q ss_pred             hcCCCHHHHHHHHHHHHH
Q 003295          788 CKGGNVEEAFKVCDRMLS  805 (833)
Q Consensus       788 ~~~g~~~~A~~~~~~m~~  805 (833)
                      ...|++++|...+++.++
T Consensus        96 ~~~g~~~~A~~~~~~al~  113 (135)
T TIGR02552        96 LALGEPESALKALDLAIE  113 (135)
T ss_pred             HHcCCHHHHHHHHHHHHH
Confidence            666666666666666665

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.24  E-value=0.0005  Score=65.38  Aligned_cols=105  Identities=18%  Similarity=0.164  Sum_probs=44.5

Q ss_pred             HhcCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHh----cCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCH
Q 003295          683 CNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCK----LGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDM  758 (833)
Q Consensus       683 ~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~  758 (833)
                      .+..+.+-|.+.+++|.+-   .+..|.+-|..++.+    .+++.+|.-+|++|.++ .+|+..+.+....++...|++
T Consensus       148 lk~~r~d~A~~~lk~mq~i---ded~tLtQLA~awv~la~ggek~qdAfyifeE~s~k-~~~T~~llnG~Av~~l~~~~~  223 (299)
T KOG3081|consen  148 LKMHRFDLAEKELKKMQQI---DEDATLTQLAQAWVKLATGGEKIQDAFYIFEELSEK-TPPTPLLLNGQAVCHLQLGRY  223 (299)
T ss_pred             HHHHHHHHHHHHHHHHHcc---chHHHHHHHHHHHHHHhccchhhhhHHHHHHHHhcc-cCCChHHHccHHHHHHHhcCH
Confidence            3444444444444444431   233333333333332    22344444444444443 244444444444444444455


Q ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCC
Q 003295          759 KEAAKLLNVMAEKGISPDSITYNVFMDGHCKGGN  792 (833)
Q Consensus       759 ~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~  792 (833)
                      ++|..++++++.+. ..++.+...++-.-...|+
T Consensus       224 eeAe~lL~eaL~kd-~~dpetL~Nliv~a~~~Gk  256 (299)
T KOG3081|consen  224 EEAESLLEEALDKD-AKDPETLANLIVLALHLGK  256 (299)
T ss_pred             HHHHHHHHHHHhcc-CCCHHHHHHHHHHHHHhCC
Confidence            55554444444432 2233344333333333343

>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.24  E-value=0.00051  Score=65.31  Aligned_cols=139  Identities=18%  Similarity=0.120  Sum_probs=69.9

Q ss_pred             HHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHh----
Q 003295          504 IHGMCEAGNLKEAGKLLMEMLQRGLILDKVTYNTLILGCCKDGKPEEGFKLKEDMIKRGIQPDNYTYNLLLHGLCS----  579 (833)
Q Consensus       504 i~~~~~~g~~~~A~~~l~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~----  579 (833)
                      +..|++.|++++|.+.+....      +......=+..+.+..+.+-|.+.+++|.+..   +..|.+.|..++.+    
T Consensus       115 a~i~~~~~~~deAl~~~~~~~------~lE~~Al~VqI~lk~~r~d~A~~~lk~mq~id---ed~tLtQLA~awv~la~g  185 (299)
T KOG3081|consen  115 AIIYMHDGDFDEALKALHLGE------NLEAAALNVQILLKMHRFDLAEKELKKMQQID---EDATLTQLAQAWVKLATG  185 (299)
T ss_pred             hHHhhcCCChHHHHHHHhccc------hHHHHHHHHHHHHHHHHHHHHHHHHHHHHccc---hHHHHHHHHHHHHHHhcc
Confidence            345566666666666655421      22222222334445555666666666665532   44455545444433    


Q ss_pred             cCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCCh
Q 003295          580 LGKMEEAIELWEECKRTVFGPDIYTYGVMIDGFCKADKIEEGETLFNEMISKKMELNPVVYNTLIRAYCKIGNT  653 (833)
Q Consensus       580 ~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~  653 (833)
                      .+++.+|.-+|++|.++ .+|+..+.+....++...|++++|..++++.+.+... ++.+...+|-.-...|..
T Consensus       186 gek~qdAfyifeE~s~k-~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd~~-dpetL~Nliv~a~~~Gkd  257 (299)
T KOG3081|consen  186 GEKIQDAFYIFEELSEK-TPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKDAK-DPETLANLIVLALHLGKD  257 (299)
T ss_pred             chhhhhHHHHHHHHhcc-cCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhccCC-CHHHHHHHHHHHHHhCCC
Confidence            24455566666665543 3455555555555555556666666666655555443 444444444333333433

>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]

Probab=98.17  E-value=0.00063  Score=70.48  Aligned_cols=110  Identities=16%  Similarity=0.173  Sum_probs=50.5

Q ss_pred             ccCCHHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHhcCCHHHHH
Q 003295          614 KADKIEEGETLFNEMISKKMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPT-SVTYSSLIHGLCNIGLIEDAK  692 (833)
Q Consensus       614 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~-~~~~~~li~~~~~~g~~~~A~  692 (833)
                      ..|++++|+..++.++...+. |+..+....+.+.+.++..+|.+.++++...  .|+ ......+..++.+.|+..+|+
T Consensus       318 ~~~~~d~A~~~l~~L~~~~P~-N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l--~P~~~~l~~~~a~all~~g~~~eai  394 (484)
T COG4783         318 LAGQYDEALKLLQPLIAAQPD-NPYYLELAGDILLEANKAKEAIERLKKALAL--DPNSPLLQLNLAQALLKGGKPQEAI  394 (484)
T ss_pred             HhcccchHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhc--CCCccHHHHHHHHHHHhcCChHHHH
Confidence            344555555555554444332 4444444444445555555555555554443  222 233333444444555555555


Q ss_pred             HHHHHHHHCCCCCChhHHHHHHHHHHhcCChhHHH
Q 003295          693 CLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAE  727 (833)
Q Consensus       693 ~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~  727 (833)
                      .++++..... +-|+..|..|..+|...|+..+|.
T Consensus       395 ~~L~~~~~~~-p~dp~~w~~LAqay~~~g~~~~a~  428 (484)
T COG4783         395 RILNRYLFND-PEDPNGWDLLAQAYAELGNRAEAL  428 (484)
T ss_pred             HHHHHHhhcC-CCCchHHHHHHHHHHHhCchHHHH
Confidence            5544444431 334444555555555555444443

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.17  E-value=0.001  Score=62.78  Aligned_cols=188  Identities=15%  Similarity=0.148  Sum_probs=113.1

Q ss_pred             hcCCHHHHHHHHHHHhh---CC-CCCCHh-hHHHHHHHHHccCCHHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCCh
Q 003295          579 SLGKMEEAIELWEECKR---TV-FGPDIY-TYGVMIDGFCKADKIEEGETLFNEMISKKMELNPVVYNTLIRAYCKIGNT  653 (833)
Q Consensus       579 ~~g~~~~A~~~~~~~~~---~~-~~~~~~-~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~  653 (833)
                      ...+.++..+++.++..   .| ..++.. .|..++-+..-.|+.+.|...++.+...-+. +..+-..-.-.+-..|++
T Consensus        24 ~~rnseevv~l~~~~~~~~k~~~~g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L~~~fp~-S~RV~~lkam~lEa~~~~  102 (289)
T KOG3060|consen   24 TVRNSEEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALDTGRDDLAQKCINQLRDRFPG-SKRVGKLKAMLLEATGNY  102 (289)
T ss_pred             cccCHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhCCC-ChhHHHHHHHHHHHhhch
Confidence            34667777777777764   34 334433 2344444455567777777777776655322 222222222234455777


Q ss_pred             HHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHH
Q 003295          654 TAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESVLQEM  733 (833)
Q Consensus       654 ~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m  733 (833)
                      ++|.++++.+.+.+ +.|.+++.-=+...-..|+--+|++-+.+..+. +..|...|.-+...|...|++++|.-.++++
T Consensus       103 ~~A~e~y~~lL~dd-pt~~v~~KRKlAilka~GK~l~aIk~ln~YL~~-F~~D~EAW~eLaeiY~~~~~f~kA~fClEE~  180 (289)
T KOG3060|consen  103 KEAIEYYESLLEDD-PTDTVIRKRKLAILKAQGKNLEAIKELNEYLDK-FMNDQEAWHELAEIYLSEGDFEKAAFCLEEL  180 (289)
T ss_pred             hhHHHHHHHHhccC-cchhHHHHHHHHHHHHcCCcHHHHHHHHHHHHH-hcCcHHHHHHHHHHHHhHhHHHHHHHHHHHH
Confidence            77777777777665 445666665555555666666777666666665 4557777777777777777777777777777


Q ss_pred             HhCCCCCCHHHHHHHHHHHHhcC---CHHHHHHHHHHHHH
Q 003295          734 ASINIHPNKITYTIMIGGYCKLG---DMKEAAKLLNVMAE  770 (833)
Q Consensus       734 ~~~g~~p~~~~~~~li~~~~~~g---~~~~A~~~~~~m~~  770 (833)
                      .=.. |-++..+..+...+...|   +.+-|.+++.+.++
T Consensus       181 ll~~-P~n~l~f~rlae~~Yt~gg~eN~~~arkyy~~alk  219 (289)
T KOG3060|consen  181 LLIQ-PFNPLYFQRLAEVLYTQGGAENLELARKYYERALK  219 (289)
T ss_pred             HHcC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHH
Confidence            6532 334555556666655544   34556777777766

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=98.15  E-value=8.3e-05  Score=66.72  Aligned_cols=116  Identities=17%  Similarity=0.123  Sum_probs=82.8

Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHhCCC
Q 003295          659 LSNDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESVLQEMASINI  738 (833)
Q Consensus       659 ~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~  738 (833)
                      .+++..... +.+......+...+...|++++|...++.+...+ +.+...+..+...+.+.|++++|...+++..+.+ 
T Consensus         5 ~~~~~l~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-   81 (135)
T TIGR02552         5 TLKDLLGLD-SEQLEQIYALAYNLYQQGRYDEALKLFQLLAAYD-PYNSRYWLGLAACCQMLKEYEEAIDAYALAAALD-   81 (135)
T ss_pred             hHHHHHcCC-hhhHHHHHHHHHHHHHcccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC-
Confidence            344444442 2234445666677778888888888888887753 4466777778888888888888888888887754 


Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHH
Q 003295          739 HPNKITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISPDSIT  779 (833)
Q Consensus       739 ~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~  779 (833)
                      +.+...+..+...+...|++++|...+++.++.  .|+...
T Consensus        82 p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~--~p~~~~  120 (135)
T TIGR02552        82 PDDPRPYFHAAECLLALGEPESALKALDLAIEI--CGENPE  120 (135)
T ss_pred             CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--ccccch
Confidence            556777777888888888888888888888873  455443

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.10  E-value=0.0028  Score=59.96  Aligned_cols=189  Identities=13%  Similarity=0.160  Sum_probs=146.0

Q ss_pred             hcCChhhHHHHHHHHHHC---C-CCCCHHH-HHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHccCCH
Q 003295          544 KDGKPEEGFKLKEDMIKR---G-IQPDNYT-YNLLLHGLCSLGKMEEAIELWEECKRTVFGPDIYTYGVMIDGFCKADKI  618 (833)
Q Consensus       544 ~~g~~~~A~~~~~~m~~~---g-~~p~~~~-~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~  618 (833)
                      ...+.++..+++.+++..   | ..++.++ |..++-+....|+.+.|...++++...- +.+..+-..-...+-..|.+
T Consensus        24 ~~rnseevv~l~~~~~~~~k~~~~g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L~~~f-p~S~RV~~lkam~lEa~~~~  102 (289)
T KOG3060|consen   24 TVRNSEEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALDTGRDDLAQKCINQLRDRF-PGSKRVGKLKAMLLEATGNY  102 (289)
T ss_pred             cccCHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhC-CCChhHHHHHHHHHHHhhch
Confidence            356789999999888753   4 5566654 4456667778899999999999988763 32333322223345568999


Q ss_pred             HHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 003295          619 EEGETLFNEMISKKMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEM  698 (833)
Q Consensus       619 ~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m  698 (833)
                      ++|+++++.+++..+. |.+++-.-+-..-..|+.-+|++-+.+..+. +..|...|.-+...|...|++++|.-.++++
T Consensus       103 ~~A~e~y~~lL~ddpt-~~v~~KRKlAilka~GK~l~aIk~ln~YL~~-F~~D~EAW~eLaeiY~~~~~f~kA~fClEE~  180 (289)
T KOG3060|consen  103 KEAIEYYESLLEDDPT-DTVIRKRKLAILKAQGKNLEAIKELNEYLDK-FMNDQEAWHELAEIYLSEGDFEKAAFCLEEL  180 (289)
T ss_pred             hhHHHHHHHHhccCcc-hhHHHHHHHHHHHHcCCcHHHHHHHHHHHHH-hcCcHHHHHHHHHHHHhHhHHHHHHHHHHHH
Confidence            9999999999998755 7888888888888889999999999988886 5669999999999999999999999999999


Q ss_pred             HHCCCCC-ChhHHHHHHHHHHhcC---ChhHHHHHHHHHHhCC
Q 003295          699 RKEGLLP-NVACYTALIGGYCKLG---QMDEAESVLQEMASIN  737 (833)
Q Consensus       699 ~~~g~~p-~~~~~~~li~~~~~~g---~~~~A~~~~~~m~~~g  737 (833)
                      +-.  .| +...+..+.+.+.-.|   +.+-|.+++.+..+..
T Consensus       181 ll~--~P~n~l~f~rlae~~Yt~gg~eN~~~arkyy~~alkl~  221 (289)
T KOG3060|consen  181 LLI--QPFNPLYFQRLAEVLYTQGGAENLELARKYYERALKLN  221 (289)
T ss_pred             HHc--CCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHhC
Confidence            974  45 5555566666655444   6788999999998753

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=97.99  E-value=1e-05  Score=52.68  Aligned_cols=31  Identities=48%  Similarity=0.937  Sum_probs=11.8

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHhCCCCC
Q 003295          290 YNNIIHGLCRNGRLYEAFHLKEKMVLREVEP  320 (833)
Q Consensus       290 ~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p  320 (833)
                      ||++|.+|++.|++++|.++|++|.+.|+.|
T Consensus         3 ~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p   33 (35)
T TIGR00756         3 YNTLIDGLCKAGRVEEALELFKEMLERGIEP   33 (35)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHcCCCC
Confidence            3333333333333333333333333333333

This family has a similar consensus to the TPR domain (tetratricopeptide), pfam pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR.

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=97.96  E-value=1.2e-05  Score=52.30  Aligned_cols=35  Identities=46%  Similarity=0.885  Sum_probs=29.8

Q ss_pred             HHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCh
Q 003295          253 FLFSTAINAFCKRGRIEDAIGLFTKMEELGIAPNV  287 (833)
Q Consensus       253 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~  287 (833)
                      .+||++|.+|++.|++++|.++|.+|.+.|+.||.
T Consensus         1 ~~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~~   35 (35)
T TIGR00756         1 VTYNTLIDGLCKAGRVEEALELFKEMLERGIEPDV   35 (35)
T ss_pred             CcHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCC
Confidence            36888888899999999999999888888888873

This family has a similar consensus to the TPR domain (tetratricopeptide), pfam pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR.

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=97.94  E-value=0.036  Score=57.17  Aligned_cols=443  Identities=13%  Similarity=0.125  Sum_probs=235.8

Q ss_pred             HhcCChhHHHHHHHHHHHCCCC-CC----hhhHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCChhHHHHHHHH--HHhc
Q 003295          333 IKLEKFDDANFVLKEMSVRGFV-PN----YVVYNTLIDGYCKKGNISEALKIRDDMVSKGMSPNSVTFNSLIHG--FCKS  405 (833)
Q Consensus       333 ~~~g~~~~A~~~~~~m~~~g~~-p~----~~~y~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~--~~~~  405 (833)
                      -+++++.+|..+|.+..+..-. |-    .+.-+-++++|.. .+++.....+.+..+.  .| ...|-.|..+  +.+.
T Consensus        17 qkq~~~~esEkifskI~~e~~~~~f~lkeEvl~grilnAffl-~nld~Me~~l~~l~~~--~~-~s~~l~LF~~L~~Y~~   92 (549)
T PF07079_consen   17 QKQKKFQESEKIFSKIYDEKESSPFLLKEEVLGGRILNAFFL-NNLDLMEKQLMELRQQ--FG-KSAYLPLFKALVAYKQ   92 (549)
T ss_pred             HHHhhhhHHHHHHHHHHHHhhcchHHHHHHHHhhHHHHHHHH-hhHHHHHHHHHHHHHh--cC-CchHHHHHHHHHHHHh
Confidence            4677888888888887654211 10    2233455666653 3455555555555443  12 2334444443  3467


Q ss_pred             CChhHHHHHHHHHHHC--CCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHH
Q 003295          406 GQMDNAENALEEMLSR--GLSINQGAYTSVIKWLCINSRFNSALHFTKEMLLRNLRPGDGLLTLLVSGLCKNGKQAEATE  483 (833)
Q Consensus       406 g~~~~A~~~l~~~~~~--g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~  483 (833)
                      |++++|.+.+..-.+.  +-.+.  ..+.-+.            +++         ++-..-...++++.+.|++.+++.
T Consensus        93 k~~~kal~~ls~w~~~~~~~~~~--~Ld~ni~------------~l~---------~df~l~~i~a~sLIe~g~f~EgR~  149 (549)
T PF07079_consen   93 KEYRKALQALSVWKEQIKGTESP--WLDTNIQ------------QLF---------SDFFLDEIEAHSLIETGRFSEGRA  149 (549)
T ss_pred             hhHHHHHHHHHHHHhhhcccccc--hhhhhHH------------HHh---------hHHHHHHHHHHHHHhcCCcchHHH
Confidence            7777777777665543  11110  0000000            000         111122445666777777777777


Q ss_pred             HHHHHHHC----CCCCCHHHHHHHHHHHHhcCC---------------HHHHHHHHHHHhhC------CCCCCHHHHHHH
Q 003295          484 LCFRLFEK----GFTVNTVTSNALIHGMCEAGN---------------LKEAGKLLMEMLQR------GLILDKVTYNTL  538 (833)
Q Consensus       484 ~~~~~~~~----g~~~~~~~~~~li~~~~~~g~---------------~~~A~~~l~~m~~~------g~~~~~~~~~~l  538 (833)
                      +++++.+.    ...-+..+||.++-.+.+.=-               ++.+.-..++|...      .+.|.......+
T Consensus       150 iLn~i~~~llkrE~~w~~d~yd~~vlmlsrSYfLEl~e~~s~dl~pdyYemilfY~kki~~~d~~~Y~k~~peeeL~s~i  229 (549)
T PF07079_consen  150 ILNRIIERLLKRECEWNSDMYDRAVLMLSRSYFLELKESMSSDLYPDYYEMILFYLKKIHAFDQRPYEKFIPEEELFSTI  229 (549)
T ss_pred             HHHHHHHHHhhhhhcccHHHHHHHHHHHhHHHHHHHHHhcccccChHHHHHHHHHHHHHHHHhhchHHhhCcHHHHHHHH
Confidence            77776654    333567777765544443211               11222222222221      233333334444


Q ss_pred             HHHHHhc--CChhhHHHHHHHHHHCCCCCCHH-HHHHHHHHHHhcCCHHHHHHHHHHHhhCCCC----CCHhhHHHHHHH
Q 003295          539 ILGCCKD--GKPEEGFKLKEDMIKRGIQPDNY-TYNLLLHGLCSLGKMEEAIELWEECKRTVFG----PDIYTYGVMIDG  611 (833)
Q Consensus       539 i~~~~~~--g~~~~A~~~~~~m~~~g~~p~~~-~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~----~~~~~~~~li~~  611 (833)
                      +....-.  .+..--.++++.....-+.|+.. ....+...+.+  +.+++..+.+.+....+.    .=..++..++..
T Consensus       230 mqhlfi~p~e~l~~~mq~l~~We~~yv~p~~~LVi~~L~~~f~~--~~e~~~~~ce~ia~~~i~~Lke~li~~F~~~Ls~  307 (549)
T PF07079_consen  230 MQHLFIVPKERLPPLMQILENWENFYVHPNYDLVIEPLKQQFMS--DPEQVGHFCEAIASSKIEKLKEELIDRFGNLLSF  307 (549)
T ss_pred             HHHHHhCCHhhccHHHHHHHHHHhhccCCchhHHHHHHHHHHhc--ChHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHH
Confidence            4333321  22333344444444444555532 23334444444  556666655554433211    124567778888


Q ss_pred             HHccCCHHHHHHHHHHHHHCCCccCHHHH-------HHHHHHHHH----cCChHHHHHHHHHHHhCCCCCCHH-HHHHH-
Q 003295          612 FCKADKIEEGETLFNEMISKKMELNPVVY-------NTLIRAYCK----IGNTTAAFRLSNDMKSRGILPTSV-TYSSL-  678 (833)
Q Consensus       612 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~-------~~li~~~~~----~g~~~~A~~~~~~m~~~~~~p~~~-~~~~l-  678 (833)
                      ..+.++..+|.+.+.-+....+  +...-       ..+-+..|.    .-+...-+.+|+......+  |.. ...-| 
T Consensus       308 ~Vk~~~T~~a~q~l~lL~~ldp--~~svs~Kllls~~~lq~Iv~~DD~~~Tklr~yL~lwe~~qs~Di--DrqQLvh~L~  383 (549)
T PF07079_consen  308 KVKQVQTEEAKQYLALLKILDP--RISVSEKLLLSPKVLQDIVCEDDESYTKLRDYLNLWEEIQSYDI--DRQQLVHYLV  383 (549)
T ss_pred             HHHHHhHHHHHHHHHHHHhcCC--cchhhhhhhcCHHHHHHHHhcchHHHHHHHHHHHHHHHHHhhcc--cHHHHHHHHH
Confidence            8888998888888776655432  22211       112222231    1223334556666555432  221 11112 


Q ss_pred             --HHHHHhcCC-HHHHHHHHHHHHHCCCCC-ChhHHHHHH----HHHHh---cCChhHHHHHHHHHHhCCCCCCH----H
Q 003295          679 --IHGLCNIGL-IEDAKCLFDEMRKEGLLP-NVACYTALI----GGYCK---LGQMDEAESVLQEMASINIHPNK----I  743 (833)
Q Consensus       679 --i~~~~~~g~-~~~A~~~~~~m~~~g~~p-~~~~~~~li----~~~~~---~g~~~~A~~~~~~m~~~g~~p~~----~  743 (833)
                        ..-+-+.|. -++|.++++...+-  .| |...-|.+.    ..|..   ...+.+-..+-+-+.+.|++|-.    .
T Consensus       384 ~~Ak~lW~~g~~dekalnLLk~il~f--t~yD~ec~n~v~~fvKq~Y~qaLs~~~~~rLlkLe~fi~e~gl~~i~i~e~e  461 (549)
T PF07079_consen  384 FGAKHLWEIGQCDEKALNLLKLILQF--TNYDIECENIVFLFVKQAYKQALSMHAIPRLLKLEDFITEVGLTPITISEEE  461 (549)
T ss_pred             HHHHHHHhcCCccHHHHHHHHHHHHh--ccccHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCCcccccHHH
Confidence              233445565 78899999998874  34 444333322    22222   22344445555555677877743    3


Q ss_pred             HHHHHHHH--HHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHHCCCCCCHHHHHH
Q 003295          744 TYTIMIGG--YCKLGDMKEAAKLLNVMAEKGISPDSITYNVFMDGHCKGGNVEEAFKVCDRMLSEGLSLDEITYTT  817 (833)
Q Consensus       744 ~~~~li~~--~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~  817 (833)
                      .-|.|.++  +..+|++.++..+-.-+.+  +.|++.+|..++-++....++++|.+++..     ++|+...|+.
T Consensus       462 ian~LaDAEyLysqgey~kc~~ys~WL~~--iaPS~~~~RLlGl~l~e~k~Y~eA~~~l~~-----LP~n~~~~ds  530 (549)
T PF07079_consen  462 IANFLADAEYLYSQGEYHKCYLYSSWLTK--IAPSPQAYRLLGLCLMENKRYQEAWEYLQK-----LPPNERMRDS  530 (549)
T ss_pred             HHHHHHHHHHHHhcccHHHHHHHHHHHHH--hCCcHHHHHHHHHHHHHHhhHHHHHHHHHh-----CCCchhhHHH
Confidence            45666655  6688999999888777777  889999999999999999999999999865     5667665554

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>PF09295 ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); InterPro: IPR015374 ChAPs (Chs5p-Arf1p-binding proteins) are required for the export of specialised cargo from the Golgi

Probab=97.93  E-value=0.00033  Score=73.46  Aligned_cols=122  Identities=18%  Similarity=0.168  Sum_probs=73.9

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc
Q 003295          676 SSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKL  755 (833)
Q Consensus       676 ~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~  755 (833)
                      ..|+..+...++++.|.++|+++.+..  |+.  ...++..+...++-.+|.+++++..... +-+...+..-...|.+.
T Consensus       173 ~~Ll~~l~~t~~~~~ai~lle~L~~~~--pev--~~~LA~v~l~~~~E~~AI~ll~~aL~~~-p~d~~LL~~Qa~fLl~k  247 (395)
T PF09295_consen  173 DTLLKYLSLTQRYDEAIELLEKLRERD--PEV--AVLLARVYLLMNEEVEAIRLLNEALKEN-PQDSELLNLQAEFLLSK  247 (395)
T ss_pred             HHHHHHHhhcccHHHHHHHHHHHHhcC--CcH--HHHHHHHHHhcCcHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhc
Confidence            344445555666666666666666642  443  2335555555666666666666666532 33555555556666667


Q ss_pred             CCHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHhcCCCHHHHHHHHHHHH
Q 003295          756 GDMKEAAKLLNVMAEKGISPD-SITYNVFMDGHCKGGNVEEAFKVCDRML  804 (833)
Q Consensus       756 g~~~~A~~~~~~m~~~g~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~m~  804 (833)
                      ++++.|+++.+++.+  +.|+ ..+|..|+.+|...|++++|+-.++.+-
T Consensus       248 ~~~~lAL~iAk~av~--lsP~~f~~W~~La~~Yi~~~d~e~ALlaLNs~P  295 (395)
T PF09295_consen  248 KKYELALEIAKKAVE--LSPSEFETWYQLAECYIQLGDFENALLALNSCP  295 (395)
T ss_pred             CCHHHHHHHHHHHHH--hCchhHHHHHHHHHHHHhcCCHHHHHHHHhcCc
Confidence            777777777777766  3453 3567777777777777777766666554

They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=97.88  E-value=0.0004  Score=62.97  Aligned_cols=125  Identities=16%  Similarity=0.198  Sum_probs=78.9

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC---hhHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCC--HHHHHHHH
Q 003295          675 YSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPN---VACYTALIGGYCKLGQMDEAESVLQEMASINIHPN--KITYTIMI  749 (833)
Q Consensus       675 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~---~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~--~~~~~~li  749 (833)
                      |..++..+ ..++...+...++.+.+.. +.+   ....-.+...+...|++++|...|+...+....|+  ......|.
T Consensus        15 y~~~~~~~-~~~~~~~~~~~~~~l~~~~-~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~l~LA   92 (145)
T PF09976_consen   15 YEQALQAL-QAGDPAKAEAAAEQLAKDY-PSSPYAALAALQLAKAAYEQGDYDEAKAALEKALANAPDPELKPLARLRLA   92 (145)
T ss_pred             HHHHHHHH-HCCCHHHHHHHHHHHHHHC-CCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHHHHH
Confidence            44444444 3677777777777777652 222   12233345667777888888888888777541221  12445567


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHH
Q 003295          750 GGYCKLGDMKEAAKLLNVMAEKGISPDSITYNVFMDGHCKGGNVEEAFKVCDRM  803 (833)
Q Consensus       750 ~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m  803 (833)
                      ..+...|++++|+..++.....  ......+..+++.|.+.|++++|+..|+..
T Consensus        93 ~~~~~~~~~d~Al~~L~~~~~~--~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~A  144 (145)
T PF09976_consen   93 RILLQQGQYDEALATLQQIPDE--AFKALAAELLGDIYLAQGDYDEARAAYQKA  144 (145)
T ss_pred             HHHHHcCCHHHHHHHHHhccCc--chHHHHHHHHHHHHHHCCCHHHHHHHHHHh
Confidence            7777888888888887663322  224456677788888888888888877654

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=97.87  E-value=0.046  Score=56.40  Aligned_cols=88  Identities=16%  Similarity=0.109  Sum_probs=55.6

Q ss_pred             HHHHHHHHHHHHCCCCCC----hhHHHHHHHH--HHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHH
Q 003295          689 EDAKCLFDEMRKEGLLPN----VACYTALIGG--YCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAA  762 (833)
Q Consensus       689 ~~A~~~~~~m~~~g~~p~----~~~~~~li~~--~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~  762 (833)
                      .+-..+-+-..+.|++|-    ...-|.|.++  +...|++.++.-.-.-+.+  +.|++.+|..++-++....++++|.
T Consensus       438 ~rLlkLe~fi~e~gl~~i~i~e~eian~LaDAEyLysqgey~kc~~ys~WL~~--iaPS~~~~RLlGl~l~e~k~Y~eA~  515 (549)
T PF07079_consen  438 PRLLKLEDFITEVGLTPITISEEEIANFLADAEYLYSQGEYHKCYLYSSWLTK--IAPSPQAYRLLGLCLMENKRYQEAW  515 (549)
T ss_pred             HHHHHHHHHHHhcCCCcccccHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHH--hCCcHHHHHHHHHHHHHHhhHHHHH
Confidence            333444444445566662    3344555443  3457788887766555555  5778888888888888888888888


Q ss_pred             HHHHHHHHcCCCCCHHHHHHH
Q 003295          763 KLLNVMAEKGISPDSITYNVF  783 (833)
Q Consensus       763 ~~~~~m~~~g~~p~~~~~~~l  783 (833)
                      ++++.     ++|+..+++.-
T Consensus       516 ~~l~~-----LP~n~~~~dsk  531 (549)
T PF07079_consen  516 EYLQK-----LPPNERMRDSK  531 (549)
T ss_pred             HHHHh-----CCCchhhHHHH
Confidence            88776     56666655543

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=97.79  E-value=0.00078  Score=61.06  Aligned_cols=82  Identities=15%  Similarity=0.150  Sum_probs=33.3

Q ss_pred             cCChhHHHHHHHHhhcCCCCC---HHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCC--hhhHHHHHHHHHhcCChhH
Q 003295          231 ANEVQKGIEVFETMCRGVSPD---VFLFSTAINAFCKRGRIEDAIGLFTKMEELGIAPN--VVTYNNIIHGLCRNGRLYE  305 (833)
Q Consensus       231 ~g~~~~A~~~~~~~~~~~~~~---~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~--~~~~~~li~~~~~~g~~~~  305 (833)
                      .++...+...++.+....+.+   ......+...+...|++++|...|+........|+  ....-.+...+...|++++
T Consensus        24 ~~~~~~~~~~~~~l~~~~~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~l~LA~~~~~~~~~d~  103 (145)
T PF09976_consen   24 AGDPAKAEAAAEQLAKDYPSSPYAALAALQLAKAAYEQGDYDEAKAALEKALANAPDPELKPLARLRLARILLQQGQYDE  103 (145)
T ss_pred             CCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHH
Confidence            444444444444444222222   22222333444445555555555555444331111  1122223344444444444


Q ss_pred             HHHHHHH
Q 003295          306 AFHLKEK  312 (833)
Q Consensus       306 A~~~~~~  312 (833)
                      |+..++.
T Consensus       104 Al~~L~~  110 (145)
T PF09976_consen  104 ALATLQQ  110 (145)
T ss_pred             HHHHHHh
Confidence            4444433

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=97.78  E-value=3.8e-05  Score=49.50  Aligned_cols=28  Identities=32%  Similarity=0.593  Sum_probs=10.7

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHHcC
Q 003295          255 FSTAINAFCKRGRIEDAIGLFTKMEELG  282 (833)
Q Consensus       255 ~~~li~~~~~~g~~~~A~~~~~~m~~~g  282 (833)
                      |+.++.+|++.|+++.|.++|++|.+.|
T Consensus         4 y~~ll~a~~~~g~~~~a~~~~~~M~~~g   31 (34)
T PF13812_consen    4 YNALLRACAKAGDPDAALQLFDEMKEQG   31 (34)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhC
Confidence            3333333333333333333333333333

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=97.75  E-value=4.4e-05  Score=49.20  Aligned_cols=33  Identities=27%  Similarity=0.445  Sum_probs=28.2

Q ss_pred             hhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCC
Q 003295          288 VTYNNIIHGLCRNGRLYEAFHLKEKMVLREVEP  320 (833)
Q Consensus       288 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p  320 (833)
                      .+||.++.+|++.|+++.|.++|++|.+.|++|
T Consensus         2 ~ty~~ll~a~~~~g~~~~a~~~~~~M~~~gv~P   34 (34)
T PF13812_consen    2 HTYNALLRACAKAGDPDAALQLFDEMKEQGVKP   34 (34)
T ss_pred             cHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC
Confidence            578888888888888888888888888888776

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=97.71  E-value=0.037  Score=59.79  Aligned_cols=214  Identities=14%  Similarity=0.142  Sum_probs=116.7

Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHhh--cCCCCCHHH--------HHHHHHHHHhcCC
Q 003295          198 GFGYAIDVFSIFSSKGIFPSLKTCNFLLNSLVKANEVQKGIEVFETMC--RGVSPDVFL--------FSTAINAFCKRGR  267 (833)
Q Consensus       198 ~~~~A~~~f~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~--------~~~li~~~~~~g~  267 (833)
                      ++++|.+.-    +.+  |-+..|..|...-.+.-.++.|...|-+..  .|++--...        -..=+.+|  -|+
T Consensus       678 gledA~qfi----Edn--PHprLWrllAe~Al~Kl~l~tAE~AFVrc~dY~Gik~vkrl~~i~s~~~q~aei~~~--~g~  749 (1189)
T KOG2041|consen  678 GLEDAIQFI----EDN--PHPRLWRLLAEYALFKLALDTAEHAFVRCGDYAGIKLVKRLRTIHSKEQQRAEISAF--YGE  749 (1189)
T ss_pred             chHHHHHHH----hcC--CchHHHHHHHHHHHHHHhhhhHhhhhhhhccccchhHHHHhhhhhhHHHHhHhHhhh--hcc
Confidence            355665542    333  667889888888777778888888886664  343211111        11112222  377


Q ss_pred             hhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhC-CCCCChhhHHHHHHHHHhcCChhHHHHHHH
Q 003295          268 IEDAIGLFTKMEELGIAPNVVTYNNIIHGLCRNGRLYEAFHLKEKMVLR-EVEPSLITYSILINGLIKLEKFDDANFVLK  346 (833)
Q Consensus       268 ~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-~~~p~~~t~~~li~~~~~~g~~~~A~~~~~  346 (833)
                      +++|.+++-+|-++.         ..|..+.+.|++-...++++.--.. .-+.-...|+.+...++....+++|.+.+.
T Consensus       750 feeaek~yld~drrD---------LAielr~klgDwfrV~qL~r~g~~d~dD~~~e~A~r~ig~~fa~~~~We~A~~yY~  820 (1189)
T KOG2041|consen  750 FEEAEKLYLDADRRD---------LAIELRKKLGDWFRVYQLIRNGGSDDDDEGKEDAFRNIGETFAEMMEWEEAAKYYS  820 (1189)
T ss_pred             hhHhhhhhhccchhh---------hhHHHHHhhhhHHHHHHHHHccCCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            888888887776642         2345556667776666655431110 001113456777777777777777777666


Q ss_pred             HHHHCCCCCChhhHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCC
Q 003295          347 EMSVRGFVPNYVVYNTLIDGYCKKGNISEALKIRDDMVSKGMSPNSVTFNSLIHGFCKSGQMDNAENALEEMLSRGLSIN  426 (833)
Q Consensus       347 ~m~~~g~~p~~~~y~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~l~~~~~~g~~~~  426 (833)
                      .-...         ...+.+|.+..++++-+.+.+.+.+     |....-.+.+++...|.-++|.+.+-+-.   .+  
T Consensus       821 ~~~~~---------e~~~ecly~le~f~~LE~la~~Lpe-----~s~llp~~a~mf~svGMC~qAV~a~Lr~s---~p--  881 (1189)
T KOG2041|consen  821 YCGDT---------ENQIECLYRLELFGELEVLARTLPE-----DSELLPVMADMFTSVGMCDQAVEAYLRRS---LP--  881 (1189)
T ss_pred             hccch---------HhHHHHHHHHHhhhhHHHHHHhcCc-----ccchHHHHHHHHHhhchHHHHHHHHHhcc---Cc--
Confidence            54321         2345555555555555555444333     44455556666667776666665553321   11  


Q ss_pred             cccHHHHHHHHHhcCChhHHHHHHH
Q 003295          427 QGAYTSVIKWLCINSRFNSALHFTK  451 (833)
Q Consensus       427 ~~~~~~li~~~~~~g~~~~A~~~~~  451 (833)
                          ...+..+....++.+|.++-+
T Consensus       882 ----kaAv~tCv~LnQW~~avelaq  902 (1189)
T KOG2041|consen  882 ----KAAVHTCVELNQWGEAVELAQ  902 (1189)
T ss_pred             ----HHHHHHHHHHHHHHHHHHHHH
Confidence                233444555555555555443

>PF09295 ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); InterPro: IPR015374 ChAPs (Chs5p-Arf1p-binding proteins) are required for the export of specialised cargo from the Golgi

Probab=97.71  E-value=0.0011  Score=69.49  Aligned_cols=123  Identities=17%  Similarity=0.171  Sum_probs=88.2

Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc
Q 003295          606 GVMIDGFCKADKIEEGETLFNEMISKKMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNI  685 (833)
Q Consensus       606 ~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~  685 (833)
                      ..|+..+...++++.|+.+|+++.+..  |+  ....++..+...++-.+|.+++++..+.. +.+...+..-...+.+.
T Consensus       173 ~~Ll~~l~~t~~~~~ai~lle~L~~~~--pe--v~~~LA~v~l~~~~E~~AI~ll~~aL~~~-p~d~~LL~~Qa~fLl~k  247 (395)
T PF09295_consen  173 DTLLKYLSLTQRYDEAIELLEKLRERD--PE--VAVLLARVYLLMNEEVEAIRLLNEALKEN-PQDSELLNLQAEFLLSK  247 (395)
T ss_pred             HHHHHHHhhcccHHHHHHHHHHHHhcC--Cc--HHHHHHHHHHhcCcHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhc
Confidence            344555566778888888888887763  33  44456777777777788888888877653 34566666666777788


Q ss_pred             CCHHHHHHHHHHHHHCCCCCC-hhHHHHHHHHHHhcCChhHHHHHHHHHHh
Q 003295          686 GLIEDAKCLFDEMRKEGLLPN-VACYTALIGGYCKLGQMDEAESVLQEMAS  735 (833)
Q Consensus       686 g~~~~A~~~~~~m~~~g~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~  735 (833)
                      ++.+.|..+.+++.+.  .|+ ..+|..|..+|.+.|+++.|+..++.+.-
T Consensus       248 ~~~~lAL~iAk~av~l--sP~~f~~W~~La~~Yi~~~d~e~ALlaLNs~Pm  296 (395)
T PF09295_consen  248 KKYELALEIAKKAVEL--SPSEFETWYQLAECYIQLGDFENALLALNSCPM  296 (395)
T ss_pred             CCHHHHHHHHHHHHHh--CchhHHHHHHHHHHHHhcCCHHHHHHHHhcCcC
Confidence            8888888888888874  454 45788888888888888888887777653

They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=97.70  E-value=0.011  Score=60.13  Aligned_cols=201  Identities=13%  Similarity=0.010  Sum_probs=119.9

Q ss_pred             HHHHccCCHHHHHHHHHHHHHCCCccCHHHHHHHHH--HHHHcCChHHHHHHHHHHHhCCCCCCHHHHHHH---------
Q 003295          610 DGFCKADKIEEGETLFNEMISKKMELNPVVYNTLIR--AYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSL---------  678 (833)
Q Consensus       610 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~--~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l---------  678 (833)
                      .++.-.|+.++|...-...++.... +  .+..+++  ++.-.++.+.|...|++.+..+  |+...-..+         
T Consensus       177 ~cl~~~~~~~~a~~ea~~ilkld~~-n--~~al~vrg~~~yy~~~~~ka~~hf~qal~ld--pdh~~sk~~~~~~k~le~  251 (486)
T KOG0550|consen  177 ECLAFLGDYDEAQSEAIDILKLDAT-N--AEALYVRGLCLYYNDNADKAINHFQQALRLD--PDHQKSKSASMMPKKLEV  251 (486)
T ss_pred             hhhhhcccchhHHHHHHHHHhcccc-h--hHHHHhcccccccccchHHHHHHHhhhhccC--hhhhhHHhHhhhHHHHHH
Confidence            3455677888887777776665322 2  2223333  3345577788888888777653  443322111         


Q ss_pred             ----HHHHHhcCCHHHHHHHHHHHHHC---CCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCC-HHHHHHHHH
Q 003295          679 ----IHGLCNIGLIEDAKCLFDEMRKE---GLLPNVACYTALIGGYCKLGQMDEAESVLQEMASINIHPN-KITYTIMIG  750 (833)
Q Consensus       679 ----i~~~~~~g~~~~A~~~~~~m~~~---g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~~~~~li~  750 (833)
                          .+-..+.|++.+|.+.+.+.+..   +..|+...|........+.|+.++|+.--++..+.  .+. ...|..-..
T Consensus       252 ~k~~gN~~fk~G~y~~A~E~Yteal~idP~n~~~naklY~nra~v~~rLgrl~eaisdc~~Al~i--D~syikall~ra~  329 (486)
T KOG0550|consen  252 KKERGNDAFKNGNYRKAYECYTEALNIDPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEALKI--DSSYIKALLRRAN  329 (486)
T ss_pred             HHhhhhhHhhccchhHHHHHHHHhhcCCccccchhHHHHHHhHhhhcccCCchhhhhhhhhhhhc--CHHHHHHHHHHHH
Confidence                22345788999999999998874   34456667777777888899999999888888763  221 123334445


Q ss_pred             HHHhcCCHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhcCCCHHHHHHHHHHHHHCCCCCCHHHHHHH
Q 003295          751 GYCKLGDMKEAAKLLNVMAEKGISP-DSITYNVFMDGHCKGGNVEEAFKVCDRMLSEGLSLDEITYTTL  818 (833)
Q Consensus       751 ~~~~~g~~~~A~~~~~~m~~~g~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l  818 (833)
                      ++...+++++|++-++++.+....+ +..++.....++-+..+ ..-.+++--.......|....|.-+
T Consensus       330 c~l~le~~e~AV~d~~~a~q~~~s~e~r~~l~~A~~aLkkSkR-kd~ykilGi~~~as~~eikkayrk~  397 (486)
T KOG0550|consen  330 CHLALEKWEEAVEDYEKAMQLEKDCEIRRTLREAQLALKKSKR-KDWYKILGISRNASDDEIKKAYRKL  397 (486)
T ss_pred             HHHHHHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhhh-hhHHHHhhhhhhcccchhhhHHHHH
Confidence            5667788999999999888743332 22344444444433222 2233333333333445556666543

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=97.68  E-value=0.0005  Score=66.85  Aligned_cols=99  Identities=23%  Similarity=0.289  Sum_probs=74.4

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHhcCC
Q 003295          679 IHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESVLQEMASINIHPN-KITYTIMIGGYCKLGD  757 (833)
Q Consensus       679 i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~~~~~li~~~~~~g~  757 (833)
                      .+-..+.+++++|...|.++++.. +-|.+.|..-..+|++.|.++.|++-.+..+..  .|+ ..+|..|..+|...|+
T Consensus        88 GN~~m~~~~Y~eAv~kY~~AI~l~-P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~i--Dp~yskay~RLG~A~~~~gk  164 (304)
T KOG0553|consen   88 GNKLMKNKDYQEAVDKYTEAIELD-PTNAVYYCNRAAAYSKLGEYEDAVKDCESALSI--DPHYSKAYGRLGLAYLALGK  164 (304)
T ss_pred             HHHHHHhhhHHHHHHHHHHHHhcC-CCcchHHHHHHHHHHHhcchHHHHHHHHHHHhc--ChHHHHHHHHHHHHHHccCc
Confidence            444567788888888888888842 335666777788888888888888888888774  344 4578888888888888


Q ss_pred             HHHHHHHHHHHHHcCCCCCHHHHHH
Q 003295          758 MKEAAKLLNVMAEKGISPDSITYNV  782 (833)
Q Consensus       758 ~~~A~~~~~~m~~~g~~p~~~~~~~  782 (833)
                      +++|++.|++.++  +.|+-.+|..
T Consensus       165 ~~~A~~aykKaLe--ldP~Ne~~K~  187 (304)
T KOG0553|consen  165 YEEAIEAYKKALE--LDPDNESYKS  187 (304)
T ss_pred             HHHHHHHHHhhhc--cCCCcHHHHH
Confidence            8888888888888  6776665543

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=97.65  E-value=0.1  Score=53.79  Aligned_cols=458  Identities=14%  Similarity=0.129  Sum_probs=227.2

Q ss_pred             CHHHHHHHHHHHHhcCChhHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHH
Q 003295          217 SLKTCNFLLNSLVKANEVQKGIEVFETMCRGVSPDVFLFSTAINAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIHG  296 (833)
Q Consensus       217 ~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~  296 (833)
                      |..+|-.|+.-|..+|.+++.++++++|.+.+|--..+|...+.+-....++.....+|.+-....+  +...|...+.-
T Consensus        41 nI~S~fqLiq~~~tq~s~~~~re~yeq~~~pfp~~~~aw~ly~s~ELA~~df~svE~lf~rCL~k~l--~ldLW~lYl~Y  118 (660)
T COG5107          41 NILSYFQLIQYLETQESMDAEREMYEQLSSPFPIMEHAWRLYMSGELARKDFRSVESLFGRCLKKSL--NLDLWMLYLEY  118 (660)
T ss_pred             hHHHHHHHHHHHhhhhhHHHHHHHHHHhcCCCccccHHHHHHhcchhhhhhHHHHHHHHHHHHhhhc--cHhHHHHHHHH
Confidence            7899999999999999999999999999977777778899899988888999999999999887643  56667766664


Q ss_pred             HHhcCChh--HH----HHHHHHHH-hCCCCCC-hhhHHHHHHHHH---------hcCChhHHHHHHHHHHHCCCCCChhh
Q 003295          297 LCRNGRLY--EA----FHLKEKMV-LREVEPS-LITYSILINGLI---------KLEKFDDANFVLKEMSVRGFVPNYVV  359 (833)
Q Consensus       297 ~~~~g~~~--~A----~~~~~~m~-~~~~~p~-~~t~~~li~~~~---------~~g~~~~A~~~~~~m~~~g~~p~~~~  359 (833)
                      -.+.+..-  ++    .+.|+-.. ..++.|- ...|+..+..+-         .+.+++..++.+.+|...-       
T Consensus       119 IRr~n~~~tGq~r~~i~~ayefv~~~~~~e~~s~~~W~ey~~fle~~~~~~kwEeQqrid~iR~~Y~ral~tP-------  191 (660)
T COG5107         119 IRRVNNLITGQKRFKIYEAYEFVLGCAIFEPQSENYWDEYGLFLEYIEELGKWEEQQRIDKIRNGYMRALQTP-------  191 (660)
T ss_pred             HHhhCcccccchhhhhHHHHHHHHhcccccccccchHHHHHHHHHhccccccHHHHHHHHHHHHHHHHHHcCc-------
Confidence            44433111  11    12222222 2234443 334554443322         1223344445555554321       


Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHH--CCCC----CCccc----
Q 003295          360 YNTLIDGYCKKGNISEALKIRDDMVSKGMSPNSVTFNSLIHGFCKSGQMDNAENALEEMLS--RGLS----INQGA----  429 (833)
Q Consensus       360 y~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~l~~~~~--~g~~----~~~~~----  429 (833)
                                .|++++..+-|+.....   .|..|-.-.+.-  ..--+-.|...++++..  .|..    .+..+    
T Consensus       192 ----------~~nleklW~dy~~fE~e---~N~~TarKfvge--~sp~ym~ar~~yqe~~nlt~Gl~v~~~~~~Rt~nK~  256 (660)
T COG5107         192 ----------MGNLEKLWKDYENFELE---LNKITARKFVGE--TSPIYMSARQRYQEIQNLTRGLSVKNPINLRTANKA  256 (660)
T ss_pred             ----------cccHHHHHHHHHHHHHH---HHHHHHHHHhcc--cCHHHHHHHHHHHHHHHHhccccccCchhhhhhccc
Confidence                      12222222222111110   011110000000  00001122223332221  1111    01111    


Q ss_pred             -------HHHHHHHHHhcC------ChhHHHHH-HHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC
Q 003295          430 -------YTSVIKWLCINS------RFNSALHF-TKEMLLRNLRPGDGLLTLLVSGLCKNGKQAEATELCFRLFEKGFTV  495 (833)
Q Consensus       430 -------~~~li~~~~~~g------~~~~A~~~-~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~  495 (833)
                             |...|++-..+|      ....-+.. +++.+. -+.-....|...-..+...++-+.|+....+-.    +.
T Consensus       257 ~r~s~S~WlNwIkwE~en~l~L~~~~~~qRi~y~~~q~~~-y~~~~~evw~dys~Y~~~isd~q~al~tv~rg~----~~  331 (660)
T COG5107         257 ARTSDSNWLNWIKWEMENGLKLGGRPHEQRIHYIHNQILD-YFYYAEEVWFDYSEYLIGISDKQKALKTVERGI----EM  331 (660)
T ss_pred             cccccchhhhHhhHhhcCCcccCCCcHHHHHHHHHHHHHH-HhhhhHHHHHHHHHHHhhccHHHHHHHHHHhcc----cC
Confidence                   222222211110      00110000 000000 000111122222222334445555554443322    22


Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHh---cCChhhHHHHHHHHHHCCCCCCHHHHHH
Q 003295          496 NTVTSNALIHGMCEAGNLKEAGKLLMEMLQRGLILDKVTYNTLILGCCK---DGKPEEGFKLKEDMIKRGIQPDNYTYNL  572 (833)
Q Consensus       496 ~~~~~~~li~~~~~~g~~~~A~~~l~~m~~~g~~~~~~~~~~li~~~~~---~g~~~~A~~~~~~m~~~g~~p~~~~~~~  572 (833)
                      .+...--+...|.-..+-++....|+...+.     ...-...+..=..   .|+++...+++-.-+.    -=..+|..
T Consensus       332 spsL~~~lse~yel~nd~e~v~~~fdk~~q~-----L~r~ys~~~s~~~s~~D~N~e~~~Ell~kr~~----k~t~v~C~  402 (660)
T COG5107         332 SPSLTMFLSEYYELVNDEEAVYGCFDKCTQD-----LKRKYSMGESESASKVDNNFEYSKELLLKRIN----KLTFVFCV  402 (660)
T ss_pred             CCchheeHHHHHhhcccHHHHhhhHHHHHHH-----HHHHHhhhhhhhhccccCCccccHHHHHHHHh----hhhhHHHH
Confidence            2222222233333344444444444433221     0000000110000   1223222222221111    13456777


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHhhCC-CCCCHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcC
Q 003295          573 LLHGLCSLGKMEEAIELWEECKRTV-FGPDIYTYGVMIDGFCKADKIEEGETLFNEMISKKMELNPVVYNTLIRAYCKIG  651 (833)
Q Consensus       573 li~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g  651 (833)
                      .++...+...++.|..+|-++.+.+ ..+++..+++++..++ .|+...|..+|+--...-.. ++.--+..+.-+...+
T Consensus       403 ~~N~v~r~~Gl~aaR~~F~k~rk~~~~~h~vyi~~A~~E~~~-~~d~~ta~~ifelGl~~f~d-~~~y~~kyl~fLi~in  480 (660)
T COG5107         403 HLNYVLRKRGLEAARKLFIKLRKEGIVGHHVYIYCAFIEYYA-TGDRATAYNIFELGLLKFPD-STLYKEKYLLFLIRIN  480 (660)
T ss_pred             HHHHHHHHhhHHHHHHHHHHHhccCCCCcceeeeHHHHHHHh-cCCcchHHHHHHHHHHhCCC-chHHHHHHHHHHHHhC
Confidence            7777777788888888888888877 5577888888888776 57777888888776655322 3333455666777888


Q ss_pred             ChHHHHHHHHHHHhCCCCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHH
Q 003295          652 NTTAAFRLSNDMKSRGILPT--SVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGY  717 (833)
Q Consensus       652 ~~~~A~~~~~~m~~~~~~p~--~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~  717 (833)
                      +-+.|..+|+..+.+ +..+  ...|..+|+--..-|++..+..+=++|...  -|...+-.....-|
T Consensus       481 de~naraLFetsv~r-~~~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e~--~pQen~~evF~Sry  545 (660)
T COG5107         481 DEENARALFETSVER-LEKTQLKRIYDKMIEYESMVGSLNNVYSLEERFREL--VPQENLIEVFTSRY  545 (660)
T ss_pred             cHHHHHHHHHHhHHH-HHHhhhhHHHHHHHHHHHhhcchHHHHhHHHHHHHH--cCcHhHHHHHHHHH
Confidence            888888888865543 1222  456888888888888888888887777763  45444433333334

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=97.65  E-value=6.1e-05  Score=47.29  Aligned_cols=26  Identities=35%  Similarity=0.710  Sum_probs=10.6

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHh
Q 003295          290 YNNIIHGLCRNGRLYEAFHLKEKMVL  315 (833)
Q Consensus       290 ~~~li~~~~~~g~~~~A~~~~~~m~~  315 (833)
                      ||+++++|++.|++++|.++|++|.+
T Consensus         3 y~~li~~~~~~~~~~~a~~~~~~M~~   28 (31)
T PF01535_consen    3 YNSLISGYCKMGQFEEALEVFDEMRE   28 (31)
T ss_pred             HHHHHHHHHccchHHHHHHHHHHHhH
Confidence            34444444444444444444444433

Pentatricopeptide repeat (PPR) proteins are characterised by tandem repeats of a degenerate 35 amino acid motif []. Most of PPR proteins have roles in mitochondria or plastid []. PPR repeats were discovered while screening Arabidopsis proteins for those predicted to be targeted to mitochondria or chloroplast [, ]. Some of these proteins have been shown to play a role in post-transcriptional processes within organelles and they are thought to be sequence-specific RNA-binding proteins [, , ]. Plant genomes have between one hundred to five hundred PPR genes per genome whereas non-plant genomes encode two to six PPR proteins. Although no PPR structures are yet known, the motif is predicted to fold into a helix-turn-helix structure similar to those found in the tetratricopeptide repeat (TPR) family (see PDOC50005 from PROSITEDOC) []. The plant PPR protein family has been divided in two subfamilies on the basis of their motif content and organisation [, ]. Examples of PPR repeat-containing proteins include PET309 P32522 from SWISSPROT, which may be involved in RNA stabilisation [], and crp1, which is involved in RNA processing []. The repeat is associated with a predicted plant protein O49549 from SWISSPROT that has a domain organisation similar to the human BRCA1 protein.

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=97.64  E-value=0.0027  Score=70.01  Aligned_cols=72  Identities=17%  Similarity=0.064  Sum_probs=41.5

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHHCCCCCCHHHHH
Q 003295          741 NKITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISPDSITYNVFMDGHCKGGNVEEAFKVCDRMLSEGLSLDEITYT  816 (833)
Q Consensus       741 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~  816 (833)
                      +...|.++.-.....|++++|...++++++.  .|+...|..++..+...|+.++|.+.+++...  +.|...+|-
T Consensus       419 ~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L--~ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~--L~P~~pt~~  490 (517)
T PRK10153        419 LPRIYEILAVQALVKGKTDEAYQAINKAIDL--EMSWLNYVLLGKVYELKGDNRLAADAYSTAFN--LRPGENTLY  490 (517)
T ss_pred             ChHHHHHHHHHHHhcCCHHHHHHHHHHHHHc--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh--cCCCCchHH
Confidence            3445555555555556666666666666663  35555666666666666666666666666655  444433443

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=97.63  E-value=0.00085  Score=59.56  Aligned_cols=94  Identities=10%  Similarity=-0.105  Sum_probs=60.0

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhc
Q 003295          710 YTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISPDSITYNVFMDGHCK  789 (833)
Q Consensus       710 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~  789 (833)
                      ...+...+...|++++|.++|+.+...+ +-+..-|..|.-++...|++++|+..+..+.... +-|+..+..++.++..
T Consensus        38 lY~~A~~ly~~G~l~~A~~~f~~L~~~D-p~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~-~ddp~~~~~ag~c~L~  115 (157)
T PRK15363         38 LYRYAMQLMEVKEFAGAARLFQLLTIYD-AWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIK-IDAPQAPWAAAECYLA  115 (157)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCchHHHHHHHHHHH
Confidence            3344455556677777777777666543 3345566666666777777777777777766643 2355666667777777


Q ss_pred             CCCHHHHHHHHHHHHH
Q 003295          790 GGNVEEAFKVCDRMLS  805 (833)
Q Consensus       790 ~g~~~~A~~~~~~m~~  805 (833)
                      .|+.+.|++.|+..+.
T Consensus       116 lG~~~~A~~aF~~Ai~  131 (157)
T PRK15363        116 CDNVCYAIKALKAVVR  131 (157)
T ss_pred             cCCHHHHHHHHHHHHH
Confidence            7777777777766665

>cd00189 TPR Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]-X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi, plants, and humans in various subcellular locations; involved in a variety of functions including protein-protein interactions, but common features in the interaction partners have not been defined; involved in chaperone, cell-cycle, transciption, and protein transport complexes; the number of TPR motifs varies among proteins (1,3-11,13 15,16,19); 5-6 tandem repeats generate a right-handed helical structure with an amphipathic channel that is thought to accomodate an alpha-helix of a target protein; it has been proposed that TPR proteins preferably interact with WD-40 repeat proteins, but in many instances several TPR-proteins seem to aggregate to multi-protein complexes; examples of TPR-proteins include, Cdc16p, Cdc23p and C

Probab=97.63  E-value=0.00078  Score=55.56  Aligned_cols=93  Identities=26%  Similarity=0.293  Sum_probs=50.2

Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcC
Q 003295          711 TALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISPDSITYNVFMDGHCKG  790 (833)
Q Consensus       711 ~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~  790 (833)
                      ..+...+...|++++|...++++.+.. +.+...+..+...+...|++++|.+.+++..+.. +.+..++..++..+...
T Consensus         4 ~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~~   81 (100)
T cd00189           4 LNLGNLYYKLGDYDEALEYYEKALELD-PDNADAYYNLAAAYYKLGKYEEALEDYEKALELD-PDNAKAYYNLGLAYYKL   81 (100)
T ss_pred             HHHHHHHHHHhcHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC-CcchhHHHHHHHHHHHH
Confidence            344445555566666666666555432 2233455555555556666666666666655532 22334555555566666


Q ss_pred             CCHHHHHHHHHHHHH
Q 003295          791 GNVEEAFKVCDRMLS  805 (833)
Q Consensus       791 g~~~~A~~~~~~m~~  805 (833)
                      |++++|...+.+..+
T Consensus        82 ~~~~~a~~~~~~~~~   96 (100)
T cd00189          82 GKYEEALEAYEKALE   96 (100)
T ss_pred             HhHHHHHHHHHHHHc
Confidence            666666666655544

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=97.59  E-value=7.2e-05  Score=46.94  Aligned_cols=31  Identities=35%  Similarity=0.807  Sum_probs=25.4

Q ss_pred             HHHHHHHHHHHhcCChhHHHHHHHHHHHcCC
Q 003295          253 FLFSTAINAFCKRGRIEDAIGLFTKMEELGI  283 (833)
Q Consensus       253 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~  283 (833)
                      ++|+.++++|++.|++++|.++|++|.+.|+
T Consensus         1 v~y~~li~~~~~~~~~~~a~~~~~~M~~~g~   31 (31)
T PF01535_consen    1 VTYNSLISGYCKMGQFEEALEVFDEMRERGI   31 (31)
T ss_pred             CcHHHHHHHHHccchHHHHHHHHHHHhHCcC
Confidence            4788888888888888888888888887764

Pentatricopeptide repeat (PPR) proteins are characterised by tandem repeats of a degenerate 35 amino acid motif []. Most of PPR proteins have roles in mitochondria or plastid []. PPR repeats were discovered while screening Arabidopsis proteins for those predicted to be targeted to mitochondria or chloroplast [, ]. Some of these proteins have been shown to play a role in post-transcriptional processes within organelles and they are thought to be sequence-specific RNA-binding proteins [, , ]. Plant genomes have between one hundred to five hundred PPR genes per genome whereas non-plant genomes encode two to six PPR proteins. Although no PPR structures are yet known, the motif is predicted to fold into a helix-turn-helix structure similar to those found in the tetratricopeptide repeat (TPR) family (see PDOC50005 from PROSITEDOC) []. The plant PPR protein family has been divided in two subfamilies on the basis of their motif content and organisation [, ]. Examples of PPR repeat-containing proteins include PET309 P32522 from SWISSPROT, which may be involved in RNA stabilisation [], and crp1, which is involved in RNA processing []. The repeat is associated with a predicted plant protein O49549 from SWISSPROT that has a domain organisation similar to the human BRCA1 protein.

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=97.56  E-value=0.13  Score=52.93  Aligned_cols=130  Identities=18%  Similarity=0.282  Sum_probs=88.8

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC-CCCChhHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHH-HHHH
Q 003295          672 SVTYSSLIHGLCNIGLIEDAKCLFDEMRKEG-LLPNVACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITY-TIMI  749 (833)
Q Consensus       672 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g-~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~-~~li  749 (833)
                      ...|...++...+..-++.|..+|.++.+.| +.+++.++++++..++ .|+..-|.++|+--...  -||...| +-.+
T Consensus       397 t~v~C~~~N~v~r~~Gl~aaR~~F~k~rk~~~~~h~vyi~~A~~E~~~-~~d~~ta~~ifelGl~~--f~d~~~y~~kyl  473 (660)
T COG5107         397 TFVFCVHLNYVLRKRGLEAARKLFIKLRKEGIVGHHVYIYCAFIEYYA-TGDRATAYNIFELGLLK--FPDSTLYKEKYL  473 (660)
T ss_pred             hhHHHHHHHHHHHHhhHHHHHHHHHHHhccCCCCcceeeeHHHHHHHh-cCCcchHHHHHHHHHHh--CCCchHHHHHHH
Confidence            3456667777777777788888888888776 5667778888877665 57777788887765543  3444333 4455


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCCC--HHHHHHHHHHHhcCCCHHHHHHHHHHHHH
Q 003295          750 GGYCKLGDMKEAAKLLNVMAEKGISPD--SITYNVFMDGHCKGGNVEEAFKVCDRMLS  805 (833)
Q Consensus       750 ~~~~~~g~~~~A~~~~~~m~~~g~~p~--~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  805 (833)
                      .-+...++-+.|..+|+..+++ +..+  ...|..++.--..-|+...+..+=++|.+
T Consensus       474 ~fLi~inde~naraLFetsv~r-~~~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e  530 (660)
T COG5107         474 LFLIRINDEENARALFETSVER-LEKTQLKRIYDKMIEYESMVGSLNNVYSLEERFRE  530 (660)
T ss_pred             HHHHHhCcHHHHHHHHHHhHHH-HHHhhhhHHHHHHHHHHHhhcchHHHHhHHHHHHH
Confidence            5666777778888888866654 3333  35677777777777887777777676666

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=97.56  E-value=0.0021  Score=55.95  Aligned_cols=92  Identities=15%  Similarity=0.052  Sum_probs=42.6

Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHhCCCCCC---HHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC----HHHHHHH
Q 003295          711 TALIGGYCKLGQMDEAESVLQEMASINIHPN---KITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISPD----SITYNVF  783 (833)
Q Consensus       711 ~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~---~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~----~~~~~~l  783 (833)
                      ..++..+.+.|++++|.+.++++.+.. +.+   ...+..++.++.+.|++++|.+.++++....  |+    ...+..+
T Consensus         6 ~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~~~~~~   82 (119)
T TIGR02795         6 YDAALLVLKAGDYADAIQAFQAFLKKY-PKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKY--PKSPKAPDALLKL   82 (119)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHC-CCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHC--CCCCcccHHHHHH
Confidence            334444445555555555555554321 111   2234444555555555555555555554421  21    2334444


Q ss_pred             HHHHhcCCCHHHHHHHHHHHHH
Q 003295          784 MDGHCKGGNVEEAFKVCDRMLS  805 (833)
Q Consensus       784 ~~~~~~~g~~~~A~~~~~~m~~  805 (833)
                      +.++.+.|+.++|.+.++++++
T Consensus        83 ~~~~~~~~~~~~A~~~~~~~~~  104 (119)
T TIGR02795        83 GMSLQELGDKEKAKATLQQVIK  104 (119)
T ss_pred             HHHHHHhCChHHHHHHHHHHHH
Confidence            5555555555555555555554

Members of this protein family are the product of one of seven genes regularly clustered in operons to encode the proteins of the tol-pal system, which is critical for maintaining the integrity of the bacterial outer membrane. The gene for this periplasmic protein has been designated orf2 and ybgF. All members of the seed alignment were from unique tol-pal gene regions from completed bacterial genomes. The architecture of this protein is a signal sequence, a low-complexity region usually rich in Asn and Gln, a well-conserved region with tandem repeats that resemble the tetratricopeptide (TPR) repeat, involved in protein-protein interaction.

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=97.56  E-value=0.0092  Score=60.55  Aligned_cols=299  Identities=14%  Similarity=0.011  Sum_probs=178.0

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 003295          499 TSNALIHGMCEAGNLKEAGKLLMEMLQRGLILDKVTYNTLILGCCKDGKPEEGFKLKEDMIKRGIQPDNYTYNLLLHGLC  578 (833)
Q Consensus       499 ~~~~li~~~~~~g~~~~A~~~l~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~  578 (833)
                      ........+.+..++.+|+..+...++..+. +..-|..-...+..-|++++|.--.+.-++.... ......-.-.++.
T Consensus        51 ~~k~~gn~~yk~k~Y~nal~~yt~Ai~~~pd-~a~yy~nRAa~~m~~~~~~~a~~dar~~~r~kd~-~~k~~~r~~~c~~  128 (486)
T KOG0550|consen   51 EAKEEGNAFYKQKTYGNALKNYTFAIDMCPD-NASYYSNRAATLMMLGRFEEALGDARQSVRLKDG-FSKGQLREGQCHL  128 (486)
T ss_pred             HHHhhcchHHHHhhHHHHHHHHHHHHHhCcc-chhhhchhHHHHHHHHhHhhcccchhhheecCCC-ccccccchhhhhh
Confidence            3444455566666677777777777666554 4444554555555556666665555444433111 1222333333444


Q ss_pred             hcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCc-cCHHHHHHH-HHHHHHcCChHHH
Q 003295          579 SLGKMEEAIELWEECKRTVFGPDIYTYGVMIDGFCKADKIEEGETLFNEMISKKME-LNPVVYNTL-IRAYCKIGNTTAA  656 (833)
Q Consensus       579 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~~l-i~~~~~~g~~~~A  656 (833)
                      ..++..+|.+.++         +...|           ....|+..++........ |.-.+|..+ ..++.-.|+.++|
T Consensus       129 a~~~~i~A~~~~~---------~~~~~-----------~~anal~~~~~~~~s~s~~pac~~a~~lka~cl~~~~~~~~a  188 (486)
T KOG0550|consen  129 ALSDLIEAEEKLK---------SKQAY-----------KAANALPTLEKLAPSHSREPACFKAKLLKAECLAFLGDYDEA  188 (486)
T ss_pred             hhHHHHHHHHHhh---------hhhhh-----------HHhhhhhhhhcccccccCCchhhHHHHhhhhhhhhcccchhH
Confidence            4444444444443         11111           122233333333332222 233344333 2355667899999


Q ss_pred             HHHHHHHHhCCCCCCHHHHHHHHHH--HHhcCCHHHHHHHHHHHHHCCCCCChhH-------------HHHHHHHHHhcC
Q 003295          657 FRLSNDMKSRGILPTSVTYSSLIHG--LCNIGLIEDAKCLFDEMRKEGLLPNVAC-------------YTALIGGYCKLG  721 (833)
Q Consensus       657 ~~~~~~m~~~~~~p~~~~~~~li~~--~~~~g~~~~A~~~~~~m~~~g~~p~~~~-------------~~~li~~~~~~g  721 (833)
                      ...--...+.. ..+  .+...+++  +--.++.+.|...|++.+..  .|+...             +..-.+-..+.|
T Consensus       189 ~~ea~~ilkld-~~n--~~al~vrg~~~yy~~~~~ka~~hf~qal~l--dpdh~~sk~~~~~~k~le~~k~~gN~~fk~G  263 (486)
T KOG0550|consen  189 QSEAIDILKLD-ATN--AEALYVRGLCLYYNDNADKAINHFQQALRL--DPDHQKSKSASMMPKKLEVKKERGNDAFKNG  263 (486)
T ss_pred             HHHHHHHHhcc-cch--hHHHHhcccccccccchHHHHHHHhhhhcc--ChhhhhHHhHhhhHHHHHHHHhhhhhHhhcc
Confidence            88887777653 112  23333443  34567889999999998874  465432             222234456789


Q ss_pred             ChhHHHHHHHHHHhC---CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHhcCCCHHHHH
Q 003295          722 QMDEAESVLQEMASI---NIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISPDS-ITYNVFMDGHCKGGNVEEAF  797 (833)
Q Consensus       722 ~~~~A~~~~~~m~~~---g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-~~~~~l~~~~~~~g~~~~A~  797 (833)
                      ++.+|.+.+.+.+..   +..|+...|.....+..+.|+.++|+.--+++++  +.|.- ..|..-..++...++|++|.
T Consensus       264 ~y~~A~E~Yteal~idP~n~~~naklY~nra~v~~rLgrl~eaisdc~~Al~--iD~syikall~ra~c~l~le~~e~AV  341 (486)
T KOG0550|consen  264 NYRKAYECYTEALNIDPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEALK--IDSSYIKALLRRANCHLALEKWEEAV  341 (486)
T ss_pred             chhHHHHHHHHhhcCCccccchhHHHHHHhHhhhcccCCchhhhhhhhhhhh--cCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999863   3455667788888889999999999999888877  44432 45555566777789999999


Q ss_pred             HHHHHHHHCCCCCC-HHHHHHHHHhhccCC
Q 003295          798 KVCDRMLSEGLSLD-EITYTTLIDGWQSST  826 (833)
Q Consensus       798 ~~~~~m~~~g~~p~-~~~~~~l~~~~~~~~  826 (833)
                      +.++...+..-.+. ..++.....+|..|.
T Consensus       342 ~d~~~a~q~~~s~e~r~~l~~A~~aLkkSk  371 (486)
T KOG0550|consen  342 EDYEKAMQLEKDCEIRRTLREAQLALKKSK  371 (486)
T ss_pred             HHHHHHHhhccccchHHHHHHHHHHHHHhh
Confidence            99999988544443 556666666665443

>cd00189 TPR Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]-X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi, plants, and humans in various subcellular locations; involved in a variety of functions including protein-protein interactions, but common features in the interaction partners have not been defined; involved in chaperone, cell-cycle, transciption, and protein transport complexes; the number of TPR motifs varies among proteins (1,3-11,13 15,16,19); 5-6 tandem repeats generate a right-handed helical structure with an amphipathic channel that is thought to accomodate an alpha-helix of a target protein; it has been proposed that TPR proteins preferably interact with WD-40 repeat proteins, but in many instances several TPR-proteins seem to aggregate to multi-protein complexes; examples of TPR-proteins include, Cdc16p, Cdc23p and C

Probab=97.54  E-value=0.0011  Score=54.64  Aligned_cols=91  Identities=23%  Similarity=0.250  Sum_probs=43.7

Q ss_pred             HHHHHHHhcCChhHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCC
Q 003295          223 FLLNSLVKANEVQKGIEVFETMCRGVSPDVFLFSTAINAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIHGLCRNGR  302 (833)
Q Consensus       223 ~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~  302 (833)
                      .+...+...|++++|...|+++.+-.+.+...+..+..++...|++++|.+.|++..+.... +..++..+...+...|+
T Consensus         5 ~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~   83 (100)
T cd00189           5 NLGNLYYKLGDYDEALEYYEKALELDPDNADAYYNLAAAYYKLGKYEEALEDYEKALELDPD-NAKAYYNLGLAYYKLGK   83 (100)
T ss_pred             HHHHHHHHHhcHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCc-chhHHHHHHHHHHHHHh
Confidence            34444445555555555555554323333344444555555555555555555555443221 22344444455555555


Q ss_pred             hhHHHHHHHHHH
Q 003295          303 LYEAFHLKEKMV  314 (833)
Q Consensus       303 ~~~A~~~~~~m~  314 (833)
                      +++|...+.+..
T Consensus        84 ~~~a~~~~~~~~   95 (100)
T cd00189          84 YEEALEAYEKAL   95 (100)
T ss_pred             HHHHHHHHHHHH
Confidence            555555554443

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=97.52  E-value=0.0018  Score=68.35  Aligned_cols=100  Identities=16%  Similarity=0.097  Sum_probs=79.2

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC
Q 003295          678 LIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGD  757 (833)
Q Consensus       678 li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~  757 (833)
                      -...+...|++++|+..|+++++.. +.+...|..+..+|.+.|++++|+..++++++.. +.+...|..++.+|...|+
T Consensus         8 ~a~~a~~~~~~~~Ai~~~~~Al~~~-P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~-P~~~~a~~~lg~~~~~lg~   85 (356)
T PLN03088          8 KAKEAFVDDDFALAVDLYTQAIDLD-PNNAELYADRAQANIKLGNFTEAVADANKAIELD-PSLAKAYLRKGTACMKLEE   85 (356)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHhCC
Confidence            3456677889999999999998863 3466778888888889999999999999998864 4567788888889999999


Q ss_pred             HHHHHHHHHHHHHcCCCCCHHHHH
Q 003295          758 MKEAAKLLNVMAEKGISPDSITYN  781 (833)
Q Consensus       758 ~~~A~~~~~~m~~~g~~p~~~~~~  781 (833)
                      +++|+..|+++++  +.|+.....
T Consensus        86 ~~eA~~~~~~al~--l~P~~~~~~  107 (356)
T PLN03088         86 YQTAKAALEKGAS--LAPGDSRFT  107 (356)
T ss_pred             HHHHHHHHHHHHH--hCCCCHHHH
Confidence            9999999999888  456543333

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=97.51  E-value=0.0025  Score=55.49  Aligned_cols=96  Identities=14%  Similarity=0.050  Sum_probs=47.0

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHhhcCCCCC---HHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCC--ChhhHHHHHH
Q 003295          221 CNFLLNSLVKANEVQKGIEVFETMCRGVSPD---VFLFSTAINAFCKRGRIEDAIGLFTKMEELGIAP--NVVTYNNIIH  295 (833)
Q Consensus       221 ~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~---~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p--~~~~~~~li~  295 (833)
                      +..+...+.+.|++++|...|+.+....+.+   ...+..+..++.+.|++++|...|+++.......  ...++..+..
T Consensus         5 ~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~~   84 (119)
T TIGR02795         5 YYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLGM   84 (119)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHHH
Confidence            3344444555555555555555555221111   2344445555555555555555555555432111  1233444455


Q ss_pred             HHHhcCChhHHHHHHHHHHhC
Q 003295          296 GLCRNGRLYEAFHLKEKMVLR  316 (833)
Q Consensus       296 ~~~~~g~~~~A~~~~~~m~~~  316 (833)
                      .+.+.|+.++|...++++.+.
T Consensus        85 ~~~~~~~~~~A~~~~~~~~~~  105 (119)
T TIGR02795        85 SLQELGDKEKAKATLQQVIKR  105 (119)
T ss_pred             HHHHhCChHHHHHHHHHHHHH
Confidence            555555555555555555544

Members of this protein family are the product of one of seven genes regularly clustered in operons to encode the proteins of the tol-pal system, which is critical for maintaining the integrity of the bacterial outer membrane. The gene for this periplasmic protein has been designated orf2 and ybgF. All members of the seed alignment were from unique tol-pal gene regions from completed bacterial genomes. The architecture of this protein is a signal sequence, a low-complexity region usually rich in Asn and Gln, a well-conserved region with tandem repeats that resemble the tetratricopeptide (TPR) repeat, involved in protein-protein interaction.

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=97.47  E-value=0.0017  Score=68.42  Aligned_cols=122  Identities=13%  Similarity=0.157  Sum_probs=70.4

Q ss_pred             ccCHHHHHHHHHHHHHcCChHHHHHHHHHHHhC--CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhHHH
Q 003295          634 ELNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSR--GILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYT  711 (833)
Q Consensus       634 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~--~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~  711 (833)
                      ..+......+++.+....+.+++..++.+....  ....-..|..++++.|.+.|..+++..++..=...|+-||..++|
T Consensus        63 ~vS~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~s~n  142 (429)
T PF10037_consen   63 PVSSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNFSFN  142 (429)
T ss_pred             CCcHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChhhHH
Confidence            335555666666666656666666666665543  111112233466666666666666666666666666666666666


Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc
Q 003295          712 ALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKL  755 (833)
Q Consensus       712 ~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~  755 (833)
                      .|++.+.+.|++..|.++...|...+...+..|+..-+.+|.+-
T Consensus       143 ~Lmd~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~~~  186 (429)
T PF10037_consen  143 LLMDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSCYKY  186 (429)
T ss_pred             HHHHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHHHHh
Confidence            66666666666666666666666555455555555444444443

The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This entry represents a family of small ribosomal proteins possessing one of three conserved sequence blocks found in proteins that stimulate the dissociation of guanine nucleotides from G-proteins. This leaves open the possibility that they may be functional partners of GTP-binding ribosomal proteins [].

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=97.44  E-value=0.0029  Score=66.90  Aligned_cols=98  Identities=13%  Similarity=0.065  Sum_probs=75.2

Q ss_pred             HHHHHHHcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCC
Q 003295          643 LIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQ  722 (833)
Q Consensus       643 li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~  722 (833)
                      -...+...|++++|++.|++.++.. +.+...|..+..++.+.|++++|+..++++++.. +.+...|..+..+|...|+
T Consensus         8 ~a~~a~~~~~~~~Ai~~~~~Al~~~-P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~-P~~~~a~~~lg~~~~~lg~   85 (356)
T PLN03088          8 KAKEAFVDDDFALAVDLYTQAIDLD-PNNAELYADRAQANIKLGNFTEAVADANKAIELD-PSLAKAYLRKGTACMKLEE   85 (356)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHhCC
Confidence            3455667788889999888888764 3466777788888888899999998888888853 3356778888888888899


Q ss_pred             hhHHHHHHHHHHhCCCCCCHHH
Q 003295          723 MDEAESVLQEMASINIHPNKIT  744 (833)
Q Consensus       723 ~~~A~~~~~~m~~~g~~p~~~~  744 (833)
                      +++|...|++..+.  .|+...
T Consensus        86 ~~eA~~~~~~al~l--~P~~~~  105 (356)
T PLN03088         86 YQTAKAALEKGASL--APGDSR  105 (356)
T ss_pred             HHHHHHHHHHHHHh--CCCCHH
Confidence            99999988888874  444433

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=97.41  E-value=0.0015  Score=53.67  Aligned_cols=78  Identities=22%  Similarity=0.434  Sum_probs=52.3

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHHCCC-CCChhhHHHHHHHHHHcC--------ChHHHHHHHHHHHhCCCCCChhHHHH
Q 003295          327 ILINGLIKLEKFDDANFVLKEMSVRGF-VPNYVVYNTLIDGYCKKG--------NISEALKIRDDMVSKGMSPNSVTFNS  397 (833)
Q Consensus       327 ~li~~~~~~g~~~~A~~~~~~m~~~g~-~p~~~~y~~li~~~~~~g--------~~~~A~~~~~~m~~~g~~p~~~~~~~  397 (833)
                      ..|.-+...+++.....+|+.+++.|+ .|++.+|+.++...++..        ++-+.+.+|+.|...+++|+..+|+.
T Consensus        30 ~~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~etYni  109 (120)
T PF08579_consen   30 DNINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDETYNI  109 (120)
T ss_pred             HHHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHHHHH
Confidence            344555555667777777777777776 667777777666665432        23356677788888888888888888


Q ss_pred             HHHHHHh
Q 003295          398 LIHGFCK  404 (833)
Q Consensus       398 li~~~~~  404 (833)
                      ++..+.+
T Consensus       110 vl~~Llk  116 (120)
T PF08579_consen  110 VLGSLLK  116 (120)
T ss_pred             HHHHHHH
Confidence            8777654

Rpm2 is a protein subunit of the yeast mitochondrial RNase P. It has the ability to act as a transcriptional activator in the nucleus, where it plays a role in defining the steady-state levels of mRNAs for some nucleus-encoded mitochondrial components. Rpm2p is also involved in maturation of Rpm1 and in translation of mitochondrial mRNAs [, , ].

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=97.40  E-value=0.00025  Score=57.28  Aligned_cols=80  Identities=21%  Similarity=0.307  Sum_probs=41.0

Q ss_pred             cCChhHHHHHHHHHHhCCC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhcCCCHHHHH
Q 003295          720 LGQMDEAESVLQEMASINI-HPNKITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISP-DSITYNVFMDGHCKGGNVEEAF  797 (833)
Q Consensus       720 ~g~~~~A~~~~~~m~~~g~-~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~~~~~l~~~~~~~g~~~~A~  797 (833)
                      .|++++|+.+++++.+..- .++...+..++.+|.+.|++++|++++++ .+  ..| +......++.+|.+.|++++|+
T Consensus         2 ~~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~~--~~~~~~~~~~l~a~~~~~l~~y~eAi   78 (84)
T PF12895_consen    2 QGNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-LK--LDPSNPDIHYLLARCLLKLGKYEEAI   78 (84)
T ss_dssp             TT-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-HT--HHHCHHHHHHHHHHHHHHTT-HHHHH
T ss_pred             CccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-hC--CCCCCHHHHHHHHHHHHHhCCHHHHH
Confidence            3556666666666665321 01333444456666666666666666655 22  112 2233344466666666666666


Q ss_pred             HHHHH
Q 003295          798 KVCDR  802 (833)
Q Consensus       798 ~~~~~  802 (833)
                      +.+++
T Consensus        79 ~~l~~   83 (84)
T PF12895_consen   79 KALEK   83 (84)
T ss_dssp             HHHHH
T ss_pred             HHHhc
Confidence            66554

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=97.39  E-value=0.002  Score=62.71  Aligned_cols=129  Identities=20%  Similarity=0.196  Sum_probs=94.9

Q ss_pred             HHHHHHcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC-hhHHHHHHHHHHhcCC
Q 003295          644 IRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPN-VACYTALIGGYCKLGQ  722 (833)
Q Consensus       644 i~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~~~~~li~~~~~~g~  722 (833)
                      .+-+.+.+++.+|+..|.+.++.. +-|.+.|..-..+|++.|.++.|++-.+..+.-  .|. ..+|..|..+|...|+
T Consensus        88 GN~~m~~~~Y~eAv~kY~~AI~l~-P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~i--Dp~yskay~RLG~A~~~~gk  164 (304)
T KOG0553|consen   88 GNKLMKNKDYQEAVDKYTEAIELD-PTNAVYYCNRAAAYSKLGEYEDAVKDCESALSI--DPHYSKAYGRLGLAYLALGK  164 (304)
T ss_pred             HHHHHHhhhHHHHHHHHHHHHhcC-CCcchHHHHHHHHHHHhcchHHHHHHHHHHHhc--ChHHHHHHHHHHHHHHccCc
Confidence            455678899999999999999874 447777888899999999999999999988884  454 4789999999999999


Q ss_pred             hhHHHHHHHHHHhCCCCCCHHHHHH-HHHHHHhcCCHH---HHHHHHHHHHHcCCCCCH
Q 003295          723 MDEAESVLQEMASINIHPNKITYTI-MIGGYCKLGDMK---EAAKLLNVMAEKGISPDS  777 (833)
Q Consensus       723 ~~~A~~~~~~m~~~g~~p~~~~~~~-li~~~~~~g~~~---~A~~~~~~m~~~g~~p~~  777 (833)
                      +++|++.|++.++  +.|+..+|.. |-.+=.+.+..+   .+..-++-....|..||.
T Consensus       165 ~~~A~~aykKaLe--ldP~Ne~~K~nL~~Ae~~l~e~~~~~~~~~~~d~~~~ig~~Pd~  221 (304)
T KOG0553|consen  165 YEEAIEAYKKALE--LDPDNESYKSNLKIAEQKLNEPKSSAQASGSFDMAGLIGAFPDS  221 (304)
T ss_pred             HHHHHHHHHhhhc--cCCCcHHHHHHHHHHHHHhcCCCcccccccchhhhhhccCCccc
Confidence            9999999999998  5677666543 333333333332   333334433444544554

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=97.39  E-value=0.035  Score=56.73  Aligned_cols=63  Identities=16%  Similarity=0.038  Sum_probs=29.7

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHhhCCCC-----CCHH-HHHHHHHHHHhcCChhhHHHHHHHHHHC
Q 003295          499 TSNALIHGMCEAGNLKEAGKLLMEMLQRGLI-----LDKV-TYNTLILGCCKDGKPEEGFKLKEDMIKR  561 (833)
Q Consensus       499 ~~~~li~~~~~~g~~~~A~~~l~~m~~~g~~-----~~~~-~~~~li~~~~~~g~~~~A~~~~~~m~~~  561 (833)
                      .+..++..+.+.|++++|.++|++....-..     .+.. .|-..+-++...|+...|.+.+++....
T Consensus       157 ~~~~~A~l~~~l~~y~~A~~~~e~~~~~~l~~~l~~~~~~~~~l~a~l~~L~~~D~v~A~~~~~~~~~~  225 (282)
T PF14938_consen  157 CLLKAADLYARLGRYEEAIEIYEEVAKKCLENNLLKYSAKEYFLKAILCHLAMGDYVAARKALERYCSQ  225 (282)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHTCCCHCTTGHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHGTT
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHHHhhcccccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            3444555666666666666666665543221     1111 1122222344455666666666665543

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=97.39  E-value=0.0003  Score=56.76  Aligned_cols=81  Identities=26%  Similarity=0.298  Sum_probs=52.9

Q ss_pred             cCCHHHHHHHHHHHHHCCC-CCChhHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 003295          685 IGLIEDAKCLFDEMRKEGL-LPNVACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAK  763 (833)
Q Consensus       685 ~g~~~~A~~~~~~m~~~g~-~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~  763 (833)
                      .|++++|+.+++++.+..- .++...+..+..+|.+.|++++|..++++ .+.+ +.+......++.+|.+.|++++|++
T Consensus         2 ~~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~~~~-~~~~~~~~l~a~~~~~l~~y~eAi~   79 (84)
T PF12895_consen    2 QGNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-LKLD-PSNPDIHYLLARCLLKLGKYEEAIK   79 (84)
T ss_dssp             TT-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-HTHH-HCHHHHHHHHHHHHHHTT-HHHHHH
T ss_pred             CccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-hCCC-CCCHHHHHHHHHHHHHhCCHHHHHH
Confidence            5677888888888877531 11344555577888888888888888877 3221 2233444556777888888888888


Q ss_pred             HHHH
Q 003295          764 LLNV  767 (833)
Q Consensus       764 ~~~~  767 (833)
                      .+++
T Consensus        80 ~l~~   83 (84)
T PF12895_consen   80 ALEK   83 (84)
T ss_dssp             HHHH
T ss_pred             HHhc
Confidence            8775

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=97.39  E-value=0.058  Score=53.44  Aligned_cols=182  Identities=13%  Similarity=0.085  Sum_probs=104.1

Q ss_pred             HHHHHHHHHHHHhcCChhHHHHHHHHhhcCCCCCHHHH---HHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHH
Q 003295          218 LKTCNFLLNSLVKANEVQKGIEVFETMCRGVSPDVFLF---STAINAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNII  294 (833)
Q Consensus       218 ~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~---~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li  294 (833)
                      ...+-.....+.+.|++++|...|+.+....|-+..+-   ..++.++.+.|++++|...|++..+.-+....+.|....
T Consensus        32 ~~~~Y~~A~~~~~~g~y~~Ai~~f~~l~~~yP~s~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~P~~~~~~~a~Y~  111 (243)
T PRK10866         32 PSEIYATAQQKLQDGNWKQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVLYM  111 (243)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCcCCCchHHHHHH
Confidence            33333445555678888888888888874333333333   456778888888888888888888765443344454444


Q ss_pred             HHHHh--cC---------------C---hhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCC
Q 003295          295 HGLCR--NG---------------R---LYEAFHLKEKMVLREVEPSLITYSILINGLIKLEKFDDANFVLKEMSVRGFV  354 (833)
Q Consensus       295 ~~~~~--~g---------------~---~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~g~~  354 (833)
                      .+.+.  .+               +   ..+|+..|++.+++  -|+.             .-..+|...+..+..+   
T Consensus       112 ~g~~~~~~~~~~~~~~~~~~~~~rD~~~~~~A~~~~~~li~~--yP~S-------------~ya~~A~~rl~~l~~~---  173 (243)
T PRK10866        112 RGLTNMALDDSALQGFFGVDRSDRDPQHARAAFRDFSKLVRG--YPNS-------------QYTTDATKRLVFLKDR---  173 (243)
T ss_pred             HHHhhhhcchhhhhhccCCCccccCHHHHHHHHHHHHHHHHH--CcCC-------------hhHHHHHHHHHHHHHH---
Confidence            44431  11               1   23444555555543  2332             2233444333333221   


Q ss_pred             CChhhHHHHHHHHHHcCChHHHHHHHHHHHhCC--CCCChhHHHHHHHHHHhcCChhHHHHHHHHH
Q 003295          355 PNYVVYNTLIDGYCKKGNISEALKIRDDMVSKG--MSPNSVTFNSLIHGFCKSGQMDNAENALEEM  418 (833)
Q Consensus       355 p~~~~y~~li~~~~~~g~~~~A~~~~~~m~~~g--~~p~~~~~~~li~~~~~~g~~~~A~~~l~~~  418 (833)
                       =...-..+...|.+.|.+..|..-++.+++.=  .+........++.+|.+.|..++|......+
T Consensus       174 -la~~e~~ia~~Y~~~~~y~AA~~r~~~v~~~Yp~t~~~~eal~~l~~ay~~lg~~~~a~~~~~~l  238 (243)
T PRK10866        174 -LAKYELSVAEYYTKRGAYVAVVNRVEQMLRDYPDTQATRDALPLMENAYRQLQLNAQADKVAKII  238 (243)
T ss_pred             -HHHHHHHHHHHHHHcCchHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHcCChHHHHHHHHHH
Confidence             01111245566778888888888887777641  1223345556677777777777777666544

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=97.39  E-value=0.034  Score=50.11  Aligned_cols=131  Identities=15%  Similarity=0.186  Sum_probs=83.8

Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHhCC---CCCCHHHH
Q 003295          669 LPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESVLQEMASIN---IHPNKITY  745 (833)
Q Consensus       669 ~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g---~~p~~~~~  745 (833)
                      .|++..-..|..++...|+..+|...|++...--..-|....-.+.++....+++..|...++++.+..   -.||  +.
T Consensus        86 ApTvqnr~rLa~al~elGr~~EA~~hy~qalsG~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r~pd--~~  163 (251)
T COG4700          86 APTVQNRYRLANALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFRSPD--GH  163 (251)
T ss_pred             chhHHHHHHHHHHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccCCCC--ch
Confidence            456655666677777777777777777777654344466666666777777777777777777766532   1222  33


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHH
Q 003295          746 TIMIGGYCKLGDMKEAAKLLNVMAEKGISPDSITYNVFMDGHCKGGNVEEAFKVCDRM  803 (833)
Q Consensus       746 ~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m  803 (833)
                      ..+.+.|...|++.+|...|+.+..  ..|+...-......+.++|+.++|..-+..+
T Consensus       164 Ll~aR~laa~g~~a~Aesafe~a~~--~ypg~~ar~~Y~e~La~qgr~~ea~aq~~~v  219 (251)
T COG4700         164 LLFARTLAAQGKYADAESAFEVAIS--YYPGPQARIYYAEMLAKQGRLREANAQYVAV  219 (251)
T ss_pred             HHHHHHHHhcCCchhHHHHHHHHHH--hCCCHHHHHHHHHHHHHhcchhHHHHHHHHH
Confidence            4566677777777777777777776  4566655555556666777666655444433

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=97.37  E-value=0.0066  Score=56.90  Aligned_cols=90  Identities=16%  Similarity=0.109  Sum_probs=51.5

Q ss_pred             HHHHHHHHHHHHhcCChhHHHHHHHHhhc-C-CCCC-HHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHH
Q 003295          218 LKTCNFLLNSLVKANEVQKGIEVFETMCR-G-VSPD-VFLFSTAINAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNII  294 (833)
Q Consensus       218 ~~~~~~ll~~~~~~g~~~~A~~~~~~~~~-~-~~~~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li  294 (833)
                      ...+..+...+.+.|++++|...|++... . .+++ ...+..+...+.+.|++++|...+.+..+.... +...+..+.
T Consensus        35 a~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg  113 (172)
T PRK02603         35 AFVYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELNPK-QPSALNNIA  113 (172)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcc-cHHHHHHHH
Confidence            34555666666667777777777776662 1 1121 345666666666667777777766666654221 344455555


Q ss_pred             HHHHhcCChhHHHH
Q 003295          295 HGLCRNGRLYEAFH  308 (833)
Q Consensus       295 ~~~~~~g~~~~A~~  308 (833)
                      ..|...|+...+..
T Consensus       114 ~~~~~~g~~~~a~~  127 (172)
T PRK02603        114 VIYHKRGEKAEEAG  127 (172)
T ss_pred             HHHHHcCChHhHhh
Confidence            55555555544443

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=97.37  E-value=0.0034  Score=63.89  Aligned_cols=128  Identities=10%  Similarity=0.069  Sum_probs=55.9

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHhhcC--CCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHH
Q 003295          220 TCNFLLNSLVKANEVQKGIEVFETMCRG--VSPDVFLFSTAINAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIHGL  297 (833)
Q Consensus       220 ~~~~ll~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~  297 (833)
                      +|..++...-+.+..+.|+.+|.++...  ...+++...+.+.- .-.++.+.|.++|+...+. +..+...|...++.+
T Consensus         3 v~i~~m~~~~r~~g~~~aR~vF~~a~~~~~~~~~vy~~~A~~E~-~~~~d~~~A~~Ife~glk~-f~~~~~~~~~Y~~~l   80 (280)
T PF05843_consen    3 VWIQYMRFMRRTEGIEAARKVFKRARKDKRCTYHVYVAYALMEY-YCNKDPKRARKIFERGLKK-FPSDPDFWLEYLDFL   80 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHCCCCS-THHHHHHHHHHH-HTCS-HHHHHHHHHHHHHH-HTT-HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCChHHHHHHHHHHHcCCCCCHHHHHHHHHHHH-HhCCCHHHHHHHHHHHHHH-CCCCHHHHHHHHHHH
Confidence            4455555555555555555555555521  12222222222211 1133444455555555543 223444455555555


Q ss_pred             HhcCChhHHHHHHHHHHhCCCCCCh---hhHHHHHHHHHhcCChhHHHHHHHHHHH
Q 003295          298 CRNGRLYEAFHLKEKMVLREVEPSL---ITYSILINGLIKLEKFDDANFVLKEMSV  350 (833)
Q Consensus       298 ~~~g~~~~A~~~~~~m~~~~~~p~~---~t~~~li~~~~~~g~~~~A~~~~~~m~~  350 (833)
                      .+.|+.+.|+.+|++.... +.++.   ..|...+..=.+.|+++.+..+.+.+.+
T Consensus        81 ~~~~d~~~aR~lfer~i~~-l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~  135 (280)
T PF05843_consen   81 IKLNDINNARALFERAISS-LPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEE  135 (280)
T ss_dssp             HHTT-HHHHHHHHHHHCCT-SSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHH
T ss_pred             HHhCcHHHHHHHHHHHHHh-cCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            5555555555555555543 22111   2444444444445555555555444443

The Drosophila melanogaster suppressor of forked [Su(f)] protein shares homology with the Saccharomyces cerevisiae RNA14 protein and the 77 kDa subunit of Homo sapiens cleavage stimulation factor, which are proteins involved in mRNA 3' end formation. This suggests a role for Su(f) in mRNA 3' end formation in Drosophila. The su(f) gene produces three transcripts; two of them are polyadenylated at the end of the transcription unit, and one is a truncated transcript, polyadenylated in intron 4. It is thought that su(f) plays a role in the regulation of poly(A) site utilisation and the GU-rich sequence is important for this regulation to occur [].; GO: 0006397 mRNA processing, 0005634 nucleus; PDB: 2L9B_B 2OND_B 2OOE_A 4E85_B 4EBA_C 4E6H_A 2UY1_B.

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=97.36  E-value=0.0027  Score=64.63  Aligned_cols=130  Identities=15%  Similarity=0.142  Sum_probs=75.5

Q ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh-cCCHHHHHHHHHHHHHCCCCCChhHHHHHHHH
Q 003295          638 VVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCN-IGLIEDAKCLFDEMRKEGLLPNVACYTALIGG  716 (833)
Q Consensus       638 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~-~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~  716 (833)
                      .+|..++....+.+..+.|..+|.+..+.+ ..+...|......-.+ .++.+.|.++|+...+. +..+...|...++.
T Consensus         2 ~v~i~~m~~~~r~~g~~~aR~vF~~a~~~~-~~~~~vy~~~A~~E~~~~~d~~~A~~Ife~glk~-f~~~~~~~~~Y~~~   79 (280)
T PF05843_consen    2 LVWIQYMRFMRRTEGIEAARKVFKRARKDK-RCTYHVYVAYALMEYYCNKDPKRARKIFERGLKK-FPSDPDFWLEYLDF   79 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHCCC-CS-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHH-HTT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCChHHHHHHHHHHHcCC-CCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH-CCCCHHHHHHHHHH
Confidence            356666666666666777777777776432 2233444443333223 44555577777776665 34455666666666


Q ss_pred             HHhcCChhHHHHHHHHHHhCCCCCCH---HHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 003295          717 YCKLGQMDEAESVLQEMASINIHPNK---ITYTIMIGGYCKLGDMKEAAKLLNVMAE  770 (833)
Q Consensus       717 ~~~~g~~~~A~~~~~~m~~~g~~p~~---~~~~~li~~~~~~g~~~~A~~~~~~m~~  770 (833)
                      +.+.|+.+.|..+|++.... +.++.   ..|...+.-=.+.|+.+.+.++.+++.+
T Consensus        80 l~~~~d~~~aR~lfer~i~~-l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~  135 (280)
T PF05843_consen   80 LIKLNDINNARALFERAISS-LPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEE  135 (280)
T ss_dssp             HHHTT-HHHHHHHHHHHCCT-SSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHH
T ss_pred             HHHhCcHHHHHHHHHHHHHh-cCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            67777777777777777654 23222   3666666666666777777777666666

The Drosophila melanogaster suppressor of forked [Su(f)] protein shares homology with the Saccharomyces cerevisiae RNA14 protein and the 77 kDa subunit of Homo sapiens cleavage stimulation factor, which are proteins involved in mRNA 3' end formation. This suggests a role for Su(f) in mRNA 3' end formation in Drosophila. The su(f) gene produces three transcripts; two of them are polyadenylated at the end of the transcription unit, and one is a truncated transcript, polyadenylated in intron 4. It is thought that su(f) plays a role in the regulation of poly(A) site utilisation and the GU-rich sequence is important for this regulation to occur [].; GO: 0006397 mRNA processing, 0005634 nucleus; PDB: 2L9B_B 2OND_B 2OOE_A 4E85_B 4EBA_C 4E6H_A 2UY1_B.

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=97.33  E-value=0.0022  Score=52.68  Aligned_cols=42  Identities=21%  Similarity=0.419  Sum_probs=21.0

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHHcCC-CCChhhHHHHHHHHHh
Q 003295          258 AINAFCKRGRIEDAIGLFTKMEELGI-APNVVTYNNIIHGLCR  299 (833)
Q Consensus       258 li~~~~~~g~~~~A~~~~~~m~~~g~-~p~~~~~~~li~~~~~  299 (833)
                      .|..+...|++..--.+|+.+++.|+ .|++.+|+.++.+.++
T Consensus        31 ~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~   73 (120)
T PF08579_consen   31 NINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAK   73 (120)
T ss_pred             HHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHH
Confidence            33344444555555555555555555 4555555555554443

Rpm2 is a protein subunit of the yeast mitochondrial RNase P. It has the ability to act as a transcriptional activator in the nucleus, where it plays a role in defining the steady-state levels of mRNAs for some nucleus-encoded mitochondrial components. Rpm2p is also involved in maturation of Rpm1 and in translation of mitochondrial mRNAs [, , ].

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=97.33  E-value=0.0034  Score=66.23  Aligned_cols=124  Identities=15%  Similarity=0.135  Sum_probs=93.8

Q ss_pred             CCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHC--CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhh
Q 003295          527 GLILDKVTYNTLILGCCKDGKPEEGFKLKEDMIKR--GIQPDNYTYNLLLHGLCSLGKMEEAIELWEECKRTVFGPDIYT  604 (833)
Q Consensus       527 g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~--g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~  604 (833)
                      +...+......+++.+....+.+++..++.+....  ....-..|..++++.|.+.|..+.++.+++.=...|+-||..+
T Consensus        61 ~~~vS~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~s  140 (429)
T PF10037_consen   61 KKPVSSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNFS  140 (429)
T ss_pred             CCCCcHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChhh
Confidence            44447777777787777777788888888877765  2222344566888888888888888888888888888888888


Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHc
Q 003295          605 YGVMIDGFCKADKIEEGETLFNEMISKKMELNPVVYNTLIRAYCKI  650 (833)
Q Consensus       605 ~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~  650 (833)
                      ++.|++.+.+.|++..|.++...|...+...++.++...+.+|.+-
T Consensus       141 ~n~Lmd~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~~~  186 (429)
T PF10037_consen  141 FNLLMDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSCYKY  186 (429)
T ss_pred             HHHHHHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHHHHh
Confidence            8888888888888888888888887777666777777666666554

The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This entry represents a family of small ribosomal proteins possessing one of three conserved sequence blocks found in proteins that stimulate the dissociation of guanine nucleotides from G-proteins. This leaves open the possibility that they may be functional partners of GTP-binding ribosomal proteins [].

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=97.33  E-value=0.011  Score=52.66  Aligned_cols=96  Identities=11%  Similarity=-0.048  Sum_probs=67.1

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 003295          499 TSNALIHGMCEAGNLKEAGKLLMEMLQRGLILDKVTYNTLILGCCKDGKPEEGFKLKEDMIKRGIQPDNYTYNLLLHGLC  578 (833)
Q Consensus       499 ~~~~li~~~~~~g~~~~A~~~l~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~  578 (833)
                      ..-.+...+...|++++|..+|+-+....+. +..-|..|..++-..|++++|+..|.......+. |+..+-.+..++.
T Consensus        37 ~lY~~A~~ly~~G~l~~A~~~f~~L~~~Dp~-~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~d-dp~~~~~ag~c~L  114 (157)
T PRK15363         37 TLYRYAMQLMEVKEFAGAARLFQLLTIYDAW-SFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKID-APQAPWAAAECYL  114 (157)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCC-CchHHHHHHHHHH
Confidence            3445555666777777777777777766555 6666667777777777777777777777776543 6667777777777


Q ss_pred             hcCCHHHHHHHHHHHhhC
Q 003295          579 SLGKMEEAIELWEECKRT  596 (833)
Q Consensus       579 ~~g~~~~A~~~~~~~~~~  596 (833)
                      ..|+.+.|.+.|+..+..
T Consensus       115 ~lG~~~~A~~aF~~Ai~~  132 (157)
T PRK15363        115 ACDNVCYAIKALKAVVRI  132 (157)
T ss_pred             HcCCHHHHHHHHHHHHHH
Confidence            777777777777766553

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=97.31  E-value=0.11  Score=51.61  Aligned_cols=60  Identities=17%  Similarity=0.047  Sum_probs=34.2

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHH---HHHHHHHHhcCChhhHHHHHHHHHHCCC
Q 003295          503 LIHGMCEAGNLKEAGKLLMEMLQRGLILDKVTY---NTLILGCCKDGKPEEGFKLKEDMIKRGI  563 (833)
Q Consensus       503 li~~~~~~g~~~~A~~~l~~m~~~g~~~~~~~~---~~li~~~~~~g~~~~A~~~~~~m~~~g~  563 (833)
                      ....+.+.|++++|.+.|+++....+.. ....   -.++.++.+.+++++|...+++.++..+
T Consensus        38 ~A~~~~~~g~y~~Ai~~f~~l~~~yP~s-~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~P  100 (243)
T PRK10866         38 TAQQKLQDGNWKQAITQLEALDNRYPFG-PYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNP  100 (243)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhCCCC-hHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCc
Confidence            3444555666777777777666654432 2221   2344556666666777776666666543

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=97.30  E-value=0.012  Score=64.89  Aligned_cols=89  Identities=18%  Similarity=0.141  Sum_probs=64.5

Q ss_pred             HHHHHHHHHHHHC-CCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 003295          689 EDAKCLFDEMRKE-GLLPNVACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNV  767 (833)
Q Consensus       689 ~~A~~~~~~m~~~-g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~  767 (833)
                      ..+.+..++.... ....+...|..+.-.....|++++|...++++.+.  .|+...|..++..+...|+.++|.+.+++
T Consensus       401 ~~a~~~~~~a~al~~~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L--~ps~~a~~~lG~~~~~~G~~~eA~~~~~~  478 (517)
T PRK10153        401 AALSTELDNIVALPELNVLPRIYEILAVQALVKGKTDEAYQAINKAIDL--EMSWLNYVLLGKVYELKGDNRLAADAYST  478 (517)
T ss_pred             HHHHHHHHHhhhcccCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHc--CCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            3444444444332 12335567777766666789999999999999885  46888899999999999999999999999


Q ss_pred             HHHcCCCCCHHHHH
Q 003295          768 MAEKGISPDSITYN  781 (833)
Q Consensus       768 m~~~g~~p~~~~~~  781 (833)
                      +..  +.|...+|.
T Consensus       479 A~~--L~P~~pt~~  490 (517)
T PRK10153        479 AFN--LRPGENTLY  490 (517)
T ss_pred             HHh--cCCCCchHH
Confidence            888  456555543

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=97.29  E-value=0.0039  Score=62.82  Aligned_cols=132  Identities=11%  Similarity=0.007  Sum_probs=91.1

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHH----CCCC-CChhHHHHHHHHHHhcCChhHHHHHHHHHH----hCCC-CCCHH
Q 003295          674 TYSSLIHGLCNIGLIEDAKCLFDEMRK----EGLL-PNVACYTALIGGYCKLGQMDEAESVLQEMA----SINI-HPNKI  743 (833)
Q Consensus       674 ~~~~li~~~~~~g~~~~A~~~~~~m~~----~g~~-p~~~~~~~li~~~~~~g~~~~A~~~~~~m~----~~g~-~p~~~  743 (833)
                      .|..|.+.|.-.|+++.|+...+.-+.    -|-. .....+..+.+++.-.|+++.|.+.++...    +.|- .....
T Consensus       197 a~GnLGNTyYlLGdf~~ai~~H~~RL~ia~efGDrAaeRRA~sNlgN~hiflg~fe~A~ehYK~tl~LAielg~r~vEAQ  276 (639)
T KOG1130|consen  197 AYGNLGNTYYLLGDFDQAIHFHKLRLEIAQEFGDRAAERRAHSNLGNCHIFLGNFELAIEHYKLTLNLAIELGNRTVEAQ  276 (639)
T ss_pred             hhcccCceeeeeccHHHHHHHHHHHHHHHHHhhhHHHHHHhhcccchhhhhhcccHhHHHHHHHHHHHHHHhcchhHHHH
Confidence            466666666777888888877654332    2311 133567778888888999999998888754    2221 12234


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHH----c-CCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHH
Q 003295          744 TYTIMIGGYCKLGDMKEAAKLLNVMAE----K-GISPDSITYNVFMDGHCKGGNVEEAFKVCDRMLS  805 (833)
Q Consensus       744 ~~~~li~~~~~~g~~~~A~~~~~~m~~----~-g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  805 (833)
                      +..+|...|.-...+++|+.++++-+.    . ...-....|.+|..+|...|..++|..+.+.-++
T Consensus       277 scYSLgNtytll~e~~kAI~Yh~rHLaIAqeL~DriGe~RacwSLgna~~alg~h~kAl~fae~hl~  343 (639)
T KOG1130|consen  277 SCYSLGNTYTLLKEVQKAITYHQRHLAIAQELEDRIGELRACWSLGNAFNALGEHRKALYFAELHLR  343 (639)
T ss_pred             HHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhhhHHHHHHHHHHHHH
Confidence            566788888888889999998877543    1 1122456788999999999999999888776655

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=97.29  E-value=0.009  Score=55.97  Aligned_cols=82  Identities=18%  Similarity=0.062  Sum_probs=36.0

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC--hhHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 003295          675 YSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPN--VACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGY  752 (833)
Q Consensus       675 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~--~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~  752 (833)
                      +..+...+...|++++|...|++..+....+.  ...+..+...+.+.|++++|...+++..+.. +.+...+..++..+
T Consensus        38 ~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~  116 (172)
T PRK02603         38 YYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELN-PKQPSALNNIAVIY  116 (172)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHH
Confidence            33444444444555555555554443211111  2344444455555555555555555554431 22333444444444


Q ss_pred             HhcCC
Q 003295          753 CKLGD  757 (833)
Q Consensus       753 ~~~g~  757 (833)
                      ...|+
T Consensus       117 ~~~g~  121 (172)
T PRK02603        117 HKRGE  121 (172)
T ss_pred             HHcCC
Confidence            44444

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=97.28  E-value=0.13  Score=52.64  Aligned_cols=64  Identities=17%  Similarity=0.062  Sum_probs=42.8

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC-----CHH-HHHHHHHHHHhcCCHHHHHHHHHHHhhCC
Q 003295          464 LLTLLVSGLCKNGKQAEATELCFRLFEKGFTV-----NTV-TSNALIHGMCEAGNLKEAGKLLMEMLQRG  527 (833)
Q Consensus       464 ~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~-----~~~-~~~~li~~~~~~g~~~~A~~~l~~m~~~g  527 (833)
                      ++..+...+.+.|++++|.++|+++.......     ++. .+-..+-++...||...|...+++..+..
T Consensus       157 ~~~~~A~l~~~l~~y~~A~~~~e~~~~~~l~~~l~~~~~~~~~l~a~l~~L~~~D~v~A~~~~~~~~~~~  226 (282)
T PF14938_consen  157 CLLKAADLYARLGRYEEAIEIYEEVAKKCLENNLLKYSAKEYFLKAILCHLAMGDYVAARKALERYCSQD  226 (282)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHTCCCHCTTGHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHGTTS
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHHHhhcccccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC
Confidence            34556777888899999999998887653322     221 23334446677899999999999987663

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.23  E-value=0.51  Score=52.20  Aligned_cols=344  Identities=16%  Similarity=0.189  Sum_probs=187.2

Q ss_pred             CCCCCCcccHH-----HHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCC---HHHHHHHHHHHHHCC
Q 003295          421 RGLSINQGAYT-----SVIKWLCINSRFNSALHFTKEMLLRNLRPGDGLLTLLVSGLCKNGK---QAEATELCFRLFEKG  492 (833)
Q Consensus       421 ~g~~~~~~~~~-----~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~---~~~A~~~~~~~~~~g  492 (833)
                      .|++.+..-|.     .+|+-+...+.+..|+++...+...-... +..+.....-+.+..+   .+.+..+-+++... 
T Consensus       426 ~gIplT~~qy~~l~~~~vi~Rl~~r~~Y~vaIQva~~l~~p~~~~-~~Vl~~Wa~~kI~~~d~~d~~vld~I~~kls~~-  503 (829)
T KOG2280|consen  426 IGIPLTHEQYRHLSEEVVIDRLVDRHLYSVAIQVAKLLNLPESQG-DRVLLEWARRKIKQSDKMDEEVLDKIDEKLSAK-  503 (829)
T ss_pred             cCccccHHHHhhhchhhhhHHHHhcchhHHHHHHHHHhCCccccc-cHHHHHHHHHHHhccCccchHHHHHHHHHhccc-
Confidence            45555544443     45666777888888888877765443332 5666666666665532   22222333333322 


Q ss_pred             CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCC----CCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHH
Q 003295          493 FTVNTVTSNALIHGMCEAGNLKEAGKLLMEMLQRGLI----LDKVTYNTLILGCCKDGKPEEGFKLKEDMIKRGIQPDNY  568 (833)
Q Consensus       493 ~~~~~~~~~~li~~~~~~g~~~~A~~~l~~m~~~g~~----~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~  568 (833)
                      . .....|.........+|+.+-|..+++.=...+-.    .+..-+...+.-+.+.|+.+-...++-.+...-   +..
T Consensus       504 ~-~~~iSy~~iA~~Ay~~GR~~LA~kLle~E~~~~~qV~lLL~m~~~~~AL~kaies~d~~Li~~Vllhlk~~~---~~s  579 (829)
T KOG2280|consen  504 L-TPGISYAAIARRAYQEGRFELARKLLELEPRSGEQVPLLLKMKDSSLALKKAIESGDTDLIIQVLLHLKNKL---NRS  579 (829)
T ss_pred             C-CCceeHHHHHHHHHhcCcHHHHHHHHhcCCCccchhHHHhccchHHHHHHHHHhcCCchhHHHHHHHHHHHH---HHH
Confidence            2 35567888888888899999998887642222111    011223333444445555555555555444320   111


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHccCCHHHHHHHH-HHHHHC-CCccCHHHHHHHHHH
Q 003295          569 TYNLLLHGLCSLGKMEEAIELWEECKRTVFGPDIYTYGVMIDGFCKADKIEEGETLF-NEMISK-KMELNPVVYNTLIRA  646 (833)
Q Consensus       569 ~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~-~~~~~~-~~~~~~~~~~~li~~  646 (833)
                      .+      +.-..+.-.|..+|.+..+..   |..   .+-+.|....+...+-.+. +..... .+.+-........++
T Consensus       580 ~l------~~~l~~~p~a~~lY~~~~r~~---~~~---~l~d~y~q~dn~~~~a~~~~q~~~~~~~~~~r~~~lk~~a~~  647 (829)
T KOG2280|consen  580 SL------FMTLRNQPLALSLYRQFMRHQ---DRA---TLYDFYNQDDNHQALASFHLQASYAAETIEGRIPALKTAANA  647 (829)
T ss_pred             HH------HHHHHhchhhhHHHHHHHHhh---chh---hhhhhhhcccchhhhhhhhhhhhhhhhhhcccchhHHHHHHH
Confidence            11      111233445556666554421   111   1222232222222221111 110000 011111222233344


Q ss_pred             HHHcCChH---HH-------HHHHHHHHh-CCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhHHHHHHH
Q 003295          647 YCKIGNTT---AA-------FRLSNDMKS-RGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIG  715 (833)
Q Consensus       647 ~~~~g~~~---~A-------~~~~~~m~~-~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~  715 (833)
                      +.+.....   +|       +.+.+.+.. .|..-..-+.+--+.-+...|+..+|.++-.+..    .||...|..-+.
T Consensus       648 ~a~sk~~s~e~ka~ed~~kLl~lQ~~Le~q~~~~f~dlSl~dTv~~li~~g~~k~a~ql~~~Fk----ipdKr~~wLk~~  723 (829)
T KOG2280|consen  648 FAKSKEKSFEAKALEDQMKLLKLQRTLEDQFGGSFVDLSLHDTVTTLILIGQNKRAEQLKSDFK----IPDKRLWWLKLT  723 (829)
T ss_pred             HhhhhhhhhHHHHHHHHHHHHHHHHHHHHHhccccccCcHHHHHHHHHHccchHHHHHHHHhcC----CcchhhHHHHHH
Confidence            44433311   12       122222221 1222233345555666778899999988877665    588889988999


Q ss_pred             HHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCCHHH
Q 003295          716 GYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISPDSITYNVFMDGHCKGGNVEE  795 (833)
Q Consensus       716 ~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~  795 (833)
                      +++..+++++-+++-+.+.+      ++-|.-.+.+|.+.|+.++|.+++.+.-     +..    -.+.+|.+.|++.+
T Consensus       724 aLa~~~kweeLekfAkskks------PIGy~PFVe~c~~~~n~~EA~KYiprv~-----~l~----ekv~ay~~~~~~~e  788 (829)
T KOG2280|consen  724 ALADIKKWEELEKFAKSKKS------PIGYLPFVEACLKQGNKDEAKKYIPRVG-----GLQ----EKVKAYLRVGDVKE  788 (829)
T ss_pred             HHHhhhhHHHHHHHHhccCC------CCCchhHHHHHHhcccHHHHhhhhhccC-----ChH----HHHHHHHHhccHHH
Confidence            99999999988877666542      4557778899999999999999988742     222    56778889999999


Q ss_pred             HHHHHH
Q 003295          796 AFKVCD  801 (833)
Q Consensus       796 A~~~~~  801 (833)
                      |.+.--
T Consensus       789 Aad~A~  794 (829)
T KOG2280|consen  789 AADLAA  794 (829)
T ss_pred             HHHHHH
Confidence            887643

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=97.21  E-value=0.48  Score=51.65  Aligned_cols=49  Identities=14%  Similarity=0.266  Sum_probs=24.6

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHH-cCCCCCHHHHHHHHHHHhcCCCH
Q 003295          745 YTIMIGGYCKLGDMKEAAKLLNVMAE-KGISPDSITYNVFMDGHCKGGNV  793 (833)
Q Consensus       745 ~~~li~~~~~~g~~~~A~~~~~~m~~-~g~~p~~~~~~~l~~~~~~~g~~  793 (833)
                      |..|..-....|..+.|++..-.+.+ ..+-|-...|..|.-+-+....+
T Consensus      1024 FmilAQrql~eg~v~~Al~Tal~L~DYEd~lpP~eiySllALaaca~raF 1073 (1189)
T KOG2041|consen 1024 FMILAQRQLFEGRVKDALQTALILSDYEDFLPPAEIYSLLALAACAVRAF 1073 (1189)
T ss_pred             HHHHHHHHHHhchHHHHHHHHhhhccHhhcCCHHHHHHHHHHHHhhhhhh
Confidence            34444445556666666665444433 12444455565555444444333

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=97.16  E-value=0.0056  Score=61.78  Aligned_cols=284  Identities=14%  Similarity=0.035  Sum_probs=132.3

Q ss_pred             HHHHhcCCHHHHHHHHHHHHHCCCCCCH----HHHHHHHHHHHhcCCHHHHHHHHHHH--hh--CCCC-CCHHHHHHHHH
Q 003295          470 SGLCKNGKQAEATELCFRLFEKGFTVNT----VTSNALIHGMCEAGNLKEAGKLLMEM--LQ--RGLI-LDKVTYNTLIL  540 (833)
Q Consensus       470 ~~~~~~g~~~~A~~~~~~~~~~g~~~~~----~~~~~li~~~~~~g~~~~A~~~l~~m--~~--~g~~-~~~~~~~~li~  540 (833)
                      .-+|+.|+......+|+..++.|.. |.    ..|..|..+|.-.+++++|++.-..=  ..  .|-+ -...+-..|.+
T Consensus        25 ERLck~gdcraGv~ff~aA~qvGTe-Dl~tLSAIYsQLGNAyfyL~DY~kAl~yH~hDltlar~lgdklGEAKssgNLGN  103 (639)
T KOG1130|consen   25 ERLCKMGDCRAGVDFFKAALQVGTE-DLSTLSAIYSQLGNAYFYLKDYEKALKYHTHDLTLARLLGDKLGEAKSSGNLGN  103 (639)
T ss_pred             HHHHhccchhhhHHHHHHHHHhcch-HHHHHHHHHHHhcchhhhHhhHHHHHhhhhhhHHHHHHhcchhccccccccccc
Confidence            4578888888888888888887654 32    35666667777777777777653221  00  0100 02223333444


Q ss_pred             HHHhcCChhhHHHHHHH----HHHCCCC-CCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHcc
Q 003295          541 GCCKDGKPEEGFKLKED----MIKRGIQ-PDNYTYNLLLHGLCSLGKMEEAIELWEECKRTVFGPDIYTYGVMIDGFCKA  615 (833)
Q Consensus       541 ~~~~~g~~~~A~~~~~~----m~~~g~~-p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~  615 (833)
                      .+--.|.+++|+..-.+    ..+.|-+ .....+..+...|...|+.-...    .-.+.|-.++.++           
T Consensus       104 tlKv~G~fdeA~~cc~rhLd~areLgDrv~e~RAlYNlgnvYhakGk~~g~~----~pee~g~f~~ev~-----------  168 (639)
T KOG1130|consen  104 TLKVKGAFDEALTCCFRHLDFARELGDRVLESRALYNLGNVYHAKGKCTGLE----APEEKGAFNAEVT-----------  168 (639)
T ss_pred             hhhhhcccchHHHHHHHHhHHHHHHhHHHhhhHHHhhhhhhhhhcccccCCC----ChhhcccccHHHH-----------
Confidence            44445566665543222    2222211 01223333444443333210000    0000000000000           


Q ss_pred             CCHHHHHHHHHHHHHC----CC-ccCHHHHHHHHHHHHHcCChHHHHHHHHHHH----hCCCC-CCHHHHHHHHHHHHhc
Q 003295          616 DKIEEGETLFNEMISK----KM-ELNPVVYNTLIRAYCKIGNTTAAFRLSNDMK----SRGIL-PTSVTYSSLIHGLCNI  685 (833)
Q Consensus       616 g~~~~A~~~~~~~~~~----~~-~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~----~~~~~-p~~~~~~~li~~~~~~  685 (833)
                      ..++.|.++|.+-++.    |- -.....|..+.+.|.-.|+++.|+...+.-.    +.|-+ .....+..+.+++.-.
T Consensus       169 ~al~~Av~fy~eNL~l~~~lgDr~aqGRa~GnLGNTyYlLGdf~~ai~~H~~RL~ia~efGDrAaeRRA~sNlgN~hifl  248 (639)
T KOG1130|consen  169 SALENAVKFYMENLELSEKLGDRLAQGRAYGNLGNTYYLLGDFDQAIHFHKLRLEIAQEFGDRAAERRAHSNLGNCHIFL  248 (639)
T ss_pred             HHHHHHHHHHHHHHHHHHHhhhHHhhcchhcccCceeeeeccHHHHHHHHHHHHHHHHHhhhHHHHHHhhcccchhhhhh
Confidence            0122333333322111    00 0012334445555555666666665544322    11211 1223455666666667


Q ss_pred             CCHHHHHHHHHHHHH----CCC-CCChhHHHHHHHHHHhcCChhHHHHHHHHHHh----C-CCCCCHHHHHHHHHHHHhc
Q 003295          686 GLIEDAKCLFDEMRK----EGL-LPNVACYTALIGGYCKLGQMDEAESVLQEMAS----I-NIHPNKITYTIMIGGYCKL  755 (833)
Q Consensus       686 g~~~~A~~~~~~m~~----~g~-~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~----~-g~~p~~~~~~~li~~~~~~  755 (833)
                      |+++.|.+.|+....    .|- .........|.+.|.-..++++|+.++++-..    . +..-...++.+|..+|...
T Consensus       249 g~fe~A~ehYK~tl~LAielg~r~vEAQscYSLgNtytll~e~~kAI~Yh~rHLaIAqeL~DriGe~RacwSLgna~~al  328 (639)
T KOG1130|consen  249 GNFELAIEHYKLTLNLAIELGNRTVEAQSCYSLGNTYTLLKEVQKAITYHQRHLAIAQELEDRIGELRACWSLGNAFNAL  328 (639)
T ss_pred             cccHhHHHHHHHHHHHHHHhcchhHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhh
Confidence            777777776665432    110 11223444566666666667777766665332    1 1122334566777777777


Q ss_pred             CCHHHHHHHHHHHH
Q 003295          756 GDMKEAAKLLNVMA  769 (833)
Q Consensus       756 g~~~~A~~~~~~m~  769 (833)
                      |..++|+.+.+..+
T Consensus       329 g~h~kAl~fae~hl  342 (639)
T KOG1130|consen  329 GEHRKALYFAELHL  342 (639)
T ss_pred             hhHHHHHHHHHHHH
Confidence            77777776665544

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.14  E-value=0.0079  Score=56.15  Aligned_cols=61  Identities=11%  Similarity=-0.093  Sum_probs=29.8

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC--ChhHHHHHHHHHHhcCChhHHHHHHHHHHh
Q 003295          675 YSSLIHGLCNIGLIEDAKCLFDEMRKEGLLP--NVACYTALIGGYCKLGQMDEAESVLQEMAS  735 (833)
Q Consensus       675 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p--~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  735 (833)
                      |..+...+...|++++|...|++.......+  ...+|..+...+...|++++|+..+++..+
T Consensus        38 ~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~  100 (168)
T CHL00033         38 YYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALE  100 (168)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            3444444445555555555555554431111  123445555555555555555555555554

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.14  E-value=0.0085  Score=55.93  Aligned_cols=93  Identities=13%  Similarity=0.007  Sum_probs=44.0

Q ss_pred             hHHHHHHHHHhcCChhHHHHHHHHHHHCCCCC--ChhhHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCChhHHHHHHHH
Q 003295          324 TYSILINGLIKLEKFDDANFVLKEMSVRGFVP--NYVVYNTLIDGYCKKGNISEALKIRDDMVSKGMSPNSVTFNSLIHG  401 (833)
Q Consensus       324 t~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p--~~~~y~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~  401 (833)
                      .|..+...+...|++++|...|++.......+  ...+|..+...|.+.|++++|++.+++....... ...++..+...
T Consensus        37 ~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~~~~-~~~~~~~la~i  115 (168)
T CHL00033         37 TYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALERNPF-LPQALNNMAVI  115 (168)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcC-cHHHHHHHHHH
Confidence            33444444445555555555555554332111  1234555555566666666666666555543111 22334444444


Q ss_pred             HH-------hcCChhHHHHHHHH
Q 003295          402 FC-------KSGQMDNAENALEE  417 (833)
Q Consensus       402 ~~-------~~g~~~~A~~~l~~  417 (833)
                      +.       +.|++++|...+++
T Consensus       116 ~~~~~~~~~~~g~~~~A~~~~~~  138 (168)
T CHL00033        116 CHYRGEQAIEQGDSEIAEAWFDQ  138 (168)
T ss_pred             HHHhhHHHHHcccHHHHHHHHHH
Confidence            44       55555544444443

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=97.08  E-value=0.073  Score=48.07  Aligned_cols=131  Identities=15%  Similarity=0.099  Sum_probs=83.2

Q ss_pred             CCHHHHHHHHHHHHhcCChhHHHHHHHHhhcC-CCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCC-CChhhHHHH
Q 003295          216 PSLKTCNFLLNSLVKANEVQKGIEVFETMCRG-VSPDVFLFSTAINAFCKRGRIEDAIGLFTKMEELGIA-PNVVTYNNI  293 (833)
Q Consensus       216 p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~-p~~~~~~~l  293 (833)
                      |.+..-..|..++.+.|++.+|...|++...| +..|......+.++....+++.+|...++++-+.... -.+.+.-.+
T Consensus        87 pTvqnr~rLa~al~elGr~~EA~~hy~qalsG~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r~pd~~Ll~  166 (251)
T COG4700          87 PTVQNRYRLANALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFRSPDGHLLF  166 (251)
T ss_pred             hhHHHHHHHHHHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccCCCCchHHH
Confidence            55666667777788888888888888888754 4456666777777777788888888888777664311 112334455


Q ss_pred             HHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHH
Q 003295          294 IHGLCRNGRLYEAFHLKEKMVLREVEPSLITYSILINGLIKLEKFDDANFVLKEM  348 (833)
Q Consensus       294 i~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m  348 (833)
                      ...|...|++++|..-|+.....  -|+...-.-....+.++|+.+++..-+.++
T Consensus       167 aR~laa~g~~a~Aesafe~a~~~--ypg~~ar~~Y~e~La~qgr~~ea~aq~~~v  219 (251)
T COG4700         167 ARTLAAQGKYADAESAFEVAISY--YPGPQARIYYAEMLAKQGRLREANAQYVAV  219 (251)
T ss_pred             HHHHHhcCCchhHHHHHHHHHHh--CCCHHHHHHHHHHHHHhcchhHHHHHHHHH
Confidence            66677777777777777777654  344433333334455666666555444443

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=97.07  E-value=0.087  Score=56.57  Aligned_cols=103  Identities=22%  Similarity=0.213  Sum_probs=55.5

Q ss_pred             ChhhHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCcccHHHHHH
Q 003295          356 NYVVYNTLIDGYCKKGNISEALKIRDDMVSKGMSPNSVTFNSLIHGFCKSGQMDNAENALEEMLSRGLSINQGAYTSVIK  435 (833)
Q Consensus       356 ~~~~y~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~l~~~~~~g~~~~~~~~~~li~  435 (833)
                      -.+.+.+-+..|...|.+++|.++---    |+  ...-|..|..--...=+++-|++.|.+....              
T Consensus       555 ~evp~~~~m~q~Ieag~f~ea~~iacl----gV--v~~DW~~LA~~ALeAL~f~~ARkAY~rVRdl--------------  614 (1081)
T KOG1538|consen  555 VEVPQSAPMYQYIERGLFKEAYQIACL----GV--TDTDWRELAMEALEALDFETARKAYIRVRDL--------------  614 (1081)
T ss_pred             ccccccccchhhhhccchhhhhccccc----ce--ecchHHHHHHHHHhhhhhHHHHHHHHHHhcc--------------
Confidence            344555556667788888877654211    11  1223444444444444555555555444332              


Q ss_pred             HHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHH
Q 003295          436 WLCINSRFNSALHFTKEMLLRNLRPGDGLLTLLVSGLCKNGKQAEATELCFR  487 (833)
Q Consensus       436 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~  487 (833)
                            .+-+-+.-++++.++|-.|++..   +...++-.|++.+|..+|.+
T Consensus       615 ------~~L~li~EL~~~k~rge~P~~iL---lA~~~Ay~gKF~EAAklFk~  657 (1081)
T KOG1538|consen  615 ------RYLELISELEERKKRGETPNDLL---LADVFAYQGKFHEAAKLFKR  657 (1081)
T ss_pred             ------HHHHHHHHHHHHHhcCCCchHHH---HHHHHHhhhhHHHHHHHHHH
Confidence                  12233445667777777777643   34455667777777766543

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=97.07  E-value=0.024  Score=55.81  Aligned_cols=99  Identities=13%  Similarity=0.097  Sum_probs=57.1

Q ss_pred             CChhHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC---CHHHHHHHHHHHHHcCCCCCHHHHH
Q 003295          705 PNVACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLG---DMKEAAKLLNVMAEKGISPDSITYN  781 (833)
Q Consensus       705 p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g---~~~~A~~~~~~m~~~g~~p~~~~~~  781 (833)
                      -|...|..|...|...|+.+.|..-|.+..+.. ++|...+..+..++..+.   ...++..+|++++... +-|..+..
T Consensus       154 ~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~-g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D-~~~iral~  231 (287)
T COG4235         154 GDAEGWDLLGRAYMALGRASDALLAYRNALRLA-GDNPEILLGLAEALYYQAGQQMTAKARALLRQALALD-PANIRALS  231 (287)
T ss_pred             CCchhHHHHHHHHHHhcchhHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcC-CccHHHHH
Confidence            355666666666666666666666666666542 445555555555544332   2345666666666532 22445555


Q ss_pred             HHHHHHhcCCCHHHHHHHHHHHHH
Q 003295          782 VFMDGHCKGGNVEEAFKVCDRMLS  805 (833)
Q Consensus       782 ~l~~~~~~~g~~~~A~~~~~~m~~  805 (833)
                      .|...+..+|++.+|...|+.|++
T Consensus       232 lLA~~afe~g~~~~A~~~Wq~lL~  255 (287)
T COG4235         232 LLAFAAFEQGDYAEAAAAWQMLLD  255 (287)
T ss_pred             HHHHHHHHcccHHHHHHHHHHHHh
Confidence            566666666666666666666665

>PF13414 TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2PL2_B 3IEG_B 2FBN_A

Probab=97.03  E-value=0.0025  Score=49.09  Aligned_cols=63  Identities=24%  Similarity=0.261  Sum_probs=40.9

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhcCC-CHHHHHHHHHHHHH
Q 003295          741 NKITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISP-DSITYNVFMDGHCKGG-NVEEAFKVCDRMLS  805 (833)
Q Consensus       741 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~~~~~l~~~~~~~g-~~~~A~~~~~~m~~  805 (833)
                      +..+|..++..+...|++++|+..|++.++.  .| +...|..++.++...| ++++|++.+++.++
T Consensus         2 ~a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~--~p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~   66 (69)
T PF13414_consen    2 NAEAWYNLGQIYFQQGDYEEAIEYFEKAIEL--DPNNAEAYYNLGLAYMKLGKDYEEAIEDFEKALK   66 (69)
T ss_dssp             SHHHHHHHHHHHHHTTHHHHHHHHHHHHHHH--STTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHhCccHHHHHHHHHHHHH
Confidence            3456666666677777777777777777664  34 4456666666777776 56777776666655

...

>PF06239 ECSIT: Evolutionarily conserved signalling intermediate in Toll pathway; InterPro: IPR010418 Activation of NF-kappaB as a consequence of signalling through the Toll and IL-1 receptors is a major element of innate immune responses

Probab=97.03  E-value=0.0097  Score=55.53  Aligned_cols=114  Identities=21%  Similarity=0.357  Sum_probs=60.2

Q ss_pred             HHHHHHhhcCCCCCHHHHHHHHHHHHhc-----CChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHH
Q 003295          238 IEVFETMCRGVSPDVFLFSTAINAFCKR-----GRIEDAIGLFTKMEELGIAPNVVTYNNIIHGLCRNGRLYEAFHLKEK  312 (833)
Q Consensus       238 ~~~~~~~~~~~~~~~~~~~~li~~~~~~-----g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~  312 (833)
                      ...|+... +...|..+|..++..|.+.     |.++=....+..|.+.|++-|..+|+.|++.+=+ |.+- -..+|+.
T Consensus        34 ~~~f~~~~-~~~k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPK-g~fv-p~n~fQ~  110 (228)
T PF06239_consen   34 EELFERAP-GQAKDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPK-GKFV-PRNFFQA  110 (228)
T ss_pred             HHHHHHHh-hccccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCC-CCcc-cccHHHH
Confidence            34444442 2345666777777766643     5556566666666666666666666666666543 3322 1122222


Q ss_pred             HHhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHHcC
Q 003295          313 MVLREVEPSLITYSILINGLIKLEKFDDANFVLKEMSVRGFVPNYVVYNTLIDGYCKKG  371 (833)
Q Consensus       313 m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~y~~li~~~~~~g  371 (833)
                      +--.                 --.+.+-|+.++++|...|+.||..++..|++.+.+.+
T Consensus       111 ~F~h-----------------yp~Qq~c~i~lL~qME~~gV~Pd~Et~~~ll~iFG~~s  152 (228)
T PF06239_consen  111 EFMH-----------------YPRQQECAIDLLEQMENNGVMPDKETEQMLLNIFGRKS  152 (228)
T ss_pred             Hhcc-----------------CcHHHHHHHHHHHHHHHcCCCCcHHHHHHHHHHhcccc
Confidence            2110                 01123445666666666666666666666666664433

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=97.01  E-value=0.13  Score=55.37  Aligned_cols=56  Identities=14%  Similarity=0.003  Sum_probs=32.5

Q ss_pred             CHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhh
Q 003295          531 DKVTYNTLILGCCKDGKPEEGFKLKEDMIKRGIQPDNYTYNLLLHGLCSLGKMEEAIELWEECKR  595 (833)
Q Consensus       531 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~  595 (833)
                      +..+...+..-+.+...+.-|.++|..|-.         ...+++.....+++++|..+-+...+
T Consensus       746 ere~l~~~a~ylk~l~~~gLAaeIF~k~gD---------~ksiVqlHve~~~W~eAFalAe~hPe  801 (1081)
T KOG1538|consen  746 EREPLLLCATYLKKLDSPGLAAEIFLKMGD---------LKSLVQLHVETQRWDEAFALAEKHPE  801 (1081)
T ss_pred             hhhHHHHHHHHHhhccccchHHHHHHHhcc---------HHHHhhheeecccchHhHhhhhhCcc
Confidence            334444444444455566667777766643         23455666677777777776655443

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.01  E-value=0.15  Score=48.81  Aligned_cols=141  Identities=15%  Similarity=0.046  Sum_probs=102.8

Q ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhHHHH-----
Q 003295          638 VVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTA-----  712 (833)
Q Consensus       638 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~-----  712 (833)
                      .+.+.++..+...|.+.-...++++.++...+.+......|.+.-.+.|+.+.|...|++..+..-..|..+.+.     
T Consensus       178 ~Vmy~~~~~llG~kEy~iS~d~~~~vi~~~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~~~kL~~~q~~~~V~~n  257 (366)
T KOG2796|consen  178 RVMYSMANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKVTQKLDGLQGKIMVLMN  257 (366)
T ss_pred             HHHHHHHHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhhhhccchhHHHHhh
Confidence            345566677777778888888888888877677888888888888899999999999997765422333333333     


Q ss_pred             HHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHH
Q 003295          713 LIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISPDSITYN  781 (833)
Q Consensus       713 li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~  781 (833)
                      ....|.-++++.+|...+.++...+ +.|...-|.-.-+..-.|+..+|++.++.|.+  ..|.+.+-+
T Consensus       258 ~a~i~lg~nn~a~a~r~~~~i~~~D-~~~~~a~NnKALcllYlg~l~DAiK~~e~~~~--~~P~~~l~e  323 (366)
T KOG2796|consen  258 SAFLHLGQNNFAEAHRFFTEILRMD-PRNAVANNNKALCLLYLGKLKDALKQLEAMVQ--QDPRHYLHE  323 (366)
T ss_pred             hhhheecccchHHHHHHHhhccccC-CCchhhhchHHHHHHHHHHHHHHHHHHHHHhc--cCCccchhh
Confidence            3344556778899999999888765 55666666666666678999999999999998  456554444

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=97.01  E-value=0.54  Score=48.49  Aligned_cols=108  Identities=13%  Similarity=0.133  Sum_probs=72.1

Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh
Q 003295          605 YGVMIDGFCKADKIEEGETLFNEMISKKMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCN  684 (833)
Q Consensus       605 ~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~  684 (833)
                      .+.-|.-+...|+...|.++-.+..    .|+...|-..+.+++..++|++-.++...      +-++.-|...+.+|.+
T Consensus       180 l~~Ti~~li~~~~~k~A~kl~k~Fk----v~dkrfw~lki~aLa~~~~w~eL~~fa~s------kKsPIGyepFv~~~~~  249 (319)
T PF04840_consen  180 LNDTIRKLIEMGQEKQAEKLKKEFK----VPDKRFWWLKIKALAENKDWDELEKFAKS------KKSPIGYEPFVEACLK  249 (319)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHcC----CcHHHHHHHHHHHHHhcCCHHHHHHHHhC------CCCCCChHHHHHHHHH
Confidence            3344555566777777777655542    46777888888888888888766654332      1234667788888888


Q ss_pred             cCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCChhHHHHHHHH
Q 003295          685 IGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESVLQE  732 (833)
Q Consensus       685 ~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~  732 (833)
                      .|...+|..+..++     +     +..-+..|.+.|++.+|.+..-+
T Consensus       250 ~~~~~eA~~yI~k~-----~-----~~~rv~~y~~~~~~~~A~~~A~~  287 (319)
T PF04840_consen  250 YGNKKEASKYIPKI-----P-----DEERVEMYLKCGDYKEAAQEAFK  287 (319)
T ss_pred             CCCHHHHHHHHHhC-----C-----hHHHHHHHHHCCCHHHHHHHHHH
Confidence            88888888777761     1     13456677788888888766444

Vps16 is essential for vacuolar protein sorting, which is essential for viability in plants, but not yeast []. The Class C Vps complex is required for SNARE-mediated membrane fusion at the lysosome-like yeast vacuole. It is thought to play essential roles in membrane docking and fusion at the Golgi-to-endosome and endosome-to-vacuole stages of transport []. The role of VPS16 in this complex is not known.; GO: 0006886 intracellular protein transport, 0005737 cytoplasm

>PF06239 ECSIT: Evolutionarily conserved signalling intermediate in Toll pathway; InterPro: IPR010418 Activation of NF-kappaB as a consequence of signalling through the Toll and IL-1 receptors is a major element of innate immune responses

Probab=96.99  E-value=0.016  Score=54.09  Aligned_cols=103  Identities=18%  Similarity=0.236  Sum_probs=60.7

Q ss_pred             CCCHHHHHHHHHHHHhc-----CCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHH
Q 003295          669 LPTSVTYSSLIHGLCNI-----GLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKI  743 (833)
Q Consensus       669 ~p~~~~~~~li~~~~~~-----g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~  743 (833)
                      ..+..+|..+++.+.+.     |.++=....+..|.+-|+.-|..+|+.|++.+=+ |.+- -..+|+.+--        
T Consensus        44 ~k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPK-g~fv-p~n~fQ~~F~--------  113 (228)
T PF06239_consen   44 AKDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPK-GKFV-PRNFFQAEFM--------  113 (228)
T ss_pred             cccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCC-CCcc-cccHHHHHhc--------
Confidence            44777777777777643     5666666777777777777788888888777643 3221 1111111110        


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcC
Q 003295          744 TYTIMIGGYCKLGDMKEAAKLLNVMAEKGISPDSITYNVFMDGHCKG  790 (833)
Q Consensus       744 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~  790 (833)
                               -.-.+-+-|++++++|...|+-||..++..|++.+.+.
T Consensus       114 ---------hyp~Qq~c~i~lL~qME~~gV~Pd~Et~~~ll~iFG~~  151 (228)
T PF06239_consen  114 ---------HYPRQQECAIDLLEQMENNGVMPDKETEQMLLNIFGRK  151 (228)
T ss_pred             ---------cCcHHHHHHHHHHHHHHHcCCCCcHHHHHHHHHHhccc
Confidence                     00123345666667776667777777777666666443

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>PF13414 TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2PL2_B 3IEG_B 2FBN_A

Probab=96.99  E-value=0.0023  Score=49.21  Aligned_cols=64  Identities=23%  Similarity=0.284  Sum_probs=45.8

Q ss_pred             ChhHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC-CHHHHHHHHHHHHH
Q 003295          706 NVACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLG-DMKEAAKLLNVMAE  770 (833)
Q Consensus       706 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g-~~~~A~~~~~~m~~  770 (833)
                      +...|..+...+...|++++|+..|++.++.+ +.+...|..+..+|...| ++++|++.+++.++
T Consensus         2 ~a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~-p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~   66 (69)
T PF13414_consen    2 NAEAWYNLGQIYFQQGDYEEAIEYFEKAIELD-PNNAEAYYNLGLAYMKLGKDYEEAIEDFEKALK   66 (69)
T ss_dssp             SHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHS-TTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhCccHHHHHHHHHHHHH
Confidence            34566777777777777777777777777753 445667777777777777 67777777777766

...

>PF14559 TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN_B 3QOU_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 3FP3_A 3LCA_A

Probab=96.99  E-value=0.0027  Score=48.69  Aligned_cols=51  Identities=25%  Similarity=0.344  Sum_probs=25.3

Q ss_pred             hcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHH
Q 003295          754 KLGDMKEAAKLLNVMAEKGISPDSITYNVFMDGHCKGGNVEEAFKVCDRMLS  805 (833)
Q Consensus       754 ~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  805 (833)
                      +.|++++|++.|+++.+.. +-+...+..++.+|.+.|++++|.++++++..
T Consensus         3 ~~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~   53 (68)
T PF14559_consen    3 KQGDYDEAIELLEKALQRN-PDNPEARLLLAQCYLKQGQYDEAEELLERLLK   53 (68)
T ss_dssp             HTTHHHHHHHHHHHHHHHT-TTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHG
T ss_pred             hccCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            3455555555555555431 22444455555555555555555555555554

...

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=96.97  E-value=0.0029  Score=48.01  Aligned_cols=54  Identities=17%  Similarity=0.177  Sum_probs=23.3

Q ss_pred             HHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 003295          716 GYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAE  770 (833)
Q Consensus       716 ~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  770 (833)
                      .+.+.|++++|.+.|+++++.. +-+...+..+..++...|++++|...|+++++
T Consensus         6 ~~~~~g~~~~A~~~~~~~l~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~   59 (65)
T PF13432_consen    6 ALYQQGDYDEAIAAFEQALKQD-PDNPEAWYLLGRILYQQGRYDEALAYYERALE   59 (65)
T ss_dssp             HHHHCTHHHHHHHHHHHHHCCS-TTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            3444444444444444444432 22333444444444444444444444444443

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=96.93  E-value=0.004  Score=47.18  Aligned_cols=57  Identities=16%  Similarity=0.279  Sum_probs=33.9

Q ss_pred             HHHHHhcCChhHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHc
Q 003295          225 LNSLVKANEVQKGIEVFETMCRGVSPDVFLFSTAINAFCKRGRIEDAIGLFTKMEEL  281 (833)
Q Consensus       225 l~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  281 (833)
                      ...+.+.|++++|...|+++++..|.+...+..+..++.+.|++++|...|+++.+.
T Consensus         4 a~~~~~~g~~~~A~~~~~~~l~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~   60 (65)
T PF13432_consen    4 ARALYQQGDYDEAIAAFEQALKQDPDNPEAWYLLGRILYQQGRYDEALAYYERALEL   60 (65)
T ss_dssp             HHHHHHCTHHHHHHHHHHHHHCCSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            344556666666666666666444555666666666666666666666666666553

>PF14559 TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN_B 3QOU_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 3FP3_A 3LCA_A

Probab=96.92  E-value=0.0021  Score=49.28  Aligned_cols=52  Identities=15%  Similarity=0.224  Sum_probs=26.9

Q ss_pred             hcCChhHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHc
Q 003295          230 KANEVQKGIEVFETMCRGVSPDVFLFSTAINAFCKRGRIEDAIGLFTKMEEL  281 (833)
Q Consensus       230 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  281 (833)
                      +.|++++|+..|+++....|.+...+..++.+|.+.|++++|.++++++...
T Consensus         3 ~~~~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~   54 (68)
T PF14559_consen    3 KQGDYDEAIELLEKALQRNPDNPEARLLLAQCYLKQGQYDEAEELLERLLKQ   54 (68)
T ss_dssp             HTTHHHHHHHHHHHHHHHTTTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHGG
T ss_pred             hccCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            4455555555555555333445555555555555555555555555555543

...

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=96.91  E-value=0.6  Score=47.53  Aligned_cols=300  Identities=15%  Similarity=0.102  Sum_probs=181.0

Q ss_pred             HHHHHHHHHh--cCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHH--HhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHH
Q 003295          500 SNALIHGMCE--AGNLKEAGKLLMEMLQRGLILDKVTYNTLILGC--CKDGKPEEGFKLKEDMIKRGIQPDNYTYNLLLH  575 (833)
Q Consensus       500 ~~~li~~~~~--~g~~~~A~~~l~~m~~~g~~~~~~~~~~li~~~--~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~  575 (833)
                      |..|-.++..  .|+-..|.++-.+..+. +..|....-.|+.+-  .-.|+++.|.+-|+.|... ++.-.-.+..|.-
T Consensus        85 yqALStGliAagAGda~lARkmt~~~~~l-lssDqepLIhlLeAQaal~eG~~~~Ar~kfeAMl~d-PEtRllGLRgLyl  162 (531)
T COG3898          85 YQALSTGLIAAGAGDASLARKMTARASKL-LSSDQEPLIHLLEAQAALLEGDYEDARKKFEAMLDD-PETRLLGLRGLYL  162 (531)
T ss_pred             HHHHhhhhhhhccCchHHHHHHHHHHHhh-hhccchHHHHHHHHHHHHhcCchHHHHHHHHHHhcC-hHHHHHhHHHHHH
Confidence            4444444333  45666666665554322 222444444444432  3468888888888888763 1111112223333


Q ss_pred             HHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHHHHCC-CccCHHH--HHHHHHHHH---H
Q 003295          576 GLCSLGKMEEAIELWEECKRTVFGPDIYTYGVMIDGFCKADKIEEGETLFNEMISKK-MELNPVV--YNTLIRAYC---K  649 (833)
Q Consensus       576 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~--~~~li~~~~---~  649 (833)
                      ..-+.|+.+.|.++-+.....- +--...+...+...|..|+|+.|+++++.-.... +.++..-  -..|+.+-.   -
T Consensus       163 eAqr~GareaAr~yAe~Aa~~A-p~l~WA~~AtLe~r~~~gdWd~AlkLvd~~~~~~vie~~~aeR~rAvLLtAkA~s~l  241 (531)
T COG3898         163 EAQRLGAREAARHYAERAAEKA-PQLPWAARATLEARCAAGDWDGALKLVDAQRAAKVIEKDVAERSRAVLLTAKAMSLL  241 (531)
T ss_pred             HHHhcccHHHHHHHHHHHHhhc-cCCchHHHHHHHHHHhcCChHHHHHHHHHHHHHHhhchhhHHHHHHHHHHHHHHHHh
Confidence            3446688888888777766542 2234567778888888888888888887765432 2233221  112222211   1


Q ss_pred             cCChHHHHHHHHHHHhCCCCCCHHHH-HHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCChhHHH-
Q 003295          650 IGNTTAAFRLSNDMKSRGILPTSVTY-SSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAE-  727 (833)
Q Consensus       650 ~g~~~~A~~~~~~m~~~~~~p~~~~~-~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~-  727 (833)
                      ..+...|...-.+..+.  .||..-- ..-..++.+.|++.++-.+++.+-+.  .|.+.++...  .+.+.|+..... 
T Consensus       242 dadp~~Ar~~A~~a~KL--~pdlvPaav~AAralf~d~~~rKg~~ilE~aWK~--ePHP~ia~lY--~~ar~gdta~dRl  315 (531)
T COG3898         242 DADPASARDDALEANKL--APDLVPAAVVAARALFRDGNLRKGSKILETAWKA--EPHPDIALLY--VRARSGDTALDRL  315 (531)
T ss_pred             cCChHHHHHHHHHHhhc--CCccchHHHHHHHHHHhccchhhhhhHHHHHHhc--CCChHHHHHH--HHhcCCCcHHHHH
Confidence            23455565555555443  5554432 23357788999999999999999986  4555544332  334566543221 


Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcC-CCHHHHHHHHHHHHHC
Q 003295          728 SVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISPDSITYNVFMDGHCKG-GNVEEAFKVCDRMLSE  806 (833)
Q Consensus       728 ~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~-g~~~~A~~~~~~m~~~  806 (833)
                      +-.+++.+.. +.|..+...+..+-...|++..|..--+....  ..|....|..|.+.-... |+-.++..++-+.++.
T Consensus       316 kRa~~L~slk-~nnaes~~~va~aAlda~e~~~ARa~Aeaa~r--~~pres~~lLlAdIeeAetGDqg~vR~wlAqav~A  392 (531)
T COG3898         316 KRAKKLESLK-PNNAESSLAVAEAALDAGEFSAARAKAEAAAR--EAPRESAYLLLADIEEAETGDQGKVRQWLAQAVKA  392 (531)
T ss_pred             HHHHHHHhcC-ccchHHHHHHHHHHHhccchHHHHHHHHHHhh--hCchhhHHHHHHHHHhhccCchHHHHHHHHHHhcC
Confidence            2222333321 33456777888888899999999888777776  578888898888877655 9999999999888875


Q ss_pred             CCCCC
Q 003295          807 GLSLD  811 (833)
Q Consensus       807 g~~p~  811 (833)
                      --.|+
T Consensus       393 PrdPa  397 (531)
T COG3898         393 PRDPA  397 (531)
T ss_pred             CCCCc
Confidence            44444

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=96.86  E-value=0.047  Score=53.87  Aligned_cols=116  Identities=15%  Similarity=0.099  Sum_probs=60.5

Q ss_pred             cCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcC---ChhHHHHHHHHHHhCCCCCCh
Q 003295          246 RGVSPDVFLFSTAINAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIHGLCRNG---RLYEAFHLKEKMVLREVEPSL  322 (833)
Q Consensus       246 ~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g---~~~~A~~~~~~m~~~~~~p~~  322 (833)
                      ...|.|...|-.|..+|...|++..|...|.+..+... +|...+..+..++....   .-.++..+|+++...+ +-|+
T Consensus       150 ~~nP~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~g-~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D-~~~i  227 (287)
T COG4235         150 QQNPGDAEGWDLLGRAYMALGRASDALLAYRNALRLAG-DNPEILLGLAEALYYQAGQQMTAKARALLRQALALD-PANI  227 (287)
T ss_pred             HhCCCCchhHHHHHHHHHHhcchhHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcC-CccH
Confidence            33455666666666666666666666666666655422 23444444444443221   2345566666666542 2344


Q ss_pred             hhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHH
Q 003295          323 ITYSILINGLIKLEKFDDANFVLKEMSVRGFVPNYVVYNTLID  365 (833)
Q Consensus       323 ~t~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~y~~li~  365 (833)
                      .+...|.-.+...|++.+|...++.|.+.  .|....+..+|.
T Consensus       228 ral~lLA~~afe~g~~~~A~~~Wq~lL~~--lp~~~~rr~~ie  268 (287)
T COG4235         228 RALSLLAFAAFEQGDYAEAAAAWQMLLDL--LPADDPRRSLIE  268 (287)
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHHHhc--CCCCCchHHHHH
Confidence            44444555566666666666666666654  233333444443

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=96.82  E-value=0.064  Score=46.09  Aligned_cols=55  Identities=20%  Similarity=0.225  Sum_probs=24.4

Q ss_pred             HHHhcCChhHHHHHHHHHHhCCCCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 003295          716 GYCKLGQMDEAESVLQEMASINIHPN--KITYTIMIGGYCKLGDMKEAAKLLNVMAE  770 (833)
Q Consensus       716 ~~~~~g~~~~A~~~~~~m~~~g~~p~--~~~~~~li~~~~~~g~~~~A~~~~~~m~~  770 (833)
                      ++-..|+.++|+.+|++..+.|....  ...+..+...+...|++++|..++++...
T Consensus        10 a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~   66 (120)
T PF12688_consen   10 AHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALE   66 (120)
T ss_pred             HHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            33344444444444444444443322  12333444444444555555555444443

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=96.78  E-value=0.058  Score=46.34  Aligned_cols=84  Identities=13%  Similarity=0.070  Sum_probs=44.2

Q ss_pred             ccCHHHHHHHHHHHHhCCCCCC--HHHHHHHHHHHHhcCChhHHHHHHHHhhcCCCC---CHHHHHHHHHHHHhcCChhH
Q 003295          196 NLGFGYAIDVFSIFSSKGIFPS--LKTCNFLLNSLVKANEVQKGIEVFETMCRGVSP---DVFLFSTAINAFCKRGRIED  270 (833)
Q Consensus       196 ~~~~~~A~~~f~~~~~~~~~p~--~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~---~~~~~~~li~~~~~~g~~~~  270 (833)
                      .|+.++|+..|++....|....  ...+-.+.+.+...|++++|..++++.....|.   +......+.-++...|+.++
T Consensus        14 ~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~p~~~~~~~l~~f~Al~L~~~gr~~e   93 (120)
T PF12688_consen   14 LGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEFPDDELNAALRVFLALALYNLGRPKE   93 (120)
T ss_pred             cCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHHCCCHHH
Confidence            4556666666666666555433  234445555666666666666666666532222   22222223335555666666


Q ss_pred             HHHHHHHHH
Q 003295          271 AIGLFTKME  279 (833)
Q Consensus       271 A~~~~~~m~  279 (833)
                      |++.+-...
T Consensus        94 Al~~~l~~l  102 (120)
T PF12688_consen   94 ALEWLLEAL  102 (120)
T ss_pred             HHHHHHHHH
Confidence            666655544

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=96.74  E-value=0.15  Score=49.22  Aligned_cols=167  Identities=18%  Similarity=0.183  Sum_probs=81.8

Q ss_pred             HHHHHHhcCChhHHHHHHHHhhcCC---CCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhc
Q 003295          224 LLNSLVKANEVQKGIEVFETMCRGV---SPDVFLFSTAINAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIHGLCRN  300 (833)
Q Consensus       224 ll~~~~~~g~~~~A~~~~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~  300 (833)
                      ....+.+.|++.+|...|+.+....   +--..+...++.++.+.|++++|...|++..+.-+......+...+.|.+.-
T Consensus        11 ~a~~~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~yP~~~~~~~A~Y~~g~~~~   90 (203)
T PF13525_consen   11 KALEALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKLYPNSPKADYALYMLGLSYY   90 (203)
T ss_dssp             HHHHHHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-TT-TTHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhhHHHHHHHHHH
Confidence            3344556777777777777776212   2223445566777777777777777777776653322222233333332211


Q ss_pred             -------------CChhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHH
Q 003295          301 -------------GRLYEAFHLKEKMVLREVEPSLITYSILINGLIKLEKFDDANFVLKEMSVRGFVPNYVVYNTLIDGY  367 (833)
Q Consensus       301 -------------g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~y~~li~~~  367 (833)
                                   +...+|...|+.++..               |=...-..+|...+.++...    =...-..+...|
T Consensus        91 ~~~~~~~~~~~D~~~~~~A~~~~~~li~~---------------yP~S~y~~~A~~~l~~l~~~----la~~e~~ia~~Y  151 (203)
T PF13525_consen   91 KQIPGILRSDRDQTSTRKAIEEFEELIKR---------------YPNSEYAEEAKKRLAELRNR----LAEHELYIARFY  151 (203)
T ss_dssp             HHHHHHH-TT---HHHHHHHHHHHHHHHH----------------TTSTTHHHHHHHHHHHHHH----HHHHHHHHHHHH
T ss_pred             HhCccchhcccChHHHHHHHHHHHHHHHH---------------CcCchHHHHHHHHHHHHHHH----HHHHHHHHHHHH
Confidence                         1223344444444332               22233334444444443321    011112345667


Q ss_pred             HHcCChHHHHHHHHHHHhCCCCCCh----hHHHHHHHHHHhcCChhHH
Q 003295          368 CKKGNISEALKIRDDMVSKGMSPNS----VTFNSLIHGFCKSGQMDNA  411 (833)
Q Consensus       368 ~~~g~~~~A~~~~~~m~~~g~~p~~----~~~~~li~~~~~~g~~~~A  411 (833)
                      .+.|.+..|..-++.+++.  -|+.    .....++..|.+.|..+.|
T Consensus       152 ~~~~~y~aA~~r~~~v~~~--yp~t~~~~~al~~l~~~y~~l~~~~~a  197 (203)
T PF13525_consen  152 YKRGKYKAAIIRFQYVIEN--YPDTPAAEEALARLAEAYYKLGLKQAA  197 (203)
T ss_dssp             HCTT-HHHHHHHHHHHHHH--STTSHHHHHHHHHHHHHHHHTT-HHHH
T ss_pred             HHcccHHHHHHHHHHHHHH--CCCCchHHHHHHHHHHHHHHhCChHHH
Confidence            7777777777777777765  2332    2345566666666665543

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.65  E-value=0.32  Score=46.64  Aligned_cols=131  Identities=12%  Similarity=0.063  Sum_probs=78.0

Q ss_pred             HHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHH-----H
Q 003295          535 YNTLILGCCKDGKPEEGFKLKEDMIKRGIQPDNYTYNLLLHGLCSLGKMEEAIELWEECKRTVFGPDIYTYGVM-----I  609 (833)
Q Consensus       535 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l-----i  609 (833)
                      .+.++..+.-.|.+.-...++.+.++...+-++.....+++.-.+.|+.+.|...|++..+..-..|..+.+.+     .
T Consensus       180 my~~~~~llG~kEy~iS~d~~~~vi~~~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~~~kL~~~q~~~~V~~n~a  259 (366)
T KOG2796|consen  180 MYSMANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKVTQKLDGLQGKIMVLMNSA  259 (366)
T ss_pred             HHHHHHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhhhhccchhHHHHhhhh
Confidence            34455555556666677777777777665566677777777777777777777777765543323333333332     2


Q ss_pred             HHHHccCCHHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHhC
Q 003295          610 DGFCKADKIEEGETLFNEMISKKMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSR  666 (833)
Q Consensus       610 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  666 (833)
                      ..|.-++++.+|...+.++...... |++.-|.-.-+..-.|+...|++..+.|...
T Consensus       260 ~i~lg~nn~a~a~r~~~~i~~~D~~-~~~a~NnKALcllYlg~l~DAiK~~e~~~~~  315 (366)
T KOG2796|consen  260 FLHLGQNNFAEAHRFFTEILRMDPR-NAVANNNKALCLLYLGKLKDALKQLEAMVQQ  315 (366)
T ss_pred             hheecccchHHHHHHHhhccccCCC-chhhhchHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            3344556666666666666655433 4555554444444456666666666666655

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.59  E-value=0.9  Score=51.03  Aligned_cols=117  Identities=15%  Similarity=0.220  Sum_probs=58.1

Q ss_pred             HHHHHHHHhcCChhHHHHHHHHhhcCCCCC--HHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHh
Q 003295          222 NFLLNSLVKANEVQKGIEVFETMCRGVSPD--VFLFSTAINAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIHGLCR  299 (833)
Q Consensus       222 ~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~--~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~  299 (833)
                      -.-++.+.+...++.|..+-+.-.  ..++  .........-+.+.|++++|...|-+-... ++|.     -+|.-|..
T Consensus       338 e~kL~iL~kK~ly~~Ai~LAk~~~--~d~d~~~~i~~kYgd~Ly~Kgdf~~A~~qYI~tI~~-le~s-----~Vi~kfLd  409 (933)
T KOG2114|consen  338 ETKLDILFKKNLYKVAINLAKSQH--LDEDTLAEIHRKYGDYLYGKGDFDEATDQYIETIGF-LEPS-----EVIKKFLD  409 (933)
T ss_pred             HHHHHHHHHhhhHHHHHHHHHhcC--CCHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHccc-CChH-----HHHHHhcC
Confidence            344555566666666665554432  1111  112222333344566666666666555432 1221     23444445


Q ss_pred             cCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHH
Q 003295          300 NGRLYEAFHLKEKMVLREVEPSLITYSILINGLIKLEKFDDANFVLKE  347 (833)
Q Consensus       300 ~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~  347 (833)
                      ..++.+-..+++.+.+.|+. +..--+.|+.+|.+.++.++-.+..+.
T Consensus       410 aq~IknLt~YLe~L~~~gla-~~dhttlLLncYiKlkd~~kL~efI~~  456 (933)
T KOG2114|consen  410 AQRIKNLTSYLEALHKKGLA-NSDHTTLLLNCYIKLKDVEKLTEFISK  456 (933)
T ss_pred             HHHHHHHHHHHHHHHHcccc-cchhHHHHHHHHHHhcchHHHHHHHhc
Confidence            55555555666666665543 333335566666666666655444443

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=96.53  E-value=0.032  Score=55.70  Aligned_cols=84  Identities=13%  Similarity=0.070  Sum_probs=39.6

Q ss_pred             HhcCChhHHHHHHHHHHhCCCCCCH----HHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC----HHHHHHHHHHHhc
Q 003295          718 CKLGQMDEAESVLQEMASINIHPNK----ITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISPD----SITYNVFMDGHCK  789 (833)
Q Consensus       718 ~~~g~~~~A~~~~~~m~~~g~~p~~----~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~----~~~~~~l~~~~~~  789 (833)
                      .+.|++++|...|+.+++.  .|+.    ..+..++..|...|++++|...|+.+++.  .|+    ...+..++..+..
T Consensus       154 ~~~~~y~~Ai~af~~fl~~--yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~--yP~s~~~~dAl~klg~~~~~  229 (263)
T PRK10803        154 QDKSRQDDAIVAFQNFVKK--YPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKN--YPKSPKAADAMFKVGVIMQD  229 (263)
T ss_pred             HhcCCHHHHHHHHHHHHHH--CcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CCCCcchhHHHHHHHHHHHH
Confidence            3345555555555555442  1221    24444555555555555555555555542  121    2334444444555


Q ss_pred             CCCHHHHHHHHHHHHH
Q 003295          790 GGNVEEAFKVCDRMLS  805 (833)
Q Consensus       790 ~g~~~~A~~~~~~m~~  805 (833)
                      .|+.++|.++++++++
T Consensus       230 ~g~~~~A~~~~~~vi~  245 (263)
T PRK10803        230 KGDTAKAKAVYQQVIK  245 (263)
T ss_pred             cCCHHHHHHHHHHHHH
Confidence            5555555555555554

>PRK15331 chaperone protein SicA; Provisional

Probab=96.47  E-value=0.11  Score=46.63  Aligned_cols=90  Identities=12%  Similarity=-0.015  Sum_probs=67.0

Q ss_pred             HHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCCH
Q 003295          714 IGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISPDSITYNVFMDGHCKGGNV  793 (833)
Q Consensus       714 i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~  793 (833)
                      ..-+...|++++|..+|+-+.-.+ +-|..-|..|..++-..+++++|+..|..+...+ .-|+..+-..+.++...|+.
T Consensus        44 Ay~~y~~Gk~~eA~~~F~~L~~~d-~~n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~-~~dp~p~f~agqC~l~l~~~  121 (165)
T PRK15331         44 AYEFYNQGRLDEAETFFRFLCIYD-FYNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLL-KNDYRPVFFTGQCQLLMRKA  121 (165)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhC-cCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc-cCCCCccchHHHHHHHhCCH
Confidence            344456788888888888877654 4466667778888888888888888888776643 23555666777888888888


Q ss_pred             HHHHHHHHHHHH
Q 003295          794 EEAFKVCDRMLS  805 (833)
Q Consensus       794 ~~A~~~~~~m~~  805 (833)
                      ++|..-|+...+
T Consensus       122 ~~A~~~f~~a~~  133 (165)
T PRK15331        122 AKARQCFELVNE  133 (165)
T ss_pred             HHHHHHHHHHHh
Confidence            888888888877

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=96.44  E-value=0.31  Score=46.99  Aligned_cols=58  Identities=16%  Similarity=0.104  Sum_probs=29.8

Q ss_pred             HHHHhcCCHHHHHHHHHHHHHCCCC--CCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCC
Q 003295          470 SGLCKNGKQAEATELCFRLFEKGFT--VNTVTSNALIHGMCEAGNLKEAGKLLMEMLQRG  527 (833)
Q Consensus       470 ~~~~~~g~~~~A~~~~~~~~~~g~~--~~~~~~~~li~~~~~~g~~~~A~~~l~~m~~~g  527 (833)
                      ..+...|++++|...|+.+...-+.  --....-.++.++.+.|++++|...+++..+.-
T Consensus        13 ~~~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~y   72 (203)
T PF13525_consen   13 LEALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKLY   72 (203)
T ss_dssp             HHHHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-
T ss_pred             HHHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC
Confidence            3445556666666666665554211  112344455566666666666666666666553

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=96.25  E-value=0.06  Score=53.76  Aligned_cols=87  Identities=9%  Similarity=-0.001  Sum_probs=38.7

Q ss_pred             HhcCChhHHHHHHHHhhcCCCCC---HHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCC--CChhhHHHHHHHHHhcCCh
Q 003295          229 VKANEVQKGIEVFETMCRGVSPD---VFLFSTAINAFCKRGRIEDAIGLFTKMEELGIA--PNVVTYNNIIHGLCRNGRL  303 (833)
Q Consensus       229 ~~~g~~~~A~~~~~~~~~~~~~~---~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~--p~~~~~~~li~~~~~~g~~  303 (833)
                      .+.|++++|...|+.++...|.+   ..++..+..+|...|++++|...|+.+.+.-+.  .....+-.++..+...|+.
T Consensus       154 ~~~~~y~~Ai~af~~fl~~yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~klg~~~~~~g~~  233 (263)
T PRK10803        154 QDKSRQDDAIVAFQNFVKKYPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFKVGVIMQDKGDT  233 (263)
T ss_pred             HhcCCHHHHHHHHHHHHHHCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHHHHHHHHHcCCH
Confidence            44455555555555555222222   123444555555555555555555555543111  0012222233344445555


Q ss_pred             hHHHHHHHHHHh
Q 003295          304 YEAFHLKEKMVL  315 (833)
Q Consensus       304 ~~A~~~~~~m~~  315 (833)
                      ++|...|++..+
T Consensus       234 ~~A~~~~~~vi~  245 (263)
T PRK10803        234 AKAKAVYQQVIK  245 (263)
T ss_pred             HHHHHHHHHHHH
Confidence            555555555544

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=96.22  E-value=0.027  Score=43.74  Aligned_cols=54  Identities=24%  Similarity=0.191  Sum_probs=24.9

Q ss_pred             HHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHH
Q 003295          751 GYCKLGDMKEAAKLLNVMAEKGISPDSITYNVFMDGHCKGGNVEEAFKVCDRMLS  805 (833)
Q Consensus       751 ~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  805 (833)
                      .|.+.+++++|.+.+++++..+ +.+...+...+..+.+.|++++|.+.+++.++
T Consensus         4 ~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~   57 (73)
T PF13371_consen    4 IYLQQEDYEEALEVLERALELD-PDDPELWLQRARCLFQLGRYEEALEDLERALE   57 (73)
T ss_pred             HHHhCCCHHHHHHHHHHHHHhC-cccchhhHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            3444445555555555544421 11334444444445555555555555555444

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=96.22  E-value=0.027  Score=43.79  Aligned_cols=56  Identities=20%  Similarity=0.164  Sum_probs=37.8

Q ss_pred             HHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 003295          715 GGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAEK  771 (833)
Q Consensus       715 ~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  771 (833)
                      ..|.+.+++++|.+.++++...+ +.+...|.....++.+.|++++|.+.+++.++.
T Consensus         3 ~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~   58 (73)
T PF13371_consen    3 QIYLQQEDYEEALEVLERALELD-PDDPELWLQRARCLFQLGRYEEALEDLERALEL   58 (73)
T ss_pred             HHHHhCCCHHHHHHHHHHHHHhC-cccchhhHHHHHHHHHhccHHHHHHHHHHHHHH
Confidence            45666777777777777777653 445556666777777777777777777777763

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=96.22  E-value=1.8  Score=44.66  Aligned_cols=110  Identities=20%  Similarity=0.222  Sum_probs=82.3

Q ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHH
Q 003295          639 VYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYC  718 (833)
Q Consensus       639 ~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~  718 (833)
                      +.+..|.-+...|+...|.++-++.   . .|+..-|...+.+++..++|++-.++...    .  -.+.-|...+.+|.
T Consensus       179 Sl~~Ti~~li~~~~~k~A~kl~k~F---k-v~dkrfw~lki~aLa~~~~w~eL~~fa~s----k--KsPIGyepFv~~~~  248 (319)
T PF04840_consen  179 SLNDTIRKLIEMGQEKQAEKLKKEF---K-VPDKRFWWLKIKALAENKDWDELEKFAKS----K--KSPIGYEPFVEACL  248 (319)
T ss_pred             CHHHHHHHHHHCCCHHHHHHHHHHc---C-CcHHHHHHHHHHHHHhcCCHHHHHHHHhC----C--CCCCChHHHHHHHH
Confidence            4455566677788888887776655   2 47888899999999999999887765432    1  23467888999999


Q ss_pred             hcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 003295          719 KLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVM  768 (833)
Q Consensus       719 ~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m  768 (833)
                      +.|+..+|..++.++     +     +..-+..|.+.|++.+|.+..-+.
T Consensus       249 ~~~~~~eA~~yI~k~-----~-----~~~rv~~y~~~~~~~~A~~~A~~~  288 (319)
T PF04840_consen  249 KYGNKKEASKYIPKI-----P-----DEERVEMYLKCGDYKEAAQEAFKE  288 (319)
T ss_pred             HCCCHHHHHHHHHhC-----C-----hHHHHHHHHHCCCHHHHHHHHHHc
Confidence            999999999888772     2     245677888999999998775543

Vps16 is essential for vacuolar protein sorting, which is essential for viability in plants, but not yeast []. The Class C Vps complex is required for SNARE-mediated membrane fusion at the lysosome-like yeast vacuole. It is thought to play essential roles in membrane docking and fusion at the Golgi-to-endosome and endosome-to-vacuole stages of transport []. The role of VPS16 in this complex is not known.; GO: 0006886 intracellular protein transport, 0005737 cytoplasm

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=96.21  E-value=1.7  Score=44.38  Aligned_cols=219  Identities=17%  Similarity=0.107  Sum_probs=105.2

Q ss_pred             HhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCC-CCCCHHHH--HHHHHHHH---hcC
Q 003295          473 CKNGKQAEATELCFRLFEKGFTVNTVTSNALIHGMCEAGNLKEAGKLLMEMLQRG-LILDKVTY--NTLILGCC---KDG  546 (833)
Q Consensus       473 ~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~l~~m~~~g-~~~~~~~~--~~li~~~~---~~g  546 (833)
                      .+.|..+.|..+-+...+.-. .-...+...+...|..|+++.|+++++.-.+.. +.++..--  ..|+.+-.   -..
T Consensus       165 qr~GareaAr~yAe~Aa~~Ap-~l~WA~~AtLe~r~~~gdWd~AlkLvd~~~~~~vie~~~aeR~rAvLLtAkA~s~lda  243 (531)
T COG3898         165 QRLGAREAARHYAERAAEKAP-QLPWAARATLEARCAAGDWDGALKLVDAQRAAKVIEKDVAERSRAVLLTAKAMSLLDA  243 (531)
T ss_pred             HhcccHHHHHHHHHHHHhhcc-CCchHHHHHHHHHHhcCChHHHHHHHHHHHHHHhhchhhHHHHHHHHHHHHHHHHhcC
Confidence            455666666666666555422 234567778888888888888888887765542 22222211  11221111   112


Q ss_pred             ChhhHHHHHHHHHHCCCCCCHHHH-HHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHccCCHHHH-HHH
Q 003295          547 KPEEGFKLKEDMIKRGIQPDNYTY-NLLLHGLCSLGKMEEAIELWEECKRTVFGPDIYTYGVMIDGFCKADKIEEG-ETL  624 (833)
Q Consensus       547 ~~~~A~~~~~~m~~~g~~p~~~~~-~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A-~~~  624 (833)
                      +...|...-.+..+  +.||..-- ..-..++.+.|+..++-.+++.+-+....|++  +  .+..+.+.|+.... .+-
T Consensus       244 dp~~Ar~~A~~a~K--L~pdlvPaav~AAralf~d~~~rKg~~ilE~aWK~ePHP~i--a--~lY~~ar~gdta~dRlkR  317 (531)
T COG3898         244 DPASARDDALEANK--LAPDLVPAAVVAARALFRDGNLRKGSKILETAWKAEPHPDI--A--LLYVRARSGDTALDRLKR  317 (531)
T ss_pred             ChHHHHHHHHHHhh--cCCccchHHHHHHHHHHhccchhhhhhHHHHHHhcCCChHH--H--HHHHHhcCCCcHHHHHHH
Confidence            33344444333333  23333221 12234566666666666666666665333332  2  11223344432211 111


Q ss_pred             HHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh-cCCHHHHHHHHHHHHHC
Q 003295          625 FNEMISKKMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCN-IGLIEDAKCLFDEMRKE  701 (833)
Q Consensus       625 ~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~-~g~~~~A~~~~~~m~~~  701 (833)
                      ...+...... +......+..+-...|++..|..--+.....  .|....|..|.+.-.. .|+-.++..++.+..+.
T Consensus       318 a~~L~slk~n-naes~~~va~aAlda~e~~~ARa~Aeaa~r~--~pres~~lLlAdIeeAetGDqg~vR~wlAqav~A  392 (531)
T COG3898         318 AKKLESLKPN-NAESSLAVAEAALDAGEFSAARAKAEAAARE--APRESAYLLLADIEEAETGDQGKVRQWLAQAVKA  392 (531)
T ss_pred             HHHHHhcCcc-chHHHHHHHHHHHhccchHHHHHHHHHHhhh--CchhhHHHHHHHHHhhccCchHHHHHHHHHHhcC
Confidence            1111111111 4444555555555566666655555544433  4555555555554433 36666666666666553

>PF03704 BTAD: Bacterial transcriptional activator domain; InterPro: IPR005158 Found in the DNRI/REDD/AFSR family of regulators, this region of AFSR (P25941 from SWISSPROT) along with the C-terminal region is capable of independently directing actinorhodin production

Probab=96.21  E-value=0.15  Score=46.14  Aligned_cols=56  Identities=25%  Similarity=0.357  Sum_probs=25.1

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHH
Q 003295          747 IMIGGYCKLGDMKEAAKLLNVMAEKGISPDSITYNVFMDGHCKGGNVEEAFKVCDRM  803 (833)
Q Consensus       747 ~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m  803 (833)
                      .++..+...|++++|....++++... +-|...|..++.+|...|+..+|.++|+++
T Consensus        67 ~l~~~~~~~~~~~~a~~~~~~~l~~d-P~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~  122 (146)
T PF03704_consen   67 RLAEALLEAGDYEEALRLLQRALALD-PYDEEAYRLLMRALAAQGRRAEALRVYERY  122 (146)
T ss_dssp             HHHHHHHHTT-HHHHHHHHHHHHHHS-TT-HHHHHHHHHHHHHTT-HHHHHHHHHHH
T ss_pred             HHHHHHHhccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHH
Confidence            34444444555555555555554421 113444555555555555555555554444

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>PF13424 TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 4A1S_B 3CEQ_B 3EDT_H

Probab=96.13  E-value=0.024  Score=44.79  Aligned_cols=63  Identities=22%  Similarity=0.273  Sum_probs=37.1

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHc--CCCC---C-HHHHHHHHHHHhcCCCHHHHHHHHHHHHH
Q 003295          743 ITYTIMIGGYCKLGDMKEAAKLLNVMAEK--GISP---D-SITYNVFMDGHCKGGNVEEAFKVCDRMLS  805 (833)
Q Consensus       743 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~--g~~p---~-~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  805 (833)
                      .+|+.+...|...|++++|++.++++++.  ...+   + ..++..++..+...|++++|++++++..+
T Consensus         6 ~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~   74 (78)
T PF13424_consen    6 NAYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKALD   74 (78)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            35566666666666666666666666542  0111   1 34566667777777777777777666553

...

>PRK15331 chaperone protein SicA; Provisional

Probab=96.11  E-value=0.078  Score=47.58  Aligned_cols=88  Identities=10%  Similarity=0.003  Sum_probs=52.0

Q ss_pred             HhhhccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHH
Q 003295          192 TQFKNLGFGYAIDVFSIFSSKGIFPSLKTCNFLLNSLVKANEVQKGIEVFETMCRGVSPDVFLFSTAINAFCKRGRIEDA  271 (833)
Q Consensus       192 ~~~~~~~~~~A~~~f~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A  271 (833)
                      ..+..|++++|..+|+.+...++. +..-|..|..++...+++++|...|.....-.+.|...+--...+|...|+.++|
T Consensus        46 ~~y~~Gk~~eA~~~F~~L~~~d~~-n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~~~dp~p~f~agqC~l~l~~~~~A  124 (165)
T PRK15331         46 EFYNQGRLDEAETFFRFLCIYDFY-NPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLKNDYRPVFFTGQCQLLMRKAAKA  124 (165)
T ss_pred             HHHHCCCHHHHHHHHHHHHHhCcC-cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccCCCCccchHHHHHHHhCCHHHH
Confidence            344566677777777666555544 4555666666666666677776666665521123333334466666666666666


Q ss_pred             HHHHHHHHH
Q 003295          272 IGLFTKMEE  280 (833)
Q Consensus       272 ~~~~~~m~~  280 (833)
                      +..|+....
T Consensus       125 ~~~f~~a~~  133 (165)
T PRK15331        125 RQCFELVNE  133 (165)
T ss_pred             HHHHHHHHh
Confidence            666666665

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=96.00  E-value=1.4  Score=45.88  Aligned_cols=28  Identities=11%  Similarity=0.103  Sum_probs=18.2

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 003295          744 TYTIMIGGYCKLGDMKEAAKLLNVMAEK  771 (833)
Q Consensus       744 ~~~~li~~~~~~g~~~~A~~~~~~m~~~  771 (833)
                      .+.+++.++.-.|++++|.+..++|...
T Consensus       307 d~ATl~Ea~vL~~d~~ka~~a~e~~~~l  334 (374)
T PF13281_consen  307 DVATLLEASVLAGDYEKAIQAAEKAFKL  334 (374)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHhhc
Confidence            4455666666677777777777777653

>PF03704 BTAD: Bacterial transcriptional activator domain; InterPro: IPR005158 Found in the DNRI/REDD/AFSR family of regulators, this region of AFSR (P25941 from SWISSPROT) along with the C-terminal region is capable of independently directing actinorhodin production

Probab=95.99  E-value=0.16  Score=46.00  Aligned_cols=69  Identities=25%  Similarity=0.328  Sum_probs=33.7

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHH-----hCCCCCChhh
Q 003295          255 FSTAINAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIHGLCRNGRLYEAFHLKEKMV-----LREVEPSLIT  324 (833)
Q Consensus       255 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~-----~~~~~p~~~t  324 (833)
                      ...++..+...|++++|..+..++....+. |...|..+|.+|.+.|+..+|.+.|+++.     +.|+.|+..+
T Consensus        65 ~~~l~~~~~~~~~~~~a~~~~~~~l~~dP~-~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~  138 (146)
T PF03704_consen   65 LERLAEALLEAGDYEEALRLLQRALALDPY-DEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPET  138 (146)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHHHHHSTT--HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHH
T ss_pred             HHHHHHHHHhccCHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHH
Confidence            334555555566666666666665554322 45556666666666666666666655553     2355555544

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=95.95  E-value=2.7  Score=47.46  Aligned_cols=143  Identities=14%  Similarity=0.152  Sum_probs=100.6

Q ss_pred             HHHHHhcCChhHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChh
Q 003295          225 LNSLVKANEVQKGIEVFETMCRGVSPDVFLFSTAINAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIHGLCRNGRLY  304 (833)
Q Consensus       225 l~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~  304 (833)
                      .+-+.+.|++++|...|-+...-..|.     -+|.-|....++.+-...++.+.+.|.. +..--..|+.+|.+.++.+
T Consensus       375 gd~Ly~Kgdf~~A~~qYI~tI~~le~s-----~Vi~kfLdaq~IknLt~YLe~L~~~gla-~~dhttlLLncYiKlkd~~  448 (933)
T KOG2114|consen  375 GDYLYGKGDFDEATDQYIETIGFLEPS-----EVIKKFLDAQRIKNLTSYLEALHKKGLA-NSDHTTLLLNCYIKLKDVE  448 (933)
T ss_pred             HHHHHhcCCHHHHHHHHHHHcccCChH-----HHHHHhcCHHHHHHHHHHHHHHHHcccc-cchhHHHHHHHHHHhcchH
Confidence            445668899999999998887444443     2677778888889999999999999876 6677788999999999999


Q ss_pred             HHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHHcCChHHHHHHHHHHH
Q 003295          305 EAFHLKEKMVLREVEPSLITYSILINGLIKLEKFDDANFVLKEMSVRGFVPNYVVYNTLIDGYCKKGNISEALKIRDDMV  384 (833)
Q Consensus       305 ~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~A~~~~~~m~  384 (833)
                      +-.++.+.-. .|.-  ..-....+..+.+.+-.++|..+-.....     +......+   +-..|++++|++.+..+.
T Consensus       449 kL~efI~~~~-~g~~--~fd~e~al~Ilr~snyl~~a~~LA~k~~~-----he~vl~il---le~~~ny~eAl~yi~slp  517 (933)
T KOG2114|consen  449 KLTEFISKCD-KGEW--FFDVETALEILRKSNYLDEAELLATKFKK-----HEWVLDIL---LEDLHNYEEALRYISSLP  517 (933)
T ss_pred             HHHHHHhcCC-Ccce--eeeHHHHHHHHHHhChHHHHHHHHHHhcc-----CHHHHHHH---HHHhcCHHHHHHHHhcCC
Confidence            8877765543 2211  11234556666677777777666555432     23333333   346789999999987764

>KOG1258 consensus mRNA processing protein [RNA processing and modification]

Probab=95.90  E-value=3.4  Score=45.02  Aligned_cols=187  Identities=12%  Similarity=0.051  Sum_probs=101.3

Q ss_pred             CHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 003295          601 DIYTYGVMIDGFCKADKIEEGETLFNEMISKKMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIH  680 (833)
Q Consensus       601 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~  680 (833)
                      +..+|...++.-.+.|+.+.+.-+|+...--- ..-...|-..+.-....|+.+-|..++....+-.++-...+-..-..
T Consensus       296 ql~nw~~yLdf~i~~g~~~~~~~l~ercli~c-A~Y~efWiky~~~m~~~~~~~~~~~~~~~~~~i~~k~~~~i~L~~a~  374 (577)
T KOG1258|consen  296 QLKNWRYYLDFEITLGDFSRVFILFERCLIPC-ALYDEFWIKYARWMESSGDVSLANNVLARACKIHVKKTPIIHLLEAR  374 (577)
T ss_pred             HHHHHHHHhhhhhhcccHHHHHHHHHHHHhHH-hhhHHHHHHHHHHHHHcCchhHHHHHHHhhhhhcCCCCcHHHHHHHH
Confidence            35567777777777788877777777765321 11233444445444555777777766666555433322222221222


Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCCCChh-HHHHHHHHHHhcCChhHHH---HHHHHHHhCCCCCCH--HHHHHHHHH-HH
Q 003295          681 GLCNIGLIEDAKCLFDEMRKEGLLPNVA-CYTALIGGYCKLGQMDEAE---SVLQEMASINIHPNK--ITYTIMIGG-YC  753 (833)
Q Consensus       681 ~~~~~g~~~~A~~~~~~m~~~g~~p~~~-~~~~li~~~~~~g~~~~A~---~~~~~m~~~g~~p~~--~~~~~li~~-~~  753 (833)
                      ..-..|+...|..+++...+. . |+.+ .-..-+....+.|+.+.+.   +++....+....+..  ..+....+- +.
T Consensus       375 f~e~~~n~~~A~~~lq~i~~e-~-pg~v~~~l~~~~~e~r~~~~~~~~~~~~l~s~~~~~~~~~~i~~~l~~~~~r~~~~  452 (577)
T KOG1258|consen  375 FEESNGNFDDAKVILQRIESE-Y-PGLVEVVLRKINWERRKGNLEDANYKNELYSSIYEGKENNGILEKLYVKFARLRYK  452 (577)
T ss_pred             HHHhhccHHHHHHHHHHHHhh-C-CchhhhHHHHHhHHHHhcchhhhhHHHHHHHHhcccccCcchhHHHHHHHHHHHHH
Confidence            233467888888888888776 2 5432 2223345556677777777   333333221111111  111111111 33


Q ss_pred             hcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCC
Q 003295          754 KLGDMKEAAKLLNVMAEKGISPDSITYNVFMDGHCKGG  791 (833)
Q Consensus       754 ~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g  791 (833)
                      -.++.+.|..++.++.+. .+++...|..+++.+...+
T Consensus       453 i~~d~~~a~~~l~~~~~~-~~~~k~~~~~~~~~~~~~~  489 (577)
T KOG1258|consen  453 IREDADLARIILLEANDI-LPDCKVLYLELIRFELIQP  489 (577)
T ss_pred             HhcCHHHHHHHHHHhhhc-CCccHHHHHHHHHHHHhCC
Confidence            456778888888888774 3445566777776665554

>PRK11906 transcriptional regulator; Provisional

Probab=95.85  E-value=0.38  Score=50.88  Aligned_cols=145  Identities=10%  Similarity=0.031  Sum_probs=99.5

Q ss_pred             ChHHHHHHHHHHHhC-CCCCC-HHHHHHHHHHHHh---------cCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhc
Q 003295          652 NTTAAFRLSNDMKSR-GILPT-SVTYSSLIHGLCN---------IGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKL  720 (833)
Q Consensus       652 ~~~~A~~~~~~m~~~-~~~p~-~~~~~~li~~~~~---------~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~  720 (833)
                      ..+.|+.+|.+.... .+.|+ ...|..+..++..         .....+|.++-++..+.+ +-|......+..++.-.
T Consensus       273 ~~~~Al~lf~ra~~~~~ldp~~a~a~~~lA~~h~~~~~~g~~~~~~~~~~a~~~A~rAveld-~~Da~a~~~~g~~~~~~  351 (458)
T PRK11906        273 SIYRAMTIFDRLQNKSDIQTLKTECYCLLAECHMSLALHGKSELELAAQKALELLDYVSDIT-TVDGKILAIMGLITGLS  351 (458)
T ss_pred             HHHHHHHHHHHHhhcccCCcccHHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHhh
Confidence            356788889888832 23443 3445544444322         223556777788888764 45777777888877888


Q ss_pred             CChhHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCH---HHHHHHHHHHhcCCCHHHH
Q 003295          721 GQMDEAESVLQEMASINIHPN-KITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISPDS---ITYNVFMDGHCKGGNVEEA  796 (833)
Q Consensus       721 g~~~~A~~~~~~m~~~g~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~---~~~~~l~~~~~~~g~~~~A  796 (833)
                      |+++.|...|++....  .|| ..+|......+.-.|+.++|.+.+++..+  +.|..   ......++.|+..+ .++|
T Consensus       352 ~~~~~a~~~f~rA~~L--~Pn~A~~~~~~~~~~~~~G~~~~a~~~i~~alr--LsP~~~~~~~~~~~~~~~~~~~-~~~~  426 (458)
T PRK11906        352 GQAKVSHILFEQAKIH--STDIASLYYYRALVHFHNEKIEEARICIDKSLQ--LEPRRRKAVVIKECVDMYVPNP-LKNN  426 (458)
T ss_pred             cchhhHHHHHHHHhhc--CCccHHHHHHHHHHHHHcCCHHHHHHHHHHHhc--cCchhhHHHHHHHHHHHHcCCc-hhhh
Confidence            8899999999999885  455 55777778888889999999999999887  45643   33444555676654 5777


Q ss_pred             HHHHHH
Q 003295          797 FKVCDR  802 (833)
Q Consensus       797 ~~~~~~  802 (833)
                      ++++-+
T Consensus       427 ~~~~~~  432 (458)
T PRK11906        427 IKLYYK  432 (458)
T ss_pred             HHHHhh
Confidence            777643

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=95.78  E-value=2.1  Score=41.76  Aligned_cols=194  Identities=20%  Similarity=0.160  Sum_probs=80.4

Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHHC-CCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHHHHHHHHH-HHH
Q 003295          606 GVMIDGFCKADKIEEGETLFNEMISK-KMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIH-GLC  683 (833)
Q Consensus       606 ~~li~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~-~~~  683 (833)
                      ......+...+.+..+...+...... ........+......+...++...+.+.+.........+ ......... .+.
T Consensus        63 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~  141 (291)
T COG0457          63 LLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEALELLEKALALDPDP-DLAEALLALGALY  141 (291)
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHHHHHHHHHcCCCCc-chHHHHHHHHHHH
Confidence            33334444444444444444443321 111233333334444444444444444444444332111 111111111 344


Q ss_pred             hcCCHHHHHHHHHHHHHCCCCC----ChhHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHhcCCH
Q 003295          684 NIGLIEDAKCLFDEMRKEGLLP----NVACYTALIGGYCKLGQMDEAESVLQEMASINIHP-NKITYTIMIGGYCKLGDM  758 (833)
Q Consensus       684 ~~g~~~~A~~~~~~m~~~g~~p----~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~  758 (833)
                      ..|++++|...+.+....  .|    ....+......+...++.++|...+.+..... +. ....+..+...+...+++
T Consensus       142 ~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~  218 (291)
T COG0457         142 ELGDYEEALELYEKALEL--DPELNELAEALLALGALLEALGRYEEALELLEKALKLN-PDDDAEALLNLGLLYLKLGKY  218 (291)
T ss_pred             HcCCHHHHHHHHHHHHhc--CCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHHhhC-cccchHHHHHhhHHHHHcccH
Confidence            555555555555554331  11    11222222222344455555555555555431 22 234455555555555555


Q ss_pred             HHHHHHHHHHHHcCCCCC-HHHHHHHHHHHhcCCCHHHHHHHHHHHHH
Q 003295          759 KEAAKLLNVMAEKGISPD-SITYNVFMDGHCKGGNVEEAFKVCDRMLS  805 (833)
Q Consensus       759 ~~A~~~~~~m~~~g~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  805 (833)
                      ++|...+......  .|+ ...+..+...+...|..+++...+.+...
T Consensus       219 ~~a~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  264 (291)
T COG0457         219 EEALEYYEKALEL--DPDNAEALYNLALLLLELGRYEEALEALEKALE  264 (291)
T ss_pred             HHHHHHHHHHHhh--CcccHHHHhhHHHHHHHcCCHHHHHHHHHHHHH
Confidence            5555555555542  222 23333333333344445555555555444

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=95.78  E-value=2.8  Score=49.33  Aligned_cols=79  Identities=23%  Similarity=0.260  Sum_probs=38.2

Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCChhh
Q 003295          471 GLCKNGKQAEATELCFRLFEKGFTVNTVTSNALIHGMCEAGNLKEAGKLLMEMLQRGLILDKVTYNTLILGCCKDGKPEE  550 (833)
Q Consensus       471 ~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~l~~m~~~g~~~~~~~~~~li~~~~~~g~~~~  550 (833)
                      +|..+|++.+|..+..++.... .--..+-..|+.-+...++.-+|-+++.+..+.        ....+..+|+...+++
T Consensus       974 a~~~~~dWr~~l~~a~ql~~~~-de~~~~a~~L~s~L~e~~kh~eAa~il~e~~sd--------~~~av~ll~ka~~~~e 1044 (1265)
T KOG1920|consen  974 AYKECGDWREALSLAAQLSEGK-DELVILAEELVSRLVEQRKHYEAAKILLEYLSD--------PEEAVALLCKAKEWEE 1044 (1265)
T ss_pred             HHHHhccHHHHHHHHHhhcCCH-HHHHHHHHHHHHHHHHcccchhHHHHHHHHhcC--------HHHHHHHHhhHhHHHH
Confidence            3444556666665555543320 000112244555566666666666666665443        1223344555555566


Q ss_pred             HHHHHHHH
Q 003295          551 GFKLKEDM  558 (833)
Q Consensus       551 A~~~~~~m  558 (833)
                      |+.+-...
T Consensus      1045 Alrva~~~ 1052 (1265)
T KOG1920|consen 1045 ALRVASKA 1052 (1265)
T ss_pred             HHHHHHhc
Confidence            65554443

>PF13424 TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 4A1S_B 3CEQ_B 3EDT_H

Probab=95.73  E-value=0.028  Score=44.35  Aligned_cols=63  Identities=27%  Similarity=0.399  Sum_probs=39.4

Q ss_pred             hHHHHHHHHHHhcCChhHHHHHHHHHHhC--CCC---CC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 003295          708 ACYTALIGGYCKLGQMDEAESVLQEMASI--NIH---PN-KITYTIMIGGYCKLGDMKEAAKLLNVMAE  770 (833)
Q Consensus       708 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~--g~~---p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~  770 (833)
                      .+|+.+...|...|++++|+..|++..+.  ...   |+ ..++..+..+|...|++++|++++++..+
T Consensus         6 ~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~   74 (78)
T PF13424_consen    6 NAYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKALD   74 (78)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            45666667777777777777777766531  011   11 34667777777777777777777777654

...

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=95.71  E-value=1.8  Score=45.13  Aligned_cols=31  Identities=13%  Similarity=0.300  Sum_probs=27.3

Q ss_pred             CHHHHHHHHHHHhcCCCHHHHHHHHHHHHHC
Q 003295          776 DSITYNVFMDGHCKGGNVEEAFKVCDRMLSE  806 (833)
Q Consensus       776 ~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  806 (833)
                      |-..+..++.++.-.|+.++|.+..++|...
T Consensus       304 dYWd~ATl~Ea~vL~~d~~ka~~a~e~~~~l  334 (374)
T PF13281_consen  304 DYWDVATLLEASVLAGDYEKAIQAAEKAFKL  334 (374)
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHhhc
Confidence            5566788899999999999999999999985

>KOG1258 consensus mRNA processing protein [RNA processing and modification]

Probab=95.62  E-value=4.4  Score=44.25  Aligned_cols=186  Identities=17%  Similarity=0.113  Sum_probs=114.2

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCccCHHHHHHHHH
Q 003295          566 DNYTYNLLLHGLCSLGKMEEAIELWEECKRTVFGPDIYTYGVMIDGFCKADKIEEGETLFNEMISKKMELNPVVYNTLIR  645 (833)
Q Consensus       566 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~  645 (833)
                      +..+|...++--.+.|+.+.+.-+|+...-. +..-...|-..+......|+.+-|..++....+-..+-.+.+--.-..
T Consensus       296 ql~nw~~yLdf~i~~g~~~~~~~l~ercli~-cA~Y~efWiky~~~m~~~~~~~~~~~~~~~~~~i~~k~~~~i~L~~a~  374 (577)
T KOG1258|consen  296 QLKNWRYYLDFEITLGDFSRVFILFERCLIP-CALYDEFWIKYARWMESSGDVSLANNVLARACKIHVKKTPIIHLLEAR  374 (577)
T ss_pred             HHHHHHHHhhhhhhcccHHHHHHHHHHHHhH-HhhhHHHHHHHHHHHHHcCchhHHHHHHHhhhhhcCCCCcHHHHHHHH
Confidence            4567888888888889999999988887642 111223344445555556888888877776655443323322222222


Q ss_pred             HHHHcCChHHHHHHHHHHHhCCCCCCHHH-HHHHHHHHHhcCCHHHHHH---HHHHHHHCCCCCChhHHHHHHHHHH---
Q 003295          646 AYCKIGNTTAAFRLSNDMKSRGILPTSVT-YSSLIHGLCNIGLIEDAKC---LFDEMRKEGLLPNVACYTALIGGYC---  718 (833)
Q Consensus       646 ~~~~~g~~~~A~~~~~~m~~~~~~p~~~~-~~~li~~~~~~g~~~~A~~---~~~~m~~~g~~p~~~~~~~li~~~~---  718 (833)
                      ..-..|+.+.|..+++...+.-  |+..- -..-+....+.|..+.+..   ++..... | .-+..+...+.--+.   
T Consensus       375 f~e~~~n~~~A~~~lq~i~~e~--pg~v~~~l~~~~~e~r~~~~~~~~~~~~l~s~~~~-~-~~~~~i~~~l~~~~~r~~  450 (577)
T KOG1258|consen  375 FEESNGNFDDAKVILQRIESEY--PGLVEVVLRKINWERRKGNLEDANYKNELYSSIYE-G-KENNGILEKLYVKFARLR  450 (577)
T ss_pred             HHHhhccHHHHHHHHHHHHhhC--CchhhhHHHHHhHHHHhcchhhhhHHHHHHHHhcc-c-ccCcchhHHHHHHHHHHH
Confidence            2344689999999999988763  44432 2223455567788888774   3332222 1 122222233322222   


Q ss_pred             --hcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC
Q 003295          719 --KLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGD  757 (833)
Q Consensus       719 --~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~  757 (833)
                        -.++.+.|..++.++.+. .+++...|..+++.+..++.
T Consensus       451 ~~i~~d~~~a~~~l~~~~~~-~~~~k~~~~~~~~~~~~~~~  490 (577)
T KOG1258|consen  451 YKIREDADLARIILLEANDI-LPDCKVLYLELIRFELIQPS  490 (577)
T ss_pred             HHHhcCHHHHHHHHHHhhhc-CCccHHHHHHHHHHHHhCCc
Confidence              357889999999999886 47777888888887776653

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=95.46  E-value=0.21  Score=51.33  Aligned_cols=95  Identities=18%  Similarity=0.167  Sum_probs=69.5

Q ss_pred             hHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCH-HHHHHHHHH
Q 003295          708 ACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISPDS-ITYNVFMDG  786 (833)
Q Consensus       708 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-~~~~~l~~~  786 (833)
                      .++..+..+|.+.+++.+|++..++..+.+ ++|.....--..+|...|+++.|+..|+++++  +.|+. .+-+-|+..
T Consensus       258 ~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~-~~N~KALyRrG~A~l~~~e~~~A~~df~ka~k--~~P~Nka~~~el~~l  334 (397)
T KOG0543|consen  258 ACHLNLAACYLKLKEYKEAIESCNKVLELD-PNNVKALYRRGQALLALGEYDLARDDFQKALK--LEPSNKAARAELIKL  334 (397)
T ss_pred             HHhhHHHHHHHhhhhHHHHHHHHHHHHhcC-CCchhHHHHHHHHHHhhccHHHHHHHHHHHHH--hCCCcHHHHHHHHHH
Confidence            356667778888888999998888888876 77788888888888888999999999999888  56644 444444444


Q ss_pred             HhcCCCH-HHHHHHHHHHHH
Q 003295          787 HCKGGNV-EEAFKVCDRMLS  805 (833)
Q Consensus       787 ~~~~g~~-~~A~~~~~~m~~  805 (833)
                      -.+.... +...++|..|..
T Consensus       335 ~~k~~~~~~kekk~y~~mF~  354 (397)
T KOG0543|consen  335 KQKIREYEEKEKKMYANMFA  354 (397)
T ss_pred             HHHHHHHHHHHHHHHHHHhh
Confidence            4443333 344777888876

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=95.45  E-value=0.068  Score=56.16  Aligned_cols=100  Identities=12%  Similarity=0.064  Sum_probs=73.1

Q ss_pred             CChhHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCH----HHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHH
Q 003295          705 PNVACYTALIGGYCKLGQMDEAESVLQEMASINIHPNK----ITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISPDSITY  780 (833)
Q Consensus       705 p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~----~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~  780 (833)
                      .+...++.+..+|.+.|++++|+..|++.++.  .|+.    .+|..+..+|...|+.++|+..++++++.+ .+   .|
T Consensus        73 ~~a~a~~NLG~AL~~lGryeEAIa~f~rALeL--~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALels-n~---~f  146 (453)
T PLN03098         73 KTAEDAVNLGLSLFSKGRVKDALAQFETALEL--NPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRDY-NL---KF  146 (453)
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhc-ch---hH
Confidence            35678899999999999999999999999884  5664    358999999999999999999999999852 22   12


Q ss_pred             HHHHH--HHhcCCCHHHHHHHHHHHHHCCCCC
Q 003295          781 NVFMD--GHCKGGNVEEAFKVCDRMLSEGLSL  810 (833)
Q Consensus       781 ~~l~~--~~~~~g~~~~A~~~~~~m~~~g~~p  810 (833)
                      ..+..  .+..-.+.++..++++.+.+.|...
T Consensus       147 ~~i~~DpdL~plR~~pef~eLlee~rk~G~~~  178 (453)
T PLN03098        147 STILNDPDLAPFRASPEFKELQEEARKGGEDI  178 (453)
T ss_pred             HHHHhCcchhhhcccHHHHHHHHHHHHhCCcc
Confidence            21111  1112234457777888888776543

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=95.44  E-value=0.15  Score=53.73  Aligned_cols=66  Identities=20%  Similarity=0.113  Sum_probs=58.6

Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCh----hHHHHHHHHHHhcCChhHHHHHHHHHHhC
Q 003295          669 LPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNV----ACYTALIGGYCKLGQMDEAESVLQEMASI  736 (833)
Q Consensus       669 ~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~----~~~~~li~~~~~~g~~~~A~~~~~~m~~~  736 (833)
                      +.+...++.+..+|.+.|++++|+..|++.++.  .|+.    .+|..+..+|.+.|+.++|+..++++++.
T Consensus        72 P~~a~a~~NLG~AL~~lGryeEAIa~f~rALeL--~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALel  141 (453)
T PLN03098         72 VKTAEDAVNLGLSLFSKGRVKDALAQFETALEL--NPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRD  141 (453)
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            446778999999999999999999999999984  5764    35899999999999999999999999985

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.27  E-value=0.38  Score=47.85  Aligned_cols=154  Identities=11%  Similarity=-0.002  Sum_probs=84.0

Q ss_pred             ccCCHHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHhC---CCCCCHHHHHHHHHHHHhcCCHHH
Q 003295          614 KADKIEEGETLFNEMISKKMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSR---GILPTSVTYSSLIHGLCNIGLIED  690 (833)
Q Consensus       614 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~---~~~p~~~~~~~li~~~~~~g~~~~  690 (833)
                      ..|+..+|...++++++.-+. |...++-.-.+|.-.|+.+.-...+++....   +++-....-....-++...|-+++
T Consensus       115 ~~g~~h~a~~~wdklL~d~Pt-Dlla~kfsh~a~fy~G~~~~~k~ai~kIip~wn~dlp~~sYv~GmyaFgL~E~g~y~d  193 (491)
T KOG2610|consen  115 GRGKHHEAAIEWDKLLDDYPT-DLLAVKFSHDAHFYNGNQIGKKNAIEKIIPKWNADLPCYSYVHGMYAFGLEECGIYDD  193 (491)
T ss_pred             ccccccHHHHHHHHHHHhCch-hhhhhhhhhhHHHhccchhhhhhHHHHhccccCCCCcHHHHHHHHHHhhHHHhccchh
Confidence            366666776677777666444 6666666666777777776666666666543   211112222223334456677777


Q ss_pred             HHHHHHHHHHCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHhC---CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 003295          691 AKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESVLQEMASI---NIHPNKITYTIMIGGYCKLGDMKEAAKLLNV  767 (833)
Q Consensus       691 A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~---g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~  767 (833)
                      |++.-++..+-+ +-|.-.-.++...+...|+..++.++..+-...   +...-..-|-...-.+...+.++.|+++|+.
T Consensus       194 AEk~A~ralqiN-~~D~Wa~Ha~aHVlem~~r~Keg~eFM~~ted~Wr~s~mlasHNyWH~Al~~iE~aeye~aleIyD~  272 (491)
T KOG2610|consen  194 AEKQADRALQIN-RFDCWASHAKAHVLEMNGRHKEGKEFMYKTEDDWRQSWMLASHNYWHTALFHIEGAEYEKALEIYDR  272 (491)
T ss_pred             HHHHHHhhccCC-CcchHHHHHHHHHHHhcchhhhHHHHHHhcccchhhhhHHHhhhhHHHHHhhhcccchhHHHHHHHH
Confidence            777666666532 234444555566666667777776665544321   0000111233333344555667777777765


Q ss_pred             HH
Q 003295          768 MA  769 (833)
Q Consensus       768 m~  769 (833)
                      -+
T Consensus       273 ei  274 (491)
T KOG2610|consen  273 EI  274 (491)
T ss_pred             HH
Confidence            44

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=95.16  E-value=7  Score=43.78  Aligned_cols=111  Identities=22%  Similarity=0.325  Sum_probs=82.3

Q ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHH
Q 003295          638 VVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGY  717 (833)
Q Consensus       638 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~  717 (833)
                      .+.+--+.-+...|+..+|.++-.+.+    -||...|..=+.+++..+++++-+++-+.+.      .+.-|.-.+.+|
T Consensus       685 lSl~dTv~~li~~g~~k~a~ql~~~Fk----ipdKr~~wLk~~aLa~~~kweeLekfAkskk------sPIGy~PFVe~c  754 (829)
T KOG2280|consen  685 LSLHDTVTTLILIGQNKRAEQLKSDFK----IPDKRLWWLKLTALADIKKWEELEKFAKSKK------SPIGYLPFVEAC  754 (829)
T ss_pred             CcHHHHHHHHHHccchHHHHHHHHhcC----CcchhhHHHHHHHHHhhhhHHHHHHHHhccC------CCCCchhHHHHH
Confidence            345555666677888888888877653    5688888888899999999988766554433      245567788899


Q ss_pred             HhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 003295          718 CKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNV  767 (833)
Q Consensus       718 ~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~  767 (833)
                      .+.|+.++|.+++.+...     ..    ....+|.+.|++.+|.+..-+
T Consensus       755 ~~~~n~~EA~KYiprv~~-----l~----ekv~ay~~~~~~~eAad~A~~  795 (829)
T KOG2280|consen  755 LKQGNKDEAKKYIPRVGG-----LQ----EKVKAYLRVGDVKEAADLAAE  795 (829)
T ss_pred             HhcccHHHHhhhhhccCC-----hH----HHHHHHHHhccHHHHHHHHHH
Confidence            999999999998776532     11    567788899999999876544

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=95.13  E-value=1.9  Score=42.73  Aligned_cols=143  Identities=13%  Similarity=0.108  Sum_probs=85.9

Q ss_pred             HHHHhcCChhHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhH
Q 003295          226 NSLVKANEVQKGIEVFETMCRGVSPDVFLFSTAINAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIHGLCRNGRLYE  305 (833)
Q Consensus       226 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~  305 (833)
                      ..+...|++.+|...|+....-.+.+...-..++.+|...|++++|..++..+...--.........-|..+.+.....+
T Consensus       142 ~~~~~~e~~~~a~~~~~~al~~~~~~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~~~~~~~~~l~a~i~ll~qaa~~~~  221 (304)
T COG3118         142 KELIEAEDFGEAAPLLKQALQAAPENSEAKLLLAECLLAAGDVEAAQAILAALPLQAQDKAAHGLQAQIELLEQAAATPE  221 (304)
T ss_pred             hhhhhccchhhHHHHHHHHHHhCcccchHHHHHHHHHHHcCChHHHHHHHHhCcccchhhHHHHHHHHHHHHHHHhcCCC
Confidence            34567788888888888888444555666667888888999999999988888754211111121223444445555555


Q ss_pred             HHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHC--CCCCChhhHHHHHHHHHHcC
Q 003295          306 AFHLKEKMVLREVEPSLITYSILINGLIKLEKFDDANFVLKEMSVR--GFVPNYVVYNTLIDGYCKKG  371 (833)
Q Consensus       306 A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~--g~~p~~~~y~~li~~~~~~g  371 (833)
                      ...+-++....  +.|...-..+...+...|+.++|.+.+-.+.++  |.. |...-..|+..+.--|
T Consensus       222 ~~~l~~~~aad--Pdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~~d~~~~-d~~~Rk~lle~f~~~g  286 (304)
T COG3118         222 IQDLQRRLAAD--PDDVEAALALADQLHLVGRNEAALEHLLALLRRDRGFE-DGEARKTLLELFEAFG  286 (304)
T ss_pred             HHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccccc-CcHHHHHHHHHHHhcC
Confidence            55554444442  235555666666777777777777666666543  222 3444455555554444

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=95.01  E-value=0.48  Score=40.21  Aligned_cols=91  Identities=15%  Similarity=0.037  Sum_probs=68.9

Q ss_pred             HHHhcCChhHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChh---hHHHHHHHHHhcCCh
Q 003295          227 SLVKANEVQKGIEVFETMCRGVSPDVFLFSTAINAFCKRGRIEDAIGLFTKMEELGIAPNVV---TYNNIIHGLCRNGRL  303 (833)
Q Consensus       227 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~---~~~~li~~~~~~g~~  303 (833)
                      ++...|+++.|++.|.+.+.-.|.+...||.-..++--+|+.++|++-+++..+..-.-...   .|-.-...|-..|+-
T Consensus        52 alaE~g~Ld~AlE~F~qal~l~P~raSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~trtacqa~vQRg~lyRl~g~d  131 (175)
T KOG4555|consen   52 ALAEAGDLDGALELFGQALCLAPERASAYNNRAQALRLQGDDEEALDDLNKALELAGDQTRTACQAFVQRGLLYRLLGND  131 (175)
T ss_pred             HHHhccchHHHHHHHHHHHHhcccchHhhccHHHHHHHcCChHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHhCch
Confidence            56778999999999999886677788889999999999999999999888887652211221   233333456677888


Q ss_pred             hHHHHHHHHHHhCC
Q 003295          304 YEAFHLKEKMVLRE  317 (833)
Q Consensus       304 ~~A~~~~~~m~~~~  317 (833)
                      +.|+.-|+...+.|
T Consensus       132 d~AR~DFe~AA~LG  145 (175)
T KOG4555|consen  132 DAARADFEAAAQLG  145 (175)
T ss_pred             HHHHHhHHHHHHhC
Confidence            99998888887766

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=94.99  E-value=3.3  Score=41.13  Aligned_cols=148  Identities=11%  Similarity=0.025  Sum_probs=96.8

Q ss_pred             HHHHcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCChhH
Q 003295          646 AYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDE  725 (833)
Q Consensus       646 ~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~  725 (833)
                      .....|+..+|..+|+...... +-+...-..++.+|...|+.+.|..++..+...--.........-+..+.+.....+
T Consensus       143 ~~~~~e~~~~a~~~~~~al~~~-~~~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~~~~~~~~~l~a~i~ll~qaa~~~~  221 (304)
T COG3118         143 ELIEAEDFGEAAPLLKQALQAA-PENSEAKLLLAECLLAAGDVEAAQAILAALPLQAQDKAAHGLQAQIELLEQAAATPE  221 (304)
T ss_pred             hhhhccchhhHHHHHHHHHHhC-cccchHHHHHHHHHHHcCChHHHHHHHHhCcccchhhHHHHHHHHHHHHHHHhcCCC
Confidence            4456788888888888877663 224455667788888888888888888877654211122223334566666666666


Q ss_pred             HHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCC-CCCHHHHHHHHHHHhcCCCHHHH
Q 003295          726 AESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAEKGI-SPDSITYNVFMDGHCKGGNVEEA  796 (833)
Q Consensus       726 A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~-~p~~~~~~~l~~~~~~~g~~~~A  796 (833)
                      ...+-.+.-..  +.|...-..+...+...|+.++|.+.+-.++.+.. .-|...-..|+..+.-.|.-+.+
T Consensus       222 ~~~l~~~~aad--Pdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~~d~~~~d~~~Rk~lle~f~~~g~~Dp~  291 (304)
T COG3118         222 IQDLQRRLAAD--PDDVEAALALADQLHLVGRNEAALEHLLALLRRDRGFEDGEARKTLLELFEAFGPADPL  291 (304)
T ss_pred             HHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcccccCcHHHHHHHHHHHhcCCCCHH
Confidence            66666666542  34677777888888889999999888887776432 12445566666666666643333

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=94.95  E-value=0.43  Score=46.67  Aligned_cols=87  Identities=14%  Similarity=0.135  Sum_probs=54.9

Q ss_pred             hccCHHHHHHHHHHHHhCCCC--CCHHHHHHHHHHHHhcCChhHHHHHHHHhhcCCC--C-CHHHHHHHHHHHHhcCChh
Q 003295          195 KNLGFGYAIDVFSIFSSKGIF--PSLKTCNFLLNSLVKANEVQKGIEVFETMCRGVS--P-DVFLFSTAINAFCKRGRIE  269 (833)
Q Consensus       195 ~~~~~~~A~~~f~~~~~~~~~--p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~--~-~~~~~~~li~~~~~~g~~~  269 (833)
                      +.|++..|.+.|...++..+.  -...++-+|..++...|++++|..+|..+.++.|  | -..++..+..+..+.|+.+
T Consensus       153 ksgdy~~A~~~F~~fi~~YP~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallKlg~~~~~l~~~d  232 (262)
T COG1729         153 KSGDYAEAEQAFQAFIKKYPNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKLGVSLGRLGNTD  232 (262)
T ss_pred             HcCCHHHHHHHHHHHHHcCCCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHHHHHHHHhcCHH
Confidence            466777777777776665432  1233555677777777777777777777763222  2 2355666666777777777


Q ss_pred             HHHHHHHHHHHc
Q 003295          270 DAIGLFTKMEEL  281 (833)
Q Consensus       270 ~A~~~~~~m~~~  281 (833)
                      +|...|+++.+.
T Consensus       233 ~A~atl~qv~k~  244 (262)
T COG1729         233 EACATLQQVIKR  244 (262)
T ss_pred             HHHHHHHHHHHH
Confidence            777777777665

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=94.95  E-value=3.9  Score=39.78  Aligned_cols=221  Identities=20%  Similarity=0.129  Sum_probs=131.0

Q ss_pred             ChhhHHHHHHHHHHCCCC-CCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhC-CCCCCHhhHHHHHHHHHccCCHHHHHHH
Q 003295          547 KPEEGFKLKEDMIKRGIQ-PDNYTYNLLLHGLCSLGKMEEAIELWEECKRT-VFGPDIYTYGVMIDGFCKADKIEEGETL  624 (833)
Q Consensus       547 ~~~~A~~~~~~m~~~g~~-p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~~li~~~~~~g~~~~A~~~  624 (833)
                      ....+...+......... .....+......+...+++..+...+...... ........+......+...+++..+...
T Consensus        38 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  117 (291)
T COG0457          38 ELAEALELLEEALELLPNSDLAGLLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEALEL  117 (291)
T ss_pred             hHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHHHH
Confidence            334444444444433221 12345555555666666666666666655432 1223344455555556666666677777


Q ss_pred             HHHHHHCCCccCHHHHHHHHH-HHHHcCChHHHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 003295          625 FNEMISKKMELNPVVYNTLIR-AYCKIGNTTAAFRLSNDMKSRGI--LPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKE  701 (833)
Q Consensus       625 ~~~~~~~~~~~~~~~~~~li~-~~~~~g~~~~A~~~~~~m~~~~~--~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  701 (833)
                      +.........+ ......... .+...|+++.|...+.+......  ......+......+...++.++|...+.+....
T Consensus       118 ~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~  196 (291)
T COG0457         118 LEKALALDPDP-DLAEALLALGALYELGDYEEALELYEKALELDPELNELAEALLALGALLEALGRYEEALELLEKALKL  196 (291)
T ss_pred             HHHHHcCCCCc-chHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHHhh
Confidence            76666543332 122222222 56777788888887777755221  122333444444466778888888888888875


Q ss_pred             CCCC-ChhHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 003295          702 GLLP-NVACYTALIGGYCKLGQMDEAESVLQEMASINIHPN-KITYTIMIGGYCKLGDMKEAAKLLNVMAEK  771 (833)
Q Consensus       702 g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  771 (833)
                      . .. ....+..+...+...++.++|...+......  .|+ ...+..+...+...|..+++...+.+....
T Consensus       197 ~-~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  265 (291)
T COG0457         197 N-PDDDAEALLNLGLLYLKLGKYEEALEYYEKALEL--DPDNAEALYNLALLLLELGRYEEALEALEKALEL  265 (291)
T ss_pred             C-cccchHHHHHhhHHHHHcccHHHHHHHHHHHHhh--CcccHHHHhhHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            2 22 3566777777888888888888888888874  333 445555555555677788888888888773

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=94.79  E-value=1  Score=49.65  Aligned_cols=118  Identities=18%  Similarity=0.120  Sum_probs=73.4

Q ss_pred             cCCHHHHHHHHHHHHHCCCCCChhHHHHH-HHHHHhcCChhHHHHHHHHHHhC--CC-CCCHHHHHHHHHHHHhcCCHHH
Q 003295          685 IGLIEDAKCLFDEMRKEGLLPNVACYTAL-IGGYCKLGQMDEAESVLQEMASI--NI-HPNKITYTIMIGGYCKLGDMKE  760 (833)
Q Consensus       685 ~g~~~~A~~~~~~m~~~g~~p~~~~~~~l-i~~~~~~g~~~~A~~~~~~m~~~--g~-~p~~~~~~~li~~~~~~g~~~~  760 (833)
                      ....+.|.++++.+.+.  -|+...|... ...+...|++++|++.|++....  .. +.....+.-+.+.+.-.+++++
T Consensus       246 ~~~~~~a~~lL~~~~~~--yP~s~lfl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~  323 (468)
T PF10300_consen  246 DVPLEEAEELLEEMLKR--YPNSALFLFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEE  323 (468)
T ss_pred             CCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHH
Confidence            44567788888888775  4666555443 34555678888888888865531  11 1223456677777888888888


Q ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHH-HhcCCCH-------HHHHHHHHHHHH
Q 003295          761 AAKLLNVMAEKGISPDSITYNVFMDG-HCKGGNV-------EEAFKVCDRMLS  805 (833)
Q Consensus       761 A~~~~~~m~~~g~~p~~~~~~~l~~~-~~~~g~~-------~~A~~~~~~m~~  805 (833)
                      |.+.|.++.+.. .-+..+|..+..+ +...|+.       ++|.++|.+...
T Consensus       324 A~~~f~~L~~~s-~WSka~Y~Y~~a~c~~~l~~~~~~~~~~~~a~~l~~~vp~  375 (468)
T PF10300_consen  324 AAEYFLRLLKES-KWSKAFYAYLAAACLLMLGREEEAKEHKKEAEELFRKVPK  375 (468)
T ss_pred             HHHHHHHHHhcc-ccHHHHHHHHHHHHHHhhccchhhhhhHHHHHHHHHHHHH
Confidence            888888887742 2233444433333 3445666       777777776644

In humans this protein is expressed in primary breast carcinomas but not in normal breast tissue, and has a putative eukaryotic RNP-1 RNA binding region and a candidate anchoring transmembrane domain. The human protein is coordinately regulated with oestrogen receptor, but is not necessarily oestradiol-responsive []. Members of this family carry a tetratricopeptide repeat (IPR013105 from INTERPRO) at their C terminus.

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=94.72  E-value=0.51  Score=40.08  Aligned_cols=91  Identities=18%  Similarity=0.127  Sum_probs=55.5

Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCH---HHHHHHHHHHHhcCC
Q 003295          681 GLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESVLQEMASINIHPNK---ITYTIMIGGYCKLGD  757 (833)
Q Consensus       681 ~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~---~~~~~li~~~~~~g~  757 (833)
                      ++...|+++.|++.|.+.+.. .+-....||.-..++.-.|+.++|+.-+++..+..-.-..   ..|..-...|...|+
T Consensus        52 alaE~g~Ld~AlE~F~qal~l-~P~raSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~trtacqa~vQRg~lyRl~g~  130 (175)
T KOG4555|consen   52 ALAEAGDLDGALELFGQALCL-APERASAYNNRAQALRLQGDDEEALDDLNKALELAGDQTRTACQAFVQRGLLYRLLGN  130 (175)
T ss_pred             HHHhccchHHHHHHHHHHHHh-cccchHhhccHHHHHHHcCChHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHhCc
Confidence            455667777777777776664 2335566777777777777777777777776653211111   233344445666677


Q ss_pred             HHHHHHHHHHHHHcC
Q 003295          758 MKEAAKLLNVMAEKG  772 (833)
Q Consensus       758 ~~~A~~~~~~m~~~g  772 (833)
                      -+.|..-|+.+.+.|
T Consensus       131 dd~AR~DFe~AA~LG  145 (175)
T KOG4555|consen  131 DDAARADFEAAAQLG  145 (175)
T ss_pred             hHHHHHhHHHHHHhC
Confidence            777777777666655

>PF12921 ATP13: Mitochondrial ATPase expression; InterPro: IPR024319 ATPase expression protein 2 (also known as ATP13 in some species) is necessary for the expression of subunit 9 of mitochondrial ATPase

Probab=94.62  E-value=0.46  Score=41.29  Aligned_cols=83  Identities=16%  Similarity=0.219  Sum_probs=52.2

Q ss_pred             ChhHHHHHHHHHHhcCChhHHHHHHHHHHhC---------------CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 003295          706 NVACYTALIGGYCKLGQMDEAESVLQEMASI---------------NIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAE  770 (833)
Q Consensus       706 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~---------------g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  770 (833)
                      |..++..++.++++.|+++....++++.=.-               ...|+..+..+++.+|+..|++..|.++++...+
T Consensus         1 de~~~~~ii~al~r~g~~~~i~~~i~~~WgI~~~~~~~~~~~~~~spl~Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~   80 (126)
T PF12921_consen    1 DEELLCNIIYALGRSGQLDSIKSYIKSVWGIDVNGKKKEGDYPPSSPLYPTSRLLIAIVHSFGYNGDIFSALKLVDFFSR   80 (126)
T ss_pred             ChHHHHHHHHHHhhcCCHHHHHHHHHHhcCCCCCCccccCccCCCCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHH
Confidence            4567888888999999998888888765311               1235555666666666666666666666666554


Q ss_pred             -cCCCCCHHHHHHHHHHHh
Q 003295          771 -KGISPDSITYNVFMDGHC  788 (833)
Q Consensus       771 -~g~~p~~~~~~~l~~~~~  788 (833)
                       .+++-+..+|..|+.-..
T Consensus        81 ~Y~I~i~~~~W~~Ll~W~~   99 (126)
T PF12921_consen   81 KYPIPIPKEFWRRLLEWAY   99 (126)
T ss_pred             HcCCCCCHHHHHHHHHHHH
Confidence             344445556665554443

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=94.53  E-value=2  Score=38.37  Aligned_cols=84  Identities=13%  Similarity=0.105  Sum_probs=41.7

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcC
Q 003295          257 TAINAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIHGLCRNGRLYEAFHLKEKMVLREVEPSLITYSILINGLIKLE  336 (833)
Q Consensus       257 ~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g  336 (833)
                      .++..+.+.+.......+++.+...+. .+...+|.++..|++.+ ..+..+.++.      ..+.+.....++.|.+.+
T Consensus        12 ~vv~~~~~~~~~~~l~~yLe~~~~~~~-~~~~~~~~li~ly~~~~-~~~ll~~l~~------~~~~yd~~~~~~~c~~~~   83 (140)
T smart00299       12 EVVELFEKRNLLEELIPYLESALKLNS-ENPALQTKLIELYAKYD-PQKEIERLDN------KSNHYDIEKVGKLCEKAK   83 (140)
T ss_pred             HHHHHHHhCCcHHHHHHHHHHHHccCc-cchhHHHHHHHHHHHHC-HHHHHHHHHh------ccccCCHHHHHHHHHHcC
Confidence            355555555566666666666555543 35555666666665542 2233333321      123333344555555555


Q ss_pred             ChhHHHHHHHHH
Q 003295          337 KFDDANFVLKEM  348 (833)
Q Consensus       337 ~~~~A~~~~~~m  348 (833)
                      -++++..++.++
T Consensus        84 l~~~~~~l~~k~   95 (140)
T smart00299       84 LYEEAVELYKKD   95 (140)
T ss_pred             cHHHHHHHHHhh
Confidence            555555555544

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=94.49  E-value=3.7  Score=39.32  Aligned_cols=82  Identities=18%  Similarity=0.221  Sum_probs=39.3

Q ss_pred             HHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCCh
Q 003295          329 INGLIKLEKFDDANFVLKEMSVRGFVPNYVVYNTLIDGYCKKGNISEALKIRDDMVSKGMSPNSVTFNSLIHGFCKSGQM  408 (833)
Q Consensus       329 i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~  408 (833)
                      ..+|....++++|...+.+..+ +.+.|...|.       ....++.|.-+..+|...  .--+..|+--..+|..+|..
T Consensus        38 AvafRnAk~feKakdcLlkA~~-~yEnnrslfh-------AAKayEqaamLake~~kl--sEvvdl~eKAs~lY~E~Gsp  107 (308)
T KOG1585|consen   38 AVAFRNAKKFEKAKDCLLKASK-GYENNRSLFH-------AAKAYEQAAMLAKELSKL--SEVVDLYEKASELYVECGSP  107 (308)
T ss_pred             HHHHHhhccHHHHHHHHHHHHH-HHHhcccHHH-------HHHHHHHHHHHHHHHHHh--HHHHHHHHHHHHHHHHhCCc
Confidence            3455555666666665555542 1111211111       122334444455554442  11223445556667777777


Q ss_pred             hHHHHHHHHHHH
Q 003295          409 DNAENALEEMLS  420 (833)
Q Consensus       409 ~~A~~~l~~~~~  420 (833)
                      +-|-..+++.-+
T Consensus       108 dtAAmaleKAak  119 (308)
T KOG1585|consen  108 DTAAMALEKAAK  119 (308)
T ss_pred             chHHHHHHHHHH
Confidence            776666665543

>PF09205 DUF1955: Domain of unknown function (DUF1955); InterPro: IPR015288 Members of this family are found in hypothetical proteins synthesised by the Archaeal organism Sulfolobus

Probab=94.43  E-value=2.9  Score=35.88  Aligned_cols=138  Identities=16%  Similarity=0.170  Sum_probs=80.6

Q ss_pred             HHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhH---HHHHHHHHhcCCh
Q 003295          262 FCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIHGLCRNGRLYEAFHLKEKMVLREVEPSLITY---SILINGLIKLEKF  338 (833)
Q Consensus       262 ~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~---~~li~~~~~~g~~  338 (833)
                      +.-.|.+++..++..+....   .+..-||.+|--....-+-+-..++++..-+.   -|....   ..++..|++.|. 
T Consensus        12 ~ildG~V~qGveii~k~v~S---sni~E~NWvICNiiDaa~C~yvv~~LdsIGki---FDis~C~NlKrVi~C~~~~n~-   84 (161)
T PF09205_consen   12 RILDGDVKQGVEIIEKTVNS---SNIKEYNWVICNIIDAADCDYVVETLDSIGKI---FDISKCGNLKRVIECYAKRNK-   84 (161)
T ss_dssp             HHHTT-HHHHHHHHHHHHHH---S-HHHHTHHHHHHHHH--HHHHHHHHHHHGGG---S-GGG-S-THHHHHHHHHTT--
T ss_pred             HHHhchHHHHHHHHHHHcCc---CCccccceeeeecchhhchhHHHHHHHHHhhh---cCchhhcchHHHHHHHHHhcc-
Confidence            34467888888888888774   46667777776555554555555555554331   232221   233444444333 


Q ss_pred             hHHHHHHHHHHHCCCCCChhhHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHH
Q 003295          339 DDANFVLKEMSVRGFVPNYVVYNTLIDGYCKKGNISEALKIRDDMVSKGMSPNSVTFNSLIHGFCKSGQMDNAENALEEM  418 (833)
Q Consensus       339 ~~A~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~l~~~  418 (833)
                                       +......-++.+.++|+-|.-.+++.++... -+++....-.+..+|.+.|+..++.+++.++
T Consensus        85 -----------------~se~vD~ALd~lv~~~kkDqLdki~~~l~kn-~~~~p~~L~kia~Ay~klg~~r~~~ell~~A  146 (161)
T PF09205_consen   85 -----------------LSEYVDLALDILVKQGKKDQLDKIYNELKKN-EEINPEFLVKIANAYKKLGNTREANELLKEA  146 (161)
T ss_dssp             -------------------HHHHHHHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHHHHHH
T ss_pred             -----------------hHHHHHHHHHHHHHhccHHHHHHHHHHHhhc-cCCCHHHHHHHHHHHHHhcchhhHHHHHHHH
Confidence                             2223344566777888888888888887642 3567777778888899999999999999888


Q ss_pred             HHCCCC
Q 003295          419 LSRGLS  424 (833)
Q Consensus       419 ~~~g~~  424 (833)
                      .+.|++
T Consensus       147 CekG~k  152 (161)
T PF09205_consen  147 CEKGLK  152 (161)
T ss_dssp             HHTT-H
T ss_pred             HHhchH
Confidence            888753

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=94.43  E-value=3.1  Score=39.87  Aligned_cols=25  Identities=4%  Similarity=0.121  Sum_probs=13.6

Q ss_pred             hHHHHHHHHHccCCHHHHHHHHHHH
Q 003295          604 TYGVMIDGFCKADKIEEGETLFNEM  628 (833)
Q Consensus       604 ~~~~li~~~~~~g~~~~A~~~~~~~  628 (833)
                      .|+.-..+|..+|..+.|-..+++.
T Consensus        93 l~eKAs~lY~E~GspdtAAmaleKA  117 (308)
T KOG1585|consen   93 LYEKASELYVECGSPDTAAMALEKA  117 (308)
T ss_pred             HHHHHHHHHHHhCCcchHHHHHHHH
Confidence            3444455566666666655555544

>PRK11906 transcriptional regulator; Provisional

Probab=94.40  E-value=2.8  Score=44.58  Aligned_cols=148  Identities=14%  Similarity=0.116  Sum_probs=103.5

Q ss_pred             CHHHHHHHHHHHHHC-CCccC-HHHHHHHHHHHHHc---------CChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc
Q 003295          617 KIEEGETLFNEMISK-KMELN-PVVYNTLIRAYCKI---------GNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNI  685 (833)
Q Consensus       617 ~~~~A~~~~~~~~~~-~~~~~-~~~~~~li~~~~~~---------g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~  685 (833)
                      ..+.|..+|.+.... ...|+ ...|..+..++...         ....+|.++.++..+.+ +-|......+..+....
T Consensus       273 ~~~~Al~lf~ra~~~~~ldp~~a~a~~~lA~~h~~~~~~g~~~~~~~~~~a~~~A~rAveld-~~Da~a~~~~g~~~~~~  351 (458)
T PRK11906        273 SIYRAMTIFDRLQNKSDIQTLKTECYCLLAECHMSLALHGKSELELAAQKALELLDYVSDIT-TVDGKILAIMGLITGLS  351 (458)
T ss_pred             HHHHHHHHHHHHhhcccCCcccHHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHhh
Confidence            467889999999822 22333 45555555444322         23456788888888876 55888888888888888


Q ss_pred             CCHHHHHHHHHHHHHCCCCCCh-hHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHH---HHHHHHHHHHhcCCHHHH
Q 003295          686 GLIEDAKCLFDEMRKEGLLPNV-ACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKI---TYTIMIGGYCKLGDMKEA  761 (833)
Q Consensus       686 g~~~~A~~~~~~m~~~g~~p~~-~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~---~~~~li~~~~~~g~~~~A  761 (833)
                      |+++.|..+|++....  .||. .+|......+.-.|+.++|.+.+++..+.  .|...   +....++.|+.. ..++|
T Consensus       352 ~~~~~a~~~f~rA~~L--~Pn~A~~~~~~~~~~~~~G~~~~a~~~i~~alrL--sP~~~~~~~~~~~~~~~~~~-~~~~~  426 (458)
T PRK11906        352 GQAKVSHILFEQAKIH--STDIASLYYYRALVHFHNEKIEEARICIDKSLQL--EPRRRKAVVIKECVDMYVPN-PLKNN  426 (458)
T ss_pred             cchhhHHHHHHHHhhc--CCccHHHHHHHHHHHHHcCCHHHHHHHHHHHhcc--CchhhHHHHHHHHHHHHcCC-chhhh
Confidence            9999999999999985  5654 56666666677799999999999998764  55543   333344456655 47888


Q ss_pred             HHHHHHHHH
Q 003295          762 AKLLNVMAE  770 (833)
Q Consensus       762 ~~~~~~m~~  770 (833)
                      ++++-+-.+
T Consensus       427 ~~~~~~~~~  435 (458)
T PRK11906        427 IKLYYKETE  435 (458)
T ss_pred             HHHHhhccc
Confidence            887766433

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=94.37  E-value=0.25  Score=47.88  Aligned_cols=105  Identities=18%  Similarity=0.261  Sum_probs=56.2

Q ss_pred             CCCHHHHHHHHHHHHh-----cCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChh
Q 003295          249 SPDVFLFSTAINAFCK-----RGRIEDAIGLFTKMEELGIAPNVVTYNNIIHGLCRNGRLYEAFHLKEKMVLREVEPSLI  323 (833)
Q Consensus       249 ~~~~~~~~~li~~~~~-----~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~  323 (833)
                      ..|..+|...+..|..     .+.++--...+..|.+.|++-|..+|+.|++.+-+..-.-  ..+|++.--        
T Consensus        64 ~RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfiP--~nvfQ~~F~--------  133 (406)
T KOG3941|consen   64 KRDKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFIP--QNVFQKVFL--------  133 (406)
T ss_pred             cccHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCccccccc--HHHHHHHHh--------
Confidence            4455556555555543     3455556666777888888888888888887664321100  011111100        


Q ss_pred             hHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHHcCC
Q 003295          324 TYSILINGLIKLEKFDDANFVLKEMSVRGFVPNYVVYNTLIDGYCKKGN  372 (833)
Q Consensus       324 t~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~  372 (833)
                             .|=  .+-+-++.++++|...|+.||-.+-..|++++.+.+-
T Consensus       134 -------HYP--~QQ~C~I~vLeqME~hGVmPdkE~e~~lvn~FGr~~~  173 (406)
T KOG3941|consen  134 -------HYP--QQQNCAIKVLEQMEWHGVMPDKEIEDILVNAFGRWNF  173 (406)
T ss_pred             -------hCc--hhhhHHHHHHHHHHHcCCCCchHHHHHHHHHhccccc
Confidence                   010  1122355566666666666666666666666655543

>PF08631 SPO22: Meiosis protein SPO22/ZIP4 like; InterPro: IPR013940 SPO22 is a meiosis-specific protein with similarity to phospholipase A2, involved in completion of nuclear divisions during meiosis; induced early in meiosis []

Probab=94.34  E-value=6.8  Score=39.85  Aligned_cols=62  Identities=18%  Similarity=0.123  Sum_probs=33.9

Q ss_pred             hHHHHHHHHHHcCCh---HHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHHC
Q 003295          359 VYNTLIDGYCKKGNI---SEALKIRDDMVSKGMSPNSVTFNSLIHGFCKSGQMDNAENALEEMLSR  421 (833)
Q Consensus       359 ~y~~li~~~~~~g~~---~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~l~~~~~~  421 (833)
                      +...|+.+|...+..   ++|..+++.+...... ....+..-+..+.+.++.+++.+.+.+|...
T Consensus        86 iL~~La~~~l~~~~~~~~~ka~~~l~~l~~e~~~-~~~~~~L~l~il~~~~~~~~~~~~L~~mi~~  150 (278)
T PF08631_consen   86 ILRLLANAYLEWDTYESVEKALNALRLLESEYGN-KPEVFLLKLEILLKSFDEEEYEEILMRMIRS  150 (278)
T ss_pred             HHHHHHHHHHcCCChHHHHHHHHHHHHHHHhCCC-CcHHHHHHHHHHhccCChhHHHHHHHHHHHh
Confidence            445566666655543   3455555555443222 2333434455555567777777777777654

It is also involved in sporulation [].

>KOG1550 consensus Extracellular protein SEL-1 and related proteins [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=94.29  E-value=12  Score=42.41  Aligned_cols=179  Identities=14%  Similarity=0.031  Sum_probs=84.6

Q ss_pred             CHHHHHHHHHHHHHCCCccCHHHHHHHHHHHH--HcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHH
Q 003295          617 KIEEGETLFNEMISKKMELNPVVYNTLIRAYC--KIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCL  694 (833)
Q Consensus       617 ~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~--~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~  694 (833)
                      +...|.++|......|.. ....+..++....  -..+...|+.++++..+.| .|...--...+..+.. +..+.+.-.
T Consensus       343 d~~~A~~yy~~Aa~~G~~-~A~~~la~~y~~G~gv~r~~~~A~~~~k~aA~~g-~~~A~~~~~~~~~~g~-~~~~~~~~~  419 (552)
T KOG1550|consen  343 DYRRAFEYYSLAAKAGHI-LAIYRLALCYELGLGVERNLELAFAYYKKAAEKG-NPSAAYLLGAFYEYGV-GRYDTALAL  419 (552)
T ss_pred             cHHHHHHHHHHHHHcCCh-HHHHHHHHHHHhCCCcCCCHHHHHHHHHHHHHcc-ChhhHHHHHHHHHHcc-ccccHHHHH
Confidence            455666666666655532 1111111111111  2235566677777666665 2221111222223333 555555555


Q ss_pred             HHHHHHCCCCCChhHHHHHHHHH---Hh----cCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc----CCHHHHHH
Q 003295          695 FDEMRKEGLLPNVACYTALIGGY---CK----LGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKL----GDMKEAAK  763 (833)
Q Consensus       695 ~~~m~~~g~~p~~~~~~~li~~~---~~----~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~----g~~~~A~~  763 (833)
                      +..+.+.|.+--...-..+....   ..    ..+.+.+...+.+....|   +......+.+.|..-    .+++.|..
T Consensus       420 ~~~~a~~g~~~~q~~a~~l~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~g---~~~a~~~lgd~y~~g~g~~~d~~~a~~  496 (552)
T KOG1550|consen  420 YLYLAELGYEVAQSNAAYLLDQSEEDLFSRGVISTLERAFSLYSRAAAQG---NADAILKLGDYYYYGLGTGRDPEKAAA  496 (552)
T ss_pred             HHHHHHhhhhHHhhHHHHHHHhccccccccccccchhHHHHHHHHHHhcc---CHHHHhhhcceeeecCCCCCChHHHHH
Confidence            55555443221111111111111   00    124556666666666544   455555565555443    34777777


Q ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHhc----CCCHHHHHHHHHHHHHC
Q 003295          764 LLNVMAEKGISPDSITYNVFMDGHCK----GGNVEEAFKVCDRMLSE  806 (833)
Q Consensus       764 ~~~~m~~~g~~p~~~~~~~l~~~~~~----~g~~~~A~~~~~~m~~~  806 (833)
                      .+....+++    ....-.+...+..    .. +..|.++++...+.
T Consensus       497 ~y~~a~~~~----~~~~~nlg~~~e~g~g~~~-~~~a~~~~~~~~~~  538 (552)
T KOG1550|consen  497 QYARASEQG----AQALFNLGYMHEHGEGIKV-LHLAKRYYDQASEE  538 (552)
T ss_pred             HHHHHHHhh----hHHHhhhhhHHhcCcCcch-hHHHHHHHHHHHhc
Confidence            777777654    3333334433321    23 67788887777663

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=94.21  E-value=1.3  Score=38.96  Aligned_cols=79  Identities=16%  Similarity=0.171  Sum_probs=57.0

Q ss_pred             HHHHHHHHhcCChhHHHHHHHHhhcCCCC---CHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHH
Q 003295          222 NFLLNSLVKANEVQKGIEVFETMCRGVSP---DVFLFSTAINAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIHGLC  298 (833)
Q Consensus       222 ~~ll~~~~~~g~~~~A~~~~~~~~~~~~~---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~  298 (833)
                      -.-.....+.|++++|.+.|+.+....|-   ...+-..++.+|.+.|++++|...+++.++..+....+-|-..+.|++
T Consensus        14 y~~a~~~l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~vdYa~Y~~gL~   93 (142)
T PF13512_consen   14 YQEAQEALQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPNVDYAYYMRGLS   93 (142)
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCCccHHHHHHHHH
Confidence            33344456778899999999888743333   345566788889999999999999999988766555566777777765


Q ss_pred             hc
Q 003295          299 RN  300 (833)
Q Consensus       299 ~~  300 (833)
                      .-
T Consensus        94 ~~   95 (142)
T PF13512_consen   94 YY   95 (142)
T ss_pred             HH
Confidence            43

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=94.07  E-value=11  Score=44.84  Aligned_cols=28  Identities=11%  Similarity=0.126  Sum_probs=16.5

Q ss_pred             HHHHHHHHHHHhcC--CHHHHHHHHHHHhh
Q 003295          498 VTSNALIHGMCEAG--NLKEAGKLLMEMLQ  525 (833)
Q Consensus       498 ~~~~~li~~~~~~g--~~~~A~~~l~~m~~  525 (833)
                      .-...++..|.+.+  .+++|+....+...
T Consensus       791 ~~~~~ilTs~vk~~~~~ie~aL~kI~~l~~  820 (1265)
T KOG1920|consen  791 KFNLFILTSYVKSNPPEIEEALQKIKELQL  820 (1265)
T ss_pred             hhhHHHHHHHHhcCcHHHHHHHHHHHHHHh
Confidence            33445666666666  56666666665554

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=94.04  E-value=0.86  Score=47.06  Aligned_cols=96  Identities=17%  Similarity=0.088  Sum_probs=71.9

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 003295          673 VTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGY  752 (833)
Q Consensus       673 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~  752 (833)
                      ..++.+.-++.+.+++.+|++.-.+.+..+ ++|+....--..+|...|+++.|+..|+++++.. +-|..+-+.++..-
T Consensus       258 ~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~-~~N~KALyRrG~A~l~~~e~~~A~~df~ka~k~~-P~Nka~~~el~~l~  335 (397)
T KOG0543|consen  258 ACHLNLAACYLKLKEYKEAIESCNKVLELD-PNNVKALYRRGQALLALGEYDLARDDFQKALKLE-PSNKAARAELIKLK  335 (397)
T ss_pred             HHhhHHHHHHHhhhhHHHHHHHHHHHHhcC-CCchhHHHHHHHHHHhhccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHH
Confidence            356677788889999999999999998875 5677777778889999999999999999999853 44445555555555


Q ss_pred             HhcCCHHH-HHHHHHHHHH
Q 003295          753 CKLGDMKE-AAKLLNVMAE  770 (833)
Q Consensus       753 ~~~g~~~~-A~~~~~~m~~  770 (833)
                      .+...+.+ ..++|..|..
T Consensus       336 ~k~~~~~~kekk~y~~mF~  354 (397)
T KOG0543|consen  336 QKIREYEEKEKKMYANMFA  354 (397)
T ss_pred             HHHHHHHHHHHHHHHHHhh
Confidence            44444443 4677777765

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=94.02  E-value=3.4  Score=36.87  Aligned_cols=43  Identities=23%  Similarity=0.318  Sum_probs=22.5

Q ss_pred             HHHHHHHccCCHHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHc
Q 003295          607 VMIDGFCKADKIEEGETLFNEMISKKMELNPVVYNTLIRAYCKI  650 (833)
Q Consensus       607 ~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~  650 (833)
                      .++..+...+........++.+...+. .++...+.++..|++.
T Consensus        12 ~vv~~~~~~~~~~~l~~yLe~~~~~~~-~~~~~~~~li~ly~~~   54 (140)
T smart00299       12 EVVELFEKRNLLEELIPYLESALKLNS-ENPALQTKLIELYAKY   54 (140)
T ss_pred             HHHHHHHhCCcHHHHHHHHHHHHccCc-cchhHHHHHHHHHHHH
Confidence            344444445555555555555555543 3555555555555544

>PF12921 ATP13: Mitochondrial ATPase expression; InterPro: IPR024319 ATPase expression protein 2 (also known as ATP13 in some species) is necessary for the expression of subunit 9 of mitochondrial ATPase

Probab=93.94  E-value=1  Score=39.11  Aligned_cols=48  Identities=21%  Similarity=0.226  Sum_probs=23.8

Q ss_pred             CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC-CCCCChhHHHHHHH
Q 003295          668 ILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKE-GLLPNVACYTALIG  715 (833)
Q Consensus       668 ~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-g~~p~~~~~~~li~  715 (833)
                      ..|+..+..+++.+|+..|++..|+++.+...+. +++-+...|..|+.
T Consensus        48 l~Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~   96 (126)
T PF12921_consen   48 LYPTSRLLIAIVHSFGYNGDIFSALKLVDFFSRKYPIPIPKEFWRRLLE   96 (126)
T ss_pred             CCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Confidence            3445555555555555555555555555554443 44444444544443

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>PF09205 DUF1955: Domain of unknown function (DUF1955); InterPro: IPR015288 Members of this family are found in hypothetical proteins synthesised by the Archaeal organism Sulfolobus

Probab=93.92  E-value=3.2  Score=35.62  Aligned_cols=67  Identities=16%  Similarity=0.135  Sum_probs=46.3

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHHCCCC
Q 003295          742 KITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISPDSITYNVFMDGHCKGGNVEEAFKVCDRMLSEGLS  809 (833)
Q Consensus       742 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~  809 (833)
                      ....+..+..+..+|+-+.-.++++++... -.+++.....+..+|.+.|+..++.+++.++-++|++
T Consensus        86 se~vD~ALd~lv~~~kkDqLdki~~~l~kn-~~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG~k  152 (161)
T PF09205_consen   86 SEYVDLALDILVKQGKKDQLDKIYNELKKN-EEINPEFLVKIANAYKKLGNTREANELLKEACEKGLK  152 (161)
T ss_dssp             -HHHHHHHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT-H
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHhhc-cCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhchH
Confidence            344556667778888888888888887653 3678888888888999999988998888888888775

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=93.88  E-value=6.9  Score=38.18  Aligned_cols=180  Identities=16%  Similarity=0.139  Sum_probs=98.8

Q ss_pred             HHHHHHHHHHHHhcCChhHHHHHHHHhhc---CCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHH
Q 003295          218 LKTCNFLLNSLVKANEVQKGIEVFETMCR---GVSPDVFLFSTAINAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNII  294 (833)
Q Consensus       218 ~~~~~~ll~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li  294 (833)
                      ..-|+..+. ..+.|++++|.+.|+.+.+   +.+-...+-..++-++.+.+++++|+..+++....-+.....-|-..+
T Consensus        35 ~~LY~~g~~-~L~~gn~~~A~~~fe~l~~~~p~s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~lyP~~~n~dY~~Yl  113 (254)
T COG4105          35 SELYNEGLT-ELQKGNYEEAIKYFEALDSRHPFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIRLYPTHPNADYAYYL  113 (254)
T ss_pred             HHHHHHHHH-HHhcCCHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCCCCCChhHHHHH
Confidence            334444444 4477899999999999883   233345667777888889999999999999988765544455676667


Q ss_pred             HHHHhc-------CChh---HHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHH
Q 003295          295 HGLCRN-------GRLY---EAFHLKEKMVLREVEPSLITYSILINGLIKLEKFDDANFVLKEMSVRGFVPNYVVYNTLI  364 (833)
Q Consensus       295 ~~~~~~-------g~~~---~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~y~~li  364 (833)
                      .+++.-       .+..   +|+.-|++.+.+  -||..             =..+|..........    =...=..+.
T Consensus       114 kgLs~~~~i~~~~rDq~~~~~A~~~f~~~i~r--yPnS~-------------Ya~dA~~~i~~~~d~----LA~~Em~Ia  174 (254)
T COG4105         114 KGLSYFFQIDDVTRDQSAARAAFAAFKELVQR--YPNSR-------------YAPDAKARIVKLNDA----LAGHEMAIA  174 (254)
T ss_pred             HHHHHhccCCccccCHHHHHHHHHHHHHHHHH--CCCCc-------------chhhHHHHHHHHHHH----HHHHHHHHH
Confidence            666632       1222   233333333332  12211             001111111111100    000012345


Q ss_pred             HHHHHcCChHHHHHHHHHHHhCCCCCChh---HHHHHHHHHHhcCChhHHHHHHHHH
Q 003295          365 DGYCKKGNISEALKIRDDMVSKGMSPNSV---TFNSLIHGFCKSGQMDNAENALEEM  418 (833)
Q Consensus       365 ~~~~~~g~~~~A~~~~~~m~~~g~~p~~~---~~~~li~~~~~~g~~~~A~~~l~~~  418 (833)
                      ..|.+.|.+..|..-+++|++. .+-...   .+-.+..+|.+.|-.++|...-.-+
T Consensus       175 ryY~kr~~~~AA~nR~~~v~e~-y~~t~~~~eaL~~l~eaY~~lgl~~~a~~~~~vl  230 (254)
T COG4105         175 RYYLKRGAYVAAINRFEEVLEN-YPDTSAVREALARLEEAYYALGLTDEAKKTAKVL  230 (254)
T ss_pred             HHHHHhcChHHHHHHHHHHHhc-cccccchHHHHHHHHHHHHHhCChHHHHHHHHHH
Confidence            5677777777777777777765 221222   3344555666666666665544433

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=93.87  E-value=1.3  Score=44.20  Aligned_cols=155  Identities=12%  Similarity=0.056  Sum_probs=112.4

Q ss_pred             HhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHHHHC-CCccCHHHH--HHHHHHHHHcCChH
Q 003295          578 CSLGKMEEAIELWEECKRTVFGPDIYTYGVMIDGFCKADKIEEGETLFNEMISK-KMELNPVVY--NTLIRAYCKIGNTT  654 (833)
Q Consensus       578 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~--~~li~~~~~~g~~~  654 (833)
                      -..|+..+|...|+++.+. ++.|...+...-+++.-.|+.+.-...+++++.. +....-.+|  ..+.-++...|-++
T Consensus       114 ~~~g~~h~a~~~wdklL~d-~PtDlla~kfsh~a~fy~G~~~~~k~ai~kIip~wn~dlp~~sYv~GmyaFgL~E~g~y~  192 (491)
T KOG2610|consen  114 WGRGKHHEAAIEWDKLLDD-YPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPKWNADLPCYSYVHGMYAFGLEECGIYD  192 (491)
T ss_pred             hccccccHHHHHHHHHHHh-CchhhhhhhhhhhHHHhccchhhhhhHHHHhccccCCCCcHHHHHHHHHHhhHHHhccch
Confidence            3568888888899998875 5678888888888999999999999999888765 222122233  33444566889999


Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC---CCCCChhHHHHHHHHHHhcCChhHHHHHHH
Q 003295          655 AAFRLSNDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKE---GLLPNVACYTALIGGYCKLGQMDEAESVLQ  731 (833)
Q Consensus       655 ~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~---g~~p~~~~~~~li~~~~~~g~~~~A~~~~~  731 (833)
                      +|.+.-++..+.+ +.|.-.-....+.+.-.|+..++.++..+-...   +--.-...|-...-.+...+.++.|+++|+
T Consensus       193 dAEk~A~ralqiN-~~D~Wa~Ha~aHVlem~~r~Keg~eFM~~ted~Wr~s~mlasHNyWH~Al~~iE~aeye~aleIyD  271 (491)
T KOG2610|consen  193 DAEKQADRALQIN-RFDCWASHAKAHVLEMNGRHKEGKEFMYKTEDDWRQSWMLASHNYWHTALFHIEGAEYEKALEIYD  271 (491)
T ss_pred             hHHHHHHhhccCC-CcchHHHHHHHHHHHhcchhhhHHHHHHhcccchhhhhHHHhhhhHHHHHhhhcccchhHHHHHHH
Confidence            9999999988876 457777778888888999999999887665432   111112234444445666799999999998


Q ss_pred             HHH
Q 003295          732 EMA  734 (833)
Q Consensus       732 ~m~  734 (833)
                      +-+
T Consensus       272 ~ei  274 (491)
T KOG2610|consen  272 REI  274 (491)
T ss_pred             HHH
Confidence            755

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=93.84  E-value=13  Score=41.11  Aligned_cols=118  Identities=22%  Similarity=0.152  Sum_probs=77.2

Q ss_pred             cCCHHHHHHHHHHHHHCCCccCHHHHHH-HHHHHHHcCChHHHHHHHHHHHhCC--C-CCCHHHHHHHHHHHHhcCCHHH
Q 003295          615 ADKIEEGETLFNEMISKKMELNPVVYNT-LIRAYCKIGNTTAAFRLSNDMKSRG--I-LPTSVTYSSLIHGLCNIGLIED  690 (833)
Q Consensus       615 ~g~~~~A~~~~~~~~~~~~~~~~~~~~~-li~~~~~~g~~~~A~~~~~~m~~~~--~-~p~~~~~~~li~~~~~~g~~~~  690 (833)
                      ....+.|.+++..+.+.  -|+...|.. -...+...|++++|++.|++.....  . +.....+--+...+.-..++++
T Consensus       246 ~~~~~~a~~lL~~~~~~--yP~s~lfl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~  323 (468)
T PF10300_consen  246 DVPLEEAEELLEEMLKR--YPNSALFLFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEE  323 (468)
T ss_pred             CCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHH
Confidence            45677888888888876  345544443 3455667788888888888765321  0 1122334555666778889999


Q ss_pred             HHHHHHHHHHCCCCCChhHHHHHH-HHHHhcCCh-------hHHHHHHHHHHh
Q 003295          691 AKCLFDEMRKEGLLPNVACYTALI-GGYCKLGQM-------DEAESVLQEMAS  735 (833)
Q Consensus       691 A~~~~~~m~~~g~~p~~~~~~~li-~~~~~~g~~-------~~A~~~~~~m~~  735 (833)
                      |.+.|.++.+.. .....+|..+. .++...|+.       ++|.++|.+...
T Consensus       324 A~~~f~~L~~~s-~WSka~Y~Y~~a~c~~~l~~~~~~~~~~~~a~~l~~~vp~  375 (468)
T PF10300_consen  324 AAEYFLRLLKES-KWSKAFYAYLAAACLLMLGREEEAKEHKKEAEELFRKVPK  375 (468)
T ss_pred             HHHHHHHHHhcc-ccHHHHHHHHHHHHHHhhccchhhhhhHHHHHHHHHHHHH
Confidence            999999998863 34455554443 334557777       788888887653

In humans this protein is expressed in primary breast carcinomas but not in normal breast tissue, and has a putative eukaryotic RNP-1 RNA binding region and a candidate anchoring transmembrane domain. The human protein is coordinately regulated with oestrogen receptor, but is not necessarily oestradiol-responsive []. Members of this family carry a tetratricopeptide repeat (IPR013105 from INTERPRO) at their C terminus.

>PF08631 SPO22: Meiosis protein SPO22/ZIP4 like; InterPro: IPR013940 SPO22 is a meiosis-specific protein with similarity to phospholipase A2, involved in completion of nuclear divisions during meiosis; induced early in meiosis []

Probab=93.82  E-value=8.6  Score=39.12  Aligned_cols=17  Identities=29%  Similarity=0.362  Sum_probs=10.4

Q ss_pred             HhcCCCHHHHHHHHHHH
Q 003295          787 HCKGGNVEEAFKVCDRM  803 (833)
Q Consensus       787 ~~~~g~~~~A~~~~~~m  803 (833)
                      +.+.+++++|.++|+-.
T Consensus       256 ~~~~k~y~~A~~w~~~a  272 (278)
T PF08631_consen  256 HYKAKNYDEAIEWYELA  272 (278)
T ss_pred             HHhhcCHHHHHHHHHHH
Confidence            44566666666666643

It is also involved in sporulation [].

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=93.80  E-value=1  Score=44.15  Aligned_cols=96  Identities=17%  Similarity=0.156  Sum_probs=63.4

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHhhcCCCCCH---HHHHHHHHHHHhcCChhHHHHHHHHHHHcCCC-CC-hhhHHHHH
Q 003295          220 TCNFLLNSLVKANEVQKGIEVFETMCRGVSPDV---FLFSTAINAFCKRGRIEDAIGLFTKMEELGIA-PN-VVTYNNII  294 (833)
Q Consensus       220 ~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~---~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~-p~-~~~~~~li  294 (833)
                      .|+.-+.. .+.|++..|...|...+++.|.+.   .++.-|..++..+|++++|...|..+.+.-+. |- +..+-.|.
T Consensus       144 ~Y~~A~~~-~ksgdy~~A~~~F~~fi~~YP~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallKlg  222 (262)
T COG1729         144 LYNAALDL-YKSGDYAEAEQAFQAFIKKYPNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKLG  222 (262)
T ss_pred             HHHHHHHH-HHcCCHHHHHHHHHHHHHcCCCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHHH
Confidence            46665554 466778888888888774443332   23444778888888888888888887765221 11 24556666


Q ss_pred             HHHHhcCChhHHHHHHHHHHhC
Q 003295          295 HGLCRNGRLYEAFHLKEKMVLR  316 (833)
Q Consensus       295 ~~~~~~g~~~~A~~~~~~m~~~  316 (833)
                      ....+.|+.++|...|++..++
T Consensus       223 ~~~~~l~~~d~A~atl~qv~k~  244 (262)
T COG1729         223 VSLGRLGNTDEACATLQQVIKR  244 (262)
T ss_pred             HHHHHhcCHHHHHHHHHHHHHH
Confidence            6677777778888877777765

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=93.78  E-value=5  Score=36.28  Aligned_cols=129  Identities=12%  Similarity=0.062  Sum_probs=64.9

Q ss_pred             HhcCCHHHHHHHHHHHHHCCCCCChhH-HHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHH---HHHHHHHHHHhcCCH
Q 003295          683 CNIGLIEDAKCLFDEMRKEGLLPNVAC-YTALIGGYCKLGQMDEAESVLQEMASINIHPNKI---TYTIMIGGYCKLGDM  758 (833)
Q Consensus       683 ~~~g~~~~A~~~~~~m~~~g~~p~~~~-~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~---~~~~li~~~~~~g~~  758 (833)
                      .+.+..++|+.-|..+.+.|...-++. ..-........|+...|...|.++-...-.|-..   .-.--...+...|.+
T Consensus        69 A~~~k~d~Alaaf~~lektg~g~YpvLA~mr~at~~a~kgdta~AV~aFdeia~dt~~P~~~rd~ARlraa~lLvD~gsy  148 (221)
T COG4649          69 AQENKTDDALAAFTDLEKTGYGSYPVLARMRAATLLAQKGDTAAAVAAFDEIAADTSIPQIGRDLARLRAAYLLVDNGSY  148 (221)
T ss_pred             HHcCCchHHHHHHHHHHhcCCCcchHHHHHHHHHHHhhcccHHHHHHHHHHHhccCCCcchhhHHHHHHHHHHHhccccH
Confidence            344555666666666655542221111 1112233445566666666666665432222221   011112334556666


Q ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHHCCCCCC
Q 003295          759 KEAAKLLNVMAEKGISPDSITYNVFMDGHCKGGNVEEAFKVCDRMLSEGLSLD  811 (833)
Q Consensus       759 ~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~p~  811 (833)
                      ++.....+-+...+-+-....-..|.-+-.+.|++.+|.++|..+.+....|.
T Consensus       149 ~dV~srvepLa~d~n~mR~sArEALglAa~kagd~a~A~~~F~qia~Da~apr  201 (221)
T COG4649         149 DDVSSRVEPLAGDGNPMRHSAREALGLAAYKAGDFAKAKSWFVQIANDAQAPR  201 (221)
T ss_pred             HHHHHHhhhccCCCChhHHHHHHHHhHHHHhccchHHHHHHHHHHHccccCcH
Confidence            66666555554433222334455666666677777777777777666544554

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=93.74  E-value=7.3  Score=38.01  Aligned_cols=73  Identities=21%  Similarity=0.218  Sum_probs=42.9

Q ss_pred             HHHhcCCHHHHHHHHHHHhhCCCC--CCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 003295          506 GMCEAGNLKEAGKLLMEMLQRGLI--LDKVTYNTLILGCCKDGKPEEGFKLKEDMIKRGIQPDNYTYNLLLHGLC  578 (833)
Q Consensus       506 ~~~~~g~~~~A~~~l~~m~~~g~~--~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~  578 (833)
                      .-.+.|++++|.+.|+.+..+.+-  -...+.-.++.++.+.+++++|+...++.++.-+.....-|...|.+++
T Consensus        43 ~~L~~gn~~~A~~~fe~l~~~~p~s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~lyP~~~n~dY~~YlkgLs  117 (254)
T COG4105          43 TELQKGNYEEAIKYFEALDSRHPFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIRLYPTHPNADYAYYLKGLS  117 (254)
T ss_pred             HHHhcCCHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCCCCCChhHHHHHHHHH
Confidence            345667777777777777755322  1234444556666677777777777777776644333334444444444

>PF04053 Coatomer_WDAD: Coatomer WD associated region ; InterPro: IPR006692 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=93.62  E-value=1.7  Score=47.17  Aligned_cols=131  Identities=20%  Similarity=0.234  Sum_probs=67.8

Q ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhHHHHHHHH
Q 003295          637 PVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGG  716 (833)
Q Consensus       637 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~  716 (833)
                      ....+.++.-+.+.|.++.|+++.++-..            -.....+.|+++.|.++.++      .++...|..|.+.
T Consensus       295 ~~~~~~i~~fL~~~G~~e~AL~~~~D~~~------------rFeLAl~lg~L~~A~~~a~~------~~~~~~W~~Lg~~  356 (443)
T PF04053_consen  295 KDQGQSIARFLEKKGYPELALQFVTDPDH------------RFELALQLGNLDIALEIAKE------LDDPEKWKQLGDE  356 (443)
T ss_dssp             HHHHHHHHHHHHHTT-HHHHHHHSS-HHH------------HHHHHHHCT-HHHHHHHCCC------CSTHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHCCCHHHHHhhcCChHH------------HhHHHHhcCCHHHHHHHHHh------cCcHHHHHHHHHH
Confidence            34456666666666666666655433211            12233456666666654321      2355566667666


Q ss_pred             HHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCCHHHH
Q 003295          717 YCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISPDSITYNVFMDGHCKGGNVEEA  796 (833)
Q Consensus       717 ~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A  796 (833)
                      ..+.|+++-|++.|++..+         |..|.-.|.-.|+.+.-.++.+.+...|      -++.-..++.-.|+.++.
T Consensus       357 AL~~g~~~lAe~c~~k~~d---------~~~L~lLy~~~g~~~~L~kl~~~a~~~~------~~n~af~~~~~lgd~~~c  421 (443)
T PF04053_consen  357 ALRQGNIELAEECYQKAKD---------FSGLLLLYSSTGDREKLSKLAKIAEERG------DINIAFQAALLLGDVEEC  421 (443)
T ss_dssp             HHHTTBHHHHHHHHHHCT----------HHHHHHHHHHCT-HHHHHHHHHHHHHTT-------HHHHHHHHHHHT-HHHH
T ss_pred             HHHcCCHHHHHHHHHhhcC---------ccccHHHHHHhCCHHHHHHHHHHHHHcc------CHHHHHHHHHHcCCHHHH
Confidence            6667777777666666442         3445555666666666666665555544      133333334444555555


Q ss_pred             HHHH
Q 003295          797 FKVC  800 (833)
Q Consensus       797 ~~~~  800 (833)
                      .+++
T Consensus       422 v~lL  425 (443)
T PF04053_consen  422 VDLL  425 (443)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            5544

This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the WD-associated region found in coatomer subunits alpha, beta and beta' subunits. The alpha-subunit (RET1P) of the coatomer complex in Saccharomyces cerevisiae (Baker's yeast), participates in membrane transport between the endoplasmic reticulum and Golgi apparatus. The protein contains six WD-40 repeat motifs in its N-terminal region []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006886 intracellular protein transport, 0016192 vesicle-mediated transport, 0030117 membrane coat; PDB: 3MKQ_B.

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=93.52  E-value=4.9  Score=42.92  Aligned_cols=59  Identities=20%  Similarity=0.264  Sum_probs=33.6

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHCC-CCCChhHHHHHHHHHHhcCChhHHHHHHHHHHh
Q 003295          677 SLIHGLCNIGLIEDAKCLFDEMRKEG-LLPNVACYTALIGGYCKLGQMDEAESVLQEMAS  735 (833)
Q Consensus       677 ~li~~~~~~g~~~~A~~~~~~m~~~g-~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  735 (833)
                      .+..++-+.|+.++|.+.+.+|.+.. ...+..+...|+.++...+.+.++..++.+-.+
T Consensus       264 RLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdD  323 (539)
T PF04184_consen  264 RLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDD  323 (539)
T ss_pred             HHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhcc
Confidence            34445556666666666666666532 111223445566666666666666666666543

The molecular function of this protein is uncertain.

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=93.25  E-value=1  Score=44.86  Aligned_cols=79  Identities=15%  Similarity=0.249  Sum_probs=47.9

Q ss_pred             hhHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH-----cCCCCCHHHHH
Q 003295          707 VACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAE-----KGISPDSITYN  781 (833)
Q Consensus       707 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~-----~g~~p~~~~~~  781 (833)
                      ..++..++..+...|+.+.+.+.++++.+.. +-|...|..++.+|.+.|+...|+..++++.+     .|+.|...+..
T Consensus       153 ~~~l~~lae~~~~~~~~~~~~~~l~~Li~~d-p~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~~  231 (280)
T COG3629         153 IKALTKLAEALIACGRADAVIEHLERLIELD-PYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELRA  231 (280)
T ss_pred             HHHHHHHHHHHHhcccHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHHH
Confidence            3455556666666666666666666666653 44566666666666666666666666666543     45556555555


Q ss_pred             HHHHH
Q 003295          782 VFMDG  786 (833)
Q Consensus       782 ~l~~~  786 (833)
                      .+...
T Consensus       232 ~y~~~  236 (280)
T COG3629         232 LYEEI  236 (280)
T ss_pred             HHHHH
Confidence            44444

>PF04053 Coatomer_WDAD: Coatomer WD associated region ; InterPro: IPR006692 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=93.16  E-value=1.3  Score=47.95  Aligned_cols=101  Identities=22%  Similarity=0.198  Sum_probs=69.2

Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCChhh
Q 003295          471 GLCKNGKQAEATELCFRLFEKGFTVNTVTSNALIHGMCEAGNLKEAGKLLMEMLQRGLILDKVTYNTLILGCCKDGKPEE  550 (833)
Q Consensus       471 ~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~l~~m~~~g~~~~~~~~~~li~~~~~~g~~~~  550 (833)
                      ...+.|+++.|.++.++      ..+...|..|.+...++|+++-|.+.|.+..+         |..|+-.|.-.|+.+.
T Consensus       327 LAl~lg~L~~A~~~a~~------~~~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~d---------~~~L~lLy~~~g~~~~  391 (443)
T PF04053_consen  327 LALQLGNLDIALEIAKE------LDDPEKWKQLGDEALRQGNIELAEECYQKAKD---------FSGLLLLYSSTGDREK  391 (443)
T ss_dssp             HHHHCT-HHHHHHHCCC------CSTHHHHHHHHHHHHHTTBHHHHHHHHHHCT----------HHHHHHHHHHCT-HHH
T ss_pred             HHHhcCCHHHHHHHHHh------cCcHHHHHHHHHHHHHcCCHHHHHHHHHhhcC---------ccccHHHHHHhCCHHH
Confidence            44567777777776433      23677899999999999999999988887653         4566667777888887


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 003295          551 GFKLKEDMIKRGIQPDNYTYNLLLHGLCSLGKMEEAIELWEE  592 (833)
Q Consensus       551 A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~  592 (833)
                      -.++.+.....|-      ++....++.-.|+.++..+++.+
T Consensus       392 L~kl~~~a~~~~~------~n~af~~~~~lgd~~~cv~lL~~  427 (443)
T PF04053_consen  392 LSKLAKIAEERGD------INIAFQAALLLGDVEECVDLLIE  427 (443)
T ss_dssp             HHHHHHHHHHTT-------HHHHHHHHHHHT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHccC------HHHHHHHHHHcCCHHHHHHHHHH
Confidence            7777777776642      45555566666888777777654

This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the WD-associated region found in coatomer subunits alpha, beta and beta' subunits. The alpha-subunit (RET1P) of the coatomer complex in Saccharomyces cerevisiae (Baker's yeast), participates in membrane transport between the endoplasmic reticulum and Golgi apparatus. The protein contains six WD-40 repeat motifs in its N-terminal region []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006886 intracellular protein transport, 0016192 vesicle-mediated transport, 0030117 membrane coat; PDB: 3MKQ_B.

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=93.01  E-value=7.1  Score=41.77  Aligned_cols=78  Identities=21%  Similarity=0.172  Sum_probs=56.5

Q ss_pred             ChhHHHHHHHHHHhcCChhHHHHHHHHHHhCC-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCH--HHHHH
Q 003295          706 NVACYTALIGGYCKLGQMDEAESVLQEMASIN-IHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISPDS--ITYNV  782 (833)
Q Consensus       706 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g-~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~--~~~~~  782 (833)
                      -..+-..+..++.+.|+.++|.+.+++|.+.. ...+......|+.++...+.+.++..++.+-.+.. -|..  ..|+.
T Consensus       258 ~~y~KrRLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdDi~-lpkSAti~YTa  336 (539)
T PF04184_consen  258 LVYAKRRLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDDIS-LPKSATICYTA  336 (539)
T ss_pred             hhhhHHHHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhcccc-CCchHHHHHHH
Confidence            34444557778889999999999999998642 11234577889999999999999999999865432 2333  45555


Q ss_pred             HH
Q 003295          783 FM  784 (833)
Q Consensus       783 l~  784 (833)
                      .+
T Consensus       337 AL  338 (539)
T PF04184_consen  337 AL  338 (539)
T ss_pred             HH
Confidence            43

The molecular function of this protein is uncertain.

>KOG1550 consensus Extracellular protein SEL-1 and related proteins [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=92.94  E-value=7.3  Score=44.10  Aligned_cols=45  Identities=11%  Similarity=0.196  Sum_probs=22.5

Q ss_pred             HHHHHHHHHHHhhCCCCCCHhhHHHH----HHH-HHccCCHHHHHHHHHHHHH
Q 003295          583 MEEAIELWEECKRTVFGPDIYTYGVM----IDG-FCKADKIEEGETLFNEMIS  630 (833)
Q Consensus       583 ~~~A~~~~~~~~~~~~~~~~~~~~~l----i~~-~~~~g~~~~A~~~~~~~~~  630 (833)
                      ...|.++++...+.|.   ...-..+    ..+ +....+.+.|+..|..+.+
T Consensus       228 ~~~a~~~~~~~a~~g~---~~a~~~~g~~y~~G~~g~~~d~e~a~~~l~~aa~  277 (552)
T KOG1550|consen  228 LSEAFKYYREAAKLGH---SEAQYALGICYLAGTYGVTQDLESAIEYLKLAAE  277 (552)
T ss_pred             hhHHHHHHHHHHhhcc---hHHHHHHHHHHhhccccccccHHHHHHHHHHHHH
Confidence            4556666666666542   2221111    122 3345566666666666654

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=92.45  E-value=0.96  Score=44.01  Aligned_cols=71  Identities=14%  Similarity=0.184  Sum_probs=44.5

Q ss_pred             ChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc----------------CCHHHHHHHHHHHHHCCCCCChhHHHHHHH
Q 003295          652 NTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNI----------------GLIEDAKCLFDEMRKEGLLPNVACYTALIG  715 (833)
Q Consensus       652 ~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~----------------g~~~~A~~~~~~m~~~g~~p~~~~~~~li~  715 (833)
                      .++--...++.|.+.|+.-|..+|+.|++.+-+.                ..-+=+++++++|...|+.||..+-..|++
T Consensus        87 HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfiP~nvfQ~~F~HYP~QQ~C~I~vLeqME~hGVmPdkE~e~~lvn  166 (406)
T KOG3941|consen   87 HVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFIPQNVFQKVFLHYPQQQNCAIKVLEQMEWHGVMPDKEIEDILVN  166 (406)
T ss_pred             hHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccccccHHHHHHHHhhCchhhhHHHHHHHHHHHcCCCCchHHHHHHHH
Confidence            3344444445555555555555555555443221                112347888999999999999999889999


Q ss_pred             HHHhcCC
Q 003295          716 GYCKLGQ  722 (833)
Q Consensus       716 ~~~~~g~  722 (833)
                      ++.+.+-
T Consensus       167 ~FGr~~~  173 (406)
T KOG3941|consen  167 AFGRWNF  173 (406)
T ss_pred             Hhccccc
Confidence            8887664

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=92.26  E-value=5.6  Score=40.43  Aligned_cols=229  Identities=11%  Similarity=0.055  Sum_probs=116.8

Q ss_pred             HHhcCChhhHHHHHHHHHHCC--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCC--CC---CCHhhHHHHHHHHHc
Q 003295          542 CCKDGKPEEGFKLKEDMIKRG--IQPDNYTYNLLLHGLCSLGKMEEAIELWEECKRTV--FG---PDIYTYGVMIDGFCK  614 (833)
Q Consensus       542 ~~~~g~~~~A~~~~~~m~~~g--~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~--~~---~~~~~~~~li~~~~~  614 (833)
                      +....+.++|+..+.+.+..-  ...-..++..+..+.++.|.+++++..--.-+..-  ..   .-...|..+..++.+
T Consensus        16 Ly~s~~~~~al~~w~~~L~~l~~~~~Rf~~lG~l~~a~s~~g~y~~mL~~a~sqi~~a~~~~ds~~~~ea~lnlar~~e~   95 (518)
T KOG1941|consen   16 LYQSNQTEKALQVWTKVLEKLSDLMGRFRVLGCLVTAHSEMGRYKEMLKFAVSQIDTARELEDSDFLLEAYLNLARSNEK   95 (518)
T ss_pred             HhcCchHHHHHHHHHHHHHHHHHHHHHHHHhccchhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            345666777777777666541  11123456666777777777777655322111100  00   112234444444444


Q ss_pred             cCCHHHHHHHHHHHHHC-CCcc---CHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCC-----CCCHHHHHHHHHHHHhc
Q 003295          615 ADKIEEGETLFNEMISK-KMEL---NPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGI-----LPTSVTYSSLIHGLCNI  685 (833)
Q Consensus       615 ~g~~~~A~~~~~~~~~~-~~~~---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~-----~p~~~~~~~li~~~~~~  685 (833)
                      -.++.+++.+-..-... |..|   .-....++..++...+.++++++.|+...+...     -.....+..|...|.+.
T Consensus        96 l~~f~kt~~y~k~~l~lpgt~~~~~~gq~~l~~~~Ahlgls~fq~~Lesfe~A~~~A~~~~D~~LElqvcv~Lgslf~~l  175 (518)
T KOG1941|consen   96 LCEFHKTISYCKTCLGLPGTRAGQLGGQVSLSMGNAHLGLSVFQKALESFEKALRYAHNNDDAMLELQVCVSLGSLFAQL  175 (518)
T ss_pred             HHHhhhHHHHHHHHhcCCCCCcccccchhhhhHHHHhhhHHHHHHHHHHHHHHHHHhhccCCceeeeehhhhHHHHHHHH
Confidence            44444444443333322 1111   112333455666666677777777776654311     11224566777777777


Q ss_pred             CCHHHHHHHHHHHHHC----CCCCChhHH-----HHHHHHHHhcCChhHHHHHHHHHHhCCC-CCCHH----HHHHHHHH
Q 003295          686 GLIEDAKCLFDEMRKE----GLLPNVACY-----TALIGGYCKLGQMDEAESVLQEMASINI-HPNKI----TYTIMIGG  751 (833)
Q Consensus       686 g~~~~A~~~~~~m~~~----g~~p~~~~~-----~~li~~~~~~g~~~~A~~~~~~m~~~g~-~p~~~----~~~~li~~  751 (833)
                      .++++|.-+..++.+-    ++..-..-|     ..+.-++...|.+.+|.+.-++..+..+ ..|..    ....+.+.
T Consensus       176 ~D~~Kal~f~~kA~~lv~s~~l~d~~~kyr~~~lyhmaValR~~G~LgdA~e~C~Ea~klal~~Gdra~~arc~~~~aDI  255 (518)
T KOG1941|consen  176 KDYEKALFFPCKAAELVNSYGLKDWSLKYRAMSLYHMAVALRLLGRLGDAMECCEEAMKLALQHGDRALQARCLLCFADI  255 (518)
T ss_pred             HhhhHHhhhhHhHHHHHHhcCcCchhHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHhCChHHHHHHHHHHHHH
Confidence            7777777666655431    222111122     2233455566777777776666543110 11332    33456666


Q ss_pred             HHhcCCHHHHHHHHHHHHH
Q 003295          752 YCKLGDMKEAAKLLNVMAE  770 (833)
Q Consensus       752 ~~~~g~~~~A~~~~~~m~~  770 (833)
                      |...|+.+.|..-++.+..
T Consensus       256 yR~~gd~e~af~rYe~Am~  274 (518)
T KOG1941|consen  256 YRSRGDLERAFRRYEQAMG  274 (518)
T ss_pred             HHhcccHhHHHHHHHHHHH
Confidence            7777777777776666554

>KOG2062 consensus 26S proteasome regulatory complex, subunit RPN2/PSMD1 [Posttranslational modification, protein turnover, chaperones]

Probab=92.07  E-value=24  Score=39.65  Aligned_cols=255  Identities=14%  Similarity=0.132  Sum_probs=126.0

Q ss_pred             HHhcCChhhHHHHHHHHHHCCCCCCHHHH----HHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHccCC
Q 003295          542 CCKDGKPEEGFKLKEDMIKRGIQPDNYTY----NLLLHGLCSLGKMEEAIELWEECKRTVFGPDIYTYGVMIDGFCKADK  617 (833)
Q Consensus       542 ~~~~g~~~~A~~~~~~m~~~g~~p~~~~~----~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  617 (833)
                      ....|+..+|.+++.-.+-..-.+ ...|    ..+.-++...|..+...+++.+..+..-.+....-..|.-++...|.
T Consensus       367 vIH~G~~~~~~~ll~pYLP~~~~~-~s~y~EGGalyAlGLIhA~hG~~~~~yL~~~Lk~~~~e~v~hG~cLGlGLa~mGS  445 (929)
T KOG2062|consen  367 VIHRGHENQAMKLLAPYLPKEAGE-GSGYKEGGALYALGLIHANHGRGITDYLLQQLKTAENEVVRHGACLGLGLAGMGS  445 (929)
T ss_pred             eeeccccchHHHHhhhhCCccCCC-CCCccccchhhhhhccccCcCccHHHHHHHHHHhccchhhhhhhhhhccchhccc
Confidence            345677778888777665431111 1111    11222333444444566666665554322222222333334444443


Q ss_pred             HHHHHHHHHHHHHCCCccCHHHHH--HHHHHHHHcCChHHHHHHHHHHHhCCC-CCCHHHH--HHHHHHHHhcCCHHHHH
Q 003295          618 IEEGETLFNEMISKKMELNPVVYN--TLIRAYCKIGNTTAAFRLSNDMKSRGI-LPTSVTY--SSLIHGLCNIGLIEDAK  692 (833)
Q Consensus       618 ~~~A~~~~~~~~~~~~~~~~~~~~--~li~~~~~~g~~~~A~~~~~~m~~~~~-~p~~~~~--~~li~~~~~~g~~~~A~  692 (833)
                      -+  .++++++.+.-..-+.++-.  .+.-+++..|...  .+.+++|..... .-...+.  ..+.-++..-|+.++|.
T Consensus       446 a~--~eiYe~lKevLy~D~AvsGEAAgi~MGl~mlGt~~--~eaiedm~~Ya~ETQHeki~RGl~vGiaL~~ygrqe~Ad  521 (929)
T KOG2062|consen  446 AN--EEIYEKLKEVLYNDSAVSGEAAGIAMGLLMLGTAN--QEAIEDMLTYAQETQHEKIIRGLAVGIALVVYGRQEDAD  521 (929)
T ss_pred             cc--HHHHHHHHHHHhccchhhhhHHHHhhhhHhhCcCc--HHHHHHHHHHhhhhhHHHHHHHHHHhHHHHHhhhhhhhH
Confidence            22  33444443322221222221  2223344444332  123333332210 0011111  12233455667788888


Q ss_pred             HHHHHHHHCCCCCChh--HHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 003295          693 CLFDEMRKEGLLPNVA--CYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAE  770 (833)
Q Consensus       693 ~~~~~m~~~g~~p~~~--~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  770 (833)
                      .+.++|.... .|-..  -..++..+|+-.|+.....+++.-.++. ...|+.-+-...-++.-..+.+....+.+-+.+
T Consensus       522 ~lI~el~~dk-dpilR~~Gm~t~alAy~GTgnnkair~lLh~aVsD-~nDDVrRaAVialGFVl~~dp~~~~s~V~lLse  599 (929)
T KOG2062|consen  522 PLIKELLRDK-DPILRYGGMYTLALAYVGTGNNKAIRRLLHVAVSD-VNDDVRRAAVIALGFVLFRDPEQLPSTVSLLSE  599 (929)
T ss_pred             HHHHHHhcCC-chhhhhhhHHHHHHHHhccCchhhHHHhhcccccc-cchHHHHHHHHHheeeEecChhhchHHHHHHhh
Confidence            8888888653 23211  1123556778888877777776665543 244454555555556666777777777766655


Q ss_pred             cCCCCCH--HHHHHHHHHHhcCCCHHHHHHHHHHHHH
Q 003295          771 KGISPDS--ITYNVFMDGHCKGGNVEEAFKVCDRMLS  805 (833)
Q Consensus       771 ~g~~p~~--~~~~~l~~~~~~~g~~~~A~~~~~~m~~  805 (833)
                      . ..|..  .+-.+|+-+|.-.|+ .+|+.+++.|..
T Consensus       600 s-~N~HVRyGaA~ALGIaCAGtG~-~eAi~lLepl~~  634 (929)
T KOG2062|consen  600 S-YNPHVRYGAAMALGIACAGTGL-KEAINLLEPLTS  634 (929)
T ss_pred             h-cChhhhhhHHHHHhhhhcCCCc-HHHHHHHhhhhc
Confidence            3 45544  234456666666666 578888888776

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=91.66  E-value=0.58  Score=31.83  Aligned_cols=26  Identities=27%  Similarity=0.443  Sum_probs=13.3

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHH
Q 003295          745 YTIMIGGYCKLGDMKEAAKLLNVMAE  770 (833)
Q Consensus       745 ~~~li~~~~~~g~~~~A~~~~~~m~~  770 (833)
                      |..+...|...|++++|++.++++++
T Consensus         4 ~~~la~~~~~~G~~~~A~~~~~~~l~   29 (44)
T PF13428_consen    4 WLALARAYRRLGQPDEAERLLRRALA   29 (44)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            44444555555555555555555554

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=91.56  E-value=0.46  Score=32.33  Aligned_cols=36  Identities=6%  Similarity=-0.064  Sum_probs=17.0

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHhhcCCCCCHHHHH
Q 003295          221 CNFLLNSLVKANEVQKGIEVFETMCRGVSPDVFLFS  256 (833)
Q Consensus       221 ~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~  256 (833)
                      |..+..+|.+.|++++|+++|+++++-.|.|...+.
T Consensus         4 ~~~la~~~~~~G~~~~A~~~~~~~l~~~P~~~~a~~   39 (44)
T PF13428_consen    4 WLALARAYRRLGQPDEAERLLRRALALDPDDPEAWR   39 (44)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHCcCCHHHHH
Confidence            344444555555555555555555533344444443

>PF07035 Mic1: Colon cancer-associated protein Mic1-like; InterPro: IPR009755 This entry represents the C terminus (approximately 160 residues) of a number of proteins that resemble colon cancer-associated protein Mic1

Probab=91.11  E-value=12  Score=34.27  Aligned_cols=32  Identities=13%  Similarity=0.234  Sum_probs=17.0

Q ss_pred             HHHHHHHhCCCCCChhHHHHHHHHHHhcCChh
Q 003295          378 KIRDDMVSKGMSPNSVTFNSLIHGFCKSGQMD  409 (833)
Q Consensus       378 ~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~  409 (833)
                      ++++.+.+.|+.|+...|..+|+.+.+.|++.
T Consensus        15 EYirSl~~~~i~~~~~L~~lli~lLi~~~~~~   46 (167)
T PF07035_consen   15 EYIRSLNQHNIPVQHELYELLIDLLIRNGQFS   46 (167)
T ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHH
Confidence            44444445555555555555555555555543

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=91.06  E-value=14  Score=34.90  Aligned_cols=28  Identities=18%  Similarity=0.104  Sum_probs=16.3

Q ss_pred             HHHHHHHHHHhcCCCHHHHHHHHHHHHH
Q 003295          778 ITYNVFMDGHCKGGNVEEAFKVCDRMLS  805 (833)
Q Consensus       778 ~~~~~l~~~~~~~g~~~~A~~~~~~m~~  805 (833)
                      .||-.|+.-+...|+.++|..+|+-.+.
T Consensus       238 EtyFYL~K~~l~~G~~~~A~~LfKLaia  265 (297)
T COG4785         238 ETYFYLGKYYLSLGDLDEATALFKLAVA  265 (297)
T ss_pred             HHHHHHHHHHhccccHHHHHHHHHHHHH
Confidence            3555556666666666666666655554

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=90.88  E-value=7.6  Score=34.29  Aligned_cols=54  Identities=20%  Similarity=0.236  Sum_probs=22.8

Q ss_pred             HcCChHHHHHHHHHHHhCCCCC--ChhHHHHHHHHHHhcCChhHHHHHHHHHHHCC
Q 003295          369 KKGNISEALKIRDDMVSKGMSP--NSVTFNSLIHGFCKSGQMDNAENALEEMLSRG  422 (833)
Q Consensus       369 ~~g~~~~A~~~~~~m~~~g~~p--~~~~~~~li~~~~~~g~~~~A~~~l~~~~~~g  422 (833)
                      +.|++++|.+.|+.+..+-+..  .......|+.+|.+.|++++|...+++.++..
T Consensus        22 ~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLh   77 (142)
T PF13512_consen   22 QKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLH   77 (142)
T ss_pred             HhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC
Confidence            4444444444444444431110  11223334444444455555554444444443

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=90.49  E-value=16  Score=34.56  Aligned_cols=158  Identities=13%  Similarity=0.049  Sum_probs=89.5

Q ss_pred             HHHHHHHHHHHHhcCChhHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCh--hhHHHHHH
Q 003295          218 LKTCNFLLNSLVKANEVQKGIEVFETMCRGVSPDVFLFSTAINAFCKRGRIEDAIGLFTKMEELGIAPNV--VTYNNIIH  295 (833)
Q Consensus       218 ~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~--~~~~~li~  295 (833)
                      +.++|.|.--+...|+++.|.+.|+...+-.|...++...-.-++.-.|++.-|.+-|.+.-+.... |+  ..|--++.
T Consensus        99 ~~vfNyLG~Yl~~a~~fdaa~eaFds~~ELDp~y~Ya~lNRgi~~YY~gR~~LAq~d~~~fYQ~D~~-DPfR~LWLYl~E  177 (297)
T COG4785          99 PEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPTYNYAHLNRGIALYYGGRYKLAQDDLLAFYQDDPN-DPFRSLWLYLNE  177 (297)
T ss_pred             HHHHHHHHHHHHhcccchHHHHHhhhHhccCCcchHHHhccceeeeecCchHhhHHHHHHHHhcCCC-ChHHHHHHHHHH
Confidence            5677888777888888888888888887544555555544444555678888888877777665322 22  22222221


Q ss_pred             HHHhcCChhHHHHHHH-HHHhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCC-------hhhHHHHHHHH
Q 003295          296 GLCRNGRLYEAFHLKE-KMVLREVEPSLITYSILINGLIKLEKFDDANFVLKEMSVRGFVPN-------YVVYNTLIDGY  367 (833)
Q Consensus       296 ~~~~~g~~~~A~~~~~-~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-------~~~y~~li~~~  367 (833)
                         +.-+..+|..-+. +...    .|..-|...|-.|.- |++.+ ..+++.+..- -..+       ..||--|...|
T Consensus       178 ---~k~dP~~A~tnL~qR~~~----~d~e~WG~~iV~~yL-gkiS~-e~l~~~~~a~-a~~n~~~Ae~LTEtyFYL~K~~  247 (297)
T COG4785         178 ---QKLDPKQAKTNLKQRAEK----SDKEQWGWNIVEFYL-GKISE-ETLMERLKAD-ATDNTSLAEHLTETYFYLGKYY  247 (297)
T ss_pred             ---hhCCHHHHHHHHHHHHHh----ccHhhhhHHHHHHHH-hhccH-HHHHHHHHhh-ccchHHHHHHHHHHHHHHHHHH
Confidence               2335566654433 3332    244455554444432 22211 1223333221 1111       33566677777


Q ss_pred             HHcCChHHHHHHHHHHHhC
Q 003295          368 CKKGNISEALKIRDDMVSK  386 (833)
Q Consensus       368 ~~~g~~~~A~~~~~~m~~~  386 (833)
                      ...|+.++|..+|.-.+..
T Consensus       248 l~~G~~~~A~~LfKLaian  266 (297)
T COG4785         248 LSLGDLDEATALFKLAVAN  266 (297)
T ss_pred             hccccHHHHHHHHHHHHHH
Confidence            7788888888888777664

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=90.45  E-value=40  Score=39.09  Aligned_cols=52  Identities=21%  Similarity=0.147  Sum_probs=31.0

Q ss_pred             ccCCHHHHHHHHHHHHHC----CCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHh
Q 003295          614 KADKIEEGETLFNEMISK----KMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMKS  665 (833)
Q Consensus       614 ~~g~~~~A~~~~~~~~~~----~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  665 (833)
                      ..|++++|.++.+.....    ...+..+.+..+..+..-.|++++|..+..+..+
T Consensus       470 ~~~~~e~a~~lar~al~~L~~~~~~~r~~~~sv~~~a~~~~G~~~~Al~~~~~a~~  525 (894)
T COG2909         470 NRGDPEEAEDLARLALVQLPEAAYRSRIVALSVLGEAAHIRGELTQALALMQQAEQ  525 (894)
T ss_pred             hcCCHHHHHHHHHHHHHhcccccchhhhhhhhhhhHHHHHhchHHHHHHHHHHHHH
Confidence            356667776666655543    2223445566666666667777777766665544

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=90.45  E-value=0.54  Score=30.29  Aligned_cols=27  Identities=19%  Similarity=0.201  Sum_probs=19.0

Q ss_pred             HHHHHHHHHhcCCCHHHHHHHHHHHHH
Q 003295          779 TYNVFMDGHCKGGNVEEAFKVCDRMLS  805 (833)
Q Consensus       779 ~~~~l~~~~~~~g~~~~A~~~~~~m~~  805 (833)
                      +|..|+..|.+.|++++|++++++.+.
T Consensus         1 al~~Lg~~~~~~g~~~~Ai~~y~~aL~   27 (36)
T PF13176_consen    1 ALNNLGRIYRQQGDYEKAIEYYEQALA   27 (36)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            366777788888888888888877543

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=90.27  E-value=3  Score=41.64  Aligned_cols=78  Identities=13%  Similarity=0.164  Sum_probs=52.2

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHh-----CCCCCCHHHHH
Q 003295          672 SVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESVLQEMAS-----INIHPNKITYT  746 (833)
Q Consensus       672 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~-----~g~~p~~~~~~  746 (833)
                      ..++..++..+...|+.+.+...++++.... +-+...|..++.+|.+.|+...|+..|+.+.+     .|+.|...+..
T Consensus       153 ~~~l~~lae~~~~~~~~~~~~~~l~~Li~~d-p~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~~  231 (280)
T COG3629         153 IKALTKLAEALIACGRADAVIEHLERLIELD-PYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELRA  231 (280)
T ss_pred             HHHHHHHHHHHHhcccHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHHH
Confidence            4456666677777777777777777777753 33667777777777777777777777776654     56666665554


Q ss_pred             HHHH
Q 003295          747 IMIG  750 (833)
Q Consensus       747 ~li~  750 (833)
                      ....
T Consensus       232 ~y~~  235 (280)
T COG3629         232 LYEE  235 (280)
T ss_pred             HHHH
Confidence            4443

>PF10345 Cohesin_load: Cohesin loading factor; InterPro: IPR019440 Cohesin loading factor is a conserved protein that has been characterised in fungi

Probab=90.25  E-value=40  Score=38.85  Aligned_cols=182  Identities=13%  Similarity=0.127  Sum_probs=106.7

Q ss_pred             HHHHHHHHHh-CCCCC--CHHHHHHHHHHHH-hcCChhHHHHHHHHhhc-CCCCCH-----HHHHHHHHHHHhcCChhHH
Q 003295          202 AIDVFSIFSS-KGIFP--SLKTCNFLLNSLV-KANEVQKGIEVFETMCR-GVSPDV-----FLFSTAINAFCKRGRIEDA  271 (833)
Q Consensus       202 A~~~f~~~~~-~~~~p--~~~~~~~ll~~~~-~~g~~~~A~~~~~~~~~-~~~~~~-----~~~~~li~~~~~~g~~~~A  271 (833)
                      |+++++.+.+ ..+.|  ...++..+...|. ...++++|+..+.+... ...++.     ..-..++..+.+.+... |
T Consensus        40 ai~CL~~~~~~~~l~p~~ea~~~l~la~iL~~eT~n~~~Ae~~L~k~~~l~~~~~~~d~k~~~~~ll~~i~~~~~~~~-a  118 (608)
T PF10345_consen   40 AIKCLEAVLKQFKLSPRQEARVRLRLASILLEETENLDLAETYLEKAILLCERHRLTDLKFRCQFLLARIYFKTNPKA-A  118 (608)
T ss_pred             HHHHHHHHhccCCCCHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHHHhcCHHH-H
Confidence            6666666653 33333  3456677788777 57889999999998861 111222     22345677777777766 8


Q ss_pred             HHHHHHHHHc----CCCCChhhHHHH-HHHHHhcCChhHHHHHHHHHHhCC---CCCChhhHHHHHHHHH--hcCChhHH
Q 003295          272 IGLFTKMEEL----GIAPNVVTYNNI-IHGLCRNGRLYEAFHLKEKMVLRE---VEPSLITYSILINGLI--KLEKFDDA  341 (833)
Q Consensus       272 ~~~~~~m~~~----g~~p~~~~~~~l-i~~~~~~g~~~~A~~~~~~m~~~~---~~p~~~t~~~li~~~~--~~g~~~~A  341 (833)
                      ....++..+.    +..+-...+.-+ +..+...+++..|.+.++.+...-   ..|-..++-.++.+..  +.+..+++
T Consensus       119 ~~~l~~~I~~~~~~~~~~w~~~frll~~~l~~~~~d~~~Al~~L~~~~~~a~~~~d~~~~v~~~l~~~~l~l~~~~~~d~  198 (608)
T PF10345_consen  119 LKNLDKAIEDSETYGHSAWYYAFRLLKIQLALQHKDYNAALENLQSIAQLANQRGDPAVFVLASLSEALLHLRRGSPDDV  198 (608)
T ss_pred             HHHHHHHHHHHhccCchhHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHhcCCCchhH
Confidence            8888886653    111112233333 222323479999999988877532   2334444555555543  44556777


Q ss_pred             HHHHHHHHHCCC---------CCChhhHHHHHHHHH--HcCChHHHHHHHHHHH
Q 003295          342 NFVLKEMSVRGF---------VPNYVVYNTLIDGYC--KKGNISEALKIRDDMV  384 (833)
Q Consensus       342 ~~~~~~m~~~g~---------~p~~~~y~~li~~~~--~~g~~~~A~~~~~~m~  384 (833)
                      .+.++++.....         .|-..+|..+++.++  ..|++..+...++++.
T Consensus       199 ~~~l~~~~~~~~~~q~~~~~~~~qL~~~~lll~l~~~l~~~~~~~~~~~L~~lq  252 (608)
T PF10345_consen  199 LELLQRAIAQARSLQLDPSVHIPQLKALFLLLDLCCSLQQGDVKNSKQKLKQLQ  252 (608)
T ss_pred             HHHHHHHHHHHhhcccCCCCCcHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            777776633211         234556777777554  6777777766655543

It is associated with the cohesin complex and is required in G1 for cohesin binding to chromosomes, but is dispensable in G2 when cohesion has been established. It is often referred to as Ssl3 in Schizosaccharomyces pombe (Fission yeast), and Scc4 in Saccharomyces cerevisiae (Baker's yeast). It complexes with Mis4 [].

>PF10602 RPN7: 26S proteasome subunit RPN7; InterPro: IPR019585 This entry represents the regulatory subunit RPN7 (known as the non-ATPase regulatory subunit 6 in higher eukaryotes) of the 26S proteasome

Probab=90.17  E-value=3.2  Score=38.78  Aligned_cols=96  Identities=20%  Similarity=0.237  Sum_probs=60.6

Q ss_pred             hHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCH--HHHHHHHHHHHhcCCHHHHHHHHHHHHH---cCCCCCH----H
Q 003295          708 ACYTALIGGYCKLGQMDEAESVLQEMASINIHPNK--ITYTIMIGGYCKLGDMKEAAKLLNVMAE---KGISPDS----I  778 (833)
Q Consensus       708 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~--~~~~~li~~~~~~g~~~~A~~~~~~m~~---~g~~p~~----~  778 (833)
                      ..+..+...|++.|+.++|.+.+.++.+....+..  ..+-.+|+.....|++..+...+.++..   .|-.++.    .
T Consensus        37 ~~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~~~~~~~d~~~~nrlk  116 (177)
T PF10602_consen   37 MALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAESLIEKGGDWERRNRLK  116 (177)
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhccchHHHHHHHH
Confidence            45667777788888888888888887765444432  3566777777778888887777776654   2211222    2


Q ss_pred             HHHHHHHHHhcCCCHHHHHHHHHHHHH
Q 003295          779 TYNVFMDGHCKGGNVEEAFKVCDRMLS  805 (833)
Q Consensus       779 ~~~~l~~~~~~~g~~~~A~~~~~~m~~  805 (833)
                      +|..|  .+...|++.+|-+.|-....
T Consensus       117 ~~~gL--~~l~~r~f~~AA~~fl~~~~  141 (177)
T PF10602_consen  117 VYEGL--ANLAQRDFKEAAELFLDSLS  141 (177)
T ss_pred             HHHHH--HHHHhchHHHHHHHHHccCc
Confidence            22222  23456788888888766553

This entry also matches the evolutionarily related subunit 1 of the COP9 signalosome complex (CSN) from Arabidopsis []. The 26S proteasome plays a major role in ATP-dependent degradation of ubiquitinated proteins. Substrate specificity is conferred by the regulatory particle (RP), which can dissociate into stable lid and base subcomplexes. The regulatory subunit RPN7 is one of the lid subunits of the 26S proteasome and has been shown in Saccharomyces cerevisiae (Baker's yeast) to be required for structural integrity []. The COP9 signalosome is a conserved protein complex composed of eight subunits, where Individual subunits of the complex have been linked to various signal transduction pathways leading to gene expression and cell cycle control []. The overall organisation and the amino acid sequences of the COP9 signalosome subunits resemble the lid subcomplex of the 19 S regulatory particle for the 26 S proteasome []. COP9 subunit 1 (CSN1 or GPS1) of the COP9 complex is an essential subunit of the complex with regard to both structural integrity and functionality. The N-terminal region of subunit 1 (CSN1-N) can inhibit c-fos expression from either a transfected template or a chromosomal transgene (fos-lacZ), and may contain the activity domain that confers most of the repression functions of CSN1. The C-terminal region of subunit 1 (CSN1-C) allows integration of the protein into the COP9 signalosome.

>PF04097 Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic96 is a component of the nuclear pore complex

Probab=89.88  E-value=32  Score=39.55  Aligned_cols=16  Identities=25%  Similarity=0.243  Sum_probs=8.2

Q ss_pred             HHhcCChhHHHHHHHH
Q 003295          332 LIKLEKFDDANFVLKE  347 (833)
Q Consensus       332 ~~~~g~~~~A~~~~~~  347 (833)
                      +.-.|+++.|.+.+-+
T Consensus       268 LlLtgqFE~AI~~L~~  283 (613)
T PF04097_consen  268 LLLTGQFEAAIEFLYR  283 (613)
T ss_dssp             HHHTT-HHHHHHHHHT
T ss_pred             HHHHhhHHHHHHHHHh
Confidence            3345666666665554

It is required for the correct assembly of the nuclear pore complex []. In Saccharomyces cerevisiae, Nic96 has been shown to be involved in the distribution and cellular concentration of the GTPase Gsp1 []. The structure of Nic96 has revealed a mostly alpha helical structure [].; GO: 0006810 transport, 0005643 nuclear pore; PDB: 2QX5_B 2RFO_A.

>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]

Probab=89.70  E-value=42  Score=38.22  Aligned_cols=102  Identities=14%  Similarity=0.133  Sum_probs=52.2

Q ss_pred             HHHHHhcCChhHHHHHHHHHHhCCCCC---ChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHHc
Q 003295          294 IHGLCRNGRLYEAFHLKEKMVLREVEP---SLITYSILINGLIKLEKFDDANFVLKEMSVRGFVPNYVVYNTLIDGYCKK  370 (833)
Q Consensus       294 i~~~~~~g~~~~A~~~~~~m~~~~~~p---~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~y~~li~~~~~~  370 (833)
                      |+.+.+.+.++||+..-+....  ..|   -...+..+|..+.-.|++++|....-.|...    +..-|.--+..+...
T Consensus       363 i~Wll~~k~yeeAl~~~k~~~~--~~~~~~i~kv~~~yI~HLl~~~~y~~Aas~~p~m~gn----~~~eWe~~V~~f~e~  436 (846)
T KOG2066|consen  363 IDWLLEKKKYEEALDAAKASIG--NEERFVIKKVGKTYIDHLLFEGKYDEAASLCPKMLGN----NAAEWELWVFKFAEL  436 (846)
T ss_pred             HHHHHHhhHHHHHHHHHHhccC--CccccchHHHHHHHHHHHHhcchHHHHHhhhHHHhcc----hHHHHHHHHHHhccc
Confidence            4556666777777766554432  222   2234556666666667777776666666643    444454444444444


Q ss_pred             CChHHHHHHHHHHHhCCCCCChhHHHHHHHHHHh
Q 003295          371 GNISEALKIRDDMVSKGMSPNSVTFNSLIHGFCK  404 (833)
Q Consensus       371 g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~  404 (833)
                      ++...   ++.-+.......+...|..++..+..
T Consensus       437 ~~l~~---Ia~~lPt~~~rL~p~vYemvLve~L~  467 (846)
T KOG2066|consen  437 DQLTD---IAPYLPTGPPRLKPLVYEMVLVEFLA  467 (846)
T ss_pred             cccch---hhccCCCCCcccCchHHHHHHHHHHH
Confidence            44432   22222222122234456555555554

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=89.64  E-value=0.76  Score=29.60  Aligned_cols=27  Identities=15%  Similarity=0.130  Sum_probs=21.1

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 003295          744 TYTIMIGGYCKLGDMKEAAKLLNVMAE  770 (833)
Q Consensus       744 ~~~~li~~~~~~g~~~~A~~~~~~m~~  770 (833)
                      +|..|...|.+.|++++|++++++++.
T Consensus         1 al~~Lg~~~~~~g~~~~Ai~~y~~aL~   27 (36)
T PF13176_consen    1 ALNNLGRIYRQQGDYEKAIEYYEQALA   27 (36)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            467888888899999999998888553

>PF10602 RPN7: 26S proteasome subunit RPN7; InterPro: IPR019585 This entry represents the regulatory subunit RPN7 (known as the non-ATPase regulatory subunit 6 in higher eukaryotes) of the 26S proteasome

Probab=89.28  E-value=3.9  Score=38.15  Aligned_cols=60  Identities=13%  Similarity=0.149  Sum_probs=28.4

Q ss_pred             hHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCh--hhHHHHHHHHHhcCChhHHHHHHHHH
Q 003295          289 TYNNIIHGLCRNGRLYEAFHLKEKMVLREVEPSL--ITYSILINGLIKLEKFDDANFVLKEM  348 (833)
Q Consensus       289 ~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~--~t~~~li~~~~~~g~~~~A~~~~~~m  348 (833)
                      .+..+.+.|++.|+.++|.+.|.++.+....+..  ..+-.+|....-.+++..+...+.+.
T Consensus        38 ~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka   99 (177)
T PF10602_consen   38 ALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKA   99 (177)
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHH
Confidence            3445555555555555555555555543222221  22334444444555555555444444

This entry also matches the evolutionarily related subunit 1 of the COP9 signalosome complex (CSN) from Arabidopsis []. The 26S proteasome plays a major role in ATP-dependent degradation of ubiquitinated proteins. Substrate specificity is conferred by the regulatory particle (RP), which can dissociate into stable lid and base subcomplexes. The regulatory subunit RPN7 is one of the lid subunits of the 26S proteasome and has been shown in Saccharomyces cerevisiae (Baker's yeast) to be required for structural integrity []. The COP9 signalosome is a conserved protein complex composed of eight subunits, where Individual subunits of the complex have been linked to various signal transduction pathways leading to gene expression and cell cycle control []. The overall organisation and the amino acid sequences of the COP9 signalosome subunits resemble the lid subcomplex of the 19 S regulatory particle for the 26 S proteasome []. COP9 subunit 1 (CSN1 or GPS1) of the COP9 complex is an essential subunit of the complex with regard to both structural integrity and functionality. The N-terminal region of subunit 1 (CSN1-N) can inhibit c-fos expression from either a transfected template or a chromosomal transgene (fos-lacZ), and may contain the activity domain that confers most of the repression functions of CSN1. The C-terminal region of subunit 1 (CSN1-C) allows integration of the protein into the COP9 signalosome.

>PF09613 HrpB1_HrpK: Bacterial type III secretion protein (HrpB1_HrpK); InterPro: IPR013394 This family of proteins is encoded by genes found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia

Probab=89.28  E-value=12  Score=33.69  Aligned_cols=108  Identities=18%  Similarity=0.224  Sum_probs=52.7

Q ss_pred             HhcCChhHHHHHHHHHHhCCCCCChhhHHHH-HHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHHcCChHHH
Q 003295          298 CRNGRLYEAFHLKEKMVLREVEPSLITYSIL-INGLIKLEKFDDANFVLKEMSVRGFVPNYVVYNTLIDGYCKKGNISEA  376 (833)
Q Consensus       298 ~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~l-i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~A  376 (833)
                      .+.++.+++..+++.+...  .|.......+ ...+.+.|++.+|..+|+++...+  |....-..|+..|....+-..=
T Consensus        21 l~~~~~~D~e~lL~ALrvL--RP~~~e~~~~~~~l~i~r~~w~dA~rlLr~l~~~~--~~~p~~kALlA~CL~~~~D~~W   96 (160)
T PF09613_consen   21 LRLGDPDDAEALLDALRVL--RPEFPELDLFDGWLHIVRGDWDDALRLLRELEERA--PGFPYAKALLALCLYALGDPSW   96 (160)
T ss_pred             HccCChHHHHHHHHHHHHh--CCCchHHHHHHHHHHHHhCCHHHHHHHHHHHhccC--CCChHHHHHHHHHHHHcCChHH
Confidence            3556777777777777653  4443332221 223456777777777777776552  3332233333333332222222


Q ss_pred             HHHHHHHHhCCCCCChhHHHHHHHHHHhcCChhHHH
Q 003295          377 LKIRDDMVSKGMSPNSVTFNSLIHGFCKSGQMDNAE  412 (833)
Q Consensus       377 ~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~  412 (833)
                      ...-+++.+.+..|+..   .+++.+....+...|.
T Consensus        97 r~~A~evle~~~d~~a~---~Lv~~Ll~~~~~~~a~  129 (160)
T PF09613_consen   97 RRYADEVLESGADPDAR---ALVRALLARADLEPAH  129 (160)
T ss_pred             HHHHHHHHhcCCChHHH---HHHHHHHHhccccchh
Confidence            33334455554444433   2444444444444443

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=89.05  E-value=29  Score=35.51  Aligned_cols=23  Identities=17%  Similarity=0.291  Sum_probs=11.9

Q ss_pred             HHHHHHHHHHHCCCccCHHHHHH
Q 003295          620 EGETLFNEMISKKMELNPVVYNT  642 (833)
Q Consensus       620 ~A~~~~~~~~~~~~~~~~~~~~~  642 (833)
                      .+.++++.+.+.|+++....|..
T Consensus       200 r~~~l~~~l~~~~~kik~~~yp~  222 (297)
T PF13170_consen  200 RVIELYNALKKNGVKIKYMHYPT  222 (297)
T ss_pred             HHHHHHHHHHHcCCccccccccH
Confidence            45555555555555554444443

>KOG2396 consensus HAT (Half-A-TPR) repeat-containing protein [General function prediction only]

Probab=88.69  E-value=38  Score=36.44  Aligned_cols=238  Identities=10%  Similarity=0.101  Sum_probs=128.4

Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHhc------CCHHHHHHHHHHHhhCC-CC-CCHhhHHHHHHHHHccCCHHH-HHH
Q 003295          553 KLKEDMIKRGIQPDNYTYNLLLHGLCSL------GKMEEAIELWEECKRTV-FG-PDIYTYGVMIDGFCKADKIEE-GET  623 (833)
Q Consensus       553 ~~~~~m~~~g~~p~~~~~~~li~~~~~~------g~~~~A~~~~~~~~~~~-~~-~~~~~~~~li~~~~~~g~~~~-A~~  623 (833)
                      .+|+...+.  -|+...++..|..|...      ..+..-..+|+...+.+ .. .....|..+.-.++......+ |..
T Consensus       303 ~v~ee~v~~--l~t~sm~e~YI~~~lE~~~~~r~~~I~h~~~~~~~~~~~~~l~~~~~~~ys~~~l~~~t~~~~r~~a~~  380 (568)
T KOG2396|consen  303 AVYEEAVKT--LPTESMWECYITFCLERFTFLRGKRILHTMCVFRKAHELKLLSECLYKQYSVLLLCLNTLNEAREVAVK  380 (568)
T ss_pred             HHHHHHHHH--hhHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHhccchHhHHHHH
Confidence            455554442  23344444444444322      13344445555544432 22 234556666666666554333 333


Q ss_pred             HHHHHHHCCCccCHHHHHHHHHHHHHcC-ChHHH-HHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC-HHHH-H-HHHHHH
Q 003295          624 LFNEMISKKMELNPVVYNTLIRAYCKIG-NTTAA-FRLSNDMKSRGILPTSVTYSSLIHGLCNIGL-IEDA-K-CLFDEM  698 (833)
Q Consensus       624 ~~~~~~~~~~~~~~~~~~~li~~~~~~g-~~~~A-~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~-~~~A-~-~~~~~m  698 (833)
                      +..+..    .-+...|..-+....+.. +.+-- .+++......-..+....|++..     .|+ .... . .++...
T Consensus       381 l~~e~f----~~s~k~~~~kl~~~~~s~sD~q~~f~~l~n~~r~~~~s~~~~~w~s~~-----~~dsl~~~~~~~Ii~a~  451 (568)
T KOG2396|consen  381 LTTELF----RDSGKMWQLKLQVLIESKSDFQMLFEELFNHLRKQVCSELLISWASAS-----EGDSLQEDTLDLIISAL  451 (568)
T ss_pred             hhHHHh----cchHHHHHHHHHHHHhhcchhHHHHHHHHHHHHHHhcchhHHHHHHHh-----hccchhHHHHHHHHHHH
Confidence            333333    336666666555554331 22211 12222333222222333333332     222 2221 1 122223


Q ss_pred             HHCCCCCChhHH-HHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHH--HhcCCHHHHHHHHHHHHH-cCCC
Q 003295          699 RKEGLLPNVACY-TALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGY--CKLGDMKEAAKLLNVMAE-KGIS  774 (833)
Q Consensus       699 ~~~g~~p~~~~~-~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~--~~~g~~~~A~~~~~~m~~-~g~~  774 (833)
                      ... ..|+..++ +.+++.+.+.|-.++|...+.++.... +|+...|..+|..=  ...-+..-+.++++.|.. .|  
T Consensus       452 ~s~-~~~~~~tl~s~~l~~~~e~~~~~~ark~y~~l~~lp-p~sl~l~r~miq~e~~~~sc~l~~~r~~yd~a~~~fg--  527 (568)
T KOG2396|consen  452 LSV-IGADSVTLKSKYLDWAYESGGYKKARKVYKSLQELP-PFSLDLFRKMIQFEKEQESCNLANIREYYDRALREFG--  527 (568)
T ss_pred             HHh-cCCceeehhHHHHHHHHHhcchHHHHHHHHHHHhCC-CccHHHHHHHHHHHhhHhhcCchHHHHHHHHHHHHhC--
Confidence            333 24665554 567788888999999999999999864 66777777776542  122347788899998876 45  


Q ss_pred             CCHHHHHHHHHHHhcCCCHHHHHHHHHHHHH
Q 003295          775 PDSITYNVFMDGHCKGGNVEEAFKVCDRMLS  805 (833)
Q Consensus       775 p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  805 (833)
                      .|+..|...+.--...|..+.+-.++.++.+
T Consensus       528 ~d~~lw~~y~~~e~~~g~~en~~~~~~ra~k  558 (568)
T KOG2396|consen  528 ADSDLWMDYMKEELPLGRPENCGQIYWRAMK  558 (568)
T ss_pred             CChHHHHHHHHhhccCCCcccccHHHHHHHH
Confidence            6777787777766788988888888777765

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=88.44  E-value=1  Score=28.43  Aligned_cols=27  Identities=30%  Similarity=0.422  Sum_probs=13.8

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 003295          744 TYTIMIGGYCKLGDMKEAAKLLNVMAE  770 (833)
Q Consensus       744 ~~~~li~~~~~~g~~~~A~~~~~~m~~  770 (833)
                      +|..++.+|...|++++|++.++++++
T Consensus         3 ~~~~~g~~~~~~~~~~~A~~~~~~al~   29 (34)
T PF00515_consen    3 AYYNLGNAYFQLGDYEEALEYYQRALE   29 (34)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCchHHHHHHHHHHH
Confidence            344555555555555555555555554

It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. The X-ray structure of a domain containing three TPRs from protein phosphatase 5 revealed that TPR adopts a helix-turn-helix arrangement, with adjacent TPR motifs packing in a parallel fashion, resulting in a spiral of repeating anti-parallel alpha-helices []. The two helices are denoted helix A and helix B. The packing angle between helix A and helix B is ~24 degrees; within a single TPR and generates a right-handed superhelical shape. Helix A interacts with helix B and with helix A' of the next TPR. Two protein surfaces are generated: the inner concave surface is contributed to mainly by residue on helices A, and the other surface presents residues from both helices A and B. ; GO: 0005515 protein binding; PDB: 3SF4_C 2LNI_A 1ELW_A 2C0M_A 1FCH_B 3R9A_B 2J9Q_A 2C0L_A 1KT1_A 3FWV_A ....

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=88.33  E-value=1.1  Score=28.19  Aligned_cols=28  Identities=25%  Similarity=0.304  Sum_probs=17.6

Q ss_pred             HHHHHHHHHHhcCCCHHHHHHHHHHHHH
Q 003295          778 ITYNVFMDGHCKGGNVEEAFKVCDRMLS  805 (833)
Q Consensus       778 ~~~~~l~~~~~~~g~~~~A~~~~~~m~~  805 (833)
                      .+|..++..|...|++++|+..|++.++
T Consensus         2 ~~~~~~g~~~~~~~~~~~A~~~~~~al~   29 (34)
T PF00515_consen    2 EAYYNLGNAYFQLGDYEEALEYYQRALE   29 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHH
Confidence            3566666666666666666666666665

It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. The X-ray structure of a domain containing three TPRs from protein phosphatase 5 revealed that TPR adopts a helix-turn-helix arrangement, with adjacent TPR motifs packing in a parallel fashion, resulting in a spiral of repeating anti-parallel alpha-helices []. The two helices are denoted helix A and helix B. The packing angle between helix A and helix B is ~24 degrees; within a single TPR and generates a right-handed superhelical shape. Helix A interacts with helix B and with helix A' of the next TPR. Two protein surfaces are generated: the inner concave surface is contributed to mainly by residue on helices A, and the other surface presents residues from both helices A and B. ; GO: 0005515 protein binding; PDB: 3SF4_C 2LNI_A 1ELW_A 2C0M_A 1FCH_B 3R9A_B 2J9Q_A 2C0L_A 1KT1_A 3FWV_A ....

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=88.32  E-value=20  Score=32.67  Aligned_cols=124  Identities=13%  Similarity=0.063  Sum_probs=70.9

Q ss_pred             HhcCCHHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHH-HHHHHH--HHHHhcCCh
Q 003295          473 CKNGKQAEATELCFRLFEKGFTVNTV-TSNALIHGMCEAGNLKEAGKLLMEMLQRGLILDKV-TYNTLI--LGCCKDGKP  548 (833)
Q Consensus       473 ~~~g~~~~A~~~~~~~~~~g~~~~~~-~~~~li~~~~~~g~~~~A~~~l~~m~~~g~~~~~~-~~~~li--~~~~~~g~~  548 (833)
                      .+.++.++|+.-|..+.+.|...-++ ..........+.|+...|...|+++-.-...|... -...|=  ..+...|.+
T Consensus        69 A~~~k~d~Alaaf~~lektg~g~YpvLA~mr~at~~a~kgdta~AV~aFdeia~dt~~P~~~rd~ARlraa~lLvD~gsy  148 (221)
T COG4649          69 AQENKTDDALAAFTDLEKTGYGSYPVLARMRAATLLAQKGDTAAAVAAFDEIAADTSIPQIGRDLARLRAAYLLVDNGSY  148 (221)
T ss_pred             HHcCCchHHHHHHHHHHhcCCCcchHHHHHHHHHHHhhcccHHHHHHHHHHHhccCCCcchhhHHHHHHHHHHHhccccH
Confidence            45566666666666666655442222 22233445566777777777777776654444333 111111  223456777


Q ss_pred             hhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhC
Q 003295          549 EEGFKLKEDMIKRGIQPDNYTYNLLLHGLCSLGKMEEAIELWEECKRT  596 (833)
Q Consensus       549 ~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~  596 (833)
                      ++.....+.+-..+-..-...-..|.-+-.+.|++.+|.+.|..+...
T Consensus       149 ~dV~srvepLa~d~n~mR~sArEALglAa~kagd~a~A~~~F~qia~D  196 (221)
T COG4649         149 DDVSSRVEPLAGDGNPMRHSAREALGLAAYKAGDFAKAKSWFVQIAND  196 (221)
T ss_pred             HHHHHHhhhccCCCChhHHHHHHHHhHHHHhccchHHHHHHHHHHHcc
Confidence            777766666655443333444455666667777777777777776653

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=88.29  E-value=33  Score=35.20  Aligned_cols=225  Identities=12%  Similarity=0.056  Sum_probs=107.1

Q ss_pred             cCCHHHHHHHHHHHHHCC--CCCCHHHHHHHHHHHHhcCCHHHHHHHHH----HHhhCCC-CCCHHHHHHHHHHHHhcCC
Q 003295          475 NGKQAEATELCFRLFEKG--FTVNTVTSNALIHGMCEAGNLKEAGKLLM----EMLQRGL-ILDKVTYNTLILGCCKDGK  547 (833)
Q Consensus       475 ~g~~~~A~~~~~~~~~~g--~~~~~~~~~~li~~~~~~g~~~~A~~~l~----~m~~~g~-~~~~~~~~~li~~~~~~g~  547 (833)
                      ..+.++|+..+.+.+.+-  ...-..++..+..+.++.|.+++++..--    -..+..- ..--..|..+..++-+-.+
T Consensus        19 s~~~~~al~~w~~~L~~l~~~~~Rf~~lG~l~~a~s~~g~y~~mL~~a~sqi~~a~~~~ds~~~~ea~lnlar~~e~l~~   98 (518)
T KOG1941|consen   19 SNQTEKALQVWTKVLEKLSDLMGRFRVLGCLVTAHSEMGRYKEMLKFAVSQIDTARELEDSDFLLEAYLNLARSNEKLCE   98 (518)
T ss_pred             CchHHHHHHHHHHHHHHHHHHHHHHHHhccchhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344445555444444330  01122345556666666666666543211    1111100 0011233334444444444


Q ss_pred             hhhHHHHHHHHHHC-CCCC---CHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCC-----CCHhhHHHHHHHHHccCCH
Q 003295          548 PEEGFKLKEDMIKR-GIQP---DNYTYNLLLHGLCSLGKMEEAIELWEECKRTVFG-----PDIYTYGVMIDGFCKADKI  618 (833)
Q Consensus       548 ~~~A~~~~~~m~~~-g~~p---~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~-----~~~~~~~~li~~~~~~g~~  618 (833)
                      +.+++.+-..-... |..|   .....-++..++...+.++++++.|+...+....     ....++-.|...|.+..++
T Consensus        99 f~kt~~y~k~~l~lpgt~~~~~~gq~~l~~~~Ahlgls~fq~~Lesfe~A~~~A~~~~D~~LElqvcv~Lgslf~~l~D~  178 (518)
T KOG1941|consen   99 FHKTISYCKTCLGLPGTRAGQLGGQVSLSMGNAHLGLSVFQKALESFEKALRYAHNNDDAMLELQVCVSLGSLFAQLKDY  178 (518)
T ss_pred             hhhHHHHHHHHhcCCCCCcccccchhhhhHHHHhhhHHHHHHHHHHHHHHHHHhhccCCceeeeehhhhHHHHHHHHHhh
Confidence            44444433332221 1111   1123344666777777888888888776543211     1234566777777777777


Q ss_pred             HHHHHHHHHHHH----CCCccCHHHH-----HHHHHHHHHcCChHHHHHHHHHHHh----CCCCC-CHHHHHHHHHHHHh
Q 003295          619 EEGETLFNEMIS----KKMELNPVVY-----NTLIRAYCKIGNTTAAFRLSNDMKS----RGILP-TSVTYSSLIHGLCN  684 (833)
Q Consensus       619 ~~A~~~~~~~~~----~~~~~~~~~~-----~~li~~~~~~g~~~~A~~~~~~m~~----~~~~p-~~~~~~~li~~~~~  684 (833)
                      ++|.-+..+..+    .++.--..-|     -.|.-++...|....|.+.-++..+    .|-.+ -......+.+.|-.
T Consensus       179 ~Kal~f~~kA~~lv~s~~l~d~~~kyr~~~lyhmaValR~~G~LgdA~e~C~Ea~klal~~Gdra~~arc~~~~aDIyR~  258 (518)
T KOG1941|consen  179 EKALFFPCKAAELVNSYGLKDWSLKYRAMSLYHMAVALRLLGRLGDAMECCEEAMKLALQHGDRALQARCLLCFADIYRS  258 (518)
T ss_pred             hHHhhhhHhHHHHHHhcCcCchhHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHhCChHHHHHHHHHHHHHHHh
Confidence            777655554432    1222111112     2233455566666666666655433    23111 11223455566667


Q ss_pred             cCCHHHHHHHHHHHH
Q 003295          685 IGLIEDAKCLFDEMR  699 (833)
Q Consensus       685 ~g~~~~A~~~~~~m~  699 (833)
                      .|+.|.|+.-|+.+.
T Consensus       259 ~gd~e~af~rYe~Am  273 (518)
T KOG1941|consen  259 RGDLERAFRRYEQAM  273 (518)
T ss_pred             cccHhHHHHHHHHHH
Confidence            777777766666544

>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]

Probab=88.29  E-value=52  Score=37.50  Aligned_cols=102  Identities=12%  Similarity=0.167  Sum_probs=63.2

Q ss_pred             HHHHHhcCChhHHHHHHHHhhcCCCC---CHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcC
Q 003295          225 LNSLVKANEVQKGIEVFETMCRGVSP---DVFLFSTAINAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIHGLCRNG  301 (833)
Q Consensus       225 l~~~~~~g~~~~A~~~~~~~~~~~~~---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g  301 (833)
                      ++.+.+.+.+++|+..-+... |..|   -...+...|..+...|++++|-...-.|...    +..-|-.-+.-+...|
T Consensus       363 i~Wll~~k~yeeAl~~~k~~~-~~~~~~~i~kv~~~yI~HLl~~~~y~~Aas~~p~m~gn----~~~eWe~~V~~f~e~~  437 (846)
T KOG2066|consen  363 IDWLLEKKKYEEALDAAKASI-GNEERFVIKKVGKTYIDHLLFEGKYDEAASLCPKMLGN----NAAEWELWVFKFAELD  437 (846)
T ss_pred             HHHHHHhhHHHHHHHHHHhcc-CCccccchHHHHHHHHHHHHhcchHHHHHhhhHHHhcc----hHHHHHHHHHHhcccc
Confidence            455677788888888776654 3333   2345667788888888888888888888752    5566666666666665


Q ss_pred             ChhHHHHHHHHHHhCCCCCChhhHHHHHHHHHh
Q 003295          302 RLYEAFHLKEKMVLREVEPSLITYSILINGLIK  334 (833)
Q Consensus       302 ~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~  334 (833)
                      +......+   +.......+...|..++..+..
T Consensus       438 ~l~~Ia~~---lPt~~~rL~p~vYemvLve~L~  467 (846)
T KOG2066|consen  438 QLTDIAPY---LPTGPPRLKPLVYEMVLVEFLA  467 (846)
T ss_pred             ccchhhcc---CCCCCcccCchHHHHHHHHHHH
Confidence            55443332   2221111344567777766665

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=88.18  E-value=0.61  Score=29.62  Aligned_cols=21  Identities=29%  Similarity=0.368  Sum_probs=10.3

Q ss_pred             CHHHHHHHHHHHhcCCCHHHH
Q 003295          776 DSITYNVFMDGHCKGGNVEEA  796 (833)
Q Consensus       776 ~~~~~~~l~~~~~~~g~~~~A  796 (833)
                      |..+|+.|+..|...|++++|
T Consensus        12 n~~a~~nla~~~~~~g~~~~A   32 (34)
T PF13431_consen   12 NAEAYNNLANLYLNQGDYEEA   32 (34)
T ss_pred             CHHHHHHHHHHHHHCcCHHhh
Confidence            344455555555555555444

>PF07035 Mic1: Colon cancer-associated protein Mic1-like; InterPro: IPR009755 This entry represents the C terminus (approximately 160 residues) of a number of proteins that resemble colon cancer-associated protein Mic1

Probab=87.94  E-value=21  Score=32.65  Aligned_cols=101  Identities=20%  Similarity=0.216  Sum_probs=58.4

Q ss_pred             HHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCC
Q 003295          273 GLFTKMEELGIAPNVVTYNNIIHGLCRNGRLYEAFHLKEKMVLREVEPSLITYSILINGLIKLEKFDDANFVLKEMSVRG  352 (833)
Q Consensus       273 ~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~g  352 (833)
                      +.+..+.+.|+.|+...|..+|+.+.+.|++..-..++    ..++-+|....-..+-.  -.+.+..+.++--.|.++ 
T Consensus        15 EYirSl~~~~i~~~~~L~~lli~lLi~~~~~~~L~qll----q~~Vi~DSk~lA~~LLs--~~~~~~~~~Ql~lDMLkR-   87 (167)
T PF07035_consen   15 EYIRSLNQHNIPVQHELYELLIDLLIRNGQFSQLHQLL----QYHVIPDSKPLACQLLS--LGNQYPPAYQLGLDMLKR-   87 (167)
T ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHH----hhcccCCcHHHHHHHHH--hHccChHHHHHHHHHHHH-
Confidence            34455556677777777777788777777766544443    33444555443333322  223344555555555543 


Q ss_pred             CCCChhhHHHHHHHHHHcCChHHHHHHHHHH
Q 003295          353 FVPNYVVYNTLIDGYCKKGNISEALKIRDDM  383 (833)
Q Consensus       353 ~~p~~~~y~~li~~~~~~g~~~~A~~~~~~m  383 (833)
                         =...+..+++.+...|++-+|.++.+..
T Consensus        88 ---L~~~~~~iievLL~~g~vl~ALr~ar~~  115 (167)
T PF07035_consen   88 ---LGTAYEEIIEVLLSKGQVLEALRYARQY  115 (167)
T ss_pred             ---hhhhHHHHHHHHHhCCCHHHHHHHHHHc
Confidence               1113566667777777777777777664

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=87.56  E-value=1.3  Score=27.75  Aligned_cols=26  Identities=23%  Similarity=0.401  Sum_probs=12.4

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHH
Q 003295          745 YTIMIGGYCKLGDMKEAAKLLNVMAE  770 (833)
Q Consensus       745 ~~~li~~~~~~g~~~~A~~~~~~m~~  770 (833)
                      |..+...+...|++++|++.+++.++
T Consensus         4 ~~~lg~~~~~~~~~~~A~~~~~~al~   29 (34)
T PF07719_consen    4 WYYLGQAYYQLGNYEEAIEYFEKALE   29 (34)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            34444445555555555555555444

It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. This repeat includes outlying Tetratricopeptide-like repeats (TPR) that are not matched by IPR001440 from INTERPRO.; PDB: 1XNF_B 3Q15_A 4ABN_A 1OUV_A 3U4T_A 3MA5_C 2KCV_A 2KCL_A 2XEV_A 3NF1_A ....

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=87.39  E-value=1.2  Score=27.85  Aligned_cols=28  Identities=21%  Similarity=0.262  Sum_probs=24.8

Q ss_pred             HHHHHHHHHHhcCCCHHHHHHHHHHHHH
Q 003295          778 ITYNVFMDGHCKGGNVEEAFKVCDRMLS  805 (833)
Q Consensus       778 ~~~~~l~~~~~~~g~~~~A~~~~~~m~~  805 (833)
                      ..|..++..+...|++++|++.|++.++
T Consensus         2 ~~~~~lg~~~~~~~~~~~A~~~~~~al~   29 (34)
T PF07719_consen    2 EAWYYLGQAYYQLGNYEEAIEYFEKALE   29 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            4678899999999999999999999987

It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. This repeat includes outlying Tetratricopeptide-like repeats (TPR) that are not matched by IPR001440 from INTERPRO.; PDB: 1XNF_B 3Q15_A 4ABN_A 1OUV_A 3U4T_A 3MA5_C 2KCV_A 2KCL_A 2XEV_A 3NF1_A ....

>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]

Probab=87.38  E-value=46  Score=35.89  Aligned_cols=92  Identities=18%  Similarity=0.154  Sum_probs=36.9

Q ss_pred             HHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHH
Q 003295          533 VTYNTLILGCCKDGKPEEGFKLKEDMIKRGIQPDNYTYNLLLHGLCSLGKMEEAIELWEECKRTVFGPDIYTYGVMIDGF  612 (833)
Q Consensus       533 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~  612 (833)
                      ....+++..+..+-+..-...+..+|+..|-  +-..|..++.+|... .-++-..+|+++.+..+ .|++.-..|...|
T Consensus        67 ~~l~~~~~~f~~n~k~~~veh~c~~~l~~~e--~kmal~el~q~y~en-~n~~l~~lWer~ve~df-nDvv~~ReLa~~y  142 (711)
T COG1747          67 SCLVTLLTIFGDNHKNQIVEHLCTRVLEYGE--SKMALLELLQCYKEN-GNEQLYSLWERLVEYDF-NDVVIGRELADKY  142 (711)
T ss_pred             hHHHHHHHHhccchHHHHHHHHHHHHHHhcc--hHHHHHHHHHHHHhc-CchhhHHHHHHHHHhcc-hhHHHHHHHHHHH
Confidence            3334444444444444444444444444321  333444444444444 33344444444444322 1222223333333


Q ss_pred             HccCCHHHHHHHHHHHH
Q 003295          613 CKADKIEEGETLFNEMI  629 (833)
Q Consensus       613 ~~~g~~~~A~~~~~~~~  629 (833)
                      -+ ++.+.+...|.++.
T Consensus       143 Ek-ik~sk~a~~f~Ka~  158 (711)
T COG1747         143 EK-IKKSKAAEFFGKAL  158 (711)
T ss_pred             HH-hchhhHHHHHHHHH
Confidence            32 44444444444443

>PF04097 Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic96 is a component of the nuclear pore complex

Probab=87.03  E-value=64  Score=37.13  Aligned_cols=47  Identities=19%  Similarity=0.199  Sum_probs=26.9

Q ss_pred             hhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHHc
Q 003295          322 LITYSILINGLIKLEKFDDANFVLKEMSVRGFVPNYVVYNTLIDGYCKK  370 (833)
Q Consensus       322 ~~t~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~y~~li~~~~~~  370 (833)
                      ..+| .+|--|.|.|++++|.++..+.... .......+...+..|+..
T Consensus       112 ~p~W-a~Iyy~LR~G~~~~A~~~~~~~~~~-~~~~~~~f~~~l~~~~~s  158 (613)
T PF04097_consen  112 DPIW-ALIYYCLRCGDYDEALEVANENRNQ-FQKIERSFPTYLKAYASS  158 (613)
T ss_dssp             EEHH-HHHHHHHTTT-HHHHHHHHHHTGGG-S-TTTTHHHHHHHHCTTT
T ss_pred             CccH-HHHHHHHhcCCHHHHHHHHHHhhhh-hcchhHHHHHHHHHHHhC
Confidence            3344 3455567888888888887555432 333445566666666653

It is required for the correct assembly of the nuclear pore complex []. In Saccharomyces cerevisiae, Nic96 has been shown to be involved in the distribution and cellular concentration of the GTPase Gsp1 []. The structure of Nic96 has revealed a mostly alpha helical structure [].; GO: 0006810 transport, 0005643 nuclear pore; PDB: 2QX5_B 2RFO_A.

>COG0790 FOG: TPR repeat, SEL1 subfamily [General function prediction only]

Probab=86.84  E-value=40  Score=34.55  Aligned_cols=128  Identities=16%  Similarity=0.088  Sum_probs=70.7

Q ss_pred             CHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhc----C---ChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----c
Q 003295          687 LIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKL----G---QMDEAESVLQEMASINIHPNKITYTIMIGGYCK----L  755 (833)
Q Consensus       687 ~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~----g---~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~----~  755 (833)
                      +..+|..++.++.+.|..+-......+...|..-    +   +...|...+.++...+   +......+...|..    .
T Consensus       128 d~~~A~~~~~~Aa~~g~~~a~~~~~~l~~~~~~g~~~~~~~~~~~~A~~~~~~aa~~~---~~~a~~~lg~~y~~G~Gv~  204 (292)
T COG0790         128 DLVKALKYYEKAAKLGNVEAALAMYRLGLAYLSGLQALAVAYDDKKALYLYRKAAELG---NPDAQLLLGRMYEKGLGVP  204 (292)
T ss_pred             CHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHcChhhhcccHHHHhHHHHHHHHHHhc---CHHHHHHHHHHHHcCCCCC
Confidence            5566666666666665333222223333333221    1   2236777777777655   34444444444432    3


Q ss_pred             CCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCC---------------CHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 003295          756 GDMKEAAKLLNVMAEKGISPDSITYNVFMDGHCKGG---------------NVEEAFKVCDRMLSEGLSLDEITYTTLID  820 (833)
Q Consensus       756 g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g---------------~~~~A~~~~~~m~~~g~~p~~~~~~~l~~  820 (833)
                      .+.++|...|++..+.|.   ......+. .+...|               +...|..++......|..........+-.
T Consensus       205 ~d~~~A~~wy~~Aa~~g~---~~a~~~~~-~~~~~g~g~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~  280 (292)
T COG0790         205 RDLKKAFRWYKKAAEQGD---GAACYNLG-LMYLNGEGVKKAAFLTAAKEEDKKQALEWLQKACELGFDNACEALRALKI  280 (292)
T ss_pred             cCHHHHHHHHHHHHHCCC---HHHHHHHH-HHHhcCCCchhhhhcccccCCCHHHHHHHHHHHHHcCChhHHHHHHHHHH
Confidence            367777777777777663   33333333 344333               77788888888888777766666554433


Q ss_pred             h
Q 003295          821 G  821 (833)
Q Consensus       821 ~  821 (833)
                      .
T Consensus       281 ~  281 (292)
T COG0790         281 G  281 (292)
T ss_pred             H
Confidence            3

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=86.81  E-value=40  Score=34.53  Aligned_cols=25  Identities=16%  Similarity=0.356  Sum_probs=13.1

Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHH
Q 003295          760 EAAKLLNVMAEKGISPDSITYNVFM  784 (833)
Q Consensus       760 ~A~~~~~~m~~~g~~p~~~~~~~l~  784 (833)
                      .+.++++.+.+.|+++....|..++
T Consensus       200 r~~~l~~~l~~~~~kik~~~yp~lG  224 (297)
T PF13170_consen  200 RVIELYNALKKNGVKIKYMHYPTLG  224 (297)
T ss_pred             HHHHHHHHHHHcCCccccccccHHH
Confidence            4555555555555555544444443

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=86.46  E-value=0.87  Score=28.89  Aligned_cols=23  Identities=17%  Similarity=0.349  Sum_probs=10.7

Q ss_pred             CCCHHHHHHHHHHHHhcCChhHH
Q 003295          249 SPDVFLFSTAINAFCKRGRIEDA  271 (833)
Q Consensus       249 ~~~~~~~~~li~~~~~~g~~~~A  271 (833)
                      |.|..+|+.+...|...|++++|
T Consensus        10 P~n~~a~~nla~~~~~~g~~~~A   32 (34)
T PF13431_consen   10 PNNAEAYNNLANLYLNQGDYEEA   32 (34)
T ss_pred             CCCHHHHHHHHHHHHHCcCHHhh
Confidence            34444444444444444444444

>PF09613 HrpB1_HrpK: Bacterial type III secretion protein (HrpB1_HrpK); InterPro: IPR013394 This family of proteins is encoded by genes found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia

Probab=86.44  E-value=22  Score=32.10  Aligned_cols=108  Identities=18%  Similarity=0.128  Sum_probs=54.5

Q ss_pred             HhcCCHHHHHHHHHHHHHCCCCCChhHHHH-HHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHH
Q 003295          683 CNIGLIEDAKCLFDEMRKEGLLPNVACYTA-LIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEA  761 (833)
Q Consensus       683 ~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~-li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A  761 (833)
                      .+.++.+++..+++.+.-  +.|....... -...+...|++.+|..+|+++.+.  .|....-..|+..|....+-..=
T Consensus        21 l~~~~~~D~e~lL~ALrv--LRP~~~e~~~~~~~l~i~r~~w~dA~rlLr~l~~~--~~~~p~~kALlA~CL~~~~D~~W   96 (160)
T PF09613_consen   21 LRLGDPDDAEALLDALRV--LRPEFPELDLFDGWLHIVRGDWDDALRLLRELEER--APGFPYAKALLALCLYALGDPSW   96 (160)
T ss_pred             HccCChHHHHHHHHHHHH--hCCCchHHHHHHHHHHHHhCCHHHHHHHHHHHhcc--CCCChHHHHHHHHHHHHcCChHH
Confidence            456777888888887776  3454433322 244456778888888888887654  23333333444333333222222


Q ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHhcCCCHHHHH
Q 003295          762 AKLLNVMAEKGISPDSITYNVFMDGHCKGGNVEEAF  797 (833)
Q Consensus       762 ~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~  797 (833)
                      ..+-+++.+.+-  |..+ ..|+..+....+...|.
T Consensus        97 r~~A~evle~~~--d~~a-~~Lv~~Ll~~~~~~~a~  129 (160)
T PF09613_consen   97 RRYADEVLESGA--DPDA-RALVRALLARADLEPAH  129 (160)
T ss_pred             HHHHHHHHhcCC--ChHH-HHHHHHHHHhccccchh
Confidence            333444555432  3322 23344444444444443

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=85.91  E-value=3.2  Score=41.67  Aligned_cols=94  Identities=17%  Similarity=0.129  Sum_probs=60.5

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHCCCCC-ChhHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC
Q 003295          678 LIHGLCNIGLIEDAKCLFDEMRKEGLLP-NVACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLG  756 (833)
Q Consensus       678 li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g  756 (833)
                      -.+-|.++|.+++|+..|...+..  .| |.+++..-..+|.+..++..|+.-....+..+ ..-...|.--+.+-...|
T Consensus       103 ~GN~yFKQgKy~EAIDCYs~~ia~--~P~NpV~~~NRA~AYlk~K~FA~AE~DC~~AiaLd-~~Y~KAYSRR~~AR~~Lg  179 (536)
T KOG4648|consen  103 RGNTYFKQGKYEEAIDCYSTAIAV--YPHNPVYHINRALAYLKQKSFAQAEEDCEAAIALD-KLYVKAYSRRMQARESLG  179 (536)
T ss_pred             hhhhhhhccchhHHHHHhhhhhcc--CCCCccchhhHHHHHHHHHHHHHHHHhHHHHHHhh-HHHHHHHHHHHHHHHHHh
Confidence            356678888888888888887764  45 78888888888888888888877777666532 111223333333334445


Q ss_pred             CHHHHHHHHHHHHHcCCCCC
Q 003295          757 DMKEAAKLLNVMAEKGISPD  776 (833)
Q Consensus       757 ~~~~A~~~~~~m~~~g~~p~  776 (833)
                      +..+|.+-++..++  +.|+
T Consensus       180 ~~~EAKkD~E~vL~--LEP~  197 (536)
T KOG4648|consen  180 NNMEAKKDCETVLA--LEPK  197 (536)
T ss_pred             hHHHHHHhHHHHHh--hCcc
Confidence            55666665555555  4565

>PRK09687 putative lyase; Provisional

Probab=85.87  E-value=43  Score=34.02  Aligned_cols=136  Identities=18%  Similarity=0.107  Sum_probs=65.4

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcC-ChhHHHHHHHHHHhCCCCCCHHHHHHHH
Q 003295          671 TSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLG-QMDEAESVLQEMASINIHPNKITYTIMI  749 (833)
Q Consensus       671 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g-~~~~A~~~~~~m~~~g~~p~~~~~~~li  749 (833)
                      +..+-...+.++.+.++ ++|...+-.+.+.   +|...-...+.++.+.+ ..+.+...+..+..   .+|..+-...+
T Consensus       141 ~~~VR~~a~~aLg~~~~-~~ai~~L~~~L~d---~~~~VR~~A~~aLg~~~~~~~~~~~~L~~~L~---D~~~~VR~~A~  213 (280)
T PRK09687        141 STNVRFAVAFALSVIND-EAAIPLLINLLKD---PNGDVRNWAAFALNSNKYDNPDIREAFVAMLQ---DKNEEIRIEAI  213 (280)
T ss_pred             CHHHHHHHHHHHhccCC-HHHHHHHHHHhcC---CCHHHHHHHHHHHhcCCCCCHHHHHHHHHHhc---CCChHHHHHHH
Confidence            33344444555555554 3455555555542   33333344444444432 13345555555543   34555555566


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHhh
Q 003295          750 GGYCKLGDMKEAAKLLNVMAEKGISPDSITYNVFMDGHCKGGNVEEAFKVCDRMLSEGLSLDEITYTTLIDGW  822 (833)
Q Consensus       750 ~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~  822 (833)
                      .++.+.|+ ..|+..+-+.++.+   +  .....+.++...|.. +|...+.++.+.  .||...-..-+.+|
T Consensus       214 ~aLg~~~~-~~av~~Li~~L~~~---~--~~~~a~~ALg~ig~~-~a~p~L~~l~~~--~~d~~v~~~a~~a~  277 (280)
T PRK09687        214 IGLALRKD-KRVLSVLIKELKKG---T--VGDLIIEAAGELGDK-TLLPVLDTLLYK--FDDNEIITKAIDKL  277 (280)
T ss_pred             HHHHccCC-hhHHHHHHHHHcCC---c--hHHHHHHHHHhcCCH-hHHHHHHHHHhh--CCChhHHHHHHHHH
Confidence            66666655 45555555555432   2  223455556666663 566666666652  23444333334443

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=85.33  E-value=10  Score=35.25  Aligned_cols=89  Identities=17%  Similarity=0.148  Sum_probs=54.7

Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCCCC-----hhHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc
Q 003295          681 GLCNIGLIEDAKCLFDEMRKEGLLPN-----VACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKL  755 (833)
Q Consensus       681 ~~~~~g~~~~A~~~~~~m~~~g~~p~-----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~  755 (833)
                      -+.+.|++++|..-|.+++.. +++.     .+.|..-..++.+.+.++.|+.-..+.++.+ +.......--..+|-+.
T Consensus       104 ~~F~ngdyeeA~skY~~Ale~-cp~~~~e~rsIly~Nraaa~iKl~k~e~aI~dcsKaiel~-pty~kAl~RRAeayek~  181 (271)
T KOG4234|consen  104 ELFKNGDYEEANSKYQEALES-CPSTSTEERSILYSNRAAALIKLRKWESAIEDCSKAIELN-PTYEKALERRAEAYEKM  181 (271)
T ss_pred             HhhhcccHHHHHHHHHHHHHh-CccccHHHHHHHHhhhHHHHHHhhhHHHHHHHHHhhHhcC-chhHHHHHHHHHHHHhh
Confidence            345667777777777777764 2222     2344445556667777777777777777653 22223333334566677


Q ss_pred             CCHHHHHHHHHHHHHc
Q 003295          756 GDMKEAAKLLNVMAEK  771 (833)
Q Consensus       756 g~~~~A~~~~~~m~~~  771 (833)
                      .++++|++-|+++++.
T Consensus       182 ek~eealeDyKki~E~  197 (271)
T KOG4234|consen  182 EKYEEALEDYKKILES  197 (271)
T ss_pred             hhHHHHHHHHHHHHHh
Confidence            7777777777777773

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=85.12  E-value=83  Score=36.66  Aligned_cols=226  Identities=16%  Similarity=0.126  Sum_probs=122.3

Q ss_pred             HHhcCCHHHHHHHHHHHhhCCCCCCH-------HHHHHHHHH-HHhcCChhhHHHHHHHHHHCC----CCCCHHHHHHHH
Q 003295          507 MCEAGNLKEAGKLLMEMLQRGLILDK-------VTYNTLILG-CCKDGKPEEGFKLKEDMIKRG----IQPDNYTYNLLL  574 (833)
Q Consensus       507 ~~~~g~~~~A~~~l~~m~~~g~~~~~-------~~~~~li~~-~~~~g~~~~A~~~~~~m~~~g----~~p~~~~~~~li  574 (833)
                      .....++++|..++.+....-..|+.       ..|+.|-.. ....|++++|.++.+.....=    ..+....+..+.
T Consensus       425 ~~s~~r~~ea~~li~~l~~~l~~~~~~~~~~l~ae~~aL~a~val~~~~~e~a~~lar~al~~L~~~~~~~r~~~~sv~~  504 (894)
T COG2909         425 LASQHRLAEAETLIARLEHFLKAPMHSRQGDLLAEFQALRAQVALNRGDPEEAEDLARLALVQLPEAAYRSRIVALSVLG  504 (894)
T ss_pred             HHHccChHHHHHHHHHHHHHhCcCcccchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhcccccchhhhhhhhhhh
Confidence            34568899999888887654222221       234433322 234788899998888877652    234556677778


Q ss_pred             HHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHH-----HHHHccCCH--HHHHHHHHHHHHCCC--c----cCHHHHH
Q 003295          575 HGLCSLGKMEEAIELWEECKRTVFGPDIYTYGVMI-----DGFCKADKI--EEGETLFNEMISKKM--E----LNPVVYN  641 (833)
Q Consensus       575 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li-----~~~~~~g~~--~~A~~~~~~~~~~~~--~----~~~~~~~  641 (833)
                      .+..-.|++++|..+.++..+..-.-+...+..+.     ..+...|+.  .+....|........  +    +-..++.
T Consensus       505 ~a~~~~G~~~~Al~~~~~a~~~a~~~~~~~l~~~~~~~~s~il~~qGq~~~a~~~~~~~~~~~q~l~q~~~~~f~~~~r~  584 (894)
T COG2909         505 EAAHIRGELTQALALMQQAEQMARQHDVYHLALWSLLQQSEILEAQGQVARAEQEKAFNLIREQHLEQKPRHEFLVRIRA  584 (894)
T ss_pred             HHHHHhchHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHhhhcccchhHHHHHH
Confidence            88888899999999888776543233443333322     335556733  333333333322210  1    1123444


Q ss_pred             HHHHHHHHc-CChHHHHHHHHHHHhCCCCCCHHH--HHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC--Ch--hHHHHHH
Q 003295          642 TLIRAYCKI-GNTTAAFRLSNDMKSRGILPTSVT--YSSLIHGLCNIGLIEDAKCLFDEMRKEGLLP--NV--ACYTALI  714 (833)
Q Consensus       642 ~li~~~~~~-g~~~~A~~~~~~m~~~~~~p~~~~--~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p--~~--~~~~~li  714 (833)
                      .+..++.+. +...+|..-++-.......|-...  +..|+......|++++|...++++......+  .+  .+-...+
T Consensus       585 ~ll~~~~r~~~~~~ear~~~~~~~~~~~~~~~~~~~~~~LA~l~~~~Gdl~~A~~~l~~~~~l~~~~~~~~~~~a~~~~v  664 (894)
T COG2909         585 QLLRAWLRLDLAEAEARLGIEVGSVYTPQPLLSRLALSMLAELEFLRGDLDKALAQLDELERLLLNGQYHVDYLAAAYKV  664 (894)
T ss_pred             HHHHHHHHHhhhhHHhhhcchhhhhcccchhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhcCCCCCchHHHHHHHh
Confidence            445555442 222233333332222222222222  2356677788999999999999987653222  22  1111222


Q ss_pred             HH--HHhcCChhHHHHHHHH
Q 003295          715 GG--YCKLGQMDEAESVLQE  732 (833)
Q Consensus       715 ~~--~~~~g~~~~A~~~~~~  732 (833)
                      ..  ....|+.++|.....+
T Consensus       665 ~~~lwl~qg~~~~a~~~l~~  684 (894)
T COG2909         665 KLILWLAQGDKELAAEWLLK  684 (894)
T ss_pred             hHHHhcccCCHHHHHHHHHh
Confidence            22  2346788877776665

>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=84.65  E-value=35  Score=31.92  Aligned_cols=87  Identities=13%  Similarity=0.045  Sum_probs=42.0

Q ss_pred             HHHHhcCCHHHHHHHHHHHHHCCCCCChhHHH-----HHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh
Q 003295          680 HGLCNIGLIEDAKCLFDEMRKEGLLPNVACYT-----ALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCK  754 (833)
Q Consensus       680 ~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~-----~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~  754 (833)
                      ..+...|++++|..-++..+..   |....+.     .|.......|.+++|+..++...+.++  .......-.+.+..
T Consensus        97 k~~ve~~~~d~A~aqL~~~l~~---t~De~lk~l~~lRLArvq~q~~k~D~AL~~L~t~~~~~w--~~~~~elrGDill~  171 (207)
T COG2976          97 KAEVEANNLDKAEAQLKQALAQ---TKDENLKALAALRLARVQLQQKKADAALKTLDTIKEESW--AAIVAELRGDILLA  171 (207)
T ss_pred             HHHHhhccHHHHHHHHHHHHcc---chhHHHHHHHHHHHHHHHHHhhhHHHHHHHHhccccccH--HHHHHHHhhhHHHH
Confidence            3445556666666666555532   1111222     223444455666666666555543321  11222333455555


Q ss_pred             cCCHHHHHHHHHHHHHc
Q 003295          755 LGDMKEAAKLLNVMAEK  771 (833)
Q Consensus       755 ~g~~~~A~~~~~~m~~~  771 (833)
                      .|+.++|+.-|++.++.
T Consensus       172 kg~k~~Ar~ay~kAl~~  188 (207)
T COG2976         172 KGDKQEARAAYEKALES  188 (207)
T ss_pred             cCchHHHHHHHHHHHHc
Confidence            66666666666665554

>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=84.40  E-value=36  Score=31.85  Aligned_cols=128  Identities=15%  Similarity=0.131  Sum_probs=85.6

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhHHHH-----HHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHH--
Q 003295          673 VTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTA-----LIGGYCKLGQMDEAESVLQEMASINIHPNKITY--  745 (833)
Q Consensus       673 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~-----li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~--  745 (833)
                      ..|..++.... .+.. +.....+++...   +...+|..     +...+..+|++++|+.-++.....   |....+  
T Consensus        55 ~~Y~~~i~~~~-ak~~-~~~~~~ekf~~~---n~~t~Ya~laaL~lAk~~ve~~~~d~A~aqL~~~l~~---t~De~lk~  126 (207)
T COG2976          55 AQYQNAIKAVQ-AKKP-KSIAAAEKFVQA---NGKTIYAVLAALELAKAEVEANNLDKAEAQLKQALAQ---TKDENLKA  126 (207)
T ss_pred             HHHHHHHHHHh-cCCc-hhHHHHHHHHhh---ccccHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHcc---chhHHHHH
Confidence            34444444443 2223 445555566653   22233333     346677899999999999987753   222222  


Q ss_pred             ---HHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHHCCCCC
Q 003295          746 ---TIMIGGYCKLGDMKEAAKLLNVMAEKGISPDSITYNVFMDGHCKGGNVEEAFKVCDRMLSEGLSL  810 (833)
Q Consensus       746 ---~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~p  810 (833)
                         -.|.+.....|.+++|...++...+.++  .......-++.+...|+-++|+.-|+..++.+-.|
T Consensus       127 l~~lRLArvq~q~~k~D~AL~~L~t~~~~~w--~~~~~elrGDill~kg~k~~Ar~ay~kAl~~~~s~  192 (207)
T COG2976         127 LAALRLARVQLQQKKADAALKTLDTIKEESW--AAIVAELRGDILLAKGDKQEARAAYEKALESDASP  192 (207)
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHhccccccH--HHHHHHHhhhHHHHcCchHHHHHHHHHHHHccCCh
Confidence               3466778899999999999998766543  23345667889999999999999999999976333

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=84.30  E-value=13  Score=37.14  Aligned_cols=49  Identities=18%  Similarity=0.234  Sum_probs=27.3

Q ss_pred             ChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 003295          652 NTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRK  700 (833)
Q Consensus       652 ~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  700 (833)
                      ++++++.++..=++.|+.||..+++.+++.+.+.+++.+|..+...|..
T Consensus       115 ~pq~~i~~l~npIqYGiF~dqf~~c~l~D~flk~~n~~~aa~vvt~~~~  163 (418)
T KOG4570|consen  115 DPQKAIYTLVNPIQYGIFPDQFTFCLLMDSFLKKENYKDAASVVTEVMM  163 (418)
T ss_pred             ChHHHHHHHhCcchhccccchhhHHHHHHHHHhcccHHHHHHHHHHHHH
Confidence            4445555555555555555555555555555555555555555555444

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=84.28  E-value=14  Score=40.38  Aligned_cols=44  Identities=23%  Similarity=0.113  Sum_probs=24.4

Q ss_pred             hcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHHcCChHHHHHHHHHH
Q 003295          334 KLEKFDDANFVLKEMSVRGFVPNYVVYNTLIDGYCKKGNISEALKIRDDM  383 (833)
Q Consensus       334 ~~g~~~~A~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~A~~~~~~m  383 (833)
                      +.|+++.|.++..+..      +..-|..|.++..+.|++..|.+.|...
T Consensus       649 ~lgrl~iA~~la~e~~------s~~Kw~~Lg~~al~~~~l~lA~EC~~~a  692 (794)
T KOG0276|consen  649 KLGRLDIAFDLAVEAN------SEVKWRQLGDAALSAGELPLASECFLRA  692 (794)
T ss_pred             hcCcHHHHHHHHHhhc------chHHHHHHHHHHhhcccchhHHHHHHhh
Confidence            4555555555544432      3445666666666666666666665543

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=84.27  E-value=5.2  Score=40.23  Aligned_cols=96  Identities=14%  Similarity=0.026  Sum_probs=66.8

Q ss_pred             HHHHHHHcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCC
Q 003295          643 LIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQ  722 (833)
Q Consensus       643 li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~  722 (833)
                      -.+-|.+.|.+++|+..|....... +-+.+++..-..+|.+..++..|+.--..++..+ ..-...|.--+.+-...|+
T Consensus       103 ~GN~yFKQgKy~EAIDCYs~~ia~~-P~NpV~~~NRA~AYlk~K~FA~AE~DC~~AiaLd-~~Y~KAYSRR~~AR~~Lg~  180 (536)
T KOG4648|consen  103 RGNTYFKQGKYEEAIDCYSTAIAVY-PHNPVYHINRALAYLKQKSFAQAEEDCEAAIALD-KLYVKAYSRRMQARESLGN  180 (536)
T ss_pred             hhhhhhhccchhHHHHHhhhhhccC-CCCccchhhHHHHHHHHHHHHHHHHhHHHHHHhh-HHHHHHHHHHHHHHHHHhh
Confidence            3667899999999999999877652 2388888888899999999888887777666532 1112234433444444567


Q ss_pred             hhHHHHHHHHHHhCCCCCCH
Q 003295          723 MDEAESVLQEMASINIHPNK  742 (833)
Q Consensus       723 ~~~A~~~~~~m~~~g~~p~~  742 (833)
                      ..+|.+-++...+  +.|+.
T Consensus       181 ~~EAKkD~E~vL~--LEP~~  198 (536)
T KOG4648|consen  181 NMEAKKDCETVLA--LEPKN  198 (536)
T ss_pred             HHHHHHhHHHHHh--hCccc
Confidence            7777777777776  46663

>PF06552 TOM20_plant: Plant specific mitochondrial import receptor subunit TOM20; InterPro: IPR010547 This family consists of several plant specific mitochondrial import receptor subunit TOM20 (translocase of outer membrane 20 kDa subunit) proteins

Probab=84.03  E-value=5.4  Score=36.57  Aligned_cols=111  Identities=19%  Similarity=0.221  Sum_probs=56.0

Q ss_pred             HHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhc---CC-------hhHHHHHHHHHHhCCCCCCH-HHHHHHHHHHHhcC
Q 003295          688 IEDAKCLFDEMRKEGLLPNVACYTALIGGYCKL---GQ-------MDEAESVLQEMASINIHPNK-ITYTIMIGGYCKLG  756 (833)
Q Consensus       688 ~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~---g~-------~~~A~~~~~~m~~~g~~p~~-~~~~~li~~~~~~g  756 (833)
                      ++.|.+..+.-...+ +.|...++....++...   ..       +++|..-|++.+.  +.|+. .++..+..+|...+
T Consensus         7 FE~ark~aea~y~~n-P~DadnL~~WG~ALLELAqfk~g~es~~miedAisK~eeAL~--I~P~~hdAlw~lGnA~ts~A   83 (186)
T PF06552_consen    7 FEHARKKAEAAYAKN-PLDADNLTNWGGALLELAQFKQGPESKKMIEDAISKFEEALK--INPNKHDALWCLGNAYTSLA   83 (186)
T ss_dssp             HHHHHHHHHHHHHH--TT-HHHHHHHHHHHHHHHHHS-HHHHHHHHHHHHHHHHHHHH--H-TT-HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhC-cHhHHHHHHHHHHHHHHHhccCcchHHHHHHHHHHHHHHHHh--cCCchHHHHHHHHHHHHHHH
Confidence            456666666655443 44555555554444332   23       3334444444444  45553 57777777776544


Q ss_pred             C-----------HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHHCCCC
Q 003295          757 D-----------MKEAAKLLNVMAEKGISPDSITYNVFMDGHCKGGNVEEAFKVCDRMLSEGLS  809 (833)
Q Consensus       757 ~-----------~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~  809 (833)
                      .           +++|.+.|+++.+  ..|+..+|..-+      ...++|-++..++.+.+..
T Consensus        84 ~l~~d~~~A~~~F~kA~~~FqkAv~--~~P~ne~Y~ksL------e~~~kap~lh~e~~~~~~~  139 (186)
T PF06552_consen   84 FLTPDTAEAEEYFEKATEYFQKAVD--EDPNNELYRKSL------EMAAKAPELHMEIHKQGLG  139 (186)
T ss_dssp             HH---HHHHHHHHHHHHHHHHHHHH--H-TT-HHHHHHH------HHHHTHHHHHHHHHHSSS-
T ss_pred             hhcCChHHHHHHHHHHHHHHHHHHh--cCCCcHHHHHHH------HHHHhhHHHHHHHHHHHhh
Confidence            2           4445555555555  457766666422      3445666666666655443

Most mitochondrial proteins are encoded by the nuclear genome, and are synthesised in the cytosol. TOM20 is a general import receptor that binds to mitochondrial pre-sequences in the early step of protein import into the mitochondria [].; GO: 0045040 protein import into mitochondrial outer membrane, 0005742 mitochondrial outer membrane translocase complex; PDB: 1ZU2_A.

>PF10345 Cohesin_load: Cohesin loading factor; InterPro: IPR019440 Cohesin loading factor is a conserved protein that has been characterised in fungi

Probab=84.02  E-value=88  Score=36.08  Aligned_cols=194  Identities=14%  Similarity=0.188  Sum_probs=113.1

Q ss_pred             CHHHHHHHHHHHHhcCChhHHHHHHHHhhcC--CCC--CHHHHHHHHHHHH-hcCChhHHHHHHHHHHHcCCCCChh---
Q 003295          217 SLKTCNFLLNSLVKANEVQKGIEVFETMCRG--VSP--DVFLFSTAINAFC-KRGRIEDAIGLFTKMEELGIAPNVV---  288 (833)
Q Consensus       217 ~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~--~~~--~~~~~~~li~~~~-~~g~~~~A~~~~~~m~~~g~~p~~~---  288 (833)
                      ++..|..||..         |++-++-+.+.  .+|  +..++..+...|. ...++++|+..+++.....-.++..   
T Consensus        29 ~l~~Y~kLI~~---------ai~CL~~~~~~~~l~p~~ea~~~l~la~iL~~eT~n~~~Ae~~L~k~~~l~~~~~~~d~k   99 (608)
T PF10345_consen   29 QLKQYYKLIAT---------AIKCLEAVLKQFKLSPRQEARVRLRLASILLEETENLDLAETYLEKAILLCERHRLTDLK   99 (608)
T ss_pred             hHHHHHHHHHH---------HHHHHHHHhccCCCCHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccccchHHHH
Confidence            45556655553         44445555422  233  3456666777776 5688999999999876543222222   


Q ss_pred             --hHHHHHHHHHhcCChhHHHHHHHHHHhCCCC----CChhhHHHH-HHHHHhcCChhHHHHHHHHHHHCC---CCCChh
Q 003295          289 --TYNNIIHGLCRNGRLYEAFHLKEKMVLREVE----PSLITYSIL-INGLIKLEKFDDANFVLKEMSVRG---FVPNYV  358 (833)
Q Consensus       289 --~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~----p~~~t~~~l-i~~~~~~g~~~~A~~~~~~m~~~g---~~p~~~  358 (833)
                        ....++..+.+.+... |...+++.++.--.    +-...+.-+ +..+...++...|.+.++.+...-   ..|-..
T Consensus       100 ~~~~~ll~~i~~~~~~~~-a~~~l~~~I~~~~~~~~~~w~~~frll~~~l~~~~~d~~~Al~~L~~~~~~a~~~~d~~~~  178 (608)
T PF10345_consen  100 FRCQFLLARIYFKTNPKA-ALKNLDKAIEDSETYGHSAWYYAFRLLKIQLALQHKDYNAALENLQSIAQLANQRGDPAVF  178 (608)
T ss_pred             HHHHHHHHHHHHhcCHHH-HHHHHHHHHHHHhccCchhHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCHHHH
Confidence              2235667777776655 98888887754211    122223333 222333479999999998886532   223344


Q ss_pred             hHHHHHHHHH--HcCChHHHHHHHHHHHhCCC---------CCChhHHHHHHHHHH--hcCChhHHHHHHHHHHH
Q 003295          359 VYNTLIDGYC--KKGNISEALKIRDDMVSKGM---------SPNSVTFNSLIHGFC--KSGQMDNAENALEEMLS  420 (833)
Q Consensus       359 ~y~~li~~~~--~~g~~~~A~~~~~~m~~~g~---------~p~~~~~~~li~~~~--~~g~~~~A~~~l~~~~~  420 (833)
                      ++..++.+..  +.+..+++.+.++++.....         .|...+|..+++.++  ..|+++.+...++++.+
T Consensus       179 v~~~l~~~~l~l~~~~~~d~~~~l~~~~~~~~~~q~~~~~~~~qL~~~~lll~l~~~l~~~~~~~~~~~L~~lq~  253 (608)
T PF10345_consen  179 VLASLSEALLHLRRGSPDDVLELLQRAIAQARSLQLDPSVHIPQLKALFLLLDLCCSLQQGDVKNSKQKLKQLQQ  253 (608)
T ss_pred             HHHHHHHHHHHhcCCCchhHHHHHHHHHHHHhhcccCCCCCcHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            5555555433  55667777777777643211         234556777766554  57777788777766653

It is associated with the cohesin complex and is required in G1 for cohesin binding to chromosomes, but is dispensable in G2 when cohesion has been established. It is often referred to as Ssl3 in Schizosaccharomyces pombe (Fission yeast), and Scc4 in Saccharomyces cerevisiae (Baker's yeast). It complexes with Mis4 [].

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=83.44  E-value=11  Score=30.76  Aligned_cols=58  Identities=10%  Similarity=0.196  Sum_probs=39.7

Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHhh-c-CCCCCHHHHHHHHH
Q 003295          201 YAIDVFSIFSSKGIFPSLKTCNFLLNSLVKANEVQKGIEVFETMC-R-GVSPDVFLFSTAIN  260 (833)
Q Consensus       201 ~A~~~f~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~-~-~~~~~~~~~~~li~  260 (833)
                      +..+.++.+-..+..|++....+.+.++-|.+++..|.++|+.+. + |...+  .|..++.
T Consensus        28 e~rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~K~~~~~~--~Y~~~lq   87 (108)
T PF02284_consen   28 ELRRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKDKCGNKKE--IYPYILQ   87 (108)
T ss_dssp             HHHHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHTTT-TT--HHHHHHH
T ss_pred             HHHHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHHHccChHH--HHHHHHH
Confidence            445555666677888999999999999999999999999999988 2 43333  5555553

9.3.1 from EC) is an oligomeric enzymatic complex which is a component of the respiratory chain complex and is involved in the transfer of electrons from cytochrome c to oxygen []. In eukaryotes this enzyme complex is located in the mitochondrial inner membrane; in aerobic prokaryotes it is found in the plasma membrane. In eukaryotes, in addition to the three large subunits, I, II and III, that form the catalytic centre of the enzyme complex, there are a variable number of small polypeptidic subunits. One of these subunits is known as Va.; GO: 0004129 cytochrome-c oxidase activity; PDB: 2DYR_R 3AG1_E 3ABL_E 1V54_R 2EIJ_R 1OCR_E 2DYS_E 2EIM_E 2OCC_E 3ASN_R ....

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=83.19  E-value=13  Score=34.54  Aligned_cols=89  Identities=21%  Similarity=0.166  Sum_probs=71.3

Q ss_pred             HHHHhcCChhHHHHHHHHHHhCCCCCC-----HHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHh
Q 003295          715 GGYCKLGQMDEAESVLQEMASINIHPN-----KITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISP-DSITYNVFMDGHC  788 (833)
Q Consensus       715 ~~~~~~g~~~~A~~~~~~m~~~g~~p~-----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~~~~~l~~~~~  788 (833)
                      +-+.+.|++++|..-|.++++. +++.     .+.|..-..++.+.+.++.|++--.+.++.  .| .......-..+|.
T Consensus       103 N~~F~ngdyeeA~skY~~Ale~-cp~~~~e~rsIly~Nraaa~iKl~k~e~aI~dcsKaiel--~pty~kAl~RRAeaye  179 (271)
T KOG4234|consen  103 NELFKNGDYEEANSKYQEALES-CPSTSTEERSILYSNRAAALIKLRKWESAIEDCSKAIEL--NPTYEKALERRAEAYE  179 (271)
T ss_pred             HHhhhcccHHHHHHHHHHHHHh-CccccHHHHHHHHhhhHHHHHHhhhHHHHHHHHHhhHhc--CchhHHHHHHHHHHHH
Confidence            4567899999999999999875 3443     245667777889999999999999999985  45 3345556677899


Q ss_pred             cCCCHHHHHHHHHHHHHC
Q 003295          789 KGGNVEEAFKVCDRMLSE  806 (833)
Q Consensus       789 ~~g~~~~A~~~~~~m~~~  806 (833)
                      +..++++|++-|+.+++.
T Consensus       180 k~ek~eealeDyKki~E~  197 (271)
T KOG4234|consen  180 KMEKYEEALEDYKKILES  197 (271)
T ss_pred             hhhhHHHHHHHHHHHHHh
Confidence            999999999999999884

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=83.12  E-value=66  Score=33.91  Aligned_cols=53  Identities=17%  Similarity=0.134  Sum_probs=31.3

Q ss_pred             HHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhh
Q 003295          539 ILGCCKDGKPEEGFKLKEDMIKRGIQPDNYTYNLLLHGLCSLGKMEEAIELWEECKR  595 (833)
Q Consensus       539 i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~  595 (833)
                      ..+.-+.|+++...+........  .++...+.++...  +.++++++....+.+..
T Consensus         5 ~eaaWrl~~Wd~l~~~~~~~~~~--~~~~~~~~al~~l--~~~~~~~~~~~i~~~r~   57 (352)
T PF02259_consen    5 AEAAWRLGDWDLLEEYLSQSNED--SPEYSFYRALLAL--RQGDYDEAKKYIEKARQ   57 (352)
T ss_pred             HHHHHhcCChhhHHHHHhhccCC--ChhHHHHHHHHHH--hCccHHHHHHHHHHHHH
Confidence            45666788888744444443322  2244444444433  77888888887776654

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]

Probab=82.94  E-value=75  Score=34.42  Aligned_cols=180  Identities=13%  Similarity=0.099  Sum_probs=117.2

Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHH
Q 003295          494 TVNTVTSNALIHGMCEAGNLKEAGKLLMEMLQRGLILDKVTYNTLILGCCKDGKPEEGFKLKEDMIKRGIQPDNYTYNLL  573 (833)
Q Consensus       494 ~~~~~~~~~li~~~~~~g~~~~A~~~l~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l  573 (833)
                      +.|....-+++..+..+.+..-...+..+|...|-  +...|..++.+|..+ ..++-..+++++.+..+. |++.-..|
T Consensus        63 ~l~d~~l~~~~~~f~~n~k~~~veh~c~~~l~~~e--~kmal~el~q~y~en-~n~~l~~lWer~ve~dfn-Dvv~~ReL  138 (711)
T COG1747          63 LLDDSCLVTLLTIFGDNHKNQIVEHLCTRVLEYGE--SKMALLELLQCYKEN-GNEQLYSLWERLVEYDFN-DVVIGREL  138 (711)
T ss_pred             cccchHHHHHHHHhccchHHHHHHHHHHHHHHhcc--hHHHHHHHHHHHHhc-CchhhHHHHHHHHHhcch-hHHHHHHH
Confidence            34566677888888888888888899999988764  677888899999888 667888899988888665 56555666


Q ss_pred             HHHHHhcCCHHHHHHHHHHHhhCCCCC--C---HhhHHHHHHHHHccCCHHHHHHHHHHHHHC-CCccCHHHHHHHHHHH
Q 003295          574 LHGLCSLGKMEEAIELWEECKRTVFGP--D---IYTYGVMIDGFCKADKIEEGETLFNEMISK-KMELNPVVYNTLIRAY  647 (833)
Q Consensus       574 i~~~~~~g~~~~A~~~~~~~~~~~~~~--~---~~~~~~li~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~~li~~~  647 (833)
                      ...|-+ ++.+.+..+|..+...-++.  +   ...|..+...-  ..+.+....+..++.+. |...-.+.+..+-.-|
T Consensus       139 a~~yEk-ik~sk~a~~f~Ka~yrfI~~~q~~~i~evWeKL~~~i--~dD~D~fl~l~~kiqt~lg~~~~~Vl~qdv~~~Y  215 (711)
T COG1747         139 ADKYEK-IKKSKAAEFFGKALYRFIPRRQNAAIKEVWEKLPELI--GDDKDFFLRLQKKIQTKLGEGRGSVLMQDVYKKY  215 (711)
T ss_pred             HHHHHH-hchhhHHHHHHHHHHHhcchhhhhhHHHHHHHHHHhc--cccHHHHHHHHHHHHHhhccchHHHHHHHHHHHh
Confidence            666665 88888888888876543221  0   12333333211  34455555555555443 3333445555555667


Q ss_pred             HHcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 003295          648 CKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHG  681 (833)
Q Consensus       648 ~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~  681 (833)
                      ....++++|++++....+.. ..|...-..++..
T Consensus       216 s~~eN~~eai~Ilk~il~~d-~k~~~ar~~~i~~  248 (711)
T COG1747         216 SENENWTEAIRILKHILEHD-EKDVWARKEIIEN  248 (711)
T ss_pred             ccccCHHHHHHHHHHHhhhc-chhhhHHHHHHHH
Confidence            77777888888777776654 2244444444433

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=82.01  E-value=31  Score=30.74  Aligned_cols=51  Identities=27%  Similarity=0.224  Sum_probs=28.3

Q ss_pred             hcCCHHHHHHHHHHHHHCCCCCChhHH-HHHHHHHHhcCChhHHHHHHHHHHhC
Q 003295          684 NIGLIEDAKCLFDEMRKEGLLPNVACY-TALIGGYCKLGQMDEAESVLQEMASI  736 (833)
Q Consensus       684 ~~g~~~~A~~~~~~m~~~g~~p~~~~~-~~li~~~~~~g~~~~A~~~~~~m~~~  736 (833)
                      ..++.+++..+++.|.-  +.|+..-. ..-...+...|++++|.++|++..+.
T Consensus        22 ~~~d~~D~e~lLdALrv--LrP~~~e~d~~dg~l~i~rg~w~eA~rvlr~l~~~   73 (153)
T TIGR02561        22 RSADPYDAQAMLDALRV--LRPNLKELDMFDGWLLIARGNYDEAARILRELLSS   73 (153)
T ss_pred             hcCCHHHHHHHHHHHHH--hCCCccccchhHHHHHHHcCCHHHHHHHHHhhhcc
Confidence            45666667766666665  23433221 11233445666777777777766654

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>KOG2396 consensus HAT (Half-A-TPR) repeat-containing protein [General function prediction only]

Probab=81.67  E-value=83  Score=34.06  Aligned_cols=79  Identities=14%  Similarity=-0.015  Sum_probs=44.1

Q ss_pred             HHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHh-cCChhHHHHHHHHHHh
Q 003295          237 GIEVFETMCRGVSPDVFLFSTAINAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIHGLCR-NGRLYEAFHLKEKMVL  315 (833)
Q Consensus       237 A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~-~g~~~~A~~~~~~m~~  315 (833)
                      ...+|+.....++.|+..|...+.-+-+.+.+.+...+|.+|....+. ++..|-.-...... .-+++.|+.+|.+..+
T Consensus        90 Iv~lyr~at~rf~~D~~lW~~yi~f~kk~~~~~~v~ki~~~~l~~Hp~-~~dLWI~aA~wefe~n~ni~saRalflrgLR  168 (568)
T KOG2396|consen   90 IVFLYRRATNRFNGDVKLWLSYIAFCKKKKTYGEVKKIFAAMLAKHPN-NPDLWIYAAKWEFEINLNIESARALFLRGLR  168 (568)
T ss_pred             HHHHHHHHHHhcCCCHHHHHHHHHHHHHhcchhHHHHHHHHHHHhCCC-CchhHHhhhhhHHhhccchHHHHHHHHHHhh
Confidence            344555555445567777777776655556677777777777765321 22233222222222 3337777777766665


Q ss_pred             C
Q 003295          316 R  316 (833)
Q Consensus       316 ~  316 (833)
                      .
T Consensus       169 ~  169 (568)
T KOG2396|consen  169 F  169 (568)
T ss_pred             c
Confidence            4

>PF06552 TOM20_plant: Plant specific mitochondrial import receptor subunit TOM20; InterPro: IPR010547 This family consists of several plant specific mitochondrial import receptor subunit TOM20 (translocase of outer membrane 20 kDa subunit) proteins

Probab=80.85  E-value=25  Score=32.42  Aligned_cols=112  Identities=20%  Similarity=0.221  Sum_probs=65.7

Q ss_pred             hHHHHHHHHHHHhCCCCCCHHHHHHHHHHH---HhcCC-------HHHHHHHHHHHHHCCCCCCh-hHHHHHHHHHHhcC
Q 003295          653 TTAAFRLSNDMKSRGILPTSVTYSSLIHGL---CNIGL-------IEDAKCLFDEMRKEGLLPNV-ACYTALIGGYCKLG  721 (833)
Q Consensus       653 ~~~A~~~~~~m~~~~~~p~~~~~~~li~~~---~~~g~-------~~~A~~~~~~m~~~g~~p~~-~~~~~li~~~~~~g  721 (833)
                      ++.|.+.++.-...+ +.|...++.-..++   ++...       +++|+.-|++.+.  +.|+. .++.++..+|...+
T Consensus         7 FE~ark~aea~y~~n-P~DadnL~~WG~ALLELAqfk~g~es~~miedAisK~eeAL~--I~P~~hdAlw~lGnA~ts~A   83 (186)
T PF06552_consen    7 FEHARKKAEAAYAKN-PLDADNLTNWGGALLELAQFKQGPESKKMIEDAISKFEEALK--INPNKHDALWCLGNAYTSLA   83 (186)
T ss_dssp             HHHHHHHHHHHHHH--TT-HHHHHHHHHHHHHHHHHS-HHHHHHHHHHHHHHHHHHHH--H-TT-HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhC-cHhHHHHHHHHHHHHHHHhccCcchHHHHHHHHHHHHHHHHh--cCCchHHHHHHHHHHHHHHH
Confidence            566777777655544 44666555444444   33333       3445555555555  56764 78888888887544


Q ss_pred             ----C-------hhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC
Q 003295          722 ----Q-------MDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISP  775 (833)
Q Consensus       722 ----~-------~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p  775 (833)
                          +       +++|...|++...  ..|+...|+.-+...      ++|-++..++.+.+..+
T Consensus        84 ~l~~d~~~A~~~F~kA~~~FqkAv~--~~P~ne~Y~ksLe~~------~kap~lh~e~~~~~~~~  140 (186)
T PF06552_consen   84 FLTPDTAEAEEYFEKATEYFQKAVD--EDPNNELYRKSLEMA------AKAPELHMEIHKQGLGQ  140 (186)
T ss_dssp             HH---HHHHHHHHHHHHHHHHHHHH--H-TT-HHHHHHHHHH------HTHHHHHHHHHHSSS--
T ss_pred             hhcCChHHHHHHHHHHHHHHHHHHh--cCCCcHHHHHHHHHH------HhhHHHHHHHHHHHhhh
Confidence                2       4556666666666  479999988776554      57888888887766443

Most mitochondrial proteins are encoded by the nuclear genome, and are synthesised in the cytosol. TOM20 is a general import receptor that binds to mitochondrial pre-sequences in the early step of protein import into the mitochondria [].; GO: 0045040 protein import into mitochondrial outer membrane, 0005742 mitochondrial outer membrane translocase complex; PDB: 1ZU2_A.

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=80.76  E-value=12  Score=30.34  Aligned_cols=42  Identities=12%  Similarity=0.252  Sum_probs=19.4

Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 003295          728 SVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMA  769 (833)
Q Consensus       728 ~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~  769 (833)
                      +-++.+...++.|++.+..+.+++|.+.+++.-|+++++-..
T Consensus        28 r~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK   69 (103)
T cd00923          28 RGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIK   69 (103)
T ss_pred             HHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            333333344444444444444444444444444444444443

Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of prokaryotes. It catalyzes the reduction of O2 and simultaneously pumps protons across the membrane. The number of subunits varies from three to five in bacteria and up to 13 in mammalian mitochondria. Subunits I, II, and III of mammalian CcO are encoded within the mitochondrial genome and the remaining 10 subunits are encoded within the nuclear genome. Found only in eukaryotes, subunit Va is one of three mammalian subunits that lacks a transmembrane region. Subunit Va is located on the matrix side of the membrane and binds thyroid hormone T2, releasing allosteric inhibition caused by the binding of ATP to subunit IV and allowing high turnover at elevated intramitochondrial ATP/ADP ratios.

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=80.42  E-value=9.2  Score=30.91  Aligned_cols=60  Identities=8%  Similarity=0.118  Sum_probs=44.6

Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHhhcCCCCCHHHHHHHHH
Q 003295          201 YAIDVFSIFSSKGIFPSLKTCNFLLNSLVKANEVQKGIEVFETMCRGVSPDVFLFSTAIN  260 (833)
Q Consensus       201 ~A~~~f~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~  260 (833)
                      +..+.++.+-..+..|++....+.+.++-|.+++..|..+|+.+...+..+...|..++.
T Consensus        25 e~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK~K~~~~~~~y~~~lq   84 (103)
T cd00923          25 ELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIKDKCGAHKEIYPYILQ   84 (103)
T ss_pred             HHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHccCchhhHHHHHH
Confidence            445556666677888999999999999999999999999999887323334445655553

Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of prokaryotes. It catalyzes the reduction of O2 and simultaneously pumps protons across the membrane. The number of subunits varies from three to five in bacteria and up to 13 in mammalian mitochondria. Subunits I, II, and III of mammalian CcO are encoded within the mitochondrial genome and the remaining 10 subunits are encoded within the nuclear genome. Found only in eukaryotes, subunit Va is one of three mammalian subunits that lacks a transmembrane region. Subunit Va is located on the matrix side of the membrane and binds thyroid hormone T2, releasing allosteric inhibition caused by the binding of ATP to subunit IV and allowing high turnover at elevated intramitochondrial ATP/ADP ratios.

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=80.32  E-value=3.8  Score=27.04  Aligned_cols=28  Identities=21%  Similarity=0.288  Sum_probs=19.4

Q ss_pred             HHHHHHHHHHhcCCCHHHHHHHHHHHHH
Q 003295          778 ITYNVFMDGHCKGGNVEEAFKVCDRMLS  805 (833)
Q Consensus       778 ~~~~~l~~~~~~~g~~~~A~~~~~~m~~  805 (833)
                      .+++.|+..|...|++++|..++++.+.
T Consensus         3 ~~~~~la~~~~~~g~~~~A~~~~~~al~   30 (42)
T PF13374_consen    3 SALNNLANAYRAQGRYEEALELLEEALE   30 (42)
T ss_dssp             HHHHHHHHHHHHCT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhhcchhhHHHHHHHH
Confidence            4567777777777777777777777665

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	833
4g24_A	501	Crystal Structure Of Proteinaceous Rnase P 1 (Prorp		6e-04

>pdb|4G24|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From A. Thaliana With Mn Length = 501

Iteration: 1
 Score = 43.1 bits (100), Expect = 6e-04,   Method: Compositional matrix adjust.
 Identities = 45/207 (21%), Positives = 77/207 (37%), Gaps = 26/207 (12%)
Query: 542 CCKDGKPEEGFKLKEDMIKRGIQPDNYTYNLLLHGLCSLGKMEEAIELWEECKRTVFGPD 601
           C K G   E  +L ++  + G+Q   Y YN+LL+ +CSL          E    +   P 
Sbjct: 36  CSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLY-VCSLA---------EAATESSPNPG 85
Query: 602 IYTYGVMIDGFCKADKIEEGETLFNEMISKKMELNPVVYNTLIRAYCKIGNTTAAFRLSN 661
           +                  G  +F +MI  K+  N   +    R      +   AF +  
Sbjct: 86  L----------------SRGFDIFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVK 129
Query: 662 DMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLG 721
            MK+ GI P   +Y   + G C  G  + A  +   M +  ++P      AL+       
Sbjct: 130 QMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHMVESEVVPEEPELAALLKVSMDTK 189
Query: 722 QMDEAESVLQEMASINIHPNKITYTIM 748
             D+    LQ +  +    +K T+ ++
Sbjct: 190 NADKVYKTLQRLRDLVRQVSKSTFDMI 216

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	833
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	2e-19
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	4e-19
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	2e-18
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	2e-17
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	1e-16
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	6e-16
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	2e-15
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	6e-15
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	6e-14
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	1e-13
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	5e-08
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-12
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	3e-06
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	1e-11
3ugm_A	1047	TAL effector avrbs3/PTHA; TAL effector; 3.00A {Xan	2e-08
3ugm_A	1047	TAL effector avrbs3/PTHA; TAL effector; 3.00A {Xan	2e-04
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	8e-08
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	2e-06
3v6t_A	499	DHAX3; tandem repeats, DNA specific binding protei	3e-07
3v6t_A	499	DHAX3; tandem repeats, DNA specific binding protei	7e-07
3v6t_A	499	DHAX3; tandem repeats, DNA specific binding protei	9e-07
3v6t_A	499	DHAX3; tandem repeats, DNA specific binding protei	3e-05
3v6t_A	499	DHAX3; tandem repeats, DNA specific binding protei	1e-04
2gw1_A	514	Mitochondrial precursor proteins import receptor;	5e-05
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	8e-05
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	2e-04

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 92.6 bits (228), Expect = 2e-19
 Identities = 25/177 (14%), Positives = 52/177 (29%), Gaps = 4/177 (2%)

Query: 512 NLKEAGKLLMEMLQRGLILDKVTYNTLILGCCKDGKPEEGFKL---KEDMIKRGIQPDNY 568
           +L        +  Q  L   +         C    +      L        ++       
Sbjct: 107 SLDVEQAPSGQHSQAQLSGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLD 166

Query: 569 TYNLLLHGLCSLGKMEEAIELWEECKRTVFGPDIYTYGVMIDGFCKADKIEEG-ETLFNE 627
            YN ++ G    G  +E + +    K     PD+ +Y   +    + D+     E    +
Sbjct: 167 MYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQ 226

Query: 628 MISKKMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCN 684
           M  + ++L  +    L+    +     A  ++         LP  V  S L+  +  
Sbjct: 227 MSQEGLKLQALFTAVLLSEEDRATVLKAVHKVKPTFSLPPQLPPPVNTSKLLRDVYA 283

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 91.8 bits (226), Expect = 4e-19
 Identities = 21/186 (11%), Positives = 56/186 (30%), Gaps = 4/186 (2%)

Query: 643 LIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMR--- 699
           L++      +       S       +        +          +  A  L        
Sbjct: 98  LLQEAPGKLSLDVEQAPSGQHSQAQLSGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQR 157

Query: 700 KEGLLPNVACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMK 759
           ++  L  +  Y A++ G+ + G   E   VL  +    + P+ ++Y   +    +     
Sbjct: 158 QKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQDA 217

Query: 760 EAA-KLLNVMAEKGISPDSITYNVFMDGHCKGGNVEEAFKVCDRMLSEGLSLDEITYTTL 818
               + L  M+++G+   ++   V +    +   ++   KV             +  + L
Sbjct: 218 GTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHKVKPTFSLPPQLPPPVNTSKL 277

Query: 819 IDGWQS 824
           +    +
Sbjct: 278 LRDVYA 283

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 89.9 bits (221), Expect = 2e-18
 Identities = 27/185 (14%), Positives = 62/185 (33%), Gaps = 4/185 (2%)

Query: 649 KIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVA 708
           ++ +   A  L +  +     P     + L+        ++  +    +  +  L     
Sbjct: 69  RLLSKQMAGCLEDCTRQAPESPWEEQLARLLQEAPGKLSLDVEQAPSGQHSQAQLSGQQQ 128

Query: 709 CYTALIGGYCKLGQMDEAESVLQ---EMASINIHPNKITYTIMIGGYCKLGDMKEAAKLL 765
              A         Q+  A  +L                 Y  ++ G+ + G  KE   +L
Sbjct: 129 RLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVL 188

Query: 766 NVMAEKGISPDSITYNVFMDGHCKGGNVEEAFKVC-DRMLSEGLSLDEITYTTLIDGWQS 824
            ++ + G++PD ++Y   +    +        + C ++M  EGL L  +    L+     
Sbjct: 189 FMVKDAGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDR 248

Query: 825 STITN 829
           +T+  
Sbjct: 249 ATVLK 253

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 86.4 bits (212), Expect = 2e-17
 Identities = 22/201 (10%), Positives = 61/201 (30%), Gaps = 4/201 (1%)

Query: 246 RGVSPDVFLFSTAINAFCKRGRIEDA---IGLFTKMEELGIAPNVVTYNNIIHGLCRNGR 302
             +S                 ++  A   + +     +      +  YN ++ G  R G 
Sbjct: 121 AQLSGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGA 180

Query: 303 LYEAFHLKEKMVLREVEPSLITYSILINGLIKLEKFD-DANFVLKEMSVRGFVPNYVVYN 361
             E  ++   +    + P L++Y+  +  + + ++        L++MS  G     +   
Sbjct: 181 FKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTA 240

Query: 362 TLIDGYCKKGNISEALKIRDDMVSKGMSPNSVTFNSLIHGFCKSGQMDNAENALEEMLSR 421
            L+    +   +    K++         P  V  + L+          +       + + 
Sbjct: 241 VLLSEEDRATVLKAVHKVKPTFSLPPQLPPPVNTSKLLRDVYAKDGRVSYPKLHLPLKTL 300

Query: 422 GLSINQGAYTSVIKWLCINSR 442
                +  +  +   +C+ S 
Sbjct: 301 QCLFEKQLHMELASRVCVVSV 321

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 84.1 bits (206), Expect = 1e-16
 Identities = 32/276 (11%), Positives = 80/276 (28%), Gaps = 10/276 (3%)

Query: 554 LKEDMIKRGIQPDNYTYNLLLHGLCSLGKMEEAIELWEECKRTVFGPDIYTYGVMIDGFC 613
           L++   +    P       LL        ++       +  +                  
Sbjct: 79  LEDCTRQAPESPWEEQLARLLQEAPGKLSLDVEQAPSGQHSQAQLSGQQQRLLAFFKCCL 138

Query: 614 KADKIEEGETLFN---EMISKKMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILP 670
             D++     L         K+  L   +YN ++  + + G       +   +K  G+ P
Sbjct: 139 LTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTP 198

Query: 671 TSVTYSSLIHGLCNIG-LIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESV 729
             ++Y++ +  +          +   ++M +EGL         L+    +   +     V
Sbjct: 199 DLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHKV 258

Query: 730 LQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISPDSITYNVFMDGHCK 789
               +     P  +  + ++             KL   +       +    ++ +     
Sbjct: 259 KPTFSLPPQLPPPVNTSKLLRDVYAKDGRVSYPKLHLPLKTLQCLFEKQ-LHMELASRVC 317

Query: 790 GGNVEEAFKVCDRMLSEGLSLDEITYTTLIDGWQSS 825
             +VE+       + S+ +     T  TL D W+ +
Sbjct: 318 VVSVEKP-----TLPSKEVKHARKTLKTLRDQWEKA 348

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 81.8 bits (200), Expect = 6e-16
 Identities = 21/189 (11%), Positives = 60/189 (31%), Gaps = 4/189 (2%)

Query: 310 KEKMVLREVEPSLITYSILINGLIKLEKFDDANFVL---KEMSVRGFVPNYVVYNTLIDG 366
             +    ++              +  ++   A+ +L        +  +    +YN ++ G
Sbjct: 115 SGQHSQAQLSGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLG 174

Query: 367 YCKKGNISEALKIRDDMVSKGMSPNSVTFNSLIHGFCKSGQMDNA-ENALEEMLSRGLSI 425
           + ++G   E + +   +   G++P+ +++ + +    +  Q     E  LE+M   GL +
Sbjct: 175 WARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKL 234

Query: 426 NQGAYTSVIKWLCINSRFNSALHFTKEMLLRNLRPGDGLLTLLVSGLCKNGKQAEATELC 485
                  ++      +   +         L    P     + L+  +     +    +L 
Sbjct: 235 QALFTAVLLSEEDRATVLKAVHKVKPTFSLPPQLPPPVNTSKLLRDVYAKDGRVSYPKLH 294

Query: 486 FRLFEKGFT 494
             L      
Sbjct: 295 LPLKTLQCL 303

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 79.9 bits (195), Expect = 2e-15
 Identities = 19/210 (9%), Positives = 61/210 (29%), Gaps = 4/210 (1%)

Query: 248 VSPDVFLFSTAINAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIHGLCRNGRLYEAF 307
            SP     +  +     +  ++       +  +  ++                 +L  A 
Sbjct: 88  ESPWEEQLARLLQEAPGKLSLDVEQAPSGQHSQAQLSGQQQRLLAFFKCCLLTDQLPLAH 147

Query: 308 HL---KEKMVLREVEPSLITYSILINGLIKLEKFDDANFVLKEMSVRGFVPNYVVYNTLI 364
           HL         +    +L  Y+ ++ G  +   F +  +VL  +   G  P+ + Y   +
Sbjct: 148 HLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAAL 207

Query: 365 DGYCKKGNISEAL-KIRDDMVSKGMSPNSVTFNSLIHGFCKSGQMDNAENALEEMLSRGL 423
               ++   +  + +  + M  +G+   ++    L+    ++  +               
Sbjct: 208 QCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHKVKPTFSLPPQ 267

Query: 424 SINQGAYTSVIKWLCINSRFNSALHFTKEM 453
                  + +++ +       S       +
Sbjct: 268 LPPPVNTSKLLRDVYAKDGRVSYPKLHLPL 297

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 78.3 bits (191), Expect = 6e-15
 Identities = 29/179 (16%), Positives = 57/179 (31%), Gaps = 4/179 (2%)

Query: 490 EKGFTVNTVTSNALIHGMCEAGNLKEAGKLLM---EMLQRGLILDKVTYNTLILGCCKDG 546
           +   +       A          L  A  LL+      Q+  +L    YN ++LG  + G
Sbjct: 120 QAQLSGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQG 179

Query: 547 KPEEGFKLKEDMIKRGIQPDNYTYNLLLHGLCSLGKMEEAIE-LWEECKRTVFGPDIYTY 605
             +E   +   +   G+ PD  +Y   L  +    +    IE   E+  +          
Sbjct: 180 AFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFT 239

Query: 606 GVMIDGFCKADKIEEGETLFNEMISKKMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMK 664
            V++    +A  ++    +            PV  + L+R         +  +L   +K
Sbjct: 240 AVLLSEEDRATVLKAVHKVKPTFSLPPQLPPPVNTSKLLRDVYAKDGRVSYPKLHLPLK 298

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 75.2 bits (183), Expect = 6e-14
 Identities = 16/188 (8%), Positives = 64/188 (34%), Gaps = 5/188 (2%)

Query: 210 SSKGIFPSLKTCNFLLNSLVKANEVQKGIEVFETM----CRGVSPDVFLFSTAINAFCKR 265
           S   +    +         +  +++     +         +     + +++  +  + ++
Sbjct: 119 SQAQLSGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQ 178

Query: 266 GRIEDAIGLFTKMEELGIAPNVVTYNNIIHGLCRNGRLYEAF-HLKEKMVLREVEPSLIT 324
           G  ++ + +   +++ G+ P++++Y   +  + R  +         E+M    ++   + 
Sbjct: 179 GAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALF 238

Query: 325 YSILINGLIKLEKFDDANFVLKEMSVRGFVPNYVVYNTLIDGYCKKGNISEALKIRDDMV 384
            ++L++   +       + V    S+   +P  V  + L+     K       K+   + 
Sbjct: 239 TAVLLSEEDRATVLKAVHKVKPTFSLPPQLPPPVNTSKLLRDVYAKDGRVSYPKLHLPLK 298

Query: 385 SKGMSPNS 392
           +       
Sbjct: 299 TLQCLFEK 306

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 74.5 bits (181), Expect = 1e-13
 Identities = 36/365 (9%), Positives = 93/365 (25%), Gaps = 15/365 (4%)

Query: 411 AENALEEMLSRGLSINQGAYTSVIKWLCINSRFNSALHFTKEMLLRNLRPGDGLLTLLVS 470
           A    +       S  +     +++        +     + +     L      L     
Sbjct: 76  AGCLEDCTRQAPESPWEEQLARLLQEAPGKLSLDVEQAPSGQHSQAQLSGQQQRLLAFFK 135

Query: 471 GLCKNGKQAEATELCFRLFE---KGFTVNTVTSNALIHGMCEAGNLKEAGKLLMEMLQRG 527
                 +   A  L         K   +     NA++ G    G  KE   +L  +   G
Sbjct: 136 CCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAG 195

Query: 528 LILDKVTYNTLILGCCKDGKPEEGF-KLKEDMIKRGIQPDNYTYNLLLHGLCSLGKMEEA 586
           L  D ++Y   +    +  +      +  E M + G++       +LL        ++  
Sbjct: 196 LTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAV 255

Query: 587 IELWEECKRTVFGPDIYTYGVMIDGFCKADKIEEGETLFNEMISKKMELNPVVYNTLIRA 646
            ++          P       ++      D       L   + + +        +  + +
Sbjct: 256 HKVKPTFSLPPQLPPPVNTSKLLRDVYAKDGRVSYPKLHLPLKTLQCLFEK-QLHMELAS 314

Query: 647 YCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPN 706
              + +       S ++        +      +       L    +   + + +E     
Sbjct: 315 RVCVVSVEKPTLPSKEV------KHARKTLKTLRDQWEKALCRALRETKNRLEREVYEGR 368

Query: 707 VACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLN 766
            + Y  L    C L + +    +LQ + ++       T                  + ++
Sbjct: 369 FSLYPFL----CLLDEREVVRMLLQVLQALPAQGESFTTLARELSARTFSRHVVQRQRVS 424

Query: 767 VMAEK 771
              + 
Sbjct: 425 GQVQA 429

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 56.0 bits (133), Expect = 5e-08
 Identities = 19/130 (14%), Positives = 46/130 (35%), Gaps = 2/130 (1%)

Query: 203 IDVFSIFSSKGIFPSLKTCNFLLNSLVKANEVQKGIEVFETM-CRGVSPDVFLFSTAINA 261
           + V      K    +L   N ++    +    ++ + V   +   G++PD+  ++ A+  
Sbjct: 150 LVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQC 209

Query: 262 FCKRGRIEDAIG-LFTKMEELGIAPNVVTYNNIIHGLCRNGRLYEAFHLKEKMVLREVEP 320
             ++ +    I     +M + G+    +    ++    R   L     +K    L    P
Sbjct: 210 MGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHKVKPTFSLPPQLP 269

Query: 321 SLITYSILIN 330
             +  S L+ 
Sbjct: 270 PPVNTSKLLR 279

>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 = 71.0 bits (173), Expect = 1e-12
 Identities = 107/642 (16%), Positives = 190/642 (29%), Gaps = 202/642 (31%)

Query: 186 LVHVYCTQF-KNLGFGYAIDVF-SIFSSKGIFPSLKTCN------FLLNSLVKANE--VQ 235
           ++ V+   F  N       D+  SI S + I   + + +       L  +L+   E  VQ
Sbjct: 21  ILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQ 80

Query: 236 KGIE------------VFETMCRGVSPDVFLFSTAIN-------AFCKRG--RIEDAIGL 274
           K +E              +T  R  S    ++    +        F K    R++  + L
Sbjct: 81  KFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKL 140

Query: 275 FTKMEELGIAPNVVTYNNIIHGL------------CRNGRLYEAF----------HLKEK 312
              + EL  A NV+     I G+            C + ++              +    
Sbjct: 141 RQALLELRPAKNVL-----IDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSP 195

Query: 313 MVLREVEPSLIT-----YSILINGLIKLE-KFDDANFVLKEMSVRGFVPNYVVYNTLI-- 364
             + E+   L+      ++   +    ++ +       L+ +        Y   N L+  
Sbjct: 196 ETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKS---KPYE--NCLLVL 250

Query: 365 DGYCKKGNISEALKI--------RDDMVSKGMSPNSVTFNSLIH---GFCKSGQMDNAEN 413
                      A  +        R   V+  +S  + T  SL H           D  ++
Sbjct: 251 LNVQNA-KAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTP----DEVKS 305

Query: 414 AL------------EEMLSRG-LSINQ-GAYTSVIKWLCINSRF----NSALHFTKEMLL 455
            L             E+L+     ++      S+   L     +       L    E  L
Sbjct: 306 LLLKYLDCRPQDLPREVLTTNPRRLSIIAE--SIRDGLATWDNWKHVNCDKLTTIIESSL 363

Query: 456 RNLRPGD-------------------GLLTLLVSGLCKNGKQAEATELC-FRLFEKGFTV 495
             L P +                    LL+L+   + K+       +L  + L EK    
Sbjct: 364 NVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKE 423

Query: 496 NTVTSNALIHGM-----CEAGNLKEAGKLLMEMLQRGLILDKVTYNTLILGCCKDGKPEE 550
           +T++    I  +      +  N           L R  I+D   YN        D  P  
Sbjct: 424 STIS----IPSIYLELKVKLENEYA--------LHR-SIVDH--YNIPKTFDSDDLIPP- 467

Query: 551 GFKLKEDMIKRGIQPDNYTYNLLLHGLCSLGKMEEAIELWEECKRTVFGPDIYTYGVMID 610
                          D Y Y+ + H L    K  E  E         F   ++     +D
Sbjct: 468 -------------YLDQYFYSHIGHHL----KNIEHPERMTL-----F-RMVF-----LD 499

Query: 611 -GFCKADKIEEGETLFNEMISKKMELNPVVYNTL--IRAYCK-IGNTTAAF-RLSNDMKS 665
             F +  KI    T +N   S        + NTL  ++ Y   I +    + RL N +  
Sbjct: 500 FRFLEQ-KIRHDSTAWNASGS--------ILNTLQQLKFYKPYICDNDPKYERLVNAILD 550

Query: 666 RGILPTSVT------YSSLIHGLCNIGLIEDAKCLFDEMRKE 701
              LP          Y+ L+     I L+ + + +F+E  K+
Sbjct: 551 --FLPKIEENLICSKYTDLLR----IALMAEDEAIFEEAHKQ 586

>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 = 50.2 bits (119), Expect = 3e-06
 Identities = 56/400 (14%), Positives = 122/400 (30%), Gaps = 130/400 (32%)

Query: 520 LMEMLQ---RGLILDKVTYNTLILGCCKDG---------KPEEGFKLKEDMIKRGIQPDN 567
           LM  ++   R   +    Y         D          + +   KL++ +++  ++P  
Sbjct: 94  LMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLE--LRPAK 151

Query: 568 YTYNLLLHGLCSLGKMEEAIELWEECK----RTVFGPDIY--TYG---------VMIDGF 612
               +L+ G+   GK   A+++   C     +      I+               M+   
Sbjct: 152 N---VLIDGVLGSGKTWVALDV---CLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKL 205

Query: 613 C-KADK---------------IEEGETLFNEMISKKME------LNPVVYNTLIRAY--- 647
             + D                I   +     ++  K        L  V       A+   
Sbjct: 206 LYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLS 265

Query: 648 CKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIGLIED------AKCLFDEMRKE 701
           CKI  TT   ++++ +        + T+ SL H   ++ L  D       K L  + R +
Sbjct: 266 CKILLTTRFKQVTDFLS-----AATTTHISLDHH--SMTLTPDEVKSLLLKYL--DCRPQ 316

Query: 702 GLLPNVACYT-----ALIGGYCKLG----------QMDEAESVLQEMASIN--------- 737
             LP     T     ++I    + G            D+  ++++  +S+N         
Sbjct: 317 D-LPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIE--SSLNVLEPAEYRK 373

Query: 738 ------IHPN--KITYTIMIGGYCKL-GDMKE------AAKLLNV-MAEKGISPDSIT-Y 780
                 + P    I   ++      +  D+ +        KL    + EK     +I+  
Sbjct: 374 MFDRLSVFPPSAHIPTILL----SLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIP 429

Query: 781 NVFMDGHCKGGNVE-------EAFKVCDRMLSEGLSLDEI 813
           +++++   K  N         + + +     S+ L    +
Sbjct: 430 SIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYL 469

>3fp2_A TPR repeat-containing protein YHR117W; TOM71, mitochondria translocation, allosteric REG phosphoprotein, TPR repeat, ATP-binding; 1.98A {Saccharomyces cerevisiae} PDB: 3fp3_A 3fp4_A 3lca_A Length = 537

 Score = 67.1 bits (164), Expect = 1e-11
 Identities = 84/553 (15%), Positives = 163/553 (29%), Gaps = 84/553 (15%)

Query: 260 NAFCKRGRIEDAIGLFTKMEELGIAPN-VVTYNNIIHGLCRNGRLYEAFHLKEKMVLREV 318
           N F       +AI  +     + + PN  V Y+NI       G L +      K +  E+
Sbjct: 33  NHFFTAKNFNEAIKYYQY--AIELDPNEPVFYSNISACYISTGDLEKVIEFTTKAL--EI 88

Query: 319 EPSLI-TYSILINGLIKLEKFDDANFVLKEMSVRGFVPNYVVYNTLIDGYCKKGNISEAL 377
           +P          +    L  F DA F L  +S+     ++      I+   ++    +A+
Sbjct: 89  KPDHSKALLRRASANESLGNFTDAMFDLSVLSLN---GDF--DGASIEPMLERNLNKQAM 143

Query: 378 KIRDDMVSKGMSPNSVTFNSLIHGFCKSGQMDNAENALEEMLSRGLSINQGAYTSVIKWL 437
           K+ ++ +SK                  +  + +     +  L          Y +    L
Sbjct: 144 KVLNENLSK-------DEGRGSQVLPSNTSLASFFGIFDSHLEVSSVNTSSNYDTAYALL 196

Query: 438 -----CINSRFNSALHFTKEMLLRNLRPGDGLLTLLVSGLCKNGKQAEATELCFRLFEKG 492
                 + S  +       ++L ++      LL+            A A      L   G
Sbjct: 197 SDALQRLYSATDEGYLVANDLLTKSTDMYHSLLSANTVDDPLRENAALA------LCYTG 250

Query: 493 FTVNTVTSNALIHGMCEAGNLKEAGKLLMEMLQRGLILDKVTYNTLI-LGCCKD--GKPE 549
                              NL +A      +LQ  + L   T N+ I L          +
Sbjct: 251 --------IFHF----LKNNLLDA----QVLLQESINLHP-TPNSYIFLALTLADKENSQ 293

Query: 550 EGFKLKEDMIKRGIQPDNY-TYNLLLHGLCSLGKMEEAIELWEECKRTVFGPD-IYTYGV 607
           E FK  +  +   + P+   TY         L   + A E +++ +     P+ +Y Y  
Sbjct: 294 EFFKFFQKAVD--LNPEYPPTYYHRGQMYFILQDYKNAKEDFQKAQS--LNPENVYPYIQ 349

Query: 608 MIDGFCKADKIEEGETLFNEMISKKMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRG 667
           +     K  K  E E  FNE   K     P V           G+   A  +     ++ 
Sbjct: 350 LACLLYKQGKFTESEAFFNETKLKFPT-LPEVPTFFAEILTDRGDFDTA--IKQYDIAKR 406

Query: 668 ILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAE 727
           +                IG +             G    +A  ++         + + A 
Sbjct: 407 LEEVQEKIHV------GIGPL------------IGKATILARQSSQDPTQLDEEKFNAAI 448

Query: 728 SVLQEMASINIHPNKITYTIMIGG-YCKLGDMKEAAKLLNVMAEKGISPDSI-TYNVFMD 785
            +L +  +  + P      I +     ++  + EA +L    A   ++            
Sbjct: 449 KLLTK--ACELDPRSEQAKIGLAQLKLQMEKIDEAIELFEDSAI--LARTMDEKLQAT-- 502

Query: 786 GHCKGGNVEEAFK 798
              +   +++  +
Sbjct: 503 TFAEAAKIQKRLR 515

>3ugm_A TAL effector avrbs3/PTHA; TAL effector; 3.00A {Xanthomonas oryzae} Length = 1047

 Score = 57.3 bits (138), Expect = 2e-08
 Identities = 70/537 (13%), Positives = 145/537 (27%), Gaps = 75/537 (13%)

Query: 260 NAFCKRGRIEDAIGLFTKMEELGIAPN-VVTYNNIIHGLCRNGRLYEAFHLKEKMVLREV 318
                   ++  + +  +    G+ P+ VV   + I G      +     +  +     +
Sbjct: 234 GGKQALETMQRLLPVLCQ--AHGLPPDQVVAIASNIGGKQALETVQRLLPVLCQAH--GL 289

Query: 319 EPSLI-TYSILINGLIKLEKFDDANFVLKEMSVRGFVPNYVV-YNTLIDGYCKKGNISEA 376
            P  +   +    G   LE       VL +    G  P+ VV   +   G      +   
Sbjct: 290 TPDQVVAIASHGGGKQALETVQRLLPVLCQ--AHGLTPDQVVAIASHDGGKQALETVQRL 347

Query: 377 LKIRDDMVSKGMSPNSV-TFNSLIHGFCKSGQMDNAENALEEML-----------SRG-- 422
           L +       G++P+ V    S   G      +      L +             S G  
Sbjct: 348 LPVLCQAH--GLTPDQVVAIASNGGGKQALETVQRLLPVLCQAHGLTPDQVVAIASNGGK 405

Query: 423 --LSINQGAYTSVIKWLCINSRFNSALHFTKEMLLRNLRPGDGLLTLLVSGLCKNGKQAE 480
             L   Q     + +   +      A   + +   + L     LL +L         Q  
Sbjct: 406 QALETVQRLLPVLCQAHGLTPDQVVA-IASHDGGKQALETVQRLLPVLCQTHGLTPAQVV 464

Query: 481 ATELCFRLFEKGFTVNTVTSNALIHGMCEAGNLKEAGKLLMEMLQRGLILDK---VTYNT 537
           A      +                        +++     + +L +   L     V   +
Sbjct: 465 A------IASHDGGKQ------------ALETVQQL----LPVLCQAHGLTPDQVVAIAS 502

Query: 538 LILGCCKDGKPEEGFKLKEDMIKRGIQPDNY-TYNLLLHGLCSLGKMEEAIELWEECKRT 596
            I G       +    +       G+ PD          G  +L  ++  + +  +    
Sbjct: 503 NIGGKQALATVQRLLPVLCQAH--GLTPDQVVAIASNGGGKQALETVQRLLPVLCQAHG- 559

Query: 597 VFGPD-IYTYGVMIDGFCKADKIEEGETLFNEMISKKMELNP---VVYNTLIRAYCKIGN 652
              PD +        G    + ++    +  +       L     V   + I     +  
Sbjct: 560 -LTPDQVVAIASNGGGKQALETVQRLLPVLCQAH----GLTQVQVVAIASNIGGKQALET 614

Query: 653 TTAAFRLSNDMKSRGILPTSV-TYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPN-VACY 710
                 L    ++ G+ P  V   +S   G   +  ++    +    +  GL P+ V   
Sbjct: 615 VQRL--LPVLCQAHGLTPAQVVAIASHDGGKQALETVQRLLPVLC--QAHGLTPDQVVAI 670

Query: 711 TALIGGYCKLGQMDEAESVLQEMASINIHPNKIT-YTIMIGGYCKLGDMKEAAKLLN 766
            +  GG   L  +     VL +   +     ++       GG   L  ++    +L 
Sbjct: 671 ASNGGGKQALETVQRLLPVLCQAHGLT--QEQVVAIASNNGGKQALETVQRLLPVLC 725

>3ugm_A TAL effector avrbs3/PTHA; TAL effector; 3.00A {Xanthomonas oryzae} Length = 1047

 Score = 43.9 bits (103), Expect = 2e-04
 Identities = 34/224 (15%), Positives = 71/224 (31%), Gaps = 21/224 (9%)

Query: 562 GIQPDNY-TYNLLLHGLCSLGKMEEAIELWEECKRTVFGPD-IYTYGVMIDGFCKADKIE 619
           G+ PD        + G  +L  ++  + +  +       PD +        G    + ++
Sbjct: 254 GLPPDQVVAIASNIGGKQALETVQRLLPVLCQAHG--LTPDQVVAIASHGGGKQALETVQ 311

Query: 620 EGETLFNEMISKKMELNP---VVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSV-TY 675
               +  +       L P   V   +       +        L    ++ G+ P  V   
Sbjct: 312 RLLPVLCQAH----GLTPDQVVAIASHDGGKQALETVQRL--LPVLCQAHGLTPDQVVAI 365

Query: 676 SSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESVLQEMAS 735
           +S   G   +  ++    L    +  GL P+     A  GG   L  +     VL +   
Sbjct: 366 ASNGGGKQALETVQRL--LPVLCQAHGLTPDQVVAIASNGGKQALETVQRLLPVLCQAHG 423

Query: 736 INIHPNKI-TYTIMIGGYCKLGDMKEAAKLLNVMAEKGISPDSI 778
           +   P+++       GG   L  ++    +L      G++P  +
Sbjct: 424 LT--PDQVVAIASHDGGKQALETVQRLLPVLC--QTHGLTPAQV 463

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe} Length = 597

 Score = 54.8 bits (132), Expect = 8e-08
 Identities = 37/299 (12%), Positives = 82/299 (27%), Gaps = 37/299 (12%)

Query: 488 LFEKGFTVNTVTSNALIHGMC--EAGNLKEAGKLLMEMLQRGLILDKVTYNTLILGCCKD 545
           + EK   +    ++A          G+   A  LL    +  L         L   C   
Sbjct: 106 VGEKVLDITGNPNDAFWLAQVYCCTGDYARAKCLLT---KEDLYNRSSACRYLAAFCLVK 162

Query: 546 -GKPEEGFKLKEDMIK---------------RGIQPDNYTYNLLLHGLCSLGKMEEAIEL 589
               +    L  +                   GI+ +     L      +L   + A E 
Sbjct: 163 LYDWQGALNLLGETNPFRKDEKNANKLLMQDGGIKLEASMCYLRGQVYTNLSNFDRAKEC 222

Query: 590 WEECKRTVFGPDIY-TYGVMIDGFCKADKIEEGETL---FNEMISKKMELNPVVYNTLIR 645
           ++E          Y  +  ++         E    L   ++    +       +Y   + 
Sbjct: 223 YKEALM--VDAKCYEAFDQLVSNHLLTADEEWDLVLKLNYSTYSKEDAAFLRSLYMLKLN 280

Query: 646 AYCKIGNTTAAFRLSNDMKSRGILPTSVT-YSSLIHGLCNIGLIEDAKCLFDEMRKEGLL 704
                     A    + +     L  S          L       D   +  ++ +  + 
Sbjct: 281 KTSHEDELRRAEDYLSSIN---GLEKSSDLLLCKADTLFVRSRFIDVLAITTKILE--ID 335

Query: 705 PN-VACYTALIGGYCKLGQMDEAESVLQEMASINIHPNK-ITYTIMIGGYCKLGDMKEA 761
           P  +  Y   +    + G+ ++   +  ++  ++ HP K +T+  +   Y  +  + EA
Sbjct: 336 PYNLDVYPLHLASLHESGEKNKLYLISNDL--VDRHPEKAVTWLAVGIYYLCVNKISEA 392

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe} Length = 597

 Score = 50.2 bits (120), Expect = 2e-06
 Identities = 73/529 (13%), Positives = 142/529 (26%), Gaps = 77/529 (14%)

Query: 265 RGRIEDAIGLFTKMEELGIAPNVVTYNNIIHGLCRNGRLYEAFHLKEKMVLREVEPSLIT 324
           + + + A  +  K+  L I  N      +    C  G    A  L  K        S   
Sbjct: 97  QQQYKCAAFVGEKV--LDITGNPNDAFWLAQVYCCTGDYARAKCLLTKE--DLYNRSSAC 152

Query: 325 YSILINGLIKLEKFDDANFVLKEMSV---------------RGFVPNYVVYNTLIDGYCK 369
             +    L+KL  +  A  +L E +                 G      +       Y  
Sbjct: 153 RYLAAFCLVKLYDWQGALNLLGETNPFRKDEKNANKLLMQDGGIKLEASMCYLRGQVYTN 212

Query: 370 KGNISEALKIRDDMVSKGMSPNSV-TFNSLIHGFCKSGQMDNAENA---LEEMLSRGLSI 425
             N   A +   + +           F+ L+     +   +                 + 
Sbjct: 213 LSNFDRAKECYKEALMV--DAKCYEAFDQLVSNHLLTADEEWDLVLKLNYSTYSKEDAAF 270

Query: 426 NQGAYTSVIKWLCINSRFNSALHFTKEMLLRNLRPGDGLLTLLVSGLCKNGKQAEATELC 485
            +  Y   +           A  +     +  L     LL      L    +  +     
Sbjct: 271 LRSLYMLKLNKTSHEDELRRAEDYLSS--INGLEKSSDLLLCKADTLFVRSRFIDV---- 324

Query: 486 FRLFEKGFTVNTVTSNAL-IHGMCEAGNLKEAGKL--LMEMLQRGLILDK---VTYNTLI 539
             +  K   ++    +   +H       L E+G+   L  +    +       VT+    
Sbjct: 325 LAITTKILEIDPYNLDVYPLHLAS----LHESGEKNKLYLISNDLVDRHPEKAVTWL--A 378

Query: 540 LGCC--KDGKPEEGFKLKEDMIKRGIQ--PDN-YTYNLLLHGLCSLGKMEEAIELWEECK 594
           +G       K  E  +       +     P     +    H     G+ ++AI  +    
Sbjct: 379 VGIYYLCVNKISEARR----YFSKSSTMDPQFGPAWIGFAHSFAIEGEHDQAISAYTTAA 434

Query: 595 RTVFGPDIYT--YGV-MIDGFCKADKIEEGETLFNEMISKKMELNP---VVYNTLIRAYC 648
           R       +     + M     +   I                L     ++ N L     
Sbjct: 435 R--LFQGTHLPYLFLGMQ--HMQLGNILLANEYLQ----SSYALFQYDPLLLNELGVVAF 486

Query: 649 KIGNTTAA---FR--LSNDMKSRGILPTSV-TYSSLIHGLCNIGLIEDAKCLFDEMRKEG 702
              +   A   F+  L    K++        T+++L H    + + + A    ++     
Sbjct: 487 NKSDMQTAINHFQNALLLVKKTQSNEKPWAATWANLGHAYRKLKMYDAAIDALNQGLL-- 544

Query: 703 LLPNVA-CYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIG 750
           L  N A  +TA+   Y        A + L E  S+ I PN+I  + ++ 
Sbjct: 545 LSTNDANVHTAIALVYLHKKIPGLAITHLHE--SLAISPNEIMASDLLK 591

>3v6t_A DHAX3; tandem repeats, DNA specific binding protein, DNA binding DNA complex; HET: DNA; 1.85A {Xanthomonas} PDB: 3v6p_A 2kq5_A Length = 499

 Score = 52.8 bits (127), Expect = 3e-07
 Identities = 32/253 (12%), Positives = 73/253 (28%), Gaps = 23/253 (9%)

Query: 562 GIQPDNY-TYNLLLHGLCSLGKMEEAIELWEECKRTVFGPD-IYTYGVMIDGFCKADKIE 619
           G+ P           G  +L  ++  + +  +       P+ +        G    + ++
Sbjct: 100 GLTPQQVVAIASHDGGKQALETVQRLLPVLCQAHG--LTPEQVVAIASHDGGKQALETVQ 157

Query: 620 EGETLFNEMISKKMELNP---VVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTS-VTY 675
               +  +       L P   V   +       +        +    ++ G+ P   V  
Sbjct: 158 ALLPVLCQAH----GLTPEQVVAIASNGGGKQALETVQRLLPVLC--QAHGLTPQQVVAI 211

Query: 676 SSLIHGLCNIGLIEDAKCLFDEMRKEGLLPN-VACYTALIGGYCKLGQMDEAESVLQEMA 734
           +S   G   +  ++    +  +     L P  V    +  GG   L  +     VL +  
Sbjct: 212 ASNGGGKQALETVQRLLPVLCQAHG--LTPQQVVAIASNGGGKQALETVQRLLPVLCQ-- 267

Query: 735 SINIHPNKI-TYTIMIGGYCKLGDMKEAAKLLNVMAEKGISPDSI-TYNVFMDGHCKGGN 792
           +  + P ++       GG   L  ++    +L      G++P  +        G      
Sbjct: 268 AHGLTPQQVVAIASNSGGKQALETVQRLLPVLC--QAHGLTPQQVVAIASNGGGKQALET 325

Query: 793 VEEAFKVCDRMLS 805
           V+    V  +   
Sbjct: 326 VQRLLPVLCQAHG 338

>3v6t_A DHAX3; tandem repeats, DNA specific binding protein, DNA binding DNA complex; HET: DNA; 1.85A {Xanthomonas} PDB: 3v6p_A 2kq5_A Length = 499

 Score = 51.7 bits (124), Expect = 7e-07
 Identities = 33/253 (13%), Positives = 73/253 (28%), Gaps = 23/253 (9%)

Query: 562 GIQPDNY-TYNLLLHGLCSLGKMEEAIELWEECKRTVFGPD-IYTYGVMIDGFCKADKIE 619
            + P+          G  +L  ++  + +  +       P  +        G    + ++
Sbjct: 66  NLTPEQVVAIASHDGGKQALETVQRLLPVLCQAHG--LTPQQVVAIASHDGGKQALETVQ 123

Query: 620 EGETLFNEMISKKMELNP---VVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPT-SVTY 675
               +  +       L P   V   +       +    A   L    ++ G+ P   V  
Sbjct: 124 RLLPVLCQAH----GLTPEQVVAIASHDGGKQALETVQAL--LPVLCQAHGLTPEQVVAI 177

Query: 676 SSLIHGLCNIGLIEDAKCLFDEMRKEGLLPN-VACYTALIGGYCKLGQMDEAESVLQEMA 734
           +S   G   +  ++    +  +     L P  V    +  GG   L  +     VL +  
Sbjct: 178 ASNGGGKQALETVQRLLPVLCQAHG--LTPQQVVAIASNGGGKQALETVQRLLPVLCQ-- 233

Query: 735 SINIHPNKI-TYTIMIGGYCKLGDMKEAAKLLNVMAEKGISPDSI-TYNVFMDGHCKGGN 792
           +  + P ++       GG   L  ++    +L      G++P  +        G      
Sbjct: 234 AHGLTPQQVVAIASNGGGKQALETVQRLLPVLC--QAHGLTPQQVVAIASNSGGKQALET 291

Query: 793 VEEAFKVCDRMLS 805
           V+    V  +   
Sbjct: 292 VQRLLPVLCQAHG 304

>3v6t_A DHAX3; tandem repeats, DNA specific binding protein, DNA binding DNA complex; HET: DNA; 1.85A {Xanthomonas} PDB: 3v6p_A 2kq5_A Length = 499

 Score = 51.3 bits (123), Expect = 9e-07
 Identities = 33/253 (13%), Positives = 74/253 (29%), Gaps = 23/253 (9%)

Query: 562 GIQPDN-YTYNLLLHGLCSLGKMEEAIELWEECKRTVFGPD-IYTYGVMIDGFCKADKIE 619
           G+ P           G  +L  ++  + +  +       P  +        G    + ++
Sbjct: 236 GLTPQQVVAIASNGGGKQALETVQRLLPVLCQAHG--LTPQQVVAIASNSGGKQALETVQ 293

Query: 620 EGETLFNEMISKKMELNP---VVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPT-SVTY 675
               +  +       L P   V   +       +        +    ++ G+ P   V  
Sbjct: 294 RLLPVLCQAH----GLTPQQVVAIASNGGGKQALETVQRLLPVLC--QAHGLTPQQVVAI 347

Query: 676 SSLIHGLCNIGLIEDAKCLFDEMRKEGLLPN-VACYTALIGGYCKLGQMDEAESVLQEMA 734
           +S   G   +  ++    +    +  GL P  V    +  GG   L  +     VL +  
Sbjct: 348 ASHDGGKQALETVQRLLPVLC--QAHGLTPEQVVAIASNGGGKQALETVQRLLPVLCQ-- 403

Query: 735 SINIHPNKI-TYTIMIGGYCKLGDMKEAAKLLNVMAEKGISPDSI-TYNVFMDGHCKGGN 792
           +  + P ++       GG   L  ++    +L      G++P  +        G     +
Sbjct: 404 AHGLTPEQVVAIASHDGGKQALETVQRLLPVLC--QAHGLTPQQVVAIASNGGGRPALES 461

Query: 793 VEEAFKVCDRMLS 805
           +       D  L+
Sbjct: 462 IVAQLSRPDPALA 474

>3v6t_A DHAX3; tandem repeats, DNA specific binding protein, DNA binding DNA complex; HET: DNA; 1.85A {Xanthomonas} PDB: 3v6p_A 2kq5_A Length = 499

 Score = 46.3 bits (110), Expect = 3e-05
 Identities = 62/504 (12%), Positives = 125/504 (24%), Gaps = 84/504 (16%)

Query: 259 INAFCKRG--RIEDAIGLFTK---MEELGIAPN-VVTYNNIIHGLCRNGRLYEAFHLKEK 312
           +    KRG     +A+  +        L + P  VV   +   G      +     +  +
Sbjct: 38  LLKIAKRGGVTAVEAVHAWRNALTGAPLNLTPEQVVAIASHDGGKQALETVQRLLPVLCQ 97

Query: 313 MVLREVEPSLI-TYSILINGLIKLEKFDDANFVLKEMSVRGFVPNYVV-YNTLIDGYCKK 370
                + P  +   +    G   LE       VL +    G  P  VV   +   G    
Sbjct: 98  -AH-GLTPQQVVAIASHDGGKQALETVQRLLPVLCQ--AHGLTPEQVVAIASHDGGKQAL 153

Query: 371 GNISEALKIRDDMVSKGMSPN-SVTFNSLIHGFCKSGQMDNAENALEEMLSRGLSINQGA 429
             +   L +     + G++P   V   S   G      +      L +            
Sbjct: 154 ETVQALLPVLCQ--AHGLTPEQVVAIASNGGGKQALETVQRLLPVLCQAHG--------- 202

Query: 430 YTSVIKWLCINSRFNSALHFTKEMLLRNLRPGDGLLTLLVSGLCKNGKQAEATELCFRLF 489
                    +  +   A   +     + L     LL +L        +Q  A      + 
Sbjct: 203 ---------LTPQQVVA-IASNGGGKQALETVQRLLPVLCQAHGLTPQQVVA------IA 246

Query: 490 EKGFTVNTVTSNALIHGMCEAGNLKEAGKLLMEMLQRGLILD---KVTYNTLILGCCKD- 545
             G                    ++      + +L +   L     V          K  
Sbjct: 247 SNG--------GGKQ----ALETVQRL----LPVLCQAHGLTPQQVVAIA--SNSGGKQA 288

Query: 546 -GKPEEGFKLKEDMIKRGIQPDNY-TYNLLLHGLCSLGKMEEAIELWEECKRTVFGPD-I 602
               +    +        + P           G  +L  ++  + +  +       P  +
Sbjct: 289 LETVQRLLPVLCQAHG--LTPQQVVAIASNGGGKQALETVQRLLPVLCQAHG--LTPQQV 344

Query: 603 YTYGVMIDGFCKADKIEEGETLFNEMISKKMELNP---VVYNTLIRAYCKIGNTTAAFRL 659
                   G    + ++    +      +   L P   V   +       +        +
Sbjct: 345 VAIASHDGGKQALETVQRLLPVLC----QAHGLTPEQVVAIASNGGGKQALETVQRLLPV 400

Query: 660 SNDMKSRGILPT-SVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPN-VACYTALIGGY 717
               ++ G+ P   V  +S   G   +  ++    L    +  GL P  V    +  GG 
Sbjct: 401 LC--QAHGLTPEQVVAIASHDGGKQALETVQRL--LPVLCQAHGLTPQQVVAIASNGGGR 456

Query: 718 CKLGQMDEAESVLQEMASINIHPN 741
             L  +    S      ++    N
Sbjct: 457 PALESIVAQLSRPDP--ALAALTN 478

>3v6t_A DHAX3; tandem repeats, DNA specific binding protein, DNA binding DNA complex; HET: DNA; 1.85A {Xanthomonas} PDB: 3v6p_A 2kq5_A Length = 499

 Score = 44.4 bits (105), Expect = 1e-04
 Identities = 24/161 (14%), Positives = 45/161 (27%), Gaps = 13/161 (8%)

Query: 222 NFLLNSLVKANEVQKGIEVFETMCRGVSPD--VFLFSTAINAFCKRGRIEDAIGLFTKME 279
                       VQ+ + V      G++P   V + S           ++  + +  +  
Sbjct: 76  ASHDGGKQALETVQRLLPVLCQ-AHGLTPQQVVAIASHD-GGKQALETVQRLLPVLCQ-- 131

Query: 280 ELGIAPN-VVTYNNIIHGLCRNGRLYEAFHLKEKMVLREVEPSLI-TYSILINGLIKLEK 337
             G+ P  VV   +   G      +     +  +     + P  +   +    G   LE 
Sbjct: 132 AHGLTPEQVVAIASHDGGKQALETVQALLPVLCQAH--GLTPEQVVAIASNGGGKQALET 189

Query: 338 FDDANFVLKEMSVRGFVPNYVV-YNTLIDGYCKKGNISEAL 377
                 VL +    G  P  VV   +   G      +   L
Sbjct: 190 VQRLLPVLCQ--AHGLTPQQVVAIASNGGGKQALETVQRLL 228

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae} Length = 514

 Score = 45.9 bits (109), Expect = 5e-05
 Identities = 84/550 (15%), Positives = 164/550 (29%), Gaps = 91/550 (16%)

Query: 260 NAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIHGLC--RNGRLYEAFHLKEKMVLRE 317
           N F +  + +DAI  +     L +  + V Y+N+    C    G L +   +  K +  E
Sbjct: 14  NQFFRNKKYDDAIKYYNW--ALELKEDPVFYSNL--SACYVSVGDLKKVVEMSTKAL--E 67

Query: 318 VEPSLI-TYSILINGLIKLEKFDDANFVLKEMSVRGFVPNYVVYNTLIDGYCKKG----- 371
           ++P          +    L KF DA F L  +S+ G   +  +   L     K+      
Sbjct: 68  LKPDYSKVLLRRASANEGLGKFADAMFDLSVLSLNGDFNDASIEPMLERNLNKQAMSKLK 127

Query: 372 ----NISEALKIRDDMVS---------KGMSPNSVTFNSLIHGFCKSGQMDNAENALEEM 418
               +I  A     ++ +         +   P+  +  S    F       N + + E  
Sbjct: 128 EKFGDIDTATATPTELSTQPAKERKDKQENLPSVTSMASFFGIFKPELTFANYDESNEAD 187

Query: 419 LSRGLSINQGAYTSVIKWLCINSRFNSALHFTKEMLLRN-----LRPGDGL-LTLLVSGL 472
                 ++     S   +   +  F  A    +E L +N     L+    + L       
Sbjct: 188 KELMNGLSNLYKRSPESYDKADESFTKAARLFEEQLDKNNEDEKLKEKLAISLEHTGIFK 247

Query: 473 CKNGKQAEATELCFRLFEKGFTVNTVTSNALIHGMCEAGNLKEAGKLLMEMLQRGLILD- 531
                   A E   +  E    VN+    ALI    +  +  E          + L LD 
Sbjct: 248 FLKNDPLGAHEDIKKAIELFPRVNSYIYMALIM--ADRNDSTEY----YNYFDKALKLDS 301

Query: 532 ---KVTYNTLILGCCKD--GKPEEGFKLKEDMIKRGIQPDN-YTYNLLLHGLCSLGKMEE 585
               V Y+    G         ++  K  +   +  + P+N + Y  L        K ++
Sbjct: 302 NNSSVYYH---RGQMNFILQNYDQAGKDFDKAKE--LDPENIFPYIQLACLAYRENKFDD 356

Query: 586 AIELWEECKRTVFGPDI----YTYGVMIDGFCKADKIEEGETLFNEMISKKMELNPVVYN 641
              L+ E KR    P+       +  +       +  ++    ++  I    EL      
Sbjct: 357 CETLFSEAKR--KFPEAPEVPNFFAEI---LTDKNDFDKALKQYDLAI----ELEN---- 403

Query: 642 TLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKE 701
            L   Y  I        L     +      +                 D +         
Sbjct: 404 KLDGIYVGIAPLVGKATLLTRNPTVENFIEATNL-------LEKASKLDPRS-------- 448

Query: 702 GLLPNVACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEA 761
                      L     +   +DEA ++ +E  S ++    +   +    + +   +++ 
Sbjct: 449 -----EQAKIGLAQMKLQQEDIDEAITLFEE--SADLART-MEEKLQAITFAEAAKVQQR 500

Query: 762 AKLLNVMAEK 771
            +   V+A+K
Sbjct: 501 IRSDPVLAKK 510

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2 Length = 373

 Score = 45.0 bits (106), Expect = 8e-05
 Identities = 45/290 (15%), Positives = 83/290 (28%), Gaps = 34/290 (11%)

Query: 510 AGNLKEAGKLLMEMLQR----GLILDKVTYNTLILGCCKDGKPEEGFKLKEDMIKRGIQP 565
            GN  EA +L    L+           V  + L       G+      L +   +   Q 
Sbjct: 27  DGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQH 86

Query: 566 DNYTYNLLLHG-----LCSLGKMEEAIELWEEC---KRTVFGPDI----YTYGVMIDGFC 613
           D + Y L         L + G ++ A E  E+            +    +   +      
Sbjct: 87  DVWHYALWSLIQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLW 146

Query: 614 KADKIEEGETLFNEMISKKMELNP----VVYNTLIRAYCKIGNTTAAF----RLSNDMKS 665
              +++E E      I       P         LI+     G+   A     RL N + +
Sbjct: 147 AWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLIQCSLARGDLDNARSQLNRLENLLGN 206

Query: 666 RGILPTSVTYSSLIHGLCNI--GLIEDAKCLFDEMRKEGLLPNVACYTA---LIGGYCKL 720
                  ++ ++ +  +     G    A        K     N         +      L
Sbjct: 207 GKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIARAQILL 266

Query: 721 GQMDEAESVLQEMASINIHPNKITYTIMIGG-----YCKLGDMKEAAKLL 765
           G+ + AE VL+E+         ++            Y + G   +A ++L
Sbjct: 267 GEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVL 316

>1w3b_A UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110; OGT, glcnac, nucleoporin, O-linked glycosylation, TPR repeat, protein binding; 2.85A {Homo sapiens} SCOP: a.118.8.1 Length = 388

 Score = 43.3 bits (103), Expect = 2e-04
 Identities = 69/422 (16%), Positives = 124/422 (29%), Gaps = 95/422 (22%)

Query: 260 NAFCKRGRIEDAIGLFTKMEELGIAPN-VVTYNNIIHGLCRNGRLYEAFHLKEKMVLREV 318
           +   + G  E A     ++      P+       +     +  RL  + H     +  + 
Sbjct: 7   HREYQAGDFEAAERHCMQL--WRQEPDNTGVLLLLSSIHFQCRRLDRSAHFSTLAI--KQ 62

Query: 319 EPSL-ITYSILINGLIKLEKFDDA-NFVLKEMSVRGFVPNYV-VYNTLIDGYCKKGNISE 375
            P L   YS L N   +  +  +A       + ++   P+++  Y  L       G++  
Sbjct: 63  NPLLAEAYSNLGNVYKERGQLQEAIEHYRHALRLK---PDFIDGYINLAAALVAAGDMEG 119

Query: 376 A-------LKIRDDMVSKGMSPNSVTFNSLIHGFCKSGQMDNAENALEEMLSRGLSINQG 428
           A       L+   D             + L +     G+++ A+    + +         
Sbjct: 120 AVQAYVSALQYNPD--------LYCVRSDLGNLLKALGRLEEAKACYLKAIE-------- 163

Query: 429 AYTSVIKWLCINSRFNSALHFTKEMLLRNLRPGDGLLTLLVSGLCKNGKQAEATELCFRL 488
                         F  A          NL    G +          G+   A       
Sbjct: 164 ----------TQPNFAVAWS--------NL----GCV------FNAQGEIWLAIH----H 191

Query: 489 FEKGFTVNTVTSNALIH-GMC--EAGNLKEAGKLLMEMLQRGLILD----KVTYNTLILG 541
           FEK  T++    +A I+ G    EA     A    +    R L L      V  N   L 
Sbjct: 192 FEKAVTLDPNFLDAYINLGNVLKEARIFDRA----VAAYLRALSLSPNHAVVHGN---LA 244

Query: 542 CCKD--GKPEEGFKLKEDMIKRGIQPDNY-TYNLLLHGLCSLGKMEEAIELWEECKRTVF 598
           C     G  +         I+  +QP     Y  L + L   G + EA + +    R   
Sbjct: 245 CVYYEQGLIDLAIDTYRRAIE--LQPHFPDAYCNLANALKEKGSVAEAEDCYNTALR--L 300

Query: 599 GPDIY-TYGVMIDGFCKADKIEEGETLFNEMISKKMELNP---VVYNTLIRAYCKIGNTT 654
            P    +   + +   +   IEE   L+ + +    E+ P     ++ L     + G   
Sbjct: 301 CPTHADSLNNLANIKREQGNIEEAVRLYRKAL----EVFPEFAAAHSNLASVLQQQGKLQ 356

Query: 655 AA 656
            A
Sbjct: 357 EA 358

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	833
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	100.0
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	100.0
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	99.97
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	99.97
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.97
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.97
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.93
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.93
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.91
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.91
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.91
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.9
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.86
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.85
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.85
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.85
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.84
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.83
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.82
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.82
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.82
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.82
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.79
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.78
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.78
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.77
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.77
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.77
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.76
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.75
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.74
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.73
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.73
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.72
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.71
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.7
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.64
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.63
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.62
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.6
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.59
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.59
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.57
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.56
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.55
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.54
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.54
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.54
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.54
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.54
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.53
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.52
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.52
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.52
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.52
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.51
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.51
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.49
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.46
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.43
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.43
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.43
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.41
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.41
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.4
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.39
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.38
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.37
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.36
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.36
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.35
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.35
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.29
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.27
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.26
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.25
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.24
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.23
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.23
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.22
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.2
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.19
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.18
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.13
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.09
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.09
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.08
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	99.02
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	99.0
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.0
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	98.98
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	98.98
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	98.98
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	98.95
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	98.94
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	98.92
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	98.92
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	98.91
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	98.9
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	98.89
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	98.87
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	98.87
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	98.85
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	98.84
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	98.83
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	98.81
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	98.8
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	98.8
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	98.8
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	98.77
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	98.76
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	98.75
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	98.71
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	98.7
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	98.69
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	98.67
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.64
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.63
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.61
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.61
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.6
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.58
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.57
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.57
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.57
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.57
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.55
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.53
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.52
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.51
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.5
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.47
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.47
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.46
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.46
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.46
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.45
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.45
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.44
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.41
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.41
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.4
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.4
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.4
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.4
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.4
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.39
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.37
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.35
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.33
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.33
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.27
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.26
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.25
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.24
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.24
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.21
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.21
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.21
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.16
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.16
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.15
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.15
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.15
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.12
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.12
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.12
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.1
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.1
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.09
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.08
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.07
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.04
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	97.98
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	97.95
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	97.95
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	97.93
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	97.93
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	97.91
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	97.9
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	97.9
1klx_A	138	Cysteine rich protein B; structural genomics, heli	97.87
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	97.86
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	97.84
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	97.83
3k9i_A	117	BH0479 protein; putative protein binding protein,	97.83
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	97.81
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	97.8
3k9i_A	117	BH0479 protein; putative protein binding protein,	97.79
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	97.78
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	97.78
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	97.74
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	97.73
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	97.68
1klx_A	138	Cysteine rich protein B; structural genomics, heli	97.63
2l6j_A	111	TPR repeat-containing protein associated with HSP;	97.61
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	97.55
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	97.53
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	97.52
2kat_A	115	Uncharacterized protein; NESG, structure, structur	97.48
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	97.48
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	97.44
2l6j_A	111	TPR repeat-containing protein associated with HSP;	97.44
2kat_A	115	Uncharacterized protein; NESG, structure, structur	97.34
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	97.33
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	97.3
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	97.08
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	97.05
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	96.89
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	96.78
1pc2_A	152	Mitochondria fission protein; unknown function; NM	96.59
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	96.46
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	96.4
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	96.36
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	96.27
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	96.24
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	96.22
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	96.21
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	96.16
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	96.13
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	96.13
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	96.05
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	96.03
1pc2_A	152	Mitochondria fission protein; unknown function; NM	95.84
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	95.63
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	95.3
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	95.18
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	95.18
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	95.03
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	94.47
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	94.34
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	94.19
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	94.16
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	94.09
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	94.05
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	94.04
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	92.84
2wpv_A	312	GET4, UPF0363 protein YOR164C; golgi-ER traffickin	92.38
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	90.94
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	90.33
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	89.94
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	89.39
2wpv_A	312	GET4, UPF0363 protein YOR164C; golgi-ER traffickin	89.3
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	88.8
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	88.47
3lpz_A	336	GET4 (YOR164C homolog); protein targeting, tail-an	87.91
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	87.88
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	87.34
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	85.95
3lpz_A	336	GET4 (YOR164C homolog); protein targeting, tail-an	85.5
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	84.83
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	84.5
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	84.46
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	83.13
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	82.47
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	82.21
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	81.44
3txn_A	394	26S proteasome regulatory complex subunit P42B; PC	80.45

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=100.00  E-value=6.6e-41  Score=386.01  Aligned_cols=525  Identities=12%  Similarity=-0.023  Sum_probs=344.2

Q ss_pred             HHhcCChhHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHH
Q 003295          228 LVKANEVQKGIEVFETMCRGVSPDVFLFSTAINAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIHGLCRNGRLYEAF  307 (833)
Q Consensus       228 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~  307 (833)
                      ..+.|.+..+...+..+   ..++...|+.++..|.+.|++++|..+|++|.+.  .||..+++.++.+|.+.|++++|.
T Consensus        63 ~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A~  137 (597)
T 2xpi_A           63 TSTDGSFLKERNAQNTD---SLSREDYLRLWRHDALMQQQYKCAAFVGEKVLDI--TGNPNDAFWLAQVYCCTGDYARAK  137 (597)
T ss_dssp             ----------------------CHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--HCCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             ccccCccCCCCCccccc---hHHHHHHHHHHHHHHHHccCchHHHHHHHHHHhh--CCCchHHHHHHHHHHHcCcHHHHH
Confidence            44566666666666554   2367888999999999999999999999999864  578888889999999999999999


Q ss_pred             HHHHHHHhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHHcCChHHHHHHHHHHHhCC
Q 003295          308 HLKEKMVLREVEPSLITYSILINGLIKLEKFDDANFVLKEMSVRGFVPNYVVYNTLIDGYCKKGNISEALKIRDDMVSKG  387 (833)
Q Consensus       308 ~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~A~~~~~~m~~~g  387 (833)
                      .+|+++...  +++..+++.++.+|.+.|++++|..+|+++...     ..    ...++.+.++           ...|
T Consensus       138 ~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-----~~----~~~~~~~~~~-----------~~~~  195 (597)
T 2xpi_A          138 CLLTKEDLY--NRSSACRYLAAFCLVKLYDWQGALNLLGETNPF-----RK----DEKNANKLLM-----------QDGG  195 (597)
T ss_dssp             HHHHHTCGG--GTCHHHHHHHHHHHHHTTCHHHHHHHHCSSCTT-----C--------------C-----------CCSS
T ss_pred             HHHHHHhcc--ccchhHHHHHHHHHHHHhhHHHHHHHHhccCCc-----cc----cccccccccc-----------cccc
Confidence            999988643  678888999999999999999999988853221     10    0001111111           1123


Q ss_pred             CCCChhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHH
Q 003295          388 MSPNSVTFNSLIHGFCKSGQMDNAENALEEMLSRGLSINQGAYTSVIKWLCINSRFNSALHFTKEMLLRNLRPGDGLLTL  467 (833)
Q Consensus       388 ~~p~~~~~~~li~~~~~~g~~~~A~~~l~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~  467 (833)
                      ..++..+|+.++.+|.+.|++++|.++|++|.+.+.. +...+..++..+...+..+.+.                    
T Consensus       196 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~-~~~~~~~l~~~~~~~~~~~~~~--------------------  254 (597)
T 2xpi_A          196 IKLEASMCYLRGQVYTNLSNFDRAKECYKEALMVDAK-CYEAFDQLVSNHLLTADEEWDL--------------------  254 (597)
T ss_dssp             CCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHTTCSCHHHHHHH--------------------
T ss_pred             cchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCch-hhHHHHHHHHhhcccchhHHHH--------------------
Confidence            3445566666666666666666666666666654311 2222222222221111111000                    


Q ss_pred             HHHHHHhcCCHHHHHHH-HHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcC
Q 003295          468 LVSGLCKNGKQAEATEL-CFRLFEKGFTVNTVTSNALIHGMCEAGNLKEAGKLLMEMLQRGLILDKVTYNTLILGCCKDG  546 (833)
Q Consensus       468 li~~~~~~g~~~~A~~~-~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~l~~m~~~g~~~~~~~~~~li~~~~~~g  546 (833)
                                   +..+ +..+...+......+|+.++..|.+.|++++|.++|+++.+.  .++..+|+.++.+|.+.|
T Consensus       255 -------------~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~l~~~~~~~g  319 (597)
T 2xpi_A          255 -------------VLKLNYSTYSKEDAAFLRSLYMLKLNKTSHEDELRRAEDYLSSINGL--EKSSDLLLCKADTLFVRS  319 (597)
T ss_dssp             -------------HHHSCTHHHHGGGHHHHHHHHHTTSCTTTTHHHHHHHHHHHHTSTTG--GGCHHHHHHHHHHHHHTT
T ss_pred             -------------HHhcCCcccccchHHHHHHHHHHHHHHHcCcchHHHHHHHHHHhhcC--CchHHHHHHHHHHHHHhc
Confidence                         0000 122222223334455666666777777777777777777655  357777777777777777


Q ss_pred             ChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHccCCHHHHHHHHH
Q 003295          547 KPEEGFKLKEDMIKRGIQPDNYTYNLLLHGLCSLGKMEEAIELWEECKRTVFGPDIYTYGVMIDGFCKADKIEEGETLFN  626 (833)
Q Consensus       547 ~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~  626 (833)
                      ++++|.++|+++.+.+.. +..+++.++.++.+.|++++|.++++++.+.. +.+..+++.++.+|.+.|++++|.++|+
T Consensus       320 ~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~  397 (597)
T 2xpi_A          320 RFIDVLAITTKILEIDPY-NLDVYPLHLASLHESGEKNKLYLISNDLVDRH-PEKAVTWLAVGIYYLCVNKISEARRYFS  397 (597)
T ss_dssp             CHHHHHHHHHHHHHHCTT-CCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCcc-cHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHhccHHHHHHHHH
Confidence            777777777777766533 56667777777777777777777777776542 4456777777777777777777777777


Q ss_pred             HHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC
Q 003295          627 EMISKKMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPN  706 (833)
Q Consensus       627 ~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~  706 (833)
                      ++.+..+. +..+|+.++.+|.+.|++++|+++|+++.+.+ +.+..+|..++.+|.+.|++++|.++|+++.+.. +.+
T Consensus       398 ~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~  474 (597)
T 2xpi_A          398 KSSTMDPQ-FGPAWIGFAHSFAIEGEHDQAISAYTTAARLF-QGTHLPYLFLGMQHMQLGNILLANEYLQSSYALF-QYD  474 (597)
T ss_dssp             HHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT-TTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-CCC
T ss_pred             HHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCC
Confidence            77765433 66777777888888888888888887777664 3466777778888888888888888888877653 346


Q ss_pred             hhHHHHHHHHHHhcCChhHHHHHHHHHHhC----CCCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHH
Q 003295          707 VACYTALIGGYCKLGQMDEAESVLQEMASI----NIHPN--KITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISPDSITY  780 (833)
Q Consensus       707 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----g~~p~--~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~  780 (833)
                      ..+|+.++..|.+.|++++|.++|+++.+.    +..|+  ..+|..++.+|.+.|++++|.+.++++.+.+ +.+..+|
T Consensus       475 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~  553 (597)
T 2xpi_A          475 PLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEKPWAATWANLGHAYRKLKMYDAAIDALNQGLLLS-TNDANVH  553 (597)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-SCCHHHH
T ss_pred             hHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccchhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCChHHH
Confidence            777888888888888888888888877764    55666  6778888888888888888888888887753 3367778


Q ss_pred             HHHHHHHhcCCCHHHHHHHHHHHHHCCCCCC-HHHHHHHHHhhc
Q 003295          781 NVFMDGHCKGGNVEEAFKVCDRMLSEGLSLD-EITYTTLIDGWQ  823 (833)
Q Consensus       781 ~~l~~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~~~~~l~~~~~  823 (833)
                      ..++.+|.+.|++++|.++++++++  +.|+ ...|..+-..|.
T Consensus       554 ~~l~~~~~~~g~~~~A~~~~~~~l~--~~p~~~~~~~~l~~~~~  595 (597)
T 2xpi_A          554 TAIALVYLHKKIPGLAITHLHESLA--ISPNEIMASDLLKRALE  595 (597)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHTTC
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHHh--cCCCChHHHHHHHHHHh
Confidence            8888888888888888888888877  4555 556665555543

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=100.00  E-value=2.2e-40  Score=381.66  Aligned_cols=521  Identities=11%  Similarity=-0.007  Sum_probs=392.7

Q ss_pred             hccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHH
Q 003295          195 KNLGFGYAIDVFSIFSSKGIFPSLKTCNFLLNSLVKANEVQKGIEVFETMCRGVSPDVFLFSTAINAFCKRGRIEDAIGL  274 (833)
Q Consensus       195 ~~~~~~~A~~~f~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~  274 (833)
                      +.|.+..+...|..+    ..+++..|+.++..+.+.|++++|..+|++|.. ..|+..++..++.+|.+.|++++|..+
T Consensus        65 ~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~-~~p~~~~~~~l~~~~~~~g~~~~A~~~  139 (597)
T 2xpi_A           65 TDGSFLKERNAQNTD----SLSREDYLRLWRHDALMQQQYKCAAFVGEKVLD-ITGNPNDAFWLAQVYCCTGDYARAKCL  139 (597)
T ss_dssp             ---------------------CHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH-HHCCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             ccCccCCCCCccccc----hHHHHHHHHHHHHHHHHccCchHHHHHHHHHHh-hCCCchHHHHHHHHHHHcCcHHHHHHH
Confidence            345555566665543    335889999999999999999999999999983 346889999999999999999999999


Q ss_pred             HHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCC
Q 003295          275 FTKMEELGIAPNVVTYNNIIHGLCRNGRLYEAFHLKEKMVLREVEPSLITYSILINGLIKLEKFDDANFVLKEMSVRGFV  354 (833)
Q Consensus       275 ~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~g~~  354 (833)
                      |+++...  .++..+++.++.+|++.|++++|.++|+++.     |+..    ...++.+.++           ...|..
T Consensus       140 ~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-----~~~~----~~~~~~~~~~-----------~~~~~~  197 (597)
T 2xpi_A          140 LTKEDLY--NRSSACRYLAAFCLVKLYDWQGALNLLGETN-----PFRK----DEKNANKLLM-----------QDGGIK  197 (597)
T ss_dssp             HHHTCGG--GTCHHHHHHHHHHHHHTTCHHHHHHHHCSSC-----TTC--------------C-----------CCSSCC
T ss_pred             HHHHhcc--ccchhHHHHHHHHHHHHhhHHHHHHHHhccC-----Cccc----cccccccccc-----------cccccc
Confidence            9998653  5789999999999999999999999998532     2210    0111111111           123445


Q ss_pred             CChhhHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChhHHHH--H-HHHHHHCCCCCCcccHH
Q 003295          355 PNYVVYNTLIDGYCKKGNISEALKIRDDMVSKGMSPNSVTFNSLIHGFCKSGQMDNAEN--A-LEEMLSRGLSINQGAYT  431 (833)
Q Consensus       355 p~~~~y~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~--~-l~~~~~~g~~~~~~~~~  431 (833)
                      ++..+|+.++.+|.+.|++++|.++|++|.+.++. +...+..+...+...+..+.+..  + +..+...+         
T Consensus       198 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~-~~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~---------  267 (597)
T 2xpi_A          198 LEASMCYLRGQVYTNLSNFDRAKECYKEALMVDAK-CYEAFDQLVSNHLLTADEEWDLVLKLNYSTYSKED---------  267 (597)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHTTCSCHHHHHHHHHHSCTHHHHGGG---------
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCch-hhHHHHHHHHhhcccchhHHHHHHhcCCcccccch---------
Confidence            56788888888888888888888888888875432 44455555544433322221111  0 22222111         


Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC
Q 003295          432 SVIKWLCINSRFNSALHFTKEMLLRNLRPGDGLLTLLVSGLCKNGKQAEATELCFRLFEKGFTVNTVTSNALIHGMCEAG  511 (833)
Q Consensus       432 ~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g  511 (833)
                                                ..+...++..++..|.+.|++++|.++++++.+.  +++..+|+.++.+|.+.|
T Consensus       268 --------------------------~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~l~~~~~~~g  319 (597)
T 2xpi_A          268 --------------------------AAFLRSLYMLKLNKTSHEDELRRAEDYLSSINGL--EKSSDLLLCKADTLFVRS  319 (597)
T ss_dssp             --------------------------HHHHHHHHHTTSCTTTTHHHHHHHHHHHHTSTTG--GGCHHHHHHHHHHHHHTT
T ss_pred             --------------------------HHHHHHHHHHHHHHHcCcchHHHHHHHHHHhhcC--CchHHHHHHHHHHHHHhc
Confidence                                      1112223444555666677777777777776654  468888888888888888


Q ss_pred             CHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 003295          512 NLKEAGKLLMEMLQRGLILDKVTYNTLILGCCKDGKPEEGFKLKEDMIKRGIQPDNYTYNLLLHGLCSLGKMEEAIELWE  591 (833)
Q Consensus       512 ~~~~A~~~l~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~  591 (833)
                      ++++|..+|+++.+.++. +..+++.++.++.+.|+.++|..+++++.+.. +.+..+++.++..|.+.|++++|.++|+
T Consensus       320 ~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~  397 (597)
T 2xpi_A          320 RFIDVLAITTKILEIDPY-NLDVYPLHLASLHESGEKNKLYLISNDLVDRH-PEKAVTWLAVGIYYLCVNKISEARRYFS  397 (597)
T ss_dssp             CHHHHHHHHHHHHHHCTT-CCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCcc-cHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHhccHHHHHHHHH
Confidence            888888888888877655 77788888888888999999999998888664 3478888888889999999999999999


Q ss_pred             HHhhCCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCC
Q 003295          592 ECKRTVFGPDIYTYGVMIDGFCKADKIEEGETLFNEMISKKMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPT  671 (833)
Q Consensus       592 ~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~  671 (833)
                      ++.+.. +.+..+|+.++.+|.+.|++++|+++|+++.+.++. +..+|+.++.+|.+.|++++|.+.|+++.+.. +.+
T Consensus       398 ~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~  474 (597)
T 2xpi_A          398 KSSTMD-PQFGPAWIGFAHSFAIEGEHDQAISAYTTAARLFQG-THLPYLFLGMQHMQLGNILLANEYLQSSYALF-QYD  474 (597)
T ss_dssp             HHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTTT-CSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-CCC
T ss_pred             HHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcc-chHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCC
Confidence            887753 345778899999999999999999999999887654 78889999999999999999999999998764 447


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHC----CCCCC--hhHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHH
Q 003295          672 SVTYSSLIHGLCNIGLIEDAKCLFDEMRKE----GLLPN--VACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITY  745 (833)
Q Consensus       672 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----g~~p~--~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~  745 (833)
                      ..+|+.++..|.+.|++++|.++|+++.+.    +..|+  ..+|..++.+|.+.|++++|.+.++++.+.+ +.+..+|
T Consensus       475 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~  553 (597)
T 2xpi_A          475 PLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEKPWAATWANLGHAYRKLKMYDAAIDALNQGLLLS-TNDANVH  553 (597)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-SCCHHHH
T ss_pred             hHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccchhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCChHHH
Confidence            888999999999999999999999999875    66777  6899999999999999999999999998865 5688999


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHh
Q 003295          746 TIMIGGYCKLGDMKEAAKLLNVMAEKGISP-DSITYNVFMDGHC  788 (833)
Q Consensus       746 ~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~~~~~l~~~~~  788 (833)
                      ..++.+|.+.|++++|.+.++++.+.  .| +...+..+...|.
T Consensus       554 ~~l~~~~~~~g~~~~A~~~~~~~l~~--~p~~~~~~~~l~~~~~  595 (597)
T 2xpi_A          554 TAIALVYLHKKIPGLAITHLHESLAI--SPNEIMASDLLKRALE  595 (597)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHTTC
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHHhc--CCCChHHHHHHHHHHh
Confidence            99999999999999999999999985  45 5677777777654

>4g26_A Pentatricopeptide repeat-containing protein AT2G3 mitochondrial; metallonuclease, prorp, ribonuclease, PIN, tRNA processing, NYN domain; 1.75A {Arabidopsis thaliana} PDB: 4g23_A* 4g25_A 4g24_A

Probab=99.97  E-value=2.4e-30  Score=284.64  Aligned_cols=185  Identities=17%  Similarity=0.323  Sum_probs=97.3

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCC---------hhHHHHHHHHHHhCCCCCChhhH
Q 003295          255 FSTAINAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIHGLCRNGR---------LYEAFHLKEKMVLREVEPSLITY  325 (833)
Q Consensus       255 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~---------~~~A~~~~~~m~~~~~~p~~~t~  325 (833)
                      ++.+|.+||+.|++++|+++|++|.+.|+.||.++||+||.+|++.+.         +++|.++|++|...|+.||.+||
T Consensus        29 l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~l~~A~~lf~~M~~~G~~Pd~~ty  108 (501)
T 4g26_A           29 LKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDIFKQMIVDKVVPNEATF  108 (501)
T ss_dssp             HHHHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSSSCCHHHHHHHHHHHHHHHTTCCCCHHHH
T ss_pred             HHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhhhhcchHHHHHHHHHHHHHhCCCCCHHHH
Confidence            444455555555555555555555555555555555555555444332         34455555555555555555555


Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCChhHHHHHHHHHHhc
Q 003295          326 SILINGLIKLEKFDDANFVLKEMSVRGFVPNYVVYNTLIDGYCKKGNISEALKIRDDMVSKGMSPNSVTFNSLIHGFCKS  405 (833)
Q Consensus       326 ~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~  405 (833)
                      ++||.+|++.|++++|.++|++|.+.|+.||..+|++||.+|++.|++++|.++|++|.+.|+.||..||++||.+|++.
T Consensus       109 n~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~G~~Pd~~ty~~Li~~~~~~  188 (501)
T 4g26_A          109 TNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHMVESEVVPEEPELAALLKVSMDT  188 (501)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhhC
Confidence            55555555555555555555555555555555555555555555555555555555555555555555555555555555


Q ss_pred             CChhHHHHHHHHHHHCCCCCCcccHHHHHHHHHh
Q 003295          406 GQMDNAENALEEMLSRGLSINQGAYTSVIKWLCI  439 (833)
Q Consensus       406 g~~~~A~~~l~~~~~~g~~~~~~~~~~li~~~~~  439 (833)
                      |++++|.++|++|.+.|..|+..||+.++.+++.
T Consensus       189 g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F~s  222 (501)
T 4g26_A          189 KNADKVYKTLQRLRDLVRQVSKSTFDMIEEWFKS  222 (501)
T ss_dssp             TCHHHHHHHHHHHHHHTSSBCHHHHHHHHHHHHS
T ss_pred             CCHHHHHHHHHHHHHhCCCcCHHHHHHHHHHHhc
Confidence            5555555555555555555555555555555443

>4g26_A Pentatricopeptide repeat-containing protein AT2G3 mitochondrial; metallonuclease, prorp, ribonuclease, PIN, tRNA processing, NYN domain; 1.75A {Arabidopsis thaliana} PDB: 4g23_A* 4g25_A 4g24_A

Probab=99.97  E-value=3e-30  Score=283.98  Aligned_cols=204  Identities=16%  Similarity=0.163  Sum_probs=182.2

Q ss_pred             HHHHHHHHHhCCCCCCH-HHHHHHHHHHHhcCChhHHHHHHHHhh-cCCCCCHHHHHHHHHHHHhcCC---------hhH
Q 003295          202 AIDVFSIFSSKGIFPSL-KTCNFLLNSLVKANEVQKGIEVFETMC-RGVSPDVFLFSTAINAFCKRGR---------IED  270 (833)
Q Consensus       202 A~~~f~~~~~~~~~p~~-~~~~~ll~~~~~~g~~~~A~~~~~~~~-~~~~~~~~~~~~li~~~~~~g~---------~~~  270 (833)
                      +..+++.+.+.+..+++ ..++.+|++|+|.|++++|.++|++|. .|++||.+|||++|.+|++.+.         +++
T Consensus         9 ~e~L~~~~~~k~~~~spe~~l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~l~~   88 (501)
T 4g26_A            9 SENLSRKAKKKAIQQSPEALLKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSR   88 (501)
T ss_dssp             ---------------CHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSSSCCHHHHH
T ss_pred             HHHHHHHHHHhcccCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhhhhcchHHH
Confidence            33445566666665544 468899999999999999999999999 8999999999999999998765         688


Q ss_pred             HHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHH
Q 003295          271 AIGLFTKMEELGIAPNVVTYNNIIHGLCRNGRLYEAFHLKEKMVLREVEPSLITYSILINGLIKLEKFDDANFVLKEMSV  350 (833)
Q Consensus       271 A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~  350 (833)
                      |.++|++|.+.|+.||.+|||+||++|++.|++++|.++|++|.+.|+.||..||++||.+|++.|++++|.++|++|.+
T Consensus        89 A~~lf~~M~~~G~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~  168 (501)
T 4g26_A           89 GFDIFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHMVE  168 (501)
T ss_dssp             HHHHHHHHHHTTCCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCCCHHHHHHHHHHHHh
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCCChhhHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCChhHHHHHHHHHHhc
Q 003295          351 RGFVPNYVVYNTLIDGYCKKGNISEALKIRDDMVSKGMSPNSVTFNSLIHGFCKS  405 (833)
Q Consensus       351 ~g~~p~~~~y~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~  405 (833)
                      .|+.||..||++||.+|++.|++++|.+++++|.+.|..|+..||+.++..|+..
T Consensus       169 ~G~~Pd~~ty~~Li~~~~~~g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F~s~  223 (501)
T 4g26_A          169 SEVVPEEPELAALLKVSMDTKNADKVYKTLQRLRDLVRQVSKSTFDMIEEWFKSE  223 (501)
T ss_dssp             TTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSSBCHHHHHHHHHHHHSH
T ss_pred             cCCCCCHHHHHHHHHHHhhCCCHHHHHHHHHHHHHhCCCcCHHHHHHHHHHHhcC
Confidence            9999999999999999999999999999999999999999999999999999864

>1w3b_A UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110; OGT, glcnac, nucleoporin, O-linked glycosylation, TPR repeat, protein binding; 2.85A {Homo sapiens} SCOP: a.118.8.1

Probab=99.97  E-value=2.2e-26  Score=249.15  Aligned_cols=286  Identities=14%  Similarity=0.046  Sum_probs=158.5

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 003295          497 TVTSNALIHGMCEAGNLKEAGKLLMEMLQRGLILDKVTYNTLILGCCKDGKPEEGFKLKEDMIKRGIQPDNYTYNLLLHG  576 (833)
Q Consensus       497 ~~~~~~li~~~~~~g~~~~A~~~l~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~  576 (833)
                      ..+|..++.++.+.|++++|...|+++.+.++. +...+..+...+...|++++|.+.|+++++..+. +..++..+...
T Consensus       101 ~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~  178 (388)
T 1w3b_A          101 IDGYINLAAALVAAGDMEGAVQAYVSALQYNPD-LYCVRSDLGNLLKALGRLEEAKACYLKAIETQPN-FAVAWSNLGCV  178 (388)
T ss_dssp             HHHHHHHHHHHHHHSCSSHHHHHHHHHHHHCTT-CTHHHHHHHHHHHTTSCHHHHHHHHHHHHHHCTT-CHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC-CHHHHHHHHHH
Confidence            334445555555555555555555555544332 3334444444555555555555555555544222 34455555555


Q ss_pred             HHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHH
Q 003295          577 LCSLGKMEEAIELWEECKRTVFGPDIYTYGVMIDGFCKADKIEEGETLFNEMISKKMELNPVVYNTLIRAYCKIGNTTAA  656 (833)
Q Consensus       577 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A  656 (833)
                      +.+.|++++|...|+++.+.. +.+...+..+...+...|++++|...+++..+..+. +..++..+...+.+.|++++|
T Consensus       179 ~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A  256 (388)
T 1w3b_A          179 FNAQGEIWLAIHHFEKAVTLD-PNFLDAYINLGNVLKEARIFDRAVAAYLRALSLSPN-HAVVHGNLACVYYEQGLIDLA  256 (388)
T ss_dssp             HHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcC-CHHHHHHHHHHHHHcCCHHHH
Confidence            555555555555555555432 223444555555555566666666666555554332 455566666666666666666


Q ss_pred             HHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHhC
Q 003295          657 FRLSNDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESVLQEMASI  736 (833)
Q Consensus       657 ~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  736 (833)
                      .+.++++.+.. +.+..+|..+...+.+.|++++|...|+++.+.. +.+..+++.+...+.+.|++++|.+.++++.+.
T Consensus       257 ~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~  334 (388)
T 1w3b_A          257 IDTYRRAIELQ-PHFPDAYCNLANALKEKGSVAEAEDCYNTALRLC-PTHADSLNNLANIKREQGNIEEAVRLYRKALEV  334 (388)
T ss_dssp             HHHHHHHHHTC-SSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTS
T ss_pred             HHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            66666665543 2244556666666666666666666666666542 345556666666666666666666666666654


Q ss_pred             CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhcCC
Q 003295          737 NIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISP-DSITYNVFMDGHCKGG  791 (833)
Q Consensus       737 g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~~~~~l~~~~~~~g  791 (833)
                      . +.+..++..++.+|.+.|++++|.+.++++++  +.| +...|..++..+...|
T Consensus       335 ~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~--~~p~~~~a~~~lg~~~~~~~  387 (388)
T 1w3b_A          335 F-PEFAAAHSNLASVLQQQGKLQEALMHYKEAIR--ISPTFADAYSNMGNTLKEMQ  387 (388)
T ss_dssp             C-TTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHT--TCTTCHHHHHHHHHHHHHTC
T ss_pred             C-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHh--hCCCCHHHHHhHHHHHHHcc
Confidence            2 34455666666666666666666666666665  234 3455666655555444

>1w3b_A UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110; OGT, glcnac, nucleoporin, O-linked glycosylation, TPR repeat, protein binding; 2.85A {Homo sapiens} SCOP: a.118.8.1

Probab=99.97  E-value=2.4e-26  Score=248.84  Aligned_cols=376  Identities=14%  Similarity=0.067  Sum_probs=173.0

Q ss_pred             HHhcCChhHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHH
Q 003295          228 LVKANEVQKGIEVFETMCRGVSPDVFLFSTAINAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIHGLCRNGRLYEAF  307 (833)
Q Consensus       228 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~  307 (833)
                      +.+.|++++|...|+++.+..|.+...+..+...+.+.|++++|...++...+.. ..+..+|..++..|.+.|++++|.
T Consensus         9 ~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~~~a~~~~~~a~~~~-p~~~~~~~~lg~~~~~~g~~~~A~   87 (388)
T 1w3b_A            9 EYQAGDFEAAERHCMQLWRQEPDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN-PLLAEAYSNLGNVYKERGQLQEAI   87 (388)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHCCCHHHHH
Confidence            3344444444444444443233334444444444444444444444444444432 123344444444444444444444


Q ss_pred             HHHHHHHhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCC-hhhHHHHHHHHHHcCChHHHHHHHHHHHhC
Q 003295          308 HLKEKMVLREVEPSLITYSILINGLIKLEKFDDANFVLKEMSVRGFVPN-YVVYNTLIDGYCKKGNISEALKIRDDMVSK  386 (833)
Q Consensus       308 ~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~~y~~li~~~~~~g~~~~A~~~~~~m~~~  386 (833)
                      +.|+++.+.. +.+..+|..+...+.+.|++++|...|+++.+.  .|+ ...+..+...+...|++++|.+.|+++.+.
T Consensus        88 ~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~  164 (388)
T 1w3b_A           88 EHYRHALRLK-PDFIDGYINLAAALVAAGDMEGAVQAYVSALQY--NPDLYCVRSDLGNLLKALGRLEEAKACYLKAIET  164 (388)
T ss_dssp             HHHHHHHHHC-TTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHH--CTTCTHHHHHHHHHHHTTSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcC-cchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHh
Confidence            4444444321 112233444444444444455554444444443  222 223334444444445555555555554443


Q ss_pred             CCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHH
Q 003295          387 GMSPNSVTFNSLIHGFCKSGQMDNAENALEEMLSRGLSINQGAYTSVIKWLCINSRFNSALHFTKEMLLRNLRPGDGLLT  466 (833)
Q Consensus       387 g~~p~~~~~~~li~~~~~~g~~~~A~~~l~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~  466 (833)
                      .+. +..+|..+...+.+.|++++|.+.|+++.+.+. .+...|..+..                               
T Consensus       165 ~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~lg~-------------------------------  211 (388)
T 1w3b_A          165 QPN-FAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDP-NFLDAYINLGN-------------------------------  211 (388)
T ss_dssp             CTT-CHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHH-------------------------------
T ss_pred             CCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC-CcHHHHHHHHH-------------------------------
Confidence            211 334444555555555555555555555444321 11112222222                               


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcC
Q 003295          467 LLVSGLCKNGKQAEATELCFRLFEKGFTVNTVTSNALIHGMCEAGNLKEAGKLLMEMLQRGLILDKVTYNTLILGCCKDG  546 (833)
Q Consensus       467 ~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~l~~m~~~g~~~~~~~~~~li~~~~~~g  546 (833)
                          .+...|++++|...+++..+.. +.+..++..++..+.+.|++++|...|+++.+.++. +..+|..+...+.+.|
T Consensus       212 ----~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g  285 (388)
T 1w3b_A          212 ----VLKEARIFDRAVAAYLRALSLS-PNHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQPH-FPDAYCNLANALKEKG  285 (388)
T ss_dssp             ----HHHTTTCTTHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCSS-CHHHHHHHHHHHHHHS
T ss_pred             ----HHHHcCCHHHHHHHHHHHHhhC-cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC-CHHHHHHHHHHHHHcC
Confidence                2222222222222222222221 113445555555555555555555555555554433 4455555555555555


Q ss_pred             ChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHccCCHHHHHHHHH
Q 003295          547 KPEEGFKLKEDMIKRGIQPDNYTYNLLLHGLCSLGKMEEAIELWEECKRTVFGPDIYTYGVMIDGFCKADKIEEGETLFN  626 (833)
Q Consensus       547 ~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~  626 (833)
                      ++++|.+.++++++.. +.+..++..+...+.+.|++++|...++++.+.. +.+..++..+...|.+.|++++|...|+
T Consensus       286 ~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~  363 (388)
T 1w3b_A          286 SVAEAEDCYNTALRLC-PTHADSLNNLANIKREQGNIEEAVRLYRKALEVF-PEFAAAHSNLASVLQQQGKLQEALMHYK  363 (388)
T ss_dssp             CHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSC-TTCHHHHHHHHHHHHTTTCCHHHHHHHH
T ss_pred             CHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            5555555555555542 2245555555555555555555555555555432 2234455555555555555555555555


Q ss_pred             HHHHCCCccCHHHHHHHHHHHHH
Q 003295          627 EMISKKMELNPVVYNTLIRAYCK  649 (833)
Q Consensus       627 ~~~~~~~~~~~~~~~~li~~~~~  649 (833)
                      ++.+..+. +...|..+...+..
T Consensus       364 ~a~~~~p~-~~~a~~~lg~~~~~  385 (388)
T 1w3b_A          364 EAIRISPT-FADAYSNMGNTLKE  385 (388)
T ss_dssp             HHHTTCTT-CHHHHHHHHHHHHH
T ss_pred             HHHhhCCC-CHHHHHhHHHHHHH
Confidence            55554332 34444444444433

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.93  E-value=4.3e-23  Score=232.35  Aligned_cols=453  Identities=9%  Similarity=-0.034  Sum_probs=279.7

Q ss_pred             hhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHH
Q 003295          287 VVTYNNIIHGLCRNGRLYEAFHLKEKMVLREVEPSLITYSILINGLIKLEKFDDANFVLKEMSVRGFVPNYVVYNTLIDG  366 (833)
Q Consensus       287 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~y~~li~~  366 (833)
                      ...+......+.+.|++++|+..|+++....  |+..+|..+...+.+.|++++|...++++.+.+. .+..+|..+..+
T Consensus         6 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~l~~~   82 (514)
T 2gw1_A            6 ALALKDKGNQFFRNKKYDDAIKYYNWALELK--EDPVFYSNLSACYVSVGDLKKVVEMSTKALELKP-DYSKVLLRRASA   82 (514)
T ss_dssp             HHHHHHHHHHHHHTSCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCS-CCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHhcC--ccHHHHHhHHHHHHHHhhHHHHHHHHHHHhccCh-HHHHHHHHHHHH
Confidence            3456667777777888888888888877753  6777777777778888888888888887776532 245677777777


Q ss_pred             HHHcCChHHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCcccHHHHHHHHHhcCChhHH
Q 003295          367 YCKKGNISEALKIRDDMVSKGMSPNSVTFNSLIHGFCKSGQMDNAENALEEMLSRGLSINQGAYTSVIKWLCINSRFNSA  446 (833)
Q Consensus       367 ~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~l~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A  446 (833)
                      |.+.|++++|...|+++...+. ++......++..+.+......+.+.+..+...+..|+...+..-........     
T Consensus        83 ~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~-----  156 (514)
T 2gw1_A           83 NEGLGKFADAMFDLSVLSLNGD-FNDASIEPMLERNLNKQAMSKLKEKFGDIDTATATPTELSTQPAKERKDKQE-----  156 (514)
T ss_dssp             HHHTTCHHHHHHHHHHHHHSSS-CCGGGTHHHHHHHHHHHHHHHHTTC--------------------------------
T ss_pred             HHHHhhHHHHHHHHHHHHhcCC-CccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCChhhHHHhhcc-----
Confidence            7778888888888877777643 2444444445444444444444444433333322222221111110000000     


Q ss_pred             HHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh---cCCHHHHHHHHHHH
Q 003295          447 LHFTKEMLLRNLRPGDGLLTLLVSGLCKNGKQAEATELCFRLFEKGFTVNTVTSNALIHGMCE---AGNLKEAGKLLMEM  523 (833)
Q Consensus       447 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~---~g~~~~A~~~l~~m  523 (833)
                                 ..|........+    .........      .....+.+...+......+..   .|++++|...|+++
T Consensus       157 -----------~~~~~~~~~~~~----~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~  215 (514)
T 2gw1_A          157 -----------NLPSVTSMASFF----GIFKPELTF------ANYDESNEADKELMNGLSNLYKRSPESYDKADESFTKA  215 (514)
T ss_dssp             -----------CCCCHHHHHHHH----TTSCCCCCC------SSCCSSCHHHHHHHHHHHHHSSCCTTHHHHHHHHHHHH
T ss_pred             -----------CCchhHHHHHHH----hhcCHHHHH------HHhcCCcHHHHHHHHHHHHHHhhhhccHHHHHHHHHHH
Confidence                       111111110000    000000000      000001124444444444444   67778888777777


Q ss_pred             hh-----C--CC------CCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 003295          524 LQ-----R--GL------ILDKVTYNTLILGCCKDGKPEEGFKLKEDMIKRGIQPDNYTYNLLLHGLCSLGKMEEAIELW  590 (833)
Q Consensus       524 ~~-----~--g~------~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~  590 (833)
                      .+     .  .+      +.+...+..+...+...|++++|...++++++....  ...+..+...+...|++++|...+
T Consensus       216 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~~~--~~~~~~l~~~~~~~~~~~~A~~~~  293 (514)
T 2gw1_A          216 ARLFEEQLDKNNEDEKLKEKLAISLEHTGIFKFLKNDPLGAHEDIKKAIELFPR--VNSYIYMALIMADRNDSTEYYNYF  293 (514)
T ss_dssp             HHHHHHHTTTSTTCHHHHHHHHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHCCC--HHHHHHHHHHHHTSSCCTTGGGHH
T ss_pred             HHHhhhhhccCccccccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCcc--HHHHHHHHHHHHHCCCHHHHHHHH
Confidence            66     3  11      113456667777777788888888888877776433  667777777777788888888888


Q ss_pred             HHHhhCCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCC
Q 003295          591 EECKRTVFGPDIYTYGVMIDGFCKADKIEEGETLFNEMISKKMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILP  670 (833)
Q Consensus       591 ~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p  670 (833)
                      +++.+.. +.+...+..+...|...|++++|...++++.+..+. +...+..+...+...|++++|...++++.+.. +.
T Consensus       294 ~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~  370 (514)
T 2gw1_A          294 DKALKLD-SNNSSVYYHRGQMNFILQNYDQAGKDFDKAKELDPE-NIFPYIQLACLAYRENKFDDCETLFSEAKRKF-PE  370 (514)
T ss_dssp             HHHHTTC-TTCTHHHHHHHHHHHHTTCTTHHHHHHHHHHHTCSS-CSHHHHHHHHHTTTTTCHHHHHHHHHHHHHHS-TT
T ss_pred             HHHhhcC-cCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhChh-hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHc-cc
Confidence            7777653 335566777777788888888888888887776544 56677777778888888888888888877653 33


Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC-CCCC----hhHHHHHHHHHHh---cCChhHHHHHHHHHHhCCCCCCH
Q 003295          671 TSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEG-LLPN----VACYTALIGGYCK---LGQMDEAESVLQEMASINIHPNK  742 (833)
Q Consensus       671 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g-~~p~----~~~~~~li~~~~~---~g~~~~A~~~~~~m~~~g~~p~~  742 (833)
                      +..++..+...+...|++++|...++++.+.. -.++    ...+..+...+..   .|++++|...++++.+.. +.+.
T Consensus       371 ~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~  449 (514)
T 2gw1_A          371 APEVPNFFAEILTDKNDFDKALKQYDLAIELENKLDGIYVGIAPLVGKATLLTRNPTVENFIEATNLLEKASKLD-PRSE  449 (514)
T ss_dssp             CSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSSSCSSCSHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHHC-TTCH
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccchHHHHHHHHHHHHHHHhhhhhcCCHHHHHHHHHHHHHhC-cccH
Confidence            56677777888888888888888888877641 0111    3377777888888   888888888888887653 4466


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCH
Q 003295          743 ITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISPDS  777 (833)
Q Consensus       743 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~  777 (833)
                      .++..++..|.+.|++++|.+.++++.+.  .|+.
T Consensus       450 ~~~~~la~~~~~~g~~~~A~~~~~~a~~~--~~~~  482 (514)
T 2gw1_A          450 QAKIGLAQMKLQQEDIDEAITLFEESADL--ARTM  482 (514)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSSH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHh--cccc
Confidence            77788888888888888888888888874  4543

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.93  E-value=5.8e-23  Score=231.32  Aligned_cols=453  Identities=14%  Similarity=0.050  Sum_probs=329.3

Q ss_pred             HHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHH
Q 003295          252 VFLFSTAINAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIHGLCRNGRLYEAFHLKEKMVLREVEPSLITYSILING  331 (833)
Q Consensus       252 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~  331 (833)
                      ...+......+.+.|++++|...|+++.+..  ||..+|..++.+|.+.|++++|...++++.+.+ +.+..+|..+...
T Consensus         6 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~   82 (514)
T 2gw1_A            6 ALALKDKGNQFFRNKKYDDAIKYYNWALELK--EDPVFYSNLSACYVSVGDLKKVVEMSTKALELK-PDYSKVLLRRASA   82 (514)
T ss_dssp             HHHHHHHHHHHHHTSCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHhcC--ccHHHHHhHHHHHHHHhhHHHHHHHHHHHhccC-hHHHHHHHHHHHH
Confidence            4667888999999999999999999999875  799999999999999999999999999999864 4567889999999


Q ss_pred             HHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChhHH
Q 003295          332 LIKLEKFDDANFVLKEMSVRGFVPNYVVYNTLIDGYCKKGNISEALKIRDDMVSKGMSPNSVTFNSLIHGFCKSGQMDNA  411 (833)
Q Consensus       332 ~~~~g~~~~A~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A  411 (833)
                      +.+.|++++|...|+++.+.+. ++......++..+.+......+.+.+..+...+..|+...+................
T Consensus        83 ~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  161 (514)
T 2gw1_A           83 NEGLGKFADAMFDLSVLSLNGD-FNDASIEPMLERNLNKQAMSKLKEKFGDIDTATATPTELSTQPAKERKDKQENLPSV  161 (514)
T ss_dssp             HHHTTCHHHHHHHHHHHHHSSS-CCGGGTHHHHHHHHHHHHHHHHTTC---------------------------CCCCH
T ss_pred             HHHHhhHHHHHHHHHHHHhcCC-CccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCChhhHHHhhccCCchh
Confidence            9999999999999999998763 355555666666666655666666666555554445444333322222222222222


Q ss_pred             HHHHHHHHHCCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHh---cCCHHHHHHHHHHH
Q 003295          412 ENALEEMLSRGLSINQGAYTSVIKWLCINSRFNSALHFTKEMLLRNLRPGDGLLTLLVSGLCK---NGKQAEATELCFRL  488 (833)
Q Consensus       412 ~~~l~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~---~g~~~~A~~~~~~~  488 (833)
                      ..+...+......+....                          .....+...+......+..   .|++++|...++++
T Consensus       162 ~~~~~~~~~~~~~~~~~~--------------------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~  215 (514)
T 2gw1_A          162 TSMASFFGIFKPELTFAN--------------------------YDESNEADKELMNGLSNLYKRSPESYDKADESFTKA  215 (514)
T ss_dssp             HHHHHHHTTSCCCCCCSS--------------------------CCSSCHHHHHHHHHHHHHSSCCTTHHHHHHHHHHHH
T ss_pred             HHHHHHHhhcCHHHHHHH--------------------------hcCCcHHHHHHHHHHHHHHhhhhccHHHHHHHHHHH
Confidence            222211111111100000                          0001112223333333333   67777777777777


Q ss_pred             HH-----C--CC------CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCChhhHHHHH
Q 003295          489 FE-----K--GF------TVNTVTSNALIHGMCEAGNLKEAGKLLMEMLQRGLILDKVTYNTLILGCCKDGKPEEGFKLK  555 (833)
Q Consensus       489 ~~-----~--g~------~~~~~~~~~li~~~~~~g~~~~A~~~l~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~  555 (833)
                      .+     .  ..      +.+..++..++..+...|++++|...++++.+.++.  ...+..+...+...|++++|...+
T Consensus       216 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~~~--~~~~~~l~~~~~~~~~~~~A~~~~  293 (514)
T 2gw1_A          216 ARLFEEQLDKNNEDEKLKEKLAISLEHTGIFKFLKNDPLGAHEDIKKAIELFPR--VNSYIYMALIMADRNDSTEYYNYF  293 (514)
T ss_dssp             HHHHHHHTTTSTTCHHHHHHHHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHCCC--HHHHHHHHHHHHTSSCCTTGGGHH
T ss_pred             HHHhhhhhccCccccccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCcc--HHHHHHHHHHHHHCCCHHHHHHHH
Confidence            76     2  11      224567888889999999999999999999887654  888888999999999999999999


Q ss_pred             HHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCcc
Q 003295          556 EDMIKRGIQPDNYTYNLLLHGLCSLGKMEEAIELWEECKRTVFGPDIYTYGVMIDGFCKADKIEEGETLFNEMISKKMEL  635 (833)
Q Consensus       556 ~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~  635 (833)
                      +++.+.... +...+..+...+...|++++|...++++.+.. +.+...+..+...|...|++++|...++++.+..+. 
T Consensus       294 ~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-  370 (514)
T 2gw1_A          294 DKALKLDSN-NSSVYYHRGQMNFILQNYDQAGKDFDKAKELD-PENIFPYIQLACLAYRENKFDDCETLFSEAKRKFPE-  370 (514)
T ss_dssp             HHHHTTCTT-CTHHHHHHHHHHHHTTCTTHHHHHHHHHHHTC-SSCSHHHHHHHHHTTTTTCHHHHHHHHHHHHHHSTT-
T ss_pred             HHHhhcCcC-CHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-hhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHccc-
Confidence            999887543 67788889999999999999999999998764 335678888899999999999999999999887544 


Q ss_pred             CHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCC-CC----HHHHHHHHHHHHh---cCCHHHHHHHHHHHHHCCCCCCh
Q 003295          636 NPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGIL-PT----SVTYSSLIHGLCN---IGLIEDAKCLFDEMRKEGLLPNV  707 (833)
Q Consensus       636 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~-p~----~~~~~~li~~~~~---~g~~~~A~~~~~~m~~~g~~p~~  707 (833)
                      +...+..+...+.+.|++++|...++++.+.... ++    ...+..+...+..   .|++++|...++++.+.. +.+.
T Consensus       371 ~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~  449 (514)
T 2gw1_A          371 APEVPNFFAEILTDKNDFDKALKQYDLAIELENKLDGIYVGIAPLVGKATLLTRNPTVENFIEATNLLEKASKLD-PRSE  449 (514)
T ss_dssp             CSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSSSCSSCSHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHHC-TTCH
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccchHHHHHHHHHHHHHHHhhhhhcCCHHHHHHHHHHHHHhC-cccH
Confidence            6778899999999999999999999998765211 11    3378889999999   999999999999998863 4467


Q ss_pred             hHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCH
Q 003295          708 ACYTALIGGYCKLGQMDEAESVLQEMASINIHPNK  742 (833)
Q Consensus       708 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~  742 (833)
                      .++..+...|.+.|++++|...|+++.+.  .|+.
T Consensus       450 ~~~~~la~~~~~~g~~~~A~~~~~~a~~~--~~~~  482 (514)
T 2gw1_A          450 QAKIGLAQMKLQQEDIDEAITLFEESADL--ARTM  482 (514)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSSH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHh--cccc
Confidence            78889999999999999999999999985  4543

>2y4t_A DNAJ homolog subfamily C member 3; chaperone, endoplasmic reticulum, protein folding, tetratricopeptiderepeat, J domain, unfolded protein respons; 3.00A {Homo sapiens} PDB: 2y4u_A

Probab=99.91  E-value=1e-21  Score=217.06  Aligned_cols=304  Identities=14%  Similarity=0.093  Sum_probs=212.9

Q ss_pred             CHHHHHHHHHHHHhcCChhHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHH
Q 003295          217 SLKTCNFLLNSLVKANEVQKGIEVFETMCRGVSPDVFLFSTAINAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIHG  296 (833)
Q Consensus       217 ~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~  296 (833)
                      +..+|..+...+.+.|++++|+..|+++....+.+..+|..++.++.+.|++++|...|+++.+.+.. +..++..++..
T Consensus        25 ~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~  103 (450)
T 2y4t_A           25 DVEKHLELGKKLLAAGQLADALSQFHAAVDGDPDNYIAYYRRATVFLAMGKSKAALPDLTKVIQLKMD-FTAARLQRGHL  103 (450)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC-cHHHHHHHHHH
Confidence            67788889999999999999999999998656778899999999999999999999999999887533 57788999999


Q ss_pred             HHhcCChhHHHHHHHHHHhCCCCCCh---hhHHHHH------------HHHHhcCChhHHHHHHHHHHHCCCCCChhhHH
Q 003295          297 LCRNGRLYEAFHLKEKMVLREVEPSL---ITYSILI------------NGLIKLEKFDDANFVLKEMSVRGFVPNYVVYN  361 (833)
Q Consensus       297 ~~~~g~~~~A~~~~~~m~~~~~~p~~---~t~~~li------------~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~y~  361 (833)
                      |.+.|++++|.+.|+++.+.. +.+.   ..+..++            ..+.+.|++++|...|+++.+... .+..++.
T Consensus       104 ~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~  181 (450)
T 2y4t_A          104 LLKQGKLDEAEDDFKKVLKSN-PSENEEKEAQSQLIKSDEMQRLRSQALNAFGSGDYTAAIAFLDKILEVCV-WDAELRE  181 (450)
T ss_dssp             HHHTTCHHHHHHHHHHHHTSC-CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHhcC-CCChhhHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CChHHHH
Confidence            999999999999999998753 2233   5555554            347888888888888888877532 2577788


Q ss_pred             HHHHHHHHcCChHHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCcccHHHH--------
Q 003295          362 TLIDGYCKKGNISEALKIRDDMVSKGMSPNSVTFNSLIHGFCKSGQMDNAENALEEMLSRGLSINQGAYTSV--------  433 (833)
Q Consensus       362 ~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~l~~~~~~g~~~~~~~~~~l--------  433 (833)
                      .++.+|.+.|++++|.+.|+++.+... .+..+|..++..|.+.|++++|.+.|+++.+... .+...+..+        
T Consensus       182 ~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~~~~~~~~~~~  259 (450)
T 2y4t_A          182 LRAECFIKEGEPRKAISDLKAASKLKN-DNTEAFYKISTLYYQLGDHELSLSEVRECLKLDQ-DHKRCFAHYKQVKKLNK  259 (450)
T ss_dssp             HHHHHHHHTTCGGGGHHHHHHHHHHHC-SCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-ChHHHHHHHHHHHHHHH
Confidence            888888888888888888888876532 3677888888888888888888888888876532 223333333        


Q ss_pred             ----HHHHHhcCChhHHHHHHHHHHHCCCCCC---hhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 003295          434 ----IKWLCINSRFNSALHFTKEMLLRNLRPG---DGLLTLLVSGLCKNGKQAEATELCFRLFEKGFTVNTVTSNALIHG  506 (833)
Q Consensus       434 ----i~~~~~~g~~~~A~~~~~~~~~~~~~~~---~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~  506 (833)
                          +..+...|++++|+..+..++.......   ...+..+...+.+.|++++|...++++.+.. +.+..+|..++.+
T Consensus       260 ~~~~~~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~-p~~~~~~~~l~~~  338 (450)
T 2y4t_A          260 LIESAEELIRDGRYTDATSKYESVMKTEPSIAEYTVRSKERICHCFSKDEKPVEAIRVCSEVLQME-PDNVNALKDRAEA  338 (450)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHCCSSHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHH
Confidence                4555555555555555555554332210   1234444555555555555555555554432 2244555555555


Q ss_pred             HHhcCCHHHHHHHHHHHhhC
Q 003295          507 MCEAGNLKEAGKLLMEMLQR  526 (833)
Q Consensus       507 ~~~~g~~~~A~~~l~~m~~~  526 (833)
                      |...|++++|...++++.+.
T Consensus       339 ~~~~~~~~~A~~~~~~al~~  358 (450)
T 2y4t_A          339 YLIEEMYDEAIQDYETAQEH  358 (450)
T ss_dssp             HHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHhcCHHHHHHHHHHHHHh
Confidence            55555555555555555544

>3fp2_A TPR repeat-containing protein YHR117W; TOM71, mitochondria translocation, allosteric REG phosphoprotein, TPR repeat, ATP-binding; 1.98A {Saccharomyces cerevisiae} PDB: 3fp3_A 3fp4_A 3lca_A

Probab=99.91  E-value=1.1e-21  Score=222.31  Aligned_cols=433  Identities=12%  Similarity=0.025  Sum_probs=281.1

Q ss_pred             hhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHH
Q 003295          288 VTYNNIIHGLCRNGRLYEAFHLKEKMVLREVEPSLITYSILINGLIKLEKFDDANFVLKEMSVRGFVPNYVVYNTLIDGY  367 (833)
Q Consensus       288 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~y~~li~~~  367 (833)
                      ..|..+...+.+.|++++|+..|+++.... +.+..+|..+...|.+.|++++|...++++.+.+. .+..++..+...|
T Consensus        26 ~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~la~~~  103 (537)
T 3fp2_A           26 VQLKNRGNHFFTAKNFNEAIKYYQYAIELD-PNEPVFYSNISACYISTGDLEKVIEFTTKALEIKP-DHSKALLRRASAN  103 (537)
T ss_dssp             HHHHHHHHHHHHTTCCC-CHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC-chHHHHHHHHHHH
Confidence            456666777777777777777777777653 34566677777777777777777777777766532 2456666677777


Q ss_pred             HHcCChHHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHHCCC--CCCcccHHHHHHHHHhcCChhH
Q 003295          368 CKKGNISEALKIRDDMVSKGMSPNSVTFNSLIHGFCKSGQMDNAENALEEMLSRGL--SINQGAYTSVIKWLCINSRFNS  445 (833)
Q Consensus       368 ~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~l~~~~~~g~--~~~~~~~~~li~~~~~~g~~~~  445 (833)
                      .+.|++++|.+.|+. ...  .|+.  ....+..+...+...+|...++++.....  .+........+..         
T Consensus       104 ~~~g~~~~A~~~~~~-~~~--~~~~--~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~---------  169 (537)
T 3fp2_A          104 ESLGNFTDAMFDLSV-LSL--NGDF--DGASIEPMLERNLNKQAMKVLNENLSKDEGRGSQVLPSNTSLAS---------  169 (537)
T ss_dssp             HHHTCHHHHHHHHHH-HC---------------CHHHHHHHHHHHHHHHHHCC-------CCCCCHHHHHH---------
T ss_pred             HHcCCHHHHHHHHHH-Hhc--CCCC--ChHHHHHHHHHHHHHHHHHHHHHHHHhCccccccccchHhHHHH---------
Confidence            777777777777753 322  1221  11223344444555566666666544210  0111111222222         


Q ss_pred             HHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHH--------hcCCHHHH
Q 003295          446 ALHFTKEMLLRNLRPGDGLLTLLVSGLCKNGKQAEATELCFRLFEKGFTVN-TVTSNALIHGMC--------EAGNLKEA  516 (833)
Q Consensus       446 A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~-~~~~~~li~~~~--------~~g~~~~A  516 (833)
                                                +....+.+.+...+......  .+. ......+...+.        ..|++++|
T Consensus       170 --------------------------~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~A  221 (537)
T 3fp2_A          170 --------------------------FFGIFDSHLEVSSVNTSSNY--DTAYALLSDALQRLYSATDEGYLVANDLLTKS  221 (537)
T ss_dssp             --------------------------HHHTSCHHHHHHTSCCCCSS--CSSHHHHHHHHHHHHTCSHHHHHHHHHHHHHH
T ss_pred             --------------------------HHHhcChHHHHHHHhhcccc--ccHHHHHHHHHHHHHHhhhhhhHHHHHHHHHH
Confidence                                      23333333333222111111  111 112222222211        22467888


Q ss_pred             HHHHHHHhhCCCCCCH-------HHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHH
Q 003295          517 GKLLMEMLQRGLILDK-------VTYNTLILGCCKDGKPEEGFKLKEDMIKRGIQPDNYTYNLLLHGLCSLGKMEEAIEL  589 (833)
Q Consensus       517 ~~~l~~m~~~g~~~~~-------~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~  589 (833)
                      ..+++++.+..+. +.       .++..+...+...|++++|...++++.+.  .|+...+..+...+...|++++|...
T Consensus       222 ~~~~~~~l~~~p~-~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~  298 (537)
T 3fp2_A          222 TDMYHSLLSANTV-DDPLRENAALALCYTGIFHFLKNNLLDAQVLLQESINL--HPTPNSYIFLALTLADKENSQEFFKF  298 (537)
T ss_dssp             HHHHHHHHC--CC-CHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCCHHHHHHHHHHTCCSSCCHHHHHH
T ss_pred             HHHHHHHHHHCCC-cchhhHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHhc--CCCchHHHHHHHHHHHhcCHHHHHHH
Confidence            8888888776544 32       24566667777888888888888888876  34577788888888888888888888


Q ss_pred             HHHHhhCCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCC
Q 003295          590 WEECKRTVFGPDIYTYGVMIDGFCKADKIEEGETLFNEMISKKMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGIL  669 (833)
Q Consensus       590 ~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~  669 (833)
                      ++++.+.. +.+..++..+...+...|++++|...++++.+..+. +...|..+...+...|++++|.+.++++.+.. +
T Consensus       299 ~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~  375 (537)
T 3fp2_A          299 FQKAVDLN-PEYPPTYYHRGQMYFILQDYKNAKEDFQKAQSLNPE-NVYPYIQLACLLYKQGKFTESEAFFNETKLKF-P  375 (537)
T ss_dssp             HHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-T
T ss_pred             HHHHhccC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-C
Confidence            88887754 345777888888888888999999888888877544 56788888888889999999999998888764 4


Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC-----CCCChhHHHHHHHHHHhc----------CChhHHHHHHHHHH
Q 003295          670 PTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEG-----LLPNVACYTALIGGYCKL----------GQMDEAESVLQEMA  734 (833)
Q Consensus       670 p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g-----~~p~~~~~~~li~~~~~~----------g~~~~A~~~~~~m~  734 (833)
                      .+...+..+...+...|++++|...++++.+..     .......+..+...+.+.          |++++|...++++.
T Consensus       376 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~  455 (537)
T 3fp2_A          376 TLPEVPTFFAEILTDRGDFDTAIKQYDIAKRLEEVQEKIHVGIGPLIGKATILARQSSQDPTQLDEEKFNAAIKLLTKAC  455 (537)
T ss_dssp             TCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCSSCSSTTHHHHHHHHHHHHHHTC----CCHHHHHHHHHHHHHHH
T ss_pred             CChHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCCcchhhHHHHHHHHHHHHHHHHHhhccchhhhHhHHHHHHHHHHHHH
Confidence            466778888888899999999999998887642     011222344555667777          99999999999988


Q ss_pred             hCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 003295          735 SINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAEK  771 (833)
Q Consensus       735 ~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  771 (833)
                      +.. +.+..+|..++.+|.+.|++++|.+.++++.+.
T Consensus       456 ~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~  491 (537)
T 3fp2_A          456 ELD-PRSEQAKIGLAQLKLQMEKIDEAIELFEDSAIL  491 (537)
T ss_dssp             HHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHh
Confidence            753 556788889999999999999999999999884

>2y4t_A DNAJ homolog subfamily C member 3; chaperone, endoplasmic reticulum, protein folding, tetratricopeptiderepeat, J domain, unfolded protein respons; 3.00A {Homo sapiens} PDB: 2y4u_A

Probab=99.91  E-value=7.1e-21  Score=210.29  Aligned_cols=351  Identities=15%  Similarity=0.065  Sum_probs=243.1

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHH
Q 003295          463 GLLTLLVSGLCKNGKQAEATELCFRLFEKGFTVNTVTSNALIHGMCEAGNLKEAGKLLMEMLQRGLILDKVTYNTLILGC  542 (833)
Q Consensus       463 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~l~~m~~~g~~~~~~~~~~li~~~  542 (833)
                      ..+..++..+.+.|++++|...|+++.+.. +.+..++..++.++...|++++|...|+++.+.++. +...+..+...+
T Consensus        27 ~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~  104 (450)
T 2y4t_A           27 EKHLELGKKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVIQLKMD-FTAARLQRGHLL  104 (450)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC-cHHHHHHHHHHH
Confidence            344555555666666666666666655542 235666666666666666666666666666665544 556666666666


Q ss_pred             HhcCChhhHHHHHHHHHHCCCCCCH---HHHHHH------------HHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHH
Q 003295          543 CKDGKPEEGFKLKEDMIKRGIQPDN---YTYNLL------------LHGLCSLGKMEEAIELWEECKRTVFGPDIYTYGV  607 (833)
Q Consensus       543 ~~~g~~~~A~~~~~~m~~~g~~p~~---~~~~~l------------i~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~  607 (833)
                      .+.|++++|...|+++.+.... +.   ..+..+            ...+...|++++|...|+++.+.. +.+..++..
T Consensus       105 ~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~  182 (450)
T 2y4t_A          105 LKQGKLDEAEDDFKKVLKSNPS-ENEEKEAQSQLIKSDEMQRLRSQALNAFGSGDYTAAIAFLDKILEVC-VWDAELREL  182 (450)
T ss_dssp             HHTTCHHHHHHHHHHHHTSCCC-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHhcCCC-ChhhHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHH
Confidence            6666666666666666654322 22   333333            344777888888888888887653 346777888


Q ss_pred             HHHHHHccCCHHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHHHHHHH---------
Q 003295          608 MIDGFCKADKIEEGETLFNEMISKKMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSL---------  678 (833)
Q Consensus       608 li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l---------  678 (833)
                      +..+|.+.|++++|...|+++.+..+. +..+|..++..|...|++++|+..++++.... +.+...+..+         
T Consensus       183 l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~~~~~~~~~~~  260 (450)
T 2y4t_A          183 RAECFIKEGEPRKAISDLKAASKLKND-NTEAFYKISTLYYQLGDHELSLSEVRECLKLD-QDHKRCFAHYKQVKKLNKL  260 (450)
T ss_dssp             HHHHHHHTTCGGGGHHHHHHHHHHHCS-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CChHHHHHHHHHHHHHHHH
Confidence            888888888888888888888776443 67888888888888888888888888887653 2244444444         


Q ss_pred             ---HHHHHhcCCHHHHHHHHHHHHHCCCCCC-----hhHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 003295          679 ---IHGLCNIGLIEDAKCLFDEMRKEGLLPN-----VACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIG  750 (833)
Q Consensus       679 ---i~~~~~~g~~~~A~~~~~~m~~~g~~p~-----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~  750 (833)
                         ...+.+.|++++|...|+++.+.  .|+     ...|..++..+.+.|++++|...++++.+.. +.+..+|..++.
T Consensus       261 ~~~~~~~~~~g~~~~A~~~~~~~l~~--~p~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~-p~~~~~~~~l~~  337 (450)
T 2y4t_A          261 IESAEELIRDGRYTDATSKYESVMKT--EPSIAEYTVRSKERICHCFSKDEKPVEAIRVCSEVLQME-PDNVNALKDRAE  337 (450)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHH--CCSSHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhc--CCcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHH
Confidence               77888899999999999999884  354     3477888889999999999999999988753 557888999999


Q ss_pred             HHHhcCCHHHHHHHHHHHHHcCCCC-CHHHHHHHHH------------HHhcCC-----CHHHHHHHHHH-HHHCCCCCC
Q 003295          751 GYCKLGDMKEAAKLLNVMAEKGISP-DSITYNVFMD------------GHCKGG-----NVEEAFKVCDR-MLSEGLSLD  811 (833)
Q Consensus       751 ~~~~~g~~~~A~~~~~~m~~~g~~p-~~~~~~~l~~------------~~~~~g-----~~~~A~~~~~~-m~~~g~~p~  811 (833)
                      +|...|++++|...++++++  +.| +..++..+..            .|...|     +.+++.+.+++ .++  ..||
T Consensus       338 ~~~~~~~~~~A~~~~~~al~--~~p~~~~~~~~l~~~~~~~~~~~~~~~y~~lg~~~~~~~~~~~~~y~~~~l~--~~pd  413 (450)
T 2y4t_A          338 AYLIEEMYDEAIQDYETAQE--HNENDQQIREGLEKAQRLLKQSQKRDYYKILGVKRNAKKQEIIKAYRKLALQ--WHPD  413 (450)
T ss_dssp             HHHHTTCHHHHHHHHHHHHT--TSSSCHHHHHHHHHHHHHHHHHHSCCSGGGSCSSTTCCTTHHHHHHHHHHHH--SCGG
T ss_pred             HHHHhcCHHHHHHHHHHHHH--hCcchHHHHHHHHHHHHHhhcccchhHHHHhCCCccCCHHHHHHHHHHHHHH--hCCC
Confidence            99999999999999999988  445 4566666663            344444     56777888876 343  2333


Q ss_pred             -----------HHHHHHHHHhhccCC
Q 003295          812 -----------EITYTTLIDGWQSST  826 (833)
Q Consensus       812 -----------~~~~~~l~~~~~~~~  826 (833)
                                 ...+..+..+|...+
T Consensus       414 ~~~~~~~~~~a~~~~~~i~~ay~~L~  439 (450)
T 2y4t_A          414 NFQNEEEKKKAEKKFIDIAAAKEVLS  439 (450)
T ss_dssp             GCCSHHHHHHHHHHHHHHHHHHHHSS
T ss_pred             CCCCchHHHHHHHHHHHHHHHHHHhC
Confidence                       235666666665433

>3fp2_A TPR repeat-containing protein YHR117W; TOM71, mitochondria translocation, allosteric REG phosphoprotein, TPR repeat, ATP-binding; 1.98A {Saccharomyces cerevisiae} PDB: 3fp3_A 3fp4_A 3lca_A

Probab=99.90  E-value=5e-21  Score=216.83  Aligned_cols=441  Identities=11%  Similarity=-0.001  Sum_probs=233.1

Q ss_pred             HHHHHHHHHHHHhcCChhHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHH
Q 003295          218 LKTCNFLLNSLVKANEVQKGIEVFETMCRGVSPDVFLFSTAINAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIHGL  297 (833)
Q Consensus       218 ~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~  297 (833)
                      ...|..+...+.+.|++++|...|++++...|.+..+|..+..+|.+.|++++|.+.|+++.+.++. +..++..++..+
T Consensus        25 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~la~~~  103 (537)
T 3fp2_A           25 AVQLKNRGNHFFTAKNFNEAIKYYQYAIELDPNEPVFYSNISACYISTGDLEKVIEFTTKALEIKPD-HSKALLRRASAN  103 (537)
T ss_dssp             HHHHHHHHHHHHHTTCCC-CHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHhhCCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCc-hHHHHHHHHHHH
Confidence            3456667777788888888888888887545667788888888888888888888888888776532 567777788888


Q ss_pred             HhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCC--CCChhhHHHHHHHHHHcCChHH
Q 003295          298 CRNGRLYEAFHLKEKMVLREVEPSLITYSILINGLIKLEKFDDANFVLKEMSVRGF--VPNYVVYNTLIDGYCKKGNISE  375 (833)
Q Consensus       298 ~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~g~--~p~~~~y~~li~~~~~~g~~~~  375 (833)
                      .+.|++++|...|+. ...  .|+..  ...+..+...+...+|...++++.....  .+........+..+....+.+.
T Consensus       104 ~~~g~~~~A~~~~~~-~~~--~~~~~--~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~  178 (537)
T 3fp2_A          104 ESLGNFTDAMFDLSV-LSL--NGDFD--GASIEPMLERNLNKQAMKVLNENLSKDEGRGSQVLPSNTSLASFFGIFDSHL  178 (537)
T ss_dssp             HHHTCHHHHHHHHHH-HC---------------CHHHHHHHHHHHHHHHHHCC-------CCCCCHHHHHHHHHTSCHHH
T ss_pred             HHcCCHHHHHHHHHH-Hhc--CCCCC--hHHHHHHHHHHHHHHHHHHHHHHHHhCccccccccchHhHHHHHHHhcChHH
Confidence            888888888888853 322  22221  2223445555566777778877754310  1111222334444556666666


Q ss_pred             HHHHHHHHHhCCCCCChh-HHHHHHHHHHh--------cCChhHHHHHHHHHHHCCCCCCcccHHHHHHHHHhcCChhHH
Q 003295          376 ALKIRDDMVSKGMSPNSV-TFNSLIHGFCK--------SGQMDNAENALEEMLSRGLSINQGAYTSVIKWLCINSRFNSA  446 (833)
Q Consensus       376 A~~~~~~m~~~g~~p~~~-~~~~li~~~~~--------~g~~~~A~~~l~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A  446 (833)
                      +...+......  .+... ....+...+..        .|++++|..+++++.+.... +...+..+.            
T Consensus       179 ~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~A~~~~~~~l~~~p~-~~~~~~~~~------------  243 (537)
T 3fp2_A          179 EVSSVNTSSNY--DTAYALLSDALQRLYSATDEGYLVANDLLTKSTDMYHSLLSANTV-DDPLRENAA------------  243 (537)
T ss_dssp             HHHTSCCCCSS--CSSHHHHHHHHHHHHTCSHHHHHHHHHHHHHHHHHHHHHHC--CC-CHHHHHHHH------------
T ss_pred             HHHHHhhcccc--ccHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHCCC-cchhhHHHH------------
Confidence            55544433321  22211 22222222211        23566666666666554211 111111111            


Q ss_pred             HHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhC
Q 003295          447 LHFTKEMLLRNLRPGDGLLTLLVSGLCKNGKQAEATELCFRLFEKGFTVNTVTSNALIHGMCEAGNLKEAGKLLMEMLQR  526 (833)
Q Consensus       447 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~l~~m~~~  526 (833)
                                      .++..+...+...|++++|...++++.+..  |+...+..+...+...|++++|...++++.+.
T Consensus       244 ----------------~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  305 (537)
T 3fp2_A          244 ----------------LALCYTGIFHFLKNNLLDAQVLLQESINLH--PTPNSYIFLALTLADKENSQEFFKFFQKAVDL  305 (537)
T ss_dssp             ----------------HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHTCCSSCCHHHHHHHHHHHHH
T ss_pred             ----------------HHHHHHHHHHHhcccHHHHHHHHHHHHhcC--CCchHHHHHHHHHHHhcCHHHHHHHHHHHhcc
Confidence                            122333334444455555555555544432  22444555555555555555555555555544


Q ss_pred             CCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHH
Q 003295          527 GLILDKVTYNTLILGCCKDGKPEEGFKLKEDMIKRGIQPDNYTYNLLLHGLCSLGKMEEAIELWEECKRTVFGPDIYTYG  606 (833)
Q Consensus       527 g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~  606 (833)
                      .+. +..+|..+...+...|++++|...++++++.... +...+..+...+...|++++|...++++.+.. +.+...+.
T Consensus       306 ~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~  382 (537)
T 3fp2_A          306 NPE-YPPTYYHRGQMYFILQDYKNAKEDFQKAQSLNPE-NVYPYIQLACLLYKQGKFTESEAFFNETKLKF-PTLPEVPT  382 (537)
T ss_dssp             CTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHH
T ss_pred             CCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHH
Confidence            333 4455555555555555555555555555554322 33445555555555555555555555555442 22344555


Q ss_pred             HHHHHHHccCCHHHHHHHHHHHHHCCC-----ccCHHHHHHHHHHHHHc----------CChHHHHHHHHHHHhCCCCCC
Q 003295          607 VMIDGFCKADKIEEGETLFNEMISKKM-----ELNPVVYNTLIRAYCKI----------GNTTAAFRLSNDMKSRGILPT  671 (833)
Q Consensus       607 ~li~~~~~~g~~~~A~~~~~~~~~~~~-----~~~~~~~~~li~~~~~~----------g~~~~A~~~~~~m~~~~~~p~  671 (833)
                      .+...+...|++++|...++++.+..+     ......+......+.+.          |++++|...+++..+.. +.+
T Consensus       383 ~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-p~~  461 (537)
T 3fp2_A          383 FFAEILTDRGDFDTAIKQYDIAKRLEEVQEKIHVGIGPLIGKATILARQSSQDPTQLDEEKFNAAIKLLTKACELD-PRS  461 (537)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHCSSCSSTTHHHHHHHHHHHHHHTC----CCHHHHHHHHHHHHHHHHHC-TTC
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHcCCcchhhHHHHHHHHHHHHHHHHHhhccchhhhHhHHHHHHHHHHHHHHhC-CCC
Confidence            555555555555555555555543211     11222233444455555          66666666666666543 334


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 003295          672 SVTYSSLIHGLCNIGLIEDAKCLFDEMRKE  701 (833)
Q Consensus       672 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  701 (833)
                      ...+..+...+.+.|++++|.+.|+++.+.
T Consensus       462 ~~~~~~l~~~~~~~g~~~~A~~~~~~al~~  491 (537)
T 3fp2_A          462 EQAKIGLAQLKLQMEKIDEAIELFEDSAIL  491 (537)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHHh
Confidence            555666666666666666666666666653

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.86  E-value=5.2e-18  Score=180.72  Aligned_cols=326  Identities=10%  Similarity=-0.005  Sum_probs=197.1

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHH
Q 003295          463 GLLTLLVSGLCKNGKQAEATELCFRLFEKGFTVNTVTSNALIHGMCEAGNLKEAGKLLMEMLQRGLILDKVTYNTLILGC  542 (833)
Q Consensus       463 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~l~~m~~~g~~~~~~~~~~li~~~  542 (833)
                      ..+..+...+...|++++|...++++.+..+ .+..++..+...+...|++++|...++++.+..+. +...+..+...+
T Consensus         4 ~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p-~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~   81 (359)
T 3ieg_A            4 EKHLELGKKLLAAGQLADALSQFHAAVDGDP-DNYIAYYRRATVFLAMGKSKAALPDLTKVIALKMD-FTAARLQRGHLL   81 (359)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhhCc-ccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC-cchHHHHHHHHH
Confidence            3445555666666666666666666665432 24556666666666666666666666666655433 455566666666


Q ss_pred             HhcCChhhHHHHHHHHHHCCCC--CCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHccCCHHH
Q 003295          543 CKDGKPEEGFKLKEDMIKRGIQ--PDNYTYNLLLHGLCSLGKMEEAIELWEECKRTVFGPDIYTYGVMIDGFCKADKIEE  620 (833)
Q Consensus       543 ~~~g~~~~A~~~~~~m~~~g~~--p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  620 (833)
                      ...|++++|...++++.+....  .+...+..+.....                       ...+..+...+...|++++
T Consensus        82 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~-----------------------~~~~~~~a~~~~~~~~~~~  138 (359)
T 3ieg_A           82 LKQGKLDEAEDDFKKVLKSNPSEQEEKEAESQLVKADE-----------------------MQRLRSQALDAFDGADYTA  138 (359)
T ss_dssp             HHHTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHH-----------------------HHHHHHHHHHHHHTTCHHH
T ss_pred             HHcCChHHHHHHHHHHHhcCCcccChHHHHHHHHHHHH-----------------------HHHHHHHHHHHHHccCHHH
Confidence            6666666666666666654220  12222222211000                       0011122455666777777


Q ss_pred             HHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 003295          621 GETLFNEMISKKMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRK  700 (833)
Q Consensus       621 A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  700 (833)
                      |.+.++++.+..+. +...+..+...+...|++++|...++++.+.. +.+..++..+...+...|++++|...++++.+
T Consensus       139 A~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~  216 (359)
T 3ieg_A          139 AITFLDKILEVCVW-DAELRELRAECFIKEGEPRKAISDLKAASKLK-SDNTEAFYKISTLYYQLGDHELSLSEVRECLK  216 (359)
T ss_dssp             HHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-SCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCC-chHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            77777776665443 56666677777777777777777777776653 34566666777777777777777777777766


Q ss_pred             CCCCCChhHHH------------HHHHHHHhcCChhHHHHHHHHHHhCCCCCCH----HHHHHHHHHHHhcCCHHHHHHH
Q 003295          701 EGLLPNVACYT------------ALIGGYCKLGQMDEAESVLQEMASINIHPNK----ITYTIMIGGYCKLGDMKEAAKL  764 (833)
Q Consensus       701 ~g~~p~~~~~~------------~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~----~~~~~li~~~~~~g~~~~A~~~  764 (833)
                      .. +.+...+.            .+...+.+.|++++|...++++.+.. +.+.    ..+..+..++...|++++|++.
T Consensus       217 ~~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~la~~~~~~~~~~~A~~~  294 (359)
T 3ieg_A          217 LD-QDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKTE-PSVAEYTVRSKERICHCFSKDEKPVEAIRI  294 (359)
T ss_dssp             HC-TTCHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CSSHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             hC-ccchHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHHHHHccCHHHHHHH
Confidence            42 22222222            22555777788888888888777642 2233    2344567777788888888888


Q ss_pred             HHHHHHcCCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHHCCCCCC-HHHHHHHHH
Q 003295          765 LNVMAEKGISPDSITYNVFMDGHCKGGNVEEAFKVCDRMLSEGLSLD-EITYTTLID  820 (833)
Q Consensus       765 ~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~~~~~l~~  820 (833)
                      ++++.+.. +.+..++..++..+...|++++|.+.++++++  +.|+ ...+..+..
T Consensus       295 ~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~--~~p~~~~~~~~l~~  348 (359)
T 3ieg_A          295 CSEVLQME-PDNVNALKDRAEAYLIEEMYDEAIQDYEAAQE--HNENDQQIREGLEK  348 (359)
T ss_dssp             HHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHT--TCTTCHHHHHHHHH
T ss_pred             HHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHh--cCCCChHHHHHHHH
Confidence            88877742 33667777788888888888888888888776  4555 444444443

>1xi4_A Clathrin heavy chain; alpha-ZIG-ZAG, beta-propeller, endocytosis-exocyto complex; 7.90A {Bos taurus} SCOP: i.23.1.1 PDB: 1xi5_A 3iyv_A

Probab=99.85  E-value=9.9e-16  Score=177.39  Aligned_cols=370  Identities=15%  Similarity=0.118  Sum_probs=185.3

Q ss_pred             ccCHHHHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCChhHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHH
Q 003295          196 NLGFGYAIDVFSIFSSKGI--FPSLKTCNFLLNSLVKANEVQKGIEVFETMCRGVSPDVFLFSTAINAFCKRGRIEDAIG  273 (833)
Q Consensus       196 ~~~~~~A~~~f~~~~~~~~--~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~  273 (833)
                      .|.+.+|++.+++..-.+-  .-+...+|.|+....+. +..+..+..++.-      .+...-+...+...|.+++|..
T Consensus       998 aglp~EaieLLEKivl~~s~fs~n~~LqnlLi~tAIka-D~~Rv~eyI~kLd------~~d~~eIA~Iai~lglyEEAf~ 1070 (1630)
T 1xi4_A          998 ADLPNELIELLEKIVLDNSVFSEHRNLQNLLILTAIKA-DRTRVMEYINRLD------NYDAPDIANIAISNELFEEAFA 1070 (1630)
T ss_pred             CCCHHHHHHHHHHHHcCCCcccccHHHHHHHHHHHHHh-ChhhHHHHHHHhh------hccHHHHHHHHHhCCCHHHHHH
Confidence            4555555555555542211  12234444454444444 2333333333321      1112224555555666666666


Q ss_pred             HHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCC
Q 003295          274 LFTKMEELGIAPNVVTYNNIIHGLCRNGRLYEAFHLKEKMVLREVEPSLITYSILINGLIKLEKFDDANFVLKEMSVRGF  353 (833)
Q Consensus       274 ~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~g~  353 (833)
                      +|++...     .....+.++.   ..|++++|.++.++.      -+..+|..+..++.+.|++++|...|.+.     
T Consensus      1071 IYkKa~~-----~~~A~~VLie---~i~nldrAiE~Aerv------n~p~vWsqLAKAql~~G~~kEAIdsYiKA----- 1131 (1630)
T 1xi4_A         1071 IFRKFDV-----NTSAVQVLIE---HIGNLDRAYEFAERC------NEPAVWSQLAKAQLQKGMVKEAIDSYIKA----- 1131 (1630)
T ss_pred             HHHHcCC-----HHHHHHHHHH---HHhhHHHHHHHHHhc------CCHHHHHHHHHHHHhCCCHHHHHHHHHhc-----
Confidence            6666421     1122222222   445566666665543      13455566666666666666666666443     


Q ss_pred             CCChhhHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCcccHHHH
Q 003295          354 VPNYVVYNTLIDGYCKKGNISEALKIRDDMVSKGMSPNSVTFNSLIHGFCKSGQMDNAENALEEMLSRGLSINQGAYTSV  433 (833)
Q Consensus       354 ~p~~~~y~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~l~~~~~~g~~~~~~~~~~l  433 (833)
                       -|...|..++..+.+.|++++|.+.+....+..  ++....+.++.+|++.+++++...+.    +   .++...|..+
T Consensus      1132 -dD~say~eVa~~~~~lGkyEEAIeyL~mArk~~--~e~~Idt~LafaYAKl~rleele~fI----~---~~n~ad~~~i 1201 (1630)
T 1xi4_A         1132 -DDPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIFALAKTNRLAELEEFI----N---GPNNAHIQQV 1201 (1630)
T ss_pred             -CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhc--ccccccHHHHHHHHhhcCHHHHHHHH----h---CCCHHHHHHH
Confidence             245555556666666666666666665555432  22222233556666666655433222    1   2234445556


Q ss_pred             HHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCH
Q 003295          434 IKWLCINSRFNSALHFTKEMLLRNLRPGDGLLTLLVSGLCKNGKQAEATELCFRLFEKGFTVNTVTSNALIHGMCEAGNL  513 (833)
Q Consensus       434 i~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~  513 (833)
                      ...+...|++++|..+|...         ..|..+...+++.|++++|.+.+++.      .+..+|..+..+|...|++
T Consensus      1202 Gd~le~eg~YeeA~~~Y~kA---------~ny~rLA~tLvkLge~q~AIEaarKA------~n~~aWkev~~acve~~Ef 1266 (1630)
T 1xi4_A         1202 GDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEF 1266 (1630)
T ss_pred             HHHHHhcCCHHHHHHHHHhh---------hHHHHHHHHHHHhCCHHHHHHHHHHh------CCHHHHHHHHHHHhhhhHH
Confidence            66666666666666666553         25556666666666666666666554      2455666666666666666


Q ss_pred             HHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc--CCHHHHHHHHH
Q 003295          514 KEAGKLLMEMLQRGLILDKVTYNTLILGCCKDGKPEEGFKLKEDMIKRGIQPDNYTYNLLLHGLCSL--GKMEEAIELWE  591 (833)
Q Consensus       514 ~~A~~~l~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~--g~~~~A~~~~~  591 (833)
                      ..|......+     ..++..+..++..|.+.|.+++|+.+++..+... +-....|+-+...+++.  ++..++.++|.
T Consensus      1267 ~LA~~cgl~I-----iv~~deLeeli~yYe~~G~feEAI~LlE~aL~Le-raH~gmftELaiLyaKy~peklmEhlk~f~ 1340 (1630)
T 1xi4_A         1267 RLAQMCGLHI-----VVHADELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSKFKPQKMREHLELFW 1340 (1630)
T ss_pred             HHHHHHHHhh-----hcCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccC-hhHhHHHHHHHHHHHhCCHHHHHHHHHHHH
Confidence            6665544331     1244555566666666666666666666555432 22333444444444442  33444444443


Q ss_pred             HHhhCC----CCCCHhhHHHHHHHHHccCCHHHHH
Q 003295          592 ECKRTV----FGPDIYTYGVMIDGFCKADKIEEGE  622 (833)
Q Consensus       592 ~~~~~~----~~~~~~~~~~li~~~~~~g~~~~A~  622 (833)
                      .-....    ...+...|..++-.|.+.|+++.|.
T Consensus      1341 ~rini~k~~r~~e~~~lW~elv~LY~~~~e~dnA~ 1375 (1630)
T 1xi4_A         1341 SRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAI 1375 (1630)
T ss_pred             HhcccchHhHHHHHHHHHHHHHHHHHhcccHHHHH
Confidence            221110    0013445666666666666666665

>1xi4_A Clathrin heavy chain; alpha-ZIG-ZAG, beta-propeller, endocytosis-exocyto complex; 7.90A {Bos taurus} SCOP: i.23.1.1 PDB: 1xi5_A 3iyv_A

Probab=99.85  E-value=5.8e-15  Score=171.12  Aligned_cols=587  Identities=10%  Similarity=0.055  Sum_probs=342.0

Q ss_pred             HHHHHHHhhhhcC-CCCCCHHHHHHHHHHHHhCCCchhHHHHHHHHHcCCCCccccCCCcchHHHHHHHHhhhhcccCCc
Q 003295           99 TALKFFYFASQSC-NFRFTVRSYCLLIRLLLFSNLLSPARLLLIRLIDGKMPVLYASNPSIRHIEIASQMVDLNVTSEPA  177 (833)
Q Consensus        99 ~a~~ff~~~~~~~-~~~~~~~~~~~l~~~l~~~~~~~~a~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  177 (833)
                      .=.+..+|+.... +-+.+++--...++.+..+|.+.+|..++.+++..+.      +++                    
T Consensus       966 ~RR~Lidqv~a~aL~e~~~PeeVs~~vKaf~~aglp~EaieLLEKivl~~s------~fs-------------------- 1019 (1630)
T 1xi4_A          966 YRRPLIDQVVQTALSETQDPEEVSVTVKAFMTADLPNELIELLEKIVLDNS------VFS-------------------- 1019 (1630)
T ss_pred             HHHHHHHHHHHhhcccccCHHHhHHHHHHHHhCCCHHHHHHHHHHHHcCCC------ccc--------------------
Confidence            4456777765322 2356777778888999999999999999999985431      110                    


Q ss_pred             chhhhHHHHHHHHHHhhhccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHhhcCCCCCHHHHHH
Q 003295          178 LGVQIADLLVHVYCTQFKNLGFGYAIDVFSIFSSKGIFPSLKTCNFLLNSLVKANEVQKGIEVFETMCRGVSPDVFLFST  257 (833)
Q Consensus       178 ~~~~~~~~l~~~~~~~~~~~~~~~A~~~f~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~  257 (833)
                      .....-++|+......    +.+...+...+...       .....+...+...|.+++|..+|++..    ......+.
T Consensus      1020 ~n~~LqnlLi~tAIka----D~~Rv~eyI~kLd~-------~d~~eIA~Iai~lglyEEAf~IYkKa~----~~~~A~~V 1084 (1630)
T 1xi4_A         1020 EHRNLQNLLILTAIKA----DRTRVMEYINRLDN-------YDAPDIANIAISNELFEEAFAIFRKFD----VNTSAVQV 1084 (1630)
T ss_pred             ccHHHHHHHHHHHHHh----ChhhHHHHHHHhhh-------ccHHHHHHHHHhCCCHHHHHHHHHHcC----CHHHHHHH
Confidence            0112222344333321    22222222222211       113345666677777777777777752    11222222


Q ss_pred             HHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCC
Q 003295          258 AINAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIHGLCRNGRLYEAFHLKEKMVLREVEPSLITYSILINGLIKLEK  337 (833)
Q Consensus       258 li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~  337 (833)
                      ++.   ..|++++|.++.++..      +..+|..+..++.+.|++++|++.|.+.      .|...|..++..+.+.|+
T Consensus      1085 Lie---~i~nldrAiE~Aervn------~p~vWsqLAKAql~~G~~kEAIdsYiKA------dD~say~eVa~~~~~lGk 1149 (1630)
T 1xi4_A         1085 LIE---HIGNLDRAYEFAERCN------EPAVWSQLAKAQLQKGMVKEAIDSYIKA------DDPSSYMEVVQAANTSGN 1149 (1630)
T ss_pred             HHH---HHhhHHHHHHHHHhcC------CHHHHHHHHHHHHhCCCHHHHHHHHHhc------CChHHHHHHHHHHHHcCC
Confidence            222   5667777777777552      4566777777777777777777777553      366667777777777777


Q ss_pred             hhHHHHHHHHHHHCCCCCChhhHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChhHHHHHHHH
Q 003295          338 FDDANFVLKEMSVRGFVPNYVVYNTLIDGYCKKGNISEALKIRDDMVSKGMSPNSVTFNSLIHGFCKSGQMDNAENALEE  417 (833)
Q Consensus       338 ~~~A~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~l~~  417 (833)
                      +++|.+.|....+..  ++....+.++.+|++.+++++...+.    +   .++...|..+...|...|++++|..+|..
T Consensus      1150 yEEAIeyL~mArk~~--~e~~Idt~LafaYAKl~rleele~fI----~---~~n~ad~~~iGd~le~eg~YeeA~~~Y~k 1220 (1630)
T 1xi4_A         1150 WEELVKYLQMARKKA--RESYVETELIFALAKTNRLAELEEFI----N---GPNNAHIQQVGDRCYDEKMYDAAKLLYNN 1220 (1630)
T ss_pred             HHHHHHHHHHHHhhc--ccccccHHHHHHHHhhcCHHHHHHHH----h---CCCHHHHHHHHHHHHhcCCHHHHHHHHHh
Confidence            777777777766553  34334445777777777776533332    2   24555666677777777777777777776


Q ss_pred             HHHCCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH
Q 003295          418 MLSRGLSINQGAYTSVIKWLCINSRFNSALHFTKEMLLRNLRPGDGLLTLLVSGLCKNGKQAEATELCFRLFEKGFTVNT  497 (833)
Q Consensus       418 ~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~  497 (833)
                      +         ..|..++..+++.|++++|++.+++.      .+..+|..+..+|...|++..|......+.     .+.
T Consensus      1221 A---------~ny~rLA~tLvkLge~q~AIEaarKA------~n~~aWkev~~acve~~Ef~LA~~cgl~Ii-----v~~ 1280 (1630)
T 1xi4_A         1221 V---------SNFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQMCGLHIV-----VHA 1280 (1630)
T ss_pred             h---------hHHHHHHHHHHHhCCHHHHHHHHHHh------CCHHHHHHHHHHHhhhhHHHHHHHHHHhhh-----cCH
Confidence            4         35777777777777777777777765      244667777777777777777776554322     255


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhc--CChhhHHHHHHHHHHCCC----CCCHHHHH
Q 003295          498 VTSNALIHGMCEAGNLKEAGKLLMEMLQRGLILDKVTYNTLILGCCKD--GKPEEGFKLKEDMIKRGI----QPDNYTYN  571 (833)
Q Consensus       498 ~~~~~li~~~~~~g~~~~A~~~l~~m~~~g~~~~~~~~~~li~~~~~~--g~~~~A~~~~~~m~~~g~----~p~~~~~~  571 (833)
                      ..+..++..|.+.|.+++|+.+++...... .-....|+.|...+++.  ++..++.+.|..-.....    .-+...|.
T Consensus      1281 deLeeli~yYe~~G~feEAI~LlE~aL~Le-raH~gmftELaiLyaKy~peklmEhlk~f~~rini~k~~r~~e~~~lW~ 1359 (1630)
T 1xi4_A         1281 DELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSKFKPQKMREHLELFWSRVNIPKVLRAAEQAHLWA 1359 (1630)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHhccC-hhHhHHHHHHHHHHHhCCHHHHHHHHHHHHHhcccchHhHHHHHHHHHH
Confidence            566677888888888888888887776554 22445565566666553  345555555553322100    01456677


Q ss_pred             HHHHHHHhcCCHHHHHHHH-------------HHHhhCCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCccCHH
Q 003295          572 LLLHGLCSLGKMEEAIELW-------------EECKRTVFGPDIYTYGVMIDGFCKADKIEEGETLFNEMISKKMELNPV  638 (833)
Q Consensus       572 ~li~~~~~~g~~~~A~~~~-------------~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~  638 (833)
                      .++-.|.+.|+++.|....             .+....  ..|+..|...+..|..  ...+++.-+...+...+.    
T Consensus      1360 elv~LY~~~~e~dnA~~tm~~h~~~a~~~~~Fk~~i~k--v~n~elyykai~Fyl~--~~P~~lndLl~~l~~rlD---- 1431 (1630)
T 1xi4_A         1360 ELVFLYDKYEEYDNAIITMMNHPTDAWKEGQFKDIITK--VANVELYYRAIQFYLE--FKPLLLNDLLMVLSPRLD---- 1431 (1630)
T ss_pred             HHHHHHHhcccHHHHHHHHHhccHhhhhhHHHHHHhcc--cccHHHHHHHHHHHHh--hChHHHHHHHHHhhhcCC----
Confidence            7778888888888777322             222211  3456666666666662  222333333333222111    


Q ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHH------------HHHHHHHHHCCCCCC
Q 003295          639 VYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIGLIEDA------------KCLFDEMRKEGLLPN  706 (833)
Q Consensus       639 ~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A------------~~~~~~m~~~g~~p~  706 (833)
                       +...+..+.+.|++..+...++.....+   +...=..+.+.+....+++.-            ..+-.++.++    +
T Consensus      1432 -~~R~V~l~~~~~~l~lik~yl~~vq~~n---~~~Vneal~el~ieeed~~~Lr~si~~~~nfd~~~La~~lekh----e 1503 (1630)
T 1xi4_A         1432 -HTRAVNYFSKVKQLPLVKPYLRSVQNHN---NKSVNESLNNLFITEEDYQALRTSIDAYDNFDNISLAQRLEKH----E 1503 (1630)
T ss_pred             -hHHHHHHHHHcCChHHhHHHHHHHHHhc---chhhhHHHHHHhcCccchHHHHHHHhhccCcCHHHHHHHhhhh----h
Confidence             2344555566666666666665555332   112222222333333332211            1111112211    1


Q ss_pred             hhHHHHH-HHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 003295          707 VACYTAL-IGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISPDSITYNVFMD  785 (833)
Q Consensus       707 ~~~~~~l-i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~  785 (833)
                      ..-+.-+ ...|.+.|++++|.+++++..         .|.-.+....+.|+.+.+.+++.-..+.|   +...|.+.+.
T Consensus      1504 Ll~frrIAa~ly~~n~~~~~ai~l~k~d~---------l~~dAm~~a~~S~d~e~~e~ll~~F~~~~---~~E~f~a~Ly 1571 (1630)
T 1xi4_A         1504 LIEFRRIAAYLFKGNNRWKQSVELCKKDS---------LYKDAMQYASESKDTELAEELLQWFLQEE---KRECFGACLF 1571 (1630)
T ss_pred             HHHHHHHHHHHHHhcCcHHHHHHHHHhcc---------CHHHHHHHHHHcCCHHHHHHHHHHHHhcC---ChhHHHHHHH
Confidence            1112222 233445588888888877643         14455677778888888888888777753   5566777777


Q ss_pred             HHhcCCCHHHHHHH
Q 003295          786 GHCKGGNVEEAFKV  799 (833)
Q Consensus       786 ~~~~~g~~~~A~~~  799 (833)
                      .|...-+.+-+.++
T Consensus      1572 ~cy~l~~pd~vle~ 1585 (1630)
T 1xi4_A         1572 TCYDLLRPDVVLET 1585 (1630)
T ss_pred             HHhccCCchHHHHH
Confidence            77777777666654

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.85  E-value=3.7e-18  Score=181.82  Aligned_cols=331  Identities=14%  Similarity=0.078  Sum_probs=207.9

Q ss_pred             HHHHHHHHHHHHhcCChhHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHH
Q 003295          218 LKTCNFLLNSLVKANEVQKGIEVFETMCRGVSPDVFLFSTAINAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIHGL  297 (833)
Q Consensus       218 ~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~  297 (833)
                      +..+..+...+.+.|++++|...|+++....+.+..++..+..++...|++++|...|+++.+.... +...|..+...|
T Consensus         3 ~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~   81 (359)
T 3ieg_A            3 VEKHLELGKKLLAAGQLADALSQFHAAVDGDPDNYIAYYRRATVFLAMGKSKAALPDLTKVIALKMD-FTAARLQRGHLL   81 (359)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC-cchHHHHHHHHH
Confidence            4556667777777777777777777777445566777777777777777777777777777765322 456777777777


Q ss_pred             HhcCChhHHHHHHHHHHhCCCC--CChhhHHHH------------HHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHH
Q 003295          298 CRNGRLYEAFHLKEKMVLREVE--PSLITYSIL------------INGLIKLEKFDDANFVLKEMSVRGFVPNYVVYNTL  363 (833)
Q Consensus       298 ~~~g~~~~A~~~~~~m~~~~~~--p~~~t~~~l------------i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~y~~l  363 (833)
                      .+.|++++|...|+++.+....  .+...+..+            ...+...|++++|...++++.+... .+...+..+
T Consensus        82 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~  160 (359)
T 3ieg_A           82 LKQGKLDEAEDDFKKVLKSNPSEQEEKEAESQLVKADEMQRLRSQALDAFDGADYTAAITFLDKILEVCV-WDAELRELR  160 (359)
T ss_dssp             HHHTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHH
T ss_pred             HHcCChHHHHHHHHHHHhcCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCC-CchHHHHHH
Confidence            7777777777777777765210  133334333            4666777777777777777766532 246667777


Q ss_pred             HHHHHHcCChHHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCcccHHHHHHHHHhcCCh
Q 003295          364 IDGYCKKGNISEALKIRDDMVSKGMSPNSVTFNSLIHGFCKSGQMDNAENALEEMLSRGLSINQGAYTSVIKWLCINSRF  443 (833)
Q Consensus       364 i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~l~~~~~~g~~~~~~~~~~li~~~~~~g~~  443 (833)
                      ...+.+.|++++|.+.++++.+... .+..++..+...+...|++++|...++++.+.... +...+..+..        
T Consensus       161 ~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~~~~--------  230 (359)
T 3ieg_A          161 AECFIKEGEPRKAISDLKAASKLKS-DNTEAFYKISTLYYQLGDHELSLSEVRECLKLDQD-HKRCFAHYKQ--------  230 (359)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHTTCS-CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHH--------
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcc-chHHHHHHHH--------
Confidence            7777777777777777777776532 25667777777777777777777777777664221 1111111100        


Q ss_pred             hHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH----HHHHHHHHHHHhcCCHHHHHHH
Q 003295          444 NSALHFTKEMLLRNLRPGDGLLTLLVSGLCKNGKQAEATELCFRLFEKGFTVNT----VTSNALIHGMCEAGNLKEAGKL  519 (833)
Q Consensus       444 ~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~----~~~~~li~~~~~~g~~~~A~~~  519 (833)
                               +.      .......+...+.+.|++++|...++++.+.... +.    ..+..+...+.+.|++++|...
T Consensus       231 ---------~~------~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~la~~~~~~~~~~~A~~~  294 (359)
T 3ieg_A          231 ---------VK------KLNKLIESAEELIRDGRYTDATSKYESVMKTEPS-VAEYTVRSKERICHCFSKDEKPVEAIRI  294 (359)
T ss_dssp             ---------HH------HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCS-SHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             ---------HH------HHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC-chHHHHHHHHHHHHHHHHccCHHHHHHH
Confidence                     00      0001122344556666666666666666654322 22    2344566677777777777777


Q ss_pred             HHHHhhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 003295          520 LMEMLQRGLILDKVTYNTLILGCCKDGKPEEGFKLKEDMIKRGIQPDNYTYNLLLHGLC  578 (833)
Q Consensus       520 l~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~  578 (833)
                      +++..+..+. +...+..+...+.+.|++++|...++++++..+. +...+..+..+..
T Consensus       295 ~~~~~~~~~~-~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~p~-~~~~~~~l~~~~~  351 (359)
T 3ieg_A          295 CSEVLQMEPD-NVNALKDRAEAYLIEEMYDEAIQDYEAAQEHNEN-DQQIREGLEKAQR  351 (359)
T ss_dssp             HHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTT-CHHHHHHHHHHHH
T ss_pred             HHHHHHhCcc-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC-ChHHHHHHHHHHH
Confidence            7777665433 6667777777777777777777777777765322 4445555554443

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.84  E-value=3.1e-16  Score=174.76  Aligned_cols=395  Identities=12%  Similarity=0.018  Sum_probs=271.0

Q ss_pred             HHHHHHHHHHCCCCCChhhHHHHHHHHHH----cCChHHHHHHHHHHHhCCCCCChhHHHHHHHHHHh----cCChhHHH
Q 003295          341 ANFVLKEMSVRGFVPNYVVYNTLIDGYCK----KGNISEALKIRDDMVSKGMSPNSVTFNSLIHGFCK----SGQMDNAE  412 (833)
Q Consensus       341 A~~~~~~m~~~g~~p~~~~y~~li~~~~~----~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~----~g~~~~A~  412 (833)
                      +...++...+.|   |...+..|...|..    .+++++|...|++..+.|   +...+..|...|..    .++.++|.
T Consensus        26 ~~~~~~~~a~~g---~~~a~~~lg~~y~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~   99 (490)
T 2xm6_A           26 NLEQLKQKAESG---EAKAQLELGYRYFQGNETTKDLTQAMDWFRRAAEQG---YTPAEYVLGLRYMNGEGVPQDYAQAV   99 (490)
T ss_dssp             CHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHH
T ss_pred             HHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHH
Confidence            344555554432   55666666666666    677777777777766653   45566666666666    66777777


Q ss_pred             HHHHHHHHCCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHh----cCCHHHHHHHHHHH
Q 003295          413 NALEEMLSRGLSINQGAYTSVIKWLCINSRFNSALHFTKEMLLRNLRPGDGLLTLLVSGLCK----NGKQAEATELCFRL  488 (833)
Q Consensus       413 ~~l~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~----~g~~~~A~~~~~~~  488 (833)
                      +.|++..+.|   +...+..                                   +...|..    .+++++|...+++.
T Consensus       100 ~~~~~a~~~~---~~~a~~~-----------------------------------Lg~~y~~g~g~~~~~~~A~~~~~~a  141 (490)
T 2xm6_A          100 IWYKKAALKG---LPQAQQN-----------------------------------LGVMYHEGNGVKVDKAESVKWFRLA  141 (490)
T ss_dssp             HHHHHHHHTT---CHHHHHH-----------------------------------HHHHHHHTSSSCCCHHHHHHHHHHH
T ss_pred             HHHHHHHHCC---CHHHHHH-----------------------------------HHHHHHcCCCCCCCHHHHHHHHHHH
Confidence            7777666553   3333333                                   4444444    45566666666666


Q ss_pred             HHCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHh----cCChhhHHHHHHHHHH
Q 003295          489 FEKGFTVNTVTSNALIHGMCE----AGNLKEAGKLLMEMLQRGLILDKVTYNTLILGCCK----DGKPEEGFKLKEDMIK  560 (833)
Q Consensus       489 ~~~g~~~~~~~~~~li~~~~~----~g~~~~A~~~l~~m~~~g~~~~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~  560 (833)
                      .+.|   +...+..|...|..    .++.++|...|++..+.|   +...+..|...|..    .++.++|.+.|++..+
T Consensus       142 ~~~~---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~  215 (490)
T 2xm6_A          142 AEQG---RDSGQQSMGDAYFEGDGVTRDYVMAREWYSKAAEQG---NVWSCNQLGYMYSRGLGVERNDAISAQWYRKSAT  215 (490)
T ss_dssp             HHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHH
T ss_pred             HHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHhcCCCCCcCHHHHHHHHHHHHH
Confidence            5553   45566666666666    667777777777777764   56677777777776    6777888888887777


Q ss_pred             CCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHc----cCCHHHHHHHHHHHHHCC
Q 003295          561 RGIQPDNYTYNLLLHGLCS----LGKMEEAIELWEECKRTVFGPDIYTYGVMIDGFCK----ADKIEEGETLFNEMISKK  632 (833)
Q Consensus       561 ~g~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~----~g~~~~A~~~~~~~~~~~  632 (833)
                      .|   +...+..+...+..    .+++++|..+|++..+.|   +...+..+...|..    .++.++|...|++..+.+
T Consensus       216 ~~---~~~a~~~lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~~~~~d~~~A~~~~~~a~~~~  289 (490)
T 2xm6_A          216 SG---DELGQLHLADMYYFGIGVTQDYTQSRVLFSQSAEQG---NSIAQFRLGYILEQGLAGAKEPLKALEWYRKSAEQG  289 (490)
T ss_dssp             TT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHTTT---CHHHHHHHHHHHHHTTTSSCCHHHHHHHHHHHHTTT
T ss_pred             CC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHcC
Confidence            64   45666667777765    678888888888877654   45566666666666    788888888888887664


Q ss_pred             CccCHHHHHHHHHHHHHc-----CChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC---CHHHHHHHHHHHHHCCCC
Q 003295          633 MELNPVVYNTLIRAYCKI-----GNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIG---LIEDAKCLFDEMRKEGLL  704 (833)
Q Consensus       633 ~~~~~~~~~~li~~~~~~-----g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g---~~~~A~~~~~~m~~~g~~  704 (833)
                         ++..+..+...|...     +++++|+..+++..+.+   +...+..+...|...|   +.++|.++|++..+.|  
T Consensus       290 ---~~~a~~~Lg~~y~~~~~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~~g~~~~~~~A~~~~~~a~~~~--  361 (490)
T 2xm6_A          290 ---NSDGQYYLAHLYDKGAEGVAKNREQAISWYTKSAEQG---DATAQANLGAIYFRLGSEEEHKKAVEWFRKAAAKG--  361 (490)
T ss_dssp             ---CHHHHHHHHHHHHHCBTTBCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHSCCHHHHHHHHHHHHHHHHTT--
T ss_pred             ---CHHHHHHHHHHHHcCCCCCcCCHHHHHHHHHHHHhcC---CHHHHHHHHHHHHhCCCcccHHHHHHHHHHHHHCC--
Confidence               556777777777776     78888998888888765   4566777777777656   7888999999988864  


Q ss_pred             CChhHHHHHHHHHHh----cCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHcCCC-C
Q 003295          705 PNVACYTALIGGYCK----LGQMDEAESVLQEMASINIHPNKITYTIMIGGYCK----LGDMKEAAKLLNVMAEKGIS-P  775 (833)
Q Consensus       705 p~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~g~~-p  775 (833)
                       +...+..|...|..    .++.++|.+.|++..+.|   +...+..|...|..    .+++++|...|+++.+.|.. |
T Consensus       362 -~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~A~~~~---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~  437 (490)
T 2xm6_A          362 -EKAAQFNLGNALLQGKGVKKDEQQAAIWMRKAAEQG---LSAAQVQLGEIYYYGLGVERDYVQAWAWFDTASTNDMNLF  437 (490)
T ss_dssp             -CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHHHCCHH
T ss_pred             -CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHhCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCCCc
Confidence             56778888888887    789999999999988865   57788888888887    88999999999999886532 2


Q ss_pred             -CHHHHHHHHHHHhcCCCHHHHHHHHHHHHH
Q 003295          776 -DSITYNVFMDGHCKGGNVEEAFKVCDRMLS  805 (833)
Q Consensus       776 -~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  805 (833)
                       +......+...+.  .+.++|.+..++..+
T Consensus       438 ~~~~a~~~l~~~~~--~~~~~a~~~a~~~~~  466 (490)
T 2xm6_A          438 GTENRNITEKKLTA--KQLQQAELLSQQYIE  466 (490)
T ss_dssp             HHHHHHHHHTTSCH--HHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHhcCH--hHHHHHHHHHHHHHH
Confidence             3344444444333  233444444444444

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.83  E-value=4.3e-16  Score=173.63  Aligned_cols=354  Identities=13%  Similarity=0.030  Sum_probs=291.2

Q ss_pred             CcccHHHHHHHHHh----cCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHh----cCCHHHHHHHHHHHHHCCCCCCH
Q 003295          426 NQGAYTSVIKWLCI----NSRFNSALHFTKEMLLRNLRPGDGLLTLLVSGLCK----NGKQAEATELCFRLFEKGFTVNT  497 (833)
Q Consensus       426 ~~~~~~~li~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~----~g~~~~A~~~~~~~~~~g~~~~~  497 (833)
                      +...+..+...|..    .+++++|+..++.....|   +...+..+...|..    .++.++|.+.|++..+.|   +.
T Consensus        38 ~~~a~~~lg~~y~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~  111 (490)
T 2xm6_A           38 EAKAQLELGYRYFQGNETTKDLTQAMDWFRRAAEQG---YTPAEYVLGLRYMNGEGVPQDYAQAVIWYKKAALKG---LP  111 (490)
T ss_dssp             CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CH
T ss_pred             CHHHHHHHHHHHHcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CH
Confidence            33444444444444    455555555555555442   34455666667776    788888888888888764   67


Q ss_pred             HHHHHHHHHHHh----cCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHh----cCChhhHHHHHHHHHHCCCCCCHHH
Q 003295          498 VTSNALIHGMCE----AGNLKEAGKLLMEMLQRGLILDKVTYNTLILGCCK----DGKPEEGFKLKEDMIKRGIQPDNYT  569 (833)
Q Consensus       498 ~~~~~li~~~~~----~g~~~~A~~~l~~m~~~g~~~~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~g~~p~~~~  569 (833)
                      ..+..|...|..    .+++++|...|++..+.|   +...+..|...|..    .++.++|++.|++..+.|   +...
T Consensus       112 ~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~~~---~~~a  185 (490)
T 2xm6_A          112 QAQQNLGVMYHEGNGVKVDKAESVKWFRLAAEQG---RDSGQQSMGDAYFEGDGVTRDYVMAREWYSKAAEQG---NVWS  185 (490)
T ss_dssp             HHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHH
T ss_pred             HHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHH
Confidence            788889999988    889999999999999886   67788888888887    789999999999999875   6788


Q ss_pred             HHHHHHHHHh----cCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHc----cCCHHHHHHHHHHHHHCCCccCHHHHH
Q 003295          570 YNLLLHGLCS----LGKMEEAIELWEECKRTVFGPDIYTYGVMIDGFCK----ADKIEEGETLFNEMISKKMELNPVVYN  641 (833)
Q Consensus       570 ~~~li~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~~~  641 (833)
                      +..+...|..    .++.++|.++|++..+.|   +...+..+...|..    .+++++|...|++..+.+   +...+.
T Consensus       186 ~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~  259 (490)
T 2xm6_A          186 CNQLGYMYSRGLGVERNDAISAQWYRKSATSG---DELGQLHLADMYYFGIGVTQDYTQSRVLFSQSAEQG---NSIAQF  259 (490)
T ss_dssp             HHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHTTT---CHHHHH
T ss_pred             HHHHHHHHhcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHH
Confidence            8889999988    899999999999998865   66778888888876    889999999999998874   566777


Q ss_pred             HHHHHHHH----cCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc-----CCHHHHHHHHHHHHHCCCCCChhHHHH
Q 003295          642 TLIRAYCK----IGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNI-----GLIEDAKCLFDEMRKEGLLPNVACYTA  712 (833)
Q Consensus       642 ~li~~~~~----~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~-----g~~~~A~~~~~~m~~~g~~p~~~~~~~  712 (833)
                      .+...|..    .++.++|++.|++..+.|   +...+..+...|...     ++.++|..+|++..+.|   +...+..
T Consensus       260 ~lg~~y~~g~~~~~d~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~~~~g~~~~~~~A~~~~~~a~~~~---~~~a~~~  333 (490)
T 2xm6_A          260 RLGYILEQGLAGAKEPLKALEWYRKSAEQG---NSDGQYYLAHLYDKGAEGVAKNREQAISWYTKSAEQG---DATAQAN  333 (490)
T ss_dssp             HHHHHHHHTTTSSCCHHHHHHHHHHHHTTT---CHHHHHHHHHHHHHCBTTBCCCHHHHHHHHHHHHHTT---CHHHHHH
T ss_pred             HHHHHHHCCCCCCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHcCCCCCcCCHHHHHHHHHHHHhcC---CHHHHHH
Confidence            88888887    899999999999998875   566777888888887     89999999999999875   4567778


Q ss_pred             HHHHHHhcC---ChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 003295          713 LIGGYCKLG---QMDEAESVLQEMASINIHPNKITYTIMIGGYCK----LGDMKEAAKLLNVMAEKGISPDSITYNVFMD  785 (833)
Q Consensus       713 li~~~~~~g---~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~  785 (833)
                      +...|...|   +.++|.+.|++..+.|   +...+..+...|..    .+++++|.+.++++.+.|   +...+..|..
T Consensus       334 lg~~y~~~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~A~~~~---~~~a~~~Lg~  407 (490)
T 2xm6_A          334 LGAIYFRLGSEEEHKKAVEWFRKAAAKG---EKAAQFNLGNALLQGKGVKKDEQQAAIWMRKAAEQG---LSAAQVQLGE  407 (490)
T ss_dssp             HHHHHHHSCCHHHHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHH
T ss_pred             HHHHHHhCCCcccHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHhCC---CHHHHHHHHH
Confidence            888887766   7899999999999864   68889999999998    899999999999999975   6778899999


Q ss_pred             HHhc----CCCHHHHHHHHHHHHHCCCC
Q 003295          786 GHCK----GGNVEEAFKVCDRMLSEGLS  809 (833)
Q Consensus       786 ~~~~----~g~~~~A~~~~~~m~~~g~~  809 (833)
                      .|..    .++.++|..+|++..+.|..
T Consensus       408 ~y~~g~g~~~d~~~A~~~~~~A~~~~~~  435 (490)
T 2xm6_A          408 IYYYGLGVERDYVQAWAWFDTASTNDMN  435 (490)
T ss_dssp             HHHHTSSSCCCHHHHHHHHHHHHHHHCC
T ss_pred             HHHcCCCCCCCHHHHHHHHHHHHHCCCC
Confidence            9988    89999999999999997644

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.82  E-value=1.8e-16  Score=178.52  Aligned_cols=434  Identities=10%  Similarity=0.031  Sum_probs=260.3

Q ss_pred             HHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCC
Q 003295          206 FSIFSSKGIFPSLKTCNFLLNSLVKANEVQKGIEVFETMCRGVSPDVFLFSTAINAFCKRGRIEDAIGLFTKMEELGIAP  285 (833)
Q Consensus       206 f~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p  285 (833)
                      |+..++.++. +..+|..++. +.+.|++++|..+|++++.-.|.+...|...+..+.+.|++++|..+|+++...  .|
T Consensus         2 le~al~~~P~-~~~~w~~l~~-~~~~~~~~~a~~~~e~al~~~P~~~~~w~~~~~~~~~~~~~~~a~~~~~ral~~--~p   77 (530)
T 2ooe_A            2 AEKKLEENPY-DLDAWSILIR-EAQNQPIDKARKTYERLVAQFPSSGRFWKLYIEAEIKAKNYDKVEKLFQRCLMK--VL   77 (530)
T ss_dssp             HHHHHHHCTT-CHHHHHHHHH-HHHSSCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTT--CC
T ss_pred             hhhHhhhCCC-CHHHHHHHHH-HHHhCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhc--CC
Confidence            4444454444 6778888887 467888888888888888667777888888888888888888888888888875  36


Q ss_pred             ChhhHHHHHHHH-HhcCChhHHHH----HHHHHHhC-CCCC-ChhhHHHHHHHHHh---------cCChhHHHHHHHHHH
Q 003295          286 NVVTYNNIIHGL-CRNGRLYEAFH----LKEKMVLR-EVEP-SLITYSILINGLIK---------LEKFDDANFVLKEMS  349 (833)
Q Consensus       286 ~~~~~~~li~~~-~~~g~~~~A~~----~~~~m~~~-~~~p-~~~t~~~li~~~~~---------~g~~~~A~~~~~~m~  349 (833)
                      ++..|..++... ...|++++|.+    +|++.... |..| +...|...+....+         .|++++|..+|++..
T Consensus        78 ~~~lw~~~~~~~~~~~~~~~~a~~~~~~~~~~al~~~g~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~~a~~~y~~al  157 (530)
T 2ooe_A           78 HIDLWKCYLSYVRETKGKLPSYKEKMAQAYDFALDKIGMEIMSYQIWVDYINFLKGVEAVGSYAENQRITAVRRVYQRGC  157 (530)
T ss_dssp             CHHHHHHHHHHHHHHTTTSTTHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHSCCCSSTTHHHHHHHHHHHHHHHT
T ss_pred             ChHHHHHHHHHHHHHccchhhHHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHhcCCCcccHHHHhHHHHHHHHHHHHH
Confidence            766676666433 34577777665    66655432 3333 34566666655443         456666666666666


Q ss_pred             HCCCCCCh---hhHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHH------H
Q 003295          350 VRGFVPNY---VVYNTLIDGYCKKGNISEALKIRDDMVSKGMSPNSVTFNSLIHGFCKSGQMDNAENALEEML------S  420 (833)
Q Consensus       350 ~~g~~p~~---~~y~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~l~~~~------~  420 (833)
                      +.   |+.   ..|.......-..|.                    .+...++.  -+.+++++|..++.++.      +
T Consensus       158 ~~---P~~~~~~~~~~~~~~e~~~~~--------------------~~~~~~l~--~~~~~~~~A~~~~~~~~~~~~~l~  212 (530)
T 2ooe_A          158 VN---PMINIEQLWRDYNKYEEGINI--------------------HLAKKMIE--DRSRDYMNARRVAKEYETVMKGLD  212 (530)
T ss_dssp             TS---CCTTHHHHHHHHHHHHHHHCH--------------------HHHHHHHH--TTHHHHHHHHHHHHHHHHHHHHCC
T ss_pred             hc---hhhhHHHHHHHHHHHHHhhch--------------------hHHHHHHH--HhhHHHHHHHHHHHHHHHHHHHhc
Confidence            52   221   122111110000000                    00001110  01234455555544422      1


Q ss_pred             CC---CCCCcc-cHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHh----cCCH----HHHHHHHHHH
Q 003295          421 RG---LSINQG-AYTSVIKWLCINSRFNSALHFTKEMLLRNLRPGDGLLTLLVSGLCK----NGKQ----AEATELCFRL  488 (833)
Q Consensus       421 ~g---~~~~~~-~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~----~g~~----~~A~~~~~~~  488 (833)
                      ..   ++|+.. .+.             ...               ..+...+.....    .++.    +++...|++.
T Consensus       213 ~~~~~~~p~~~~~~~-------------~~~---------------~~w~~~~~~e~~~~~~~~~~~~~~~~a~~~y~~a  264 (530)
T 2ooe_A          213 RNAPSVPPQNTPQEA-------------QQV---------------DMWKKYIQWEKSNPLRTEDQTLITKRVMFAYEQC  264 (530)
T ss_dssp             SSSCCCCCC--CCHH-------------HHH---------------HHHHHHHHHHHHCSSCCSCSHHHHHHHHHHHHHH
T ss_pred             cccccCCCCCChhHH-------------HHH---------------HHHHHHHHHHHcCCccCCcchhHHHHHHHHHHHH
Confidence            10   111100 000             000               111111111111    1122    3556667666


Q ss_pred             HHCCCCCCHHHHHHHHHHHHh-------cCCHH-------HHHHHHHHHhh-CCCCCCHHHHHHHHHHHHhcCChhhHHH
Q 003295          489 FEKGFTVNTVTSNALIHGMCE-------AGNLK-------EAGKLLMEMLQ-RGLILDKVTYNTLILGCCKDGKPEEGFK  553 (833)
Q Consensus       489 ~~~g~~~~~~~~~~li~~~~~-------~g~~~-------~A~~~l~~m~~-~g~~~~~~~~~~li~~~~~~g~~~~A~~  553 (833)
                      +.. .+.+...|..++..+.+       .|+++       +|..+|++..+ ..+ -+...|..++..+.+.|++++|..
T Consensus       265 l~~-~p~~~~~w~~~~~~~~~~~~~~~~~g~~~~a~~~~~~A~~~~~~Al~~~~p-~~~~l~~~~~~~~~~~g~~~~A~~  342 (530)
T 2ooe_A          265 LLV-LGHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLK-KNMLLYFAYADYEESRMKYEKVHS  342 (530)
T ss_dssp             HHH-HTTCHHHHHHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHHHHHTTTTCS-SCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHh-CCCCHHHHHHHHHHHHHhchhhhhccchhhhhhhhHHHHHHHHHHHHHhCc-ccHHHHHHHHHHHHhcCCHHHHHH
Confidence            665 23466777777777665       57766       78888888776 322 257777778888888888888888


Q ss_pred             HHHHHHHCCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHH-HHccCCHHHHHHHHHHHHHC
Q 003295          554 LKEDMIKRGIQPD-NYTYNLLLHGLCSLGKMEEAIELWEECKRTVFGPDIYTYGVMIDG-FCKADKIEEGETLFNEMISK  631 (833)
Q Consensus       554 ~~~~m~~~g~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~-~~~~g~~~~A~~~~~~~~~~  631 (833)
                      +|+++++.... + ...|..++..+.+.|++++|.++|++..+.. +.+...|...+.. +...|+.++|..+|+..++.
T Consensus       343 ~~~~al~~~p~-~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al~~~-~~~~~~~~~~a~~~~~~~~~~~~A~~~~e~al~~  420 (530)
T 2ooe_A          343 IYNRLLAIEDI-DPTLVYIQYMKFARRAEGIKSGRMIFKKAREDA-RTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKK  420 (530)
T ss_dssp             HHHHHHHSSSS-CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCT-TCCTHHHHHHHHHHHHHTCCHHHHHHHHHHHHHH
T ss_pred             HHHHHhCcccc-CchHHHHHHHHHHHHhcCHHHHHHHHHHHHhcc-CCchHHHHHHHHHHHHHcCChhHHHHHHHHHHHH
Confidence            88888875322 3 2467777777777888888888888877652 1122223222222 33578888888888888776


Q ss_pred             CCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCC-CC--CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 003295          632 KMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGI-LP--TSVTYSSLIHGLCNIGLIEDAKCLFDEMRKE  701 (833)
Q Consensus       632 ~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~-~p--~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  701 (833)
                      .+. ++..|..++..+.+.|+.++|..+|++....+. .|  ....|...+......|+.+.+..++.++.+.
T Consensus       421 ~p~-~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~~~~~~~~~~~lw~~~~~~e~~~G~~~~~~~~~~r~~~~  492 (530)
T 2ooe_A          421 YGD-IPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRFTA  492 (530)
T ss_dssp             HTT-CHHHHHHHHHHHTTTTCHHHHHHHHHHHHHSCCSCGGGCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHH
T ss_pred             CCC-CHHHHHHHHHHHHhCCCHhhHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            443 677888888888888888888888888887632 22  2336767777777788888888888888764

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.82  E-value=2.3e-16  Score=177.80  Aligned_cols=416  Identities=11%  Similarity=0.086  Sum_probs=270.7

Q ss_pred             hhHHHHHHHHHHhhhccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHhhcCCCCCHHHHHHHHH
Q 003295          181 QIADLLVHVYCTQFKNLGFGYAIDVFSIFSSKGIFPSLKTCNFLLNSLVKANEVQKGIEVFETMCRGVSPDVFLFSTAIN  260 (833)
Q Consensus       181 ~~~~~l~~~~~~~~~~~~~~~A~~~f~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~  260 (833)
                      ..+..++. +.   +.|+++.|..+|+++.+..+. +...|...+..+.+.|++++|..+|++++... |++..|...+.
T Consensus        14 ~~w~~l~~-~~---~~~~~~~a~~~~e~al~~~P~-~~~~w~~~~~~~~~~~~~~~a~~~~~ral~~~-p~~~lw~~~~~   87 (530)
T 2ooe_A           14 DAWSILIR-EA---QNQPIDKARKTYERLVAQFPS-SGRFWKLYIEAEIKAKNYDKVEKLFQRCLMKV-LHIDLWKCYLS   87 (530)
T ss_dssp             HHHHHHHH-HH---HSSCHHHHHHHHHHHHTTCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHTTTC-CCHHHHHHHHH
T ss_pred             HHHHHHHH-HH---HhCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcC-CChHHHHHHHH
Confidence            34445555 23   578999999999999987654 78899999999999999999999999999644 58888887775


Q ss_pred             HH-HhcCChhHHHH----HHHHHHHc-CCCC-ChhhHHHHHHHHHh---------cCChhHHHHHHHHHHhCCCCCCh--
Q 003295          261 AF-CKRGRIEDAIG----LFTKMEEL-GIAP-NVVTYNNIIHGLCR---------NGRLYEAFHLKEKMVLREVEPSL--  322 (833)
Q Consensus       261 ~~-~~~g~~~~A~~----~~~~m~~~-g~~p-~~~~~~~li~~~~~---------~g~~~~A~~~~~~m~~~~~~p~~--  322 (833)
                      .. ...|++++|.+    +|++.... |..| +...|...+....+         .|++++|+.+|++..+.   |+.  
T Consensus        88 ~~~~~~~~~~~a~~~~~~~~~~al~~~g~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~~a~~~y~~al~~---P~~~~  164 (530)
T 2ooe_A           88 YVRETKGKLPSYKEKMAQAYDFALDKIGMEIMSYQIWVDYINFLKGVEAVGSYAENQRITAVRRVYQRGCVN---PMINI  164 (530)
T ss_dssp             HHHHHTTTSTTHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHSCCCSSTTHHHHHHHHHHHHHHHTTS---CCTTH
T ss_pred             HHHHHccchhhHHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHhcCCCcccHHHHhHHHHHHHHHHHHHhc---hhhhH
Confidence            33 45688888776    77776543 5444 45678888877655         68999999999999873   332  


Q ss_pred             -hhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHHcCChHHHHHHHHHH------HhCC---CCCC-
Q 003295          323 -ITYSILINGLIKLEKFDDANFVLKEMSVRGFVPNYVVYNTLIDGYCKKGNISEALKIRDDM------VSKG---MSPN-  391 (833)
Q Consensus       323 -~t~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~A~~~~~~m------~~~g---~~p~-  391 (833)
                       ..|..........|.                    .+...++.  .+.+++++|..++.++      .+..   +.|+ 
T Consensus       165 ~~~~~~~~~~e~~~~~--------------------~~~~~~l~--~~~~~~~~A~~~~~~~~~~~~~l~~~~~~~~p~~  222 (530)
T 2ooe_A          165 EQLWRDYNKYEEGINI--------------------HLAKKMIE--DRSRDYMNARRVAKEYETVMKGLDRNAPSVPPQN  222 (530)
T ss_dssp             HHHHHHHHHHHHHHCH--------------------HHHHHHHH--TTHHHHHHHHHHHHHHHHHHHHCCSSSCCCCCC-
T ss_pred             HHHHHHHHHHHHhhch--------------------hHHHHHHH--HhhHHHHHHHHHHHHHHHHHHHhccccccCCCCC
Confidence             233322221101110                    11111111  1234566666666552      2221   2333 


Q ss_pred             -------hhHHHHHHHHHHhc----CCh----hHHHHHHHHHHHCCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHHC
Q 003295          392 -------SVTFNSLIHGFCKS----GQM----DNAENALEEMLSRGLSINQGAYTSVIKWLCINSRFNSALHFTKEMLLR  456 (833)
Q Consensus       392 -------~~~~~~li~~~~~~----g~~----~~A~~~l~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~  456 (833)
                             ...|...+......    ++.    ++|..+|+++... .+.+..                            
T Consensus       223 ~~~~~~~~~~w~~~~~~e~~~~~~~~~~~~~~~~a~~~y~~al~~-~p~~~~----------------------------  273 (530)
T 2ooe_A          223 TPQEAQQVDMWKKYIQWEKSNPLRTEDQTLITKRVMFAYEQCLLV-LGHHPD----------------------------  273 (530)
T ss_dssp             -CCHHHHHHHHHHHHHHHHHCSSCCSCSHHHHHHHHHHHHHHHHH-HTTCHH----------------------------
T ss_pred             ChhHHHHHHHHHHHHHHHHcCCccCCcchhHHHHHHHHHHHHHHh-CCCCHH----------------------------
Confidence                   12343333222211    111    2444555555443 122233                            


Q ss_pred             CCCCChhhHHHHHHHHHh-------cCCHH-------HHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 003295          457 NLRPGDGLLTLLVSGLCK-------NGKQA-------EATELCFRLFEKGFTVNTVTSNALIHGMCEAGNLKEAGKLLME  522 (833)
Q Consensus       457 ~~~~~~~~~~~li~~~~~-------~g~~~-------~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~l~~  522 (833)
                             .+..++..+.+       .|+++       +|..++++.++.-.+.+...|..++..+.+.|++++|..+|++
T Consensus       274 -------~w~~~~~~~~~~~~~~~~~g~~~~a~~~~~~A~~~~~~Al~~~~p~~~~l~~~~~~~~~~~g~~~~A~~~~~~  346 (530)
T 2ooe_A          274 -------IWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNR  346 (530)
T ss_dssp             -------HHHHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             -------HHHHHHHHHHHhchhhhhccchhhhhhhhHHHHHHHHHHHHHhCcccHHHHHHHHHHHHhcCCHHHHHHHHHH
Confidence                   33333333332       45554       7777777777632344677888888888888888888888888


Q ss_pred             HhhCCCCCC-HHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHH-HHhcCCHHHHHHHHHHHhhCCCCC
Q 003295          523 MLQRGLILD-KVTYNTLILGCCKDGKPEEGFKLKEDMIKRGIQPDNYTYNLLLHG-LCSLGKMEEAIELWEECKRTVFGP  600 (833)
Q Consensus       523 m~~~g~~~~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~-~~~~g~~~~A~~~~~~~~~~~~~~  600 (833)
                      +.+..+. + ...|..++..+.+.|+.++|.++|++.++.... +...+...+.. +...|+.++|..+|+...+.. +.
T Consensus       347 al~~~p~-~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al~~~~~-~~~~~~~~a~~~~~~~~~~~~A~~~~e~al~~~-p~  423 (530)
T 2ooe_A          347 LLAIEDI-DPTLVYIQYMKFARRAEGIKSGRMIFKKAREDART-RHHVYVTAALMEYYCSKDKSVAFKIFELGLKKY-GD  423 (530)
T ss_dssp             HHHSSSS-CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCTTC-CTHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHH-TT
T ss_pred             HhCcccc-CchHHHHHHHHHHHHhcCHHHHHHHHHHHHhccCC-chHHHHHHHHHHHHHcCChhHHHHHHHHHHHHC-CC
Confidence            8876433 3 357888888888888888888888888876322 22333222222 335788899999998887653 34


Q ss_pred             CHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCc-c--CHHHHHHHHHHHHHcCChHHHHHHHHHHHhC
Q 003295          601 DIYTYGVMIDGFCKADKIEEGETLFNEMISKKME-L--NPVVYNTLIRAYCKIGNTTAAFRLSNDMKSR  666 (833)
Q Consensus       601 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~-~--~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  666 (833)
                      +...|..++..+.+.|+.++|..+|++.+..++. |  ....|...+......|+.+.+..+++++.+.
T Consensus       424 ~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~~~~~~~~~~~lw~~~~~~e~~~G~~~~~~~~~~r~~~~  492 (530)
T 2ooe_A          424 IPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRFTA  492 (530)
T ss_dssp             CHHHHHHHHHHHTTTTCHHHHHHHHHHHHHSCCSCGGGCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHhCCCHhhHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            5778888888888889999999999988886432 2  2457888888888889999998888888765

>3hym_B Cell division cycle protein 16 homolog; APC, anaphase promoting complex, cell cycle, mitosis, cyclosome, TPR, ubiquitin, ubiquitin ligase, twinning; 2.80A {Homo sapiens}

Probab=99.82  E-value=2e-17  Score=173.96  Aligned_cols=289  Identities=12%  Similarity=-0.011  Sum_probs=167.1

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 003295          497 TVTSNALIHGMCEAGNLKEAGKLLMEMLQRGLILDKVTYNTLILGCCKDGKPEEGFKLKEDMIKRGIQPDNYTYNLLLHG  576 (833)
Q Consensus       497 ~~~~~~li~~~~~~g~~~~A~~~l~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~  576 (833)
                      ...+..++..+...|++++|..+|+++.+..+. +...+..++..+...|++++|...++++++.... +...+..+...
T Consensus        22 ~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~-~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~   99 (330)
T 3hym_B           22 LDVVVSLAERHYYNCDFKMCYKLTSVVMEKDPF-HASCLPVHIGTLVELNKANELFYLSHKLVDLYPS-NPVSWFAVGCY   99 (330)
T ss_dssp             CTTHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-STHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-ChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhCcC-CHHHHHHHHHH
Confidence            333444444444555555555555555444332 3333444444455555555555555555544222 34445555555


Q ss_pred             HHhcC-CHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHH
Q 003295          577 LCSLG-KMEEAIELWEECKRTVFGPDIYTYGVMIDGFCKADKIEEGETLFNEMISKKMELNPVVYNTLIRAYCKIGNTTA  655 (833)
Q Consensus       577 ~~~~g-~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  655 (833)
                      +...| ++++|.+.|+++.+.. +.+...+..+...+...|++++|...++++.+..+. +...+..+...+...|++++
T Consensus       100 ~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~~~~~~  177 (330)
T 3hym_B          100 YLMVGHKNEHARRYLSKATTLE-KTYGPAWIAYGHSFAVESEHDQAMAAYFTAAQLMKG-CHLPMLYIGLEYGLTNNSKL  177 (330)
T ss_dssp             HHHSCSCHHHHHHHHHHHHTTC-TTCTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTT-CSHHHHHHHHHHHHTTCHHH
T ss_pred             HHHhhhhHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhccc-cHHHHHHHHHHHHHHhhHHH
Confidence            55555 5555555555555432 223444555555566666666666666665554333 34445556666666666666


Q ss_pred             HHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC--------CCCChhHHHHHHHHHHhcCChhHHH
Q 003295          656 AFRLSNDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEG--------LLPNVACYTALIGGYCKLGQMDEAE  727 (833)
Q Consensus       656 A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g--------~~p~~~~~~~li~~~~~~g~~~~A~  727 (833)
                      |.+.+++..+.. +.+...+..+...+...|++++|...++++.+..        .+.+..++..+...+.+.|++++|.
T Consensus       178 A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~  256 (330)
T 3hym_B          178 AERFFSQALSIA-PEDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKYAEAL  256 (330)
T ss_dssp             HHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHhC-CCChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhcCHHHHH
Confidence            666666666553 3355666666666777777777777776666531        1223456777777777777777777


Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHH-hcCCCH
Q 003295          728 SVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISP-DSITYNVFMDGH-CKGGNV  793 (833)
Q Consensus       728 ~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~~~~~l~~~~-~~~g~~  793 (833)
                      ..++++.+.. +.+...|..++.+|.+.|++++|.+.++++.+.  .| +...+..+..++ ...|+.
T Consensus       257 ~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~~g~~  321 (330)
T 3hym_B          257 DYHRQALVLI-PQNASTYSAIGYIHSLMGNFENAVDYFHTALGL--RRDDTFSVTMLGHCIEMYIGDS  321 (330)
T ss_dssp             HHHHHHHHHS-TTCSHHHHHHHHHHHHHTCHHHHHHHHHTTTTT--CSCCHHHHHHHHHHHHTTTTC-
T ss_pred             HHHHHHHhhC-ccchHHHHHHHHHHHHhccHHHHHHHHHHHHcc--CCCchHHHHHHHHHHHHHhCch
Confidence            7777777643 445667777777777777888887777777763  34 566677777766 455554

>3hym_B Cell division cycle protein 16 homolog; APC, anaphase promoting complex, cell cycle, mitosis, cyclosome, TPR, ubiquitin, ubiquitin ligase, twinning; 2.80A {Homo sapiens}

Probab=99.82  E-value=1.2e-17  Score=175.67  Aligned_cols=285  Identities=12%  Similarity=0.011  Sum_probs=143.1

Q ss_pred             ChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHH
Q 003295          461 GDGLLTLLVSGLCKNGKQAEATELCFRLFEKGFTVNTVTSNALIHGMCEAGNLKEAGKLLMEMLQRGLILDKVTYNTLIL  540 (833)
Q Consensus       461 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~l~~m~~~g~~~~~~~~~~li~  540 (833)
                      +...+..++..+...|++++|.++++++.+... .+...+..++..+...|++++|...++++.+..+. +...|..+..
T Consensus        21 ~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p-~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~   98 (330)
T 3hym_B           21 NLDVVVSLAERHYYNCDFKMCYKLTSVVMEKDP-FHASCLPVHIGTLVELNKANELFYLSHKLVDLYPS-NPVSWFAVGC   98 (330)
T ss_dssp             CCTTHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-STHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCC-CChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhCcC-CHHHHHHHHH
Confidence            334444555555555555555555555554422 23334444445555555555555555555554333 4445555555


Q ss_pred             HHHhcC-ChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHccCCHH
Q 003295          541 GCCKDG-KPEEGFKLKEDMIKRGIQPDNYTYNLLLHGLCSLGKMEEAIELWEECKRTVFGPDIYTYGVMIDGFCKADKIE  619 (833)
Q Consensus       541 ~~~~~g-~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~  619 (833)
                      .+...| ++++|...++++++.... +...+..+...+...|++++|...++++.+.. +.+...+..+...|...|+++
T Consensus        99 ~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~  176 (330)
T 3hym_B           99 YYLMVGHKNEHARRYLSKATTLEKT-YGPAWIAYGHSFAVESEHDQAMAAYFTAAQLM-KGCHLPMLYIGLEYGLTNNSK  176 (330)
T ss_dssp             HHHHSCSCHHHHHHHHHHHHTTCTT-CTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHT-TTCSHHHHHHHHHHHHTTCHH
T ss_pred             HHHHhhhhHHHHHHHHHHHHHhCCc-cHHHHHHHHHHHHHccCHHHHHHHHHHHHHhc-cccHHHHHHHHHHHHHHhhHH
Confidence            555555 555555555555544322 34445555555555555555555555555432 122334444555555555555


Q ss_pred             HHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCC--------CCCCHHHHHHHHHHHHhcCCHHHH
Q 003295          620 EGETLFNEMISKKMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRG--------ILPTSVTYSSLIHGLCNIGLIEDA  691 (833)
Q Consensus       620 ~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~--------~~p~~~~~~~li~~~~~~g~~~~A  691 (833)
                      +|...++++.+..+. +...+..+...+...|++++|...+++..+..        .+....++..+...+...|++++|
T Consensus       177 ~A~~~~~~al~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A  255 (330)
T 3hym_B          177 LAERFFSQALSIAPE-DPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKYAEA  255 (330)
T ss_dssp             HHHHHHHHHHTTCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHhCCC-ChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhcCHHHH
Confidence            555555555554332 44555555555555555555555555554321        022234455555555555555555


Q ss_pred             HHHHHHHHHCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 003295          692 KCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGY  752 (833)
Q Consensus       692 ~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~  752 (833)
                      ...++++.+.. +.+...+..+...+.+.|++++|.+.++++.+.. +.+...+..+..++
T Consensus       256 ~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~  314 (330)
T 3hym_B          256 LDYHRQALVLI-PQNASTYSAIGYIHSLMGNFENAVDYFHTALGLR-RDDTFSVTMLGHCI  314 (330)
T ss_dssp             HHHHHHHHHHS-TTCSHHHHHHHHHHHHHTCHHHHHHHHHTTTTTC-SCCHHHHHHHHHHH
T ss_pred             HHHHHHHHhhC-ccchHHHHHHHHHHHHhccHHHHHHHHHHHHccC-CCchHHHHHHHHHH
Confidence            55555555432 2234455555555555555555555555555432 33444555555444

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.79  E-value=1.2e-19  Score=203.57  Aligned_cols=120  Identities=13%  Similarity=0.125  Sum_probs=79.7

Q ss_pred             CHHHHHHHHHHHHhcCChhHHHHHHHHHHH---cCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHH
Q 003295          251 DVFLFSTAINAFCKRGRIEDAIGLFTKMEE---LGIAPNVVTYNNIIHGLCRNGRLYEAFHLKEKMVLREVEPSLITYSI  327 (833)
Q Consensus       251 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~---~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~  327 (833)
                      -..|||++|++||+.|++++|.++|.+|.+   .|+.||++|||+||++||+.|++++|.++|++|.+.|+.||++|||+
T Consensus       126 ~~~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvvTYnt  205 (1134)
T 3spa_A          126 QQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAA  205 (1134)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHH
Confidence            345666666666666666666666666543   35666777777777777777777777777777766666677777777


Q ss_pred             HHHHHHhcCCh-hHHHHHHHHHHHCCCCCChhhHHHHHHHHHHc
Q 003295          328 LINGLIKLEKF-DDANFVLKEMSVRGFVPNYVVYNTLIDGYCKK  370 (833)
Q Consensus       328 li~~~~~~g~~-~~A~~~~~~m~~~g~~p~~~~y~~li~~~~~~  370 (833)
                      ||+++|+.|+. ++|.++|++|.++|+.||.++|++++.++.+.
T Consensus       206 LI~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~  249 (1134)
T 3spa_A          206 ALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRA  249 (1134)
T ss_dssp             HHHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHH
T ss_pred             HHHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhHH
Confidence            77776666663 56666677776667667777776666555444

>1b89_A Protein (clathrin heavy chain); triskelion, coated vesicles, endocytosis, SELF- assembly, alpha-alpha superhelix; 2.60A {Bos taurus} SCOP: a.118.1.3

Probab=99.78  E-value=1.3e-17  Score=174.10  Aligned_cols=282  Identities=13%  Similarity=0.115  Sum_probs=132.0

Q ss_pred             hccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHH
Q 003295          195 KNLGFGYAIDVFSIFSSKGIFPSLKTCNFLLNSLVKANEVQKGIEVFETMCRGVSPDVFLFSTAINAFCKRGRIEDAIGL  274 (833)
Q Consensus       195 ~~~~~~~A~~~f~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~  274 (833)
                      +.|++++|.+.++++.      ...+|..|..++.+.|++++|++.|.+.     +|..+|..++.++...|++++|...
T Consensus        15 ~~~~ld~A~~fae~~~------~~~vWs~La~A~l~~g~~~eAIdsfika-----~D~~~y~~V~~~ae~~g~~EeAi~y   83 (449)
T 1b89_A           15 HIGNLDRAYEFAERCN------EPAVWSQLAKAQLQKGMVKEAIDSYIKA-----DDPSSYMEVVQAANTSGNWEELVKY   83 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HccCHHHHHHHHHhCC------ChHHHHHHHHHHHHcCCHHHHHHHHHcC-----CCHHHHHHHHHHHHhCCCHHHHHHH
Confidence            3567889999998872      3459999999999999999999999653     6777899999999999999999998


Q ss_pred             HHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCC
Q 003295          275 FTKMEELGIAPNVVTYNNIIHGLCRNGRLYEAFHLKEKMVLREVEPSLITYSILINGLIKLEKFDDANFVLKEMSVRGFV  354 (833)
Q Consensus       275 ~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~g~~  354 (833)
                      ++...+.  .+++.+.+.++.+|.+.|+++++.++++       .|+..+|+.++..|...|++++|...|..+      
T Consensus        84 l~~ark~--~~~~~i~~~Li~~Y~Klg~l~e~e~f~~-------~pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a------  148 (449)
T 1b89_A           84 LQMARKK--ARESYVETELIFALAKTNRLAELEEFIN-------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV------  148 (449)
T ss_dssp             ---------------------------CHHHHTTTTT-------CC----------------CTTTHHHHHHHT------
T ss_pred             HHHHHHh--CccchhHHHHHHHHHHhCCHHHHHHHHc-------CCcHHHHHHHHHHHHHcCCHHHHHHHHHHh------
Confidence            8777764  4567889999999999999999988874       377789999999999999999999999977      


Q ss_pred             CChhhHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCcccHHHHH
Q 003295          355 PNYVVYNTLIDGYCKKGNISEALKIRDDMVSKGMSPNSVTFNSLIHGFCKSGQMDNAENALEEMLSRGLSINQGAYTSVI  434 (833)
Q Consensus       355 p~~~~y~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~l~~~~~~g~~~~~~~~~~li  434 (833)
                         ..|..|+.++++.|++++|.+.++++      .+..+|..++.+|+..|+++.|......     +..++.-...++
T Consensus       149 ---~n~~~LA~~L~~Lg~yq~AVea~~KA------~~~~~Wk~v~~aCv~~~ef~lA~~~~l~-----L~~~ad~l~~lv  214 (449)
T 1b89_A          149 ---SNFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQMCGLH-----IVVHADELEELI  214 (449)
T ss_dssp             ---TCHHHHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHHHHHHHHTTCHHHHHHTTTT-----TTTCHHHHHHHH
T ss_pred             ---hhHHHHHHHHHHhccHHHHHHHHHHc------CCchhHHHHHHHHHHcCcHHHHHHHHHH-----HHhCHhhHHHHH
Confidence               36999999999999999999999988      2788999999999999999999654443     223444466788


Q ss_pred             HHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhc--CCHHHHHHHHHHHHHCCCCC------CHHHHHHHHHH
Q 003295          435 KWLCINSRFNSALHFTKEMLLRNLRPGDGLLTLLVSGLCKN--GKQAEATELCFRLFEKGFTV------NTVTSNALIHG  506 (833)
Q Consensus       435 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~--g~~~~A~~~~~~~~~~g~~~------~~~~~~~li~~  506 (833)
                      ..|.+.|++++|+.+++..+... +.....++-+...|++-  +++.+.++.|..-+  .+++      +...|..+...
T Consensus       215 ~~Yek~G~~eEai~lLe~aL~le-~ah~~~ftel~il~~ky~p~k~~ehl~~~~~~i--ni~k~~~~~~~~~~w~e~~~l  291 (449)
T 1b89_A          215 NYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSKFKPQKMREHLELFWSRV--NIPKVLRAAEQAHLWAELVFL  291 (449)
T ss_dssp             HHHHHTTCHHHHHHHHHHHTTST-TCCHHHHHHHHHHHHTTCHHHHHHHHHHHSTTS--CHHHHHHHHHTTTCHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHhCCc-HHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHh--cCcHHHHHHHHHHHHHHHHHH
Confidence            88999999999999999888665 45566777777666654  34555555554321  2222      45678888888


Q ss_pred             HHhcCCHHHHHHH
Q 003295          507 MCEAGNLKEAGKL  519 (833)
Q Consensus       507 ~~~~g~~~~A~~~  519 (833)
                      |.+.++++.|...
T Consensus       292 y~~~~e~d~A~~t  304 (449)
T 1b89_A          292 YDKYEEYDNAIIT  304 (449)
T ss_dssp             HHHTTCHHHHHHH
T ss_pred             HHhhchHHHHHHH
Confidence            8888999888764

>1fch_A Peroxisomal targeting signal 1 receptor; protein-peptide complex, tetratricopeptide repeat, TPR, helical repeat, signaling protein; 2.20A {Homo sapiens} SCOP: a.118.8.1 PDB: 2j9q_A 3imz_B* 3r9a_B* 2c0m_A 2c0l_A

Probab=99.78  E-value=2.2e-17  Score=176.81  Aligned_cols=305  Identities=10%  Similarity=-0.087  Sum_probs=187.4

Q ss_pred             cCCHHHHHH-HHHHHHHCCC---CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCChhh
Q 003295          475 NGKQAEATE-LCFRLFEKGF---TVNTVTSNALIHGMCEAGNLKEAGKLLMEMLQRGLILDKVTYNTLILGCCKDGKPEE  550 (833)
Q Consensus       475 ~g~~~~A~~-~~~~~~~~g~---~~~~~~~~~li~~~~~~g~~~~A~~~l~~m~~~g~~~~~~~~~~li~~~~~~g~~~~  550 (833)
                      .|++++|.+ .+++..+...   ..+...+..+...+.+.|++++|...|+++.+..+. +...+..+...+.+.|++++
T Consensus        38 ~~~~~~a~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~  116 (368)
T 1fch_A           38 LSDYDDLTSATYDKGYQFEEENPLRDHPQPFEEGLRRLQEGDLPNAVLLFEAAVQQDPK-HMEAWQYLGTTQAENEQELL  116 (368)
T ss_dssp             --------CHHHHCCCCCCSSCTTTTCSSHHHHHHHHHHTTCHHHHHHHHHHHHHSCTT-CHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHhhhhhHHHhcCCCCcccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCcCHHH
Confidence            355555555 5554433211   112345566666677777777777777777666544 56666666777777777777


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHHHH
Q 003295          551 GFKLKEDMIKRGIQPDNYTYNLLLHGLCSLGKMEEAIELWEECKRTVFGPDIYTYGVMIDGFCKADKIEEGETLFNEMIS  630 (833)
Q Consensus       551 A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~  630 (833)
                      |...++++++.... +..++..+...+...|++++|...++++.+.... +...+..+..       ....         
T Consensus       117 A~~~~~~al~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~~~~-------~~~~---------  178 (368)
T 1fch_A          117 AISALRRCLELKPD-NQTALMALAVSFTNESLQRQACEILRDWLRYTPA-YAHLVTPAEE-------GAGG---------  178 (368)
T ss_dssp             HHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSTT-TGGGCC------------------------
T ss_pred             HHHHHHHHHhcCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcC-cHHHHHHHHH-------Hhhh---------
Confidence            77777776665432 5666666666777777777777777766654311 1111111100       0000         


Q ss_pred             CCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhH
Q 003295          631 KKMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILP-TSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVAC  709 (833)
Q Consensus       631 ~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~  709 (833)
                        .. ....+..+.. +...|++++|...++++.+..... +..++..+...+...|++++|...++++.+.. +.+...
T Consensus       179 --~~-~~~~~~~~~~-~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~  253 (368)
T 1fch_A          179 --AG-LGPSKRILGS-LLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVR-PNDYLL  253 (368)
T ss_dssp             ----------CTTHH-HHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHH
T ss_pred             --hc-ccHHHHHHHH-HhhcccHHHHHHHHHHHHHhCcCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHH
Confidence              00 0011112222 236777888888888777653221 46777778888888888888888888887752 335677


Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC----------CHHH
Q 003295          710 YTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISP----------DSIT  779 (833)
Q Consensus       710 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p----------~~~~  779 (833)
                      |..+...+.+.|++++|...++++.+.. +.+..+|..++.+|.+.|++++|...++++++.....          ...+
T Consensus       254 ~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~  332 (368)
T 1fch_A          254 WNKLGATLANGNQSEEAVAAYRRALELQ-PGYIRSRYNLGISCINLGAHREAVEHFLEALNMQRKSRGPRGEGGAMSENI  332 (368)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC------CCCCCHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCccccccchhhHH
Confidence            7888888888888888888888887753 4567788888888888888888888888887632110          1577


Q ss_pred             HHHHHHHHhcCCCHHHHHHHHHHHH
Q 003295          780 YNVFMDGHCKGGNVEEAFKVCDRML  804 (833)
Q Consensus       780 ~~~l~~~~~~~g~~~~A~~~~~~m~  804 (833)
                      |..++.+|...|++++|..++++.+
T Consensus       333 ~~~l~~~~~~~g~~~~A~~~~~~~l  357 (368)
T 1fch_A          333 WSTLRLALSMLGQSDAYGAADARDL  357 (368)
T ss_dssp             HHHHHHHHHHHTCGGGHHHHHTTCH
T ss_pred             HHHHHHHHHHhCChHhHHHhHHHHH
Confidence            8888888888888888887776443

>1b89_A Protein (clathrin heavy chain); triskelion, coated vesicles, endocytosis, SELF- assembly, alpha-alpha superhelix; 2.60A {Bos taurus} SCOP: a.118.1.3

Probab=99.77  E-value=3.4e-17  Score=170.96  Aligned_cols=239  Identities=13%  Similarity=0.109  Sum_probs=87.6

Q ss_pred             hcCChhHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHH
Q 003295          230 KANEVQKGIEVFETMCRGVSPDVFLFSTAINAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIHGLCRNGRLYEAFHL  309 (833)
Q Consensus       230 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~  309 (833)
                      +.|++++|.++++++     ++..+|+.++.++.+.|++++|.+.|.+.      +|..+|..++..+...|++++|+..
T Consensus        15 ~~~~ld~A~~fae~~-----~~~~vWs~La~A~l~~g~~~eAIdsfika------~D~~~y~~V~~~ae~~g~~EeAi~y   83 (449)
T 1b89_A           15 HIGNLDRAYEFAERC-----NEPAVWSQLAKAQLQKGMVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVKY   83 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HccCHHHHHHHHHhC-----CChHHHHHHHHHHHHcCCHHHHHHHHHcC------CCHHHHHHHHHHHHhCCCHHHHHHH
Confidence            568899999999988     23348889999999999999999999653      4777899999999999999999997


Q ss_pred             HHHHHhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHHcCChHHHHHHHHHHHhCCCC
Q 003295          310 KEKMVLREVEPSLITYSILINGLIKLEKFDDANFVLKEMSVRGFVPNYVVYNTLIDGYCKKGNISEALKIRDDMVSKGMS  389 (833)
Q Consensus       310 ~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~A~~~~~~m~~~g~~  389 (833)
                      ++...+.  .+++.+.+.|+.+|.+.|+++++.++++       .|+..+|+.+.+.|...|++++|...|..+      
T Consensus        84 l~~ark~--~~~~~i~~~Li~~Y~Klg~l~e~e~f~~-------~pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a------  148 (449)
T 1b89_A           84 LQMARKK--ARESYVETELIFALAKTNRLAELEEFIN-------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV------  148 (449)
T ss_dssp             ---------------------------CHHHHTTTTT-------CC----------------CTTTHHHHHHHT------
T ss_pred             HHHHHHh--CccchhHHHHHHHHHHhCCHHHHHHHHc-------CCcHHHHHHHHHHHHHcCCHHHHHHHHHHh------
Confidence            7776664  4567888899999999999999888774       367779999999999999999999999866      


Q ss_pred             CChhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHH
Q 003295          390 PNSVTFNSLIHGFCKSGQMDNAENALEEMLSRGLSINQGAYTSVIKWLCINSRFNSALHFTKEMLLRNLRPGDGLLTLLV  469 (833)
Q Consensus       390 p~~~~~~~li~~~~~~g~~~~A~~~l~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li  469 (833)
                         ..|..++.++.+.|++++|.+.++++      .++.+|..++.+|+..|+++.|......     +...+.-...++
T Consensus       149 ---~n~~~LA~~L~~Lg~yq~AVea~~KA------~~~~~Wk~v~~aCv~~~ef~lA~~~~l~-----L~~~ad~l~~lv  214 (449)
T 1b89_A          149 ---SNFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQMCGLH-----IVVHADELEELI  214 (449)
T ss_dssp             ---TCHHHHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHHHHHHHHTTCHHHHHHTTTT-----TTTCHHHHHHHH
T ss_pred             ---hhHHHHHHHHHHhccHHHHHHHHHHc------CCchhHHHHHHHHHHcCcHHHHHHHHHH-----HHhCHhhHHHHH
Confidence               36888999999999999999999887      2677888888888888888888443332     222222233455


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh
Q 003295          470 SGLCKNGKQAEATELCFRLFEKGFTVNTVTSNALIHGMCE  509 (833)
Q Consensus       470 ~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~  509 (833)
                      ..|.+.|.+++|..+++..+... +.....|+-|...|++
T Consensus       215 ~~Yek~G~~eEai~lLe~aL~le-~ah~~~ftel~il~~k  253 (449)
T 1b89_A          215 NYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSK  253 (449)
T ss_dssp             HHHHHTTCHHHHHHHHHHHTTST-TCCHHHHHHHHHHHHT
T ss_pred             HHHHHCCCHHHHHHHHHHHhCCc-HHHHHHHHHHHHHHHh
Confidence            56666666666666666655443 3344455555555544

>1fch_A Peroxisomal targeting signal 1 receptor; protein-peptide complex, tetratricopeptide repeat, TPR, helical repeat, signaling protein; 2.20A {Homo sapiens} SCOP: a.118.8.1 PDB: 2j9q_A 3imz_B* 3r9a_B* 2c0m_A 2c0l_A

Probab=99.77  E-value=2.8e-17  Score=175.91  Aligned_cols=295  Identities=11%  Similarity=-0.023  Sum_probs=180.6

Q ss_pred             cCCHHHHHH-HHHHHhhCCCC---CCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHH
Q 003295          510 AGNLKEAGK-LLMEMLQRGLI---LDKVTYNTLILGCCKDGKPEEGFKLKEDMIKRGIQPDNYTYNLLLHGLCSLGKMEE  585 (833)
Q Consensus       510 ~g~~~~A~~-~l~~m~~~g~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~  585 (833)
                      .|++++|.. .+++..+....   .+...+..+...+.+.|++++|...++++++.... +..++..+..++...|++++
T Consensus        38 ~~~~~~a~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~  116 (368)
T 1fch_A           38 LSDYDDLTSATYDKGYQFEEENPLRDHPQPFEEGLRRLQEGDLPNAVLLFEAAVQQDPK-HMEAWQYLGTTQAENEQELL  116 (368)
T ss_dssp             --------CHHHHCCCCCCSSCTTTTCSSHHHHHHHHHHTTCHHHHHHHHHHHHHSCTT-CHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHhhhhhHHHhcCCCCcccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCcCHHH
Confidence            345555555 55544332211   12333445555555555555555555555554322 44455555555555555555


Q ss_pred             HHHHHHHHhhCCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHh
Q 003295          586 AIELWEECKRTVFGPDIYTYGVMIDGFCKADKIEEGETLFNEMISKKMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMKS  665 (833)
Q Consensus       586 A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  665 (833)
                      |...|+++.+.. +.+..++..+...|...|++++|...++++.+..+. +...+..+...       .          .
T Consensus       117 A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~-------~----------~  177 (368)
T 1fch_A          117 AISALRRCLELK-PDNQTALMALAVSFTNESLQRQACEILRDWLRYTPA-YAHLVTPAEEG-------A----------G  177 (368)
T ss_dssp             HHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSTT-TGGGCC------------------------
T ss_pred             HHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcC-cHHHHHHHHHH-------h----------h
Confidence            555555555432 223444555555555555555555555555444322 11111000000       0          0


Q ss_pred             CCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC--ChhHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHH
Q 003295          666 RGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLP--NVACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKI  743 (833)
Q Consensus       666 ~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p--~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~  743 (833)
                      . ..+. ..+.. +..+...|++++|...++++.+.. +.  +..++..+...|.+.|++++|...++++.+.. +.+..
T Consensus       178 ~-~~~~-~~~~~-~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~  252 (368)
T 1fch_A          178 G-AGLG-PSKRI-LGSLLSDSLFLEVKELFLAAVRLD-PTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVR-PNDYL  252 (368)
T ss_dssp             ----------CT-THHHHHHHHHHHHHHHHHHHHHHS-TTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHH
T ss_pred             h-hccc-HHHHH-HHHHhhcccHHHHHHHHHHHHHhC-cCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHH
Confidence            0 0000 01112 333348899999999999999863 22  47889999999999999999999999999863 55688


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHHCCCCC----------CHH
Q 003295          744 TYTIMIGGYCKLGDMKEAAKLLNVMAEKGISPDSITYNVFMDGHCKGGNVEEAFKVCDRMLSEGLSL----------DEI  813 (833)
Q Consensus       744 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~p----------~~~  813 (833)
                      +|..++..+...|++++|+..++++++.. +.+..++..++..|.+.|++++|...++++++.....          ...
T Consensus       253 ~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~  331 (368)
T 1fch_A          253 LWNKLGATLANGNQSEEAVAAYRRALELQ-PGYIRSRYNLGISCINLGAHREAVEHFLEALNMQRKSRGPRGEGGAMSEN  331 (368)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC------CCCCCHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCccccccchhhH
Confidence            99999999999999999999999999853 3467899999999999999999999999998732111          157


Q ss_pred             HHHHHHHhhccCCCCcc
Q 003295          814 TYTTLIDGWQSSTITNQ  830 (833)
Q Consensus       814 ~~~~l~~~~~~~~~~~~  830 (833)
                      .|..+...+...+..+.
T Consensus       332 ~~~~l~~~~~~~g~~~~  348 (368)
T 1fch_A          332 IWSTLRLALSMLGQSDA  348 (368)
T ss_dssp             HHHHHHHHHHHHTCGGG
T ss_pred             HHHHHHHHHHHhCChHh
Confidence            88888888876655544

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.77  E-value=3.1e-19  Score=200.19  Aligned_cols=151  Identities=12%  Similarity=0.121  Sum_probs=126.2

Q ss_pred             ChhhHHHHHHHHHhcCChhHHHHHHHHHHh---CCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHH
Q 003295          286 NVVTYNNIIHGLCRNGRLYEAFHLKEKMVL---REVEPSLITYSILINGLIKLEKFDDANFVLKEMSVRGFVPNYVVYNT  362 (833)
Q Consensus       286 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~---~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~y~~  362 (833)
                      -..|||++|++||+.|++++|.++|++|.+   .|+.||++|||+||+|||+.|++++|.++|++|.+.|+.||++|||+
T Consensus       126 ~~~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvvTYnt  205 (1134)
T 3spa_A          126 QQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAA  205 (1134)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHH
Confidence            357999999999999999999999988764   48999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHcCCh-HHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCC------cccHHHHHH
Q 003295          363 LIDGYCKKGNI-SEALKIRDDMVSKGMSPNSVTFNSLIHGFCKSGQMDNAENALEEMLSRGLSIN------QGAYTSVIK  435 (833)
Q Consensus       363 li~~~~~~g~~-~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~l~~~~~~g~~~~------~~~~~~li~  435 (833)
                      ||+++|+.|+. ++|.++|++|.++|+.||.++|+.++.+..+.+    +++..+++ ..+..|+      ..+...|.+
T Consensus       206 LI~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~~----vL~~Vrkv-~P~f~p~~~~~~~~~t~~LL~d  280 (1134)
T 3spa_A          206 ALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRAT----VLKAVHKV-KPTFSLPPQLPPPVNTSKLLRD  280 (1134)
T ss_dssp             HHHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHHH----HHHHHGGG-CCCCCCCCCCCCCCCCCTTTHH
T ss_pred             HHHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhHHH----HHHHHHHh-CcccCCCCCCcccccchHHHHH
Confidence            99999999985 789999999999999999999999987766543    33333333 3344443      444455555


Q ss_pred             HHHhcC
Q 003295          436 WLCINS  441 (833)
Q Consensus       436 ~~~~~g  441 (833)
                      .|.+.+
T Consensus       281 l~s~d~  286 (1134)
T 3spa_A          281 VYAKDG  286 (1134)
T ss_dssp             HHCCCS
T ss_pred             HHccCC
Confidence            555544

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.76  E-value=1.6e-17  Score=177.77  Aligned_cols=267  Identities=10%  Similarity=-0.042  Sum_probs=186.4

Q ss_pred             HHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHH
Q 003295          532 KVTYNTLILGCCKDGKPEEGFKLKEDMIKRGIQPDNYTYNLLLHGLCSLGKMEEAIELWEECKRTVFGPDIYTYGVMIDG  611 (833)
Q Consensus       532 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~  611 (833)
                      ...+..+...+.+.|++++|...|+++++.... +..++..+...+...|++++|...|+++.+.. +.+..++..+...
T Consensus        65 ~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~  142 (365)
T 4eqf_A           65 WPGAFEEGLKRLKEGDLPVTILFMEAAILQDPG-DAEAWQFLGITQAENENEQAAIVALQRCLELQ-PNNLKALMALAVS  142 (365)
T ss_dssp             CTTHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHH
Confidence            344556666666666666666666666665332 55666666666666666666666666666543 2345566666666


Q ss_pred             HHccCCHHHHHHHHHHHHHCCCc---------cCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCC-CCHHHHHHHHHH
Q 003295          612 FCKADKIEEGETLFNEMISKKME---------LNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGIL-PTSVTYSSLIHG  681 (833)
Q Consensus       612 ~~~~g~~~~A~~~~~~~~~~~~~---------~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~-p~~~~~~~li~~  681 (833)
                      |...|++++|...++++.+..+.         .....+..+...+.+.|++++|.+.++++.+.... .+..++..+...
T Consensus       143 ~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l~~~  222 (365)
T 4eqf_A          143 YTNTSHQQDACEALKNWIKQNPKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDMIDPDLQTGLGVL  222 (365)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCHHHHCC-------------------CCHHHHHHHHHHHHHHHHSCSSCCHHHHHHHHHH
T ss_pred             HHccccHHHHHHHHHHHHHhCccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCccCHHHHHHHHHH
Confidence            66677777777776666654221         01223444577888888999999999988876422 167788888999


Q ss_pred             HHhcCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHH
Q 003295          682 LCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEA  761 (833)
Q Consensus       682 ~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A  761 (833)
                      +...|++++|...|+++.+.. +.+..+|..+..+|.+.|++++|...++++.+.. +.+..+|..++.+|...|++++|
T Consensus       223 ~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A  300 (365)
T 4eqf_A          223 FHLSGEFNRAIDAFNAALTVR-PEDYSLWNRLGATLANGDRSEEAVEAYTRALEIQ-PGFIRSRYNLGISCINLGAYREA  300 (365)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHCCCHHHH
Confidence            999999999999999988863 4467888999999999999999999999998753 45688899999999999999999


Q ss_pred             HHHHHHHHHcCC---CC--------CHHHHHHHHHHHhcCCCHHHHHHHHHH
Q 003295          762 AKLLNVMAEKGI---SP--------DSITYNVFMDGHCKGGNVEEAFKVCDR  802 (833)
Q Consensus       762 ~~~~~~m~~~g~---~p--------~~~~~~~l~~~~~~~g~~~~A~~~~~~  802 (833)
                      ...++++++..-   .+        +..+|..+..++...|+.+.|.+..++
T Consensus       301 ~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  352 (365)
T 4eqf_A          301 VSNFLTALSLQRKSRNQQQVPHPAISGNIWAALRIALSLMDQPELFQAANLG  352 (365)
T ss_dssp             HHHHHHHHHHHHCC------------CHHHHHHHHHHHHHTCHHHHHHHHTT
T ss_pred             HHHHHHHHHhCcccCCCcccchhhhHHHHHHHHHHHHHHcCcHHHHHHHHHh
Confidence            999999887320   00        257889999999999999988776654

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.75  E-value=2.8e-15  Score=166.42  Aligned_cols=391  Identities=13%  Similarity=-0.022  Sum_probs=191.1

Q ss_pred             hhHHHHHHHHHHhcCChhHHHHHHHHHHHC-----C---CCCCcccHHHHHHHHHhcCChhHHHHHHHHHHHCC---C--
Q 003295          392 SVTFNSLIHGFCKSGQMDNAENALEEMLSR-----G---LSINQGAYTSVIKWLCINSRFNSALHFTKEMLLRN---L--  458 (833)
Q Consensus       392 ~~~~~~li~~~~~~g~~~~A~~~l~~~~~~-----g---~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~---~--  458 (833)
                      ...||.|...+...|++++|++.|++..+.     +   -+....+|+.+...|...|++++|...+++.....   .  
T Consensus        51 a~~yn~Lg~~~~~~G~~~eAl~~~~kAl~~~~~~~~~~~~~~~~~~~~nla~~y~~~g~~~~A~~~~~ka~~i~~~~~~~  130 (472)
T 4g1t_A           51 ATMCNLLAYLKHLKGQNEAALECLRKAEELIQQEHADQAEIRSLVTWGNYAWVYYHMGRLSDVQIYVDKVKHVCEKFSSP  130 (472)
T ss_dssp             CHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSGGGCTTTTHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCS
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhHhcccc
Confidence            345566666666666666666666554431     0   11123455566666666666666666665544310   0  


Q ss_pred             -CC-ChhhHHHHHHHHHh--cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH---HhcCCHHHHHHHHHHHhhCCCCCC
Q 003295          459 -RP-GDGLLTLLVSGLCK--NGKQAEATELCFRLFEKGFTVNTVTSNALIHGM---CEAGNLKEAGKLLMEMLQRGLILD  531 (833)
Q Consensus       459 -~~-~~~~~~~li~~~~~--~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~---~~~g~~~~A~~~l~~m~~~g~~~~  531 (833)
                       .+ ...++.....++..  .+++++|.+.|++.++..+. +...+..+...+   ...++.++|++.+++..+.++. +
T Consensus       131 ~~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~~p~-~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al~l~p~-~  208 (472)
T 4g1t_A          131 YRIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEKKPK-NPEFTSGLAIASYRLDNWPPSQNAIDPLRQAIRLNPD-N  208 (472)
T ss_dssp             SCCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHHHHCSS-C
T ss_pred             cchhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhcCCc-c
Confidence             01 11223333223322  23455555555555554221 333343333332   2334445555555555554333 3


Q ss_pred             HHHHHHHHHHHHh----cCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHH
Q 003295          532 KVTYNTLILGCCK----DGKPEEGFKLKEDMIKRGIQPDNYTYNLLLHGLCSLGKMEEAIELWEECKRTVFGPDIYTYGV  607 (833)
Q Consensus       532 ~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~  607 (833)
                      ...+..+...+..    .++.++|.+.+++....... +...+..+...+...|++++|...++++.+.. +.+..++..
T Consensus       209 ~~~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~~~~-~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~  286 (472)
T 4g1t_A          209 QYLKVLLALKLHKMREEGEEEGEGEKLVEEALEKAPG-VTDVLRSAAKFYRRKDEPDKAIELLKKALEYI-PNNAYLHCQ  286 (472)
T ss_dssp             HHHHHHHHHHHHHCC------CHHHHHHHHHHHHCSS-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHH
T ss_pred             hHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhCcc-HHHHHHHHHHHHHHcCchHHHHHHHHHHHHhC-CChHHHHHH
Confidence            4444444333332    23445555555555544322 44445555555555555555555555555432 222334444


Q ss_pred             HHHHHHccCCHHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC
Q 003295          608 MIDGFCKADKIEEGETLFNEMISKKMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIGL  687 (833)
Q Consensus       608 li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~  687 (833)
                      +...|...+....+         ..       ...........+..++|...+++..+.. +.+..++..+...+...|+
T Consensus       287 lg~~y~~~~~~~~~---------~~-------~~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~lg~~~~~~~~  349 (472)
T 4g1t_A          287 IGCCYRAKVFQVMN---------LR-------ENGMYGKRKLLELIGHAVAHLKKADEAN-DNLFRVCSILASLHALADQ  349 (472)
T ss_dssp             HHHHHHHHHHHHHH---------C-------------CHHHHHHHHHHHHHHHHHHHHHC-TTTCCCHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHhhh---------HH-------HHHHHHHHHHHhhHHHHHHHHHHHhhcC-CchhhhhhhHHHHHHHhcc
Confidence            43333211100000         00       0000000111234567888888877764 3456678888899999999


Q ss_pred             HHHHHHHHHHHHHCCCCCCh--hHHHHHHH-HHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHH
Q 003295          688 IEDAKCLFDEMRKEGLLPNV--ACYTALIG-GYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKL  764 (833)
Q Consensus       688 ~~~A~~~~~~m~~~g~~p~~--~~~~~li~-~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~  764 (833)
                      +++|+..|++.++....+..  ..+..+.. .+...|+.++|+..+++..+.  .|+......         ....+.++
T Consensus       350 ~~~A~~~~~kaL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ai~~y~kal~i--~~~~~~~~~---------~~~~l~~~  418 (472)
T 4g1t_A          350 YEEAEYYFQKEFSKELTPVAKQLLHLRYGNFQLYQMKCEDKAIHHFIEGVKI--NQKSREKEK---------MKDKLQKI  418 (472)
T ss_dssp             HHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHHS--CCCCHHHHH---------HHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CcccHHHHH---------HHHHHHHH
Confidence            99999999999885422221  12233332 234678999999999998874  555433222         23445566


Q ss_pred             HHHHHHcCCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHHC-CCCCCHHHH
Q 003295          765 LNVMAEKGISPDSITYNVFMDGHCKGGNVEEAFKVCDRMLSE-GLSLDEITY  815 (833)
Q Consensus       765 ~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~-g~~p~~~~~  815 (833)
                      +++.++.. +.+..+|..|+..|...|++++|++.|++.++. ...|+..+|
T Consensus       419 ~~~~l~~~-p~~~~~~~~LG~~~~~~g~~~~A~~~y~kALe~~~~~p~a~~~  469 (472)
T 4g1t_A          419 AKMRLSKN-GADSEALHVLAFLQELNEKMQQADEDSERGLESGSLIPSASSW  469 (472)
T ss_dssp             HHHHHHHC-C-CTTHHHHHHHHHHHHHHCC----------------------
T ss_pred             HHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCcHhhc
Confidence            66666643 446788999999999999999999999999985 344555444

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.74  E-value=2.4e-16  Score=168.56  Aligned_cols=265  Identities=11%  Similarity=-0.013  Sum_probs=196.1

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 003295          497 TVTSNALIHGMCEAGNLKEAGKLLMEMLQRGLILDKVTYNTLILGCCKDGKPEEGFKLKEDMIKRGIQPDNYTYNLLLHG  576 (833)
Q Consensus       497 ~~~~~~li~~~~~~g~~~~A~~~l~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~  576 (833)
                      ...+..++..+.+.|++++|...|+++.+..+. +..+|..+...+.+.|++++|...|+++++.... +..++..+...
T Consensus        65 ~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~  142 (365)
T 4eqf_A           65 WPGAFEEGLKRLKEGDLPVTILFMEAAILQDPG-DAEAWQFLGITQAENENEQAAIVALQRCLELQPN-NLKALMALAVS  142 (365)
T ss_dssp             CTTHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC-CHHHHHHHHHH
Confidence            344666666777777777777777777666544 6667777777777777777777777777765332 56677777777


Q ss_pred             HHhcCCHHHHHHHHHHHhhCCCCCC-----------HhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCcc-CHHHHHHHH
Q 003295          577 LCSLGKMEEAIELWEECKRTVFGPD-----------IYTYGVMIDGFCKADKIEEGETLFNEMISKKMEL-NPVVYNTLI  644 (833)
Q Consensus       577 ~~~~g~~~~A~~~~~~~~~~~~~~~-----------~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~-~~~~~~~li  644 (833)
                      +...|++++|...++++.+..  |+           ...+..+...+.+.|++++|...++++.+..+.. +..++..+.
T Consensus       143 ~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l~  220 (365)
T 4eqf_A          143 YTNTSHQQDACEALKNWIKQN--PKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDMIDPDLQTGLG  220 (365)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC--HHHHCC-------------------CCHHHHHHHHHHHHHHHHSCSSCCHHHHHHHH
T ss_pred             HHccccHHHHHHHHHHHHHhC--ccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCccCHHHHHHHH
Confidence            777777777777777776542  22           2233445778888999999999999998875432 688899999


Q ss_pred             HHHHHcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCChh
Q 003295          645 RAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMD  724 (833)
Q Consensus       645 ~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~  724 (833)
                      ..|.+.|++++|.+.++++.+.. +.+..++..+...+...|++++|...|+++.+.. +.+..++..+..+|.+.|+++
T Consensus       221 ~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~  298 (365)
T 4eqf_A          221 VLFHLSGEFNRAIDAFNAALTVR-PEDYSLWNRLGATLANGDRSEEAVEAYTRALEIQ-PGFIRSRYNLGISCINLGAYR  298 (365)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHCCCHH
Confidence            99999999999999999998874 4578889999999999999999999999998863 345788999999999999999


Q ss_pred             HHHHHHHHHHhCC---CCC--------CHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 003295          725 EAESVLQEMASIN---IHP--------NKITYTIMIGGYCKLGDMKEAAKLLNV  767 (833)
Q Consensus       725 ~A~~~~~~m~~~g---~~p--------~~~~~~~li~~~~~~g~~~~A~~~~~~  767 (833)
                      +|...|+++.+..   ..+        +..+|..+..++...|+.+.|.....+
T Consensus       299 ~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  352 (365)
T 4eqf_A          299 EAVSNFLTALSLQRKSRNQQQVPHPAISGNIWAALRIALSLMDQPELFQAANLG  352 (365)
T ss_dssp             HHHHHHHHHHHHHHCC------------CHHHHHHHHHHHHHTCHHHHHHHHTT
T ss_pred             HHHHHHHHHHHhCcccCCCcccchhhhHHHHHHHHHHHHHHcCcHHHHHHHHHh
Confidence            9999999988631   011        357899999999999999998887665

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.73  E-value=3.6e-15  Score=165.50  Aligned_cols=383  Identities=11%  Similarity=-0.049  Sum_probs=249.7

Q ss_pred             hhhHHHHHHHHHHcCChHHHHHHHHHHHhC-------CCCC-ChhHHHHHHHHHHhcCChhHHHHHHHHHHHCC----C-
Q 003295          357 YVVYNTLIDGYCKKGNISEALKIRDDMVSK-------GMSP-NSVTFNSLIHGFCKSGQMDNAENALEEMLSRG----L-  423 (833)
Q Consensus       357 ~~~y~~li~~~~~~g~~~~A~~~~~~m~~~-------g~~p-~~~~~~~li~~~~~~g~~~~A~~~l~~~~~~g----~-  423 (833)
                      ...||.|...+...|++++|++.|++..+.       ...| ..++|+.+...|...|++++|...++++.+..    - 
T Consensus        51 a~~yn~Lg~~~~~~G~~~eAl~~~~kAl~~~~~~~~~~~~~~~~~~~~nla~~y~~~g~~~~A~~~~~ka~~i~~~~~~~  130 (472)
T 4g1t_A           51 ATMCNLLAYLKHLKGQNEAALECLRKAEELIQQEHADQAEIRSLVTWGNYAWVYYHMGRLSDVQIYVDKVKHVCEKFSSP  130 (472)
T ss_dssp             CHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSGGGCTTTTHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCS
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhHhcccc
Confidence            556888888888888888888888776531       1122 45688999999999999999999998876521    1 


Q ss_pred             -C-CCcccHHHHHHHHHh--cCChhHHHHHHHHHHHCCCCCChhhHHHHHHH---HHhcCCHHHHHHHHHHHHHCCCCCC
Q 003295          424 -S-INQGAYTSVIKWLCI--NSRFNSALHFTKEMLLRNLRPGDGLLTLLVSG---LCKNGKQAEATELCFRLFEKGFTVN  496 (833)
Q Consensus       424 -~-~~~~~~~~li~~~~~--~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~---~~~~g~~~~A~~~~~~~~~~g~~~~  496 (833)
                       . ....++.....++..  .+++++|++.|++.+..++. +...+..+...   +...++.++|++.+++.++..+ .+
T Consensus       131 ~~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~~p~-~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al~l~p-~~  208 (472)
T 4g1t_A          131 YRIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEKKPK-NPEFTSGLAIASYRLDNWPPSQNAIDPLRQAIRLNP-DN  208 (472)
T ss_dssp             SCCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHHHHCS-SC
T ss_pred             cchhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhcCC-cc
Confidence             1 123445555555554  45799999999999987643 33444444443   4567888999999999888643 36


Q ss_pred             HHHHHHHHHHHHh----cCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHH
Q 003295          497 TVTSNALIHGMCE----AGNLKEAGKLLMEMLQRGLILDKVTYNTLILGCCKDGKPEEGFKLKEDMIKRGIQPDNYTYNL  572 (833)
Q Consensus       497 ~~~~~~li~~~~~----~g~~~~A~~~l~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~  572 (833)
                      ..++..+...+..    .+++++|.+.+++.....+. +...+..+...+...|++++|...+++.++..+. +..++..
T Consensus       209 ~~~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~~~~-~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~  286 (472)
T 4g1t_A          209 QYLKVLLALKLHKMREEGEEEGEGEKLVEEALEKAPG-VTDVLRSAAKFYRRKDEPDKAIELLKKALEYIPN-NAYLHCQ  286 (472)
T ss_dssp             HHHHHHHHHHHHHCC------CHHHHHHHHHHHHCSS-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHH
T ss_pred             hHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhCcc-HHHHHHHHHHHHHHcCchHHHHHHHHHHHHhCCC-hHHHHHH
Confidence            6677666655554    46788999999999888665 7888999999999999999999999999987544 6677777


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCC
Q 003295          573 LLHGLCSLGKMEEAIELWEECKRTVFGPDIYTYGVMIDGFCKADKIEEGETLFNEMISKKMELNPVVYNTLIRAYCKIGN  652 (833)
Q Consensus       573 li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  652 (833)
                      +..+|...+....+...                ..........+..++|...+++..+..+. +..++..+...|...|+
T Consensus       287 lg~~y~~~~~~~~~~~~----------------~~~~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~lg~~~~~~~~  349 (472)
T 4g1t_A          287 IGCCYRAKVFQVMNLRE----------------NGMYGKRKLLELIGHAVAHLKKADEANDN-LFRVCSILASLHALADQ  349 (472)
T ss_dssp             HHHHHHHHHHHHHHC----------------------CHHHHHHHHHHHHHHHHHHHHHCTT-TCCCHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHhhhHHH----------------HHHHHHHHHHhhHHHHHHHHHHHhhcCCc-hhhhhhhHHHHHHHhcc
Confidence            77666432211111000                00001111123456788888887776544 56677788888888999


Q ss_pred             hHHHHHHHHHHHhCCCCCCHH--HHHHHHH-HHHhcCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCChhHHHHH
Q 003295          653 TTAAFRLSNDMKSRGILPTSV--TYSSLIH-GLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESV  729 (833)
Q Consensus       653 ~~~A~~~~~~m~~~~~~p~~~--~~~~li~-~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~  729 (833)
                      +++|.+.|++..+....+...  .+..+.. .....|+.++|+..|.+.++.  .|+......         ..+.+.++
T Consensus       350 ~~~A~~~~~kaL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ai~~y~kal~i--~~~~~~~~~---------~~~~l~~~  418 (472)
T 4g1t_A          350 YEEAEYYFQKEFSKELTPVAKQLLHLRYGNFQLYQMKCEDKAIHHFIEGVKI--NQKSREKEK---------MKDKLQKI  418 (472)
T ss_dssp             HHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHHS--CCCCHHHHH---------HHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CcccHHHHH---------HHHHHHHH
Confidence            999999998888764333221  2222222 234678899999999988884  565433222         22344556


Q ss_pred             HHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 003295          730 LQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAEKG  772 (833)
Q Consensus       730 ~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g  772 (833)
                      +++..+.+ +.+..+|..++.+|...|++++|++.|+++++.|
T Consensus       419 ~~~~l~~~-p~~~~~~~~LG~~~~~~g~~~~A~~~y~kALe~~  460 (472)
T 4g1t_A          419 AKMRLSKN-GADSEALHVLAFLQELNEKMQQADEDSERGLESG  460 (472)
T ss_dssp             HHHHHHHC-C-CTTHHHHHHHHHHHHHHCC-------------
T ss_pred             HHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence            66666543 5667789999999999999999999999998854

>3cv0_A Peroxisome targeting signal 1 receptor PEX5; TPR motifs, TPR protein, peroxin 5, PEX5, PTS1 binding domain, protein-peptide complex, receptor; 2.00A {Trypanosoma brucei} PDB: 3cvl_A 3cvn_A 3cvp_A 3cvq_A

Probab=99.73  E-value=5.5e-16  Score=162.68  Aligned_cols=278  Identities=11%  Similarity=-0.078  Sum_probs=200.2

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 003295          497 TVTSNALIHGMCEAGNLKEAGKLLMEMLQRGLILDKVTYNTLILGCCKDGKPEEGFKLKEDMIKRGIQPDNYTYNLLLHG  576 (833)
Q Consensus       497 ~~~~~~li~~~~~~g~~~~A~~~l~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~  576 (833)
                      ...+..+...+...|++++|..+|+++.+..+. +...+..+...+...|++++|...++++++.... +..++..+...
T Consensus        21 ~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~la~~   98 (327)
T 3cv0_A           21 HENPMEEGLSMLKLANLAEAALAFEAVCQAAPE-REEAWRSLGLTQAENEKDGLAIIALNHARMLDPK-DIAVHAALAVS   98 (327)
T ss_dssp             SSCHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCcC-CHHHHHHHHHH
Confidence            345667777788888888888888888776554 6777777778888888888888888888776432 56677777777


Q ss_pred             HHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCccCHHHHHHH-HH-HHHHcCChH
Q 003295          577 LCSLGKMEEAIELWEECKRTVFGPDIYTYGVMIDGFCKADKIEEGETLFNEMISKKMELNPVVYNTL-IR-AYCKIGNTT  654 (833)
Q Consensus       577 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l-i~-~~~~~g~~~  654 (833)
                      +...|++++|.+.++++.+... .+...+..+....                      |+......+ .. .+...|+++
T Consensus        99 ~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~~~~~----------------------~~~~~~~~~~~~~~~~~~~~~~  155 (327)
T 3cv0_A           99 HTNEHNANAALASLRAWLLSQP-QYEQLGSVNLQAD----------------------VDIDDLNVQSEDFFFAAPNEYR  155 (327)
T ss_dssp             HHHTTCHHHHHHHHHHHHHTST-TTTTC------------------------------------------CCTTSHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhCC-ccHHHHHHHhHHH----------------------HHHHHHHHHHHhHHHHHcccHH
Confidence            7777888888887777776531 1222222211000                      011111122 11 256677888


Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHH
Q 003295          655 AAFRLSNDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESVLQEMA  734 (833)
Q Consensus       655 ~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~  734 (833)
                      +|.+.++++.+.. +.+...+..+...+...|++++|...++++.+.. +.+...+..+...+...|++++|...++++.
T Consensus       156 ~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~  233 (327)
T 3cv0_A          156 ECRTLLHAALEMN-PNDAQLHASLGVLYNLSNNYDSAAANLRRAVELR-PDDAQLWNKLGATLANGNRPQEALDAYNRAL  233 (327)
T ss_dssp             HHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            8888888887764 3467788888888888899999999888888753 3456788888889999999999999999988


Q ss_pred             hCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC-------------HHHHHHHHHHHhcCCCHHHHHHHHH
Q 003295          735 SINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISPD-------------SITYNVFMDGHCKGGNVEEAFKVCD  801 (833)
Q Consensus       735 ~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-------------~~~~~~l~~~~~~~g~~~~A~~~~~  801 (833)
                      +.. +.+..+|..++..|...|++++|.+.++++.+.  .|+             ..+|..++.++.+.|++++|..+++
T Consensus       234 ~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~--~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  310 (327)
T 3cv0_A          234 DIN-PGYVRVMYNMAVSYSNMSQYDLAAKQLVRAIYM--QVGGTTPTGEASREATRSMWDFFRMLLNVMNRPDLVELTYA  310 (327)
T ss_dssp             HHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--HTTSCC-----CCTHHHHHHHHHHHHHHHTTCHHHHHHHTT
T ss_pred             HcC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCccccccccchhhcCHHHHHHHHHHHHhcCCHHHHHHHHH
Confidence            753 556788889999999999999999999998874  343             6788899999999999999988886


Q ss_pred             HHH
Q 003295          802 RML  804 (833)
Q Consensus       802 ~m~  804 (833)
                      +.+
T Consensus       311 ~~l  313 (327)
T 3cv0_A          311 QNV  313 (327)
T ss_dssp             CCS
T ss_pred             HHH
Confidence            544

>3cv0_A Peroxisome targeting signal 1 receptor PEX5; TPR motifs, TPR protein, peroxin 5, PEX5, PTS1 binding domain, protein-peptide complex, receptor; 2.00A {Trypanosoma brucei} PDB: 3cvl_A 3cvn_A 3cvp_A 3cvq_A

Probab=99.72  E-value=1.1e-15  Score=160.24  Aligned_cols=281  Identities=12%  Similarity=-0.037  Sum_probs=215.8

Q ss_pred             ChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHH
Q 003295          461 GDGLLTLLVSGLCKNGKQAEATELCFRLFEKGFTVNTVTSNALIHGMCEAGNLKEAGKLLMEMLQRGLILDKVTYNTLIL  540 (833)
Q Consensus       461 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~l~~m~~~g~~~~~~~~~~li~  540 (833)
                      +...+..+...+...|++++|..+++++.+... .+...+..++..+...|++++|...++++.+..+. +..++..+..
T Consensus        20 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~la~   97 (327)
T 3cv0_A           20 YHENPMEEGLSMLKLANLAEAALAFEAVCQAAP-EREEAWRSLGLTQAENEKDGLAIIALNHARMLDPK-DIAVHAALAV   97 (327)
T ss_dssp             GSSCHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHhccHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCcC-CHHHHHHHHH
Confidence            344567788899999999999999999998743 47889999999999999999999999999988655 7889999999


Q ss_pred             HHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHH--HHHccCCH
Q 003295          541 GCCKDGKPEEGFKLKEDMIKRGIQPDNYTYNLLLHGLCSLGKMEEAIELWEECKRTVFGPDIYTYGVMID--GFCKADKI  618 (833)
Q Consensus       541 ~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~--~~~~~g~~  618 (833)
                      .+...|++++|.+.++++.+.... +...+..+....                      |+......+..  .+...|++
T Consensus        98 ~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~~----------------------~~~~~~~~~~~~~~~~~~~~~  154 (327)
T 3cv0_A           98 SHTNEHNANAALASLRAWLLSQPQ-YEQLGSVNLQAD----------------------VDIDDLNVQSEDFFFAAPNEY  154 (327)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHTSTT-TTTC------------------------------------------CCTTSHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCCc-cHHHHHHHhHHH----------------------HHHHHHHHHHHhHHHHHcccH
Confidence            999999999999999999987433 222222221110                      11111122212  25667788


Q ss_pred             HHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 003295          619 EEGETLFNEMISKKMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEM  698 (833)
Q Consensus       619 ~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m  698 (833)
                      ++|...++++.+..+. +...+..+...+.+.|++++|.+.++++.+.. +.+..++..+...+...|++++|...++++
T Consensus       155 ~~A~~~~~~~~~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a  232 (327)
T 3cv0_A          155 RECRTLLHAALEMNPN-DAQLHASLGVLYNLSNNYDSAAANLRRAVELR-PDDAQLWNKLGATLANGNRPQEALDAYNRA  232 (327)
T ss_dssp             HHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhCCC-CHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            8888888888776544 67788888888888888888888888888764 446778888888899999999999999988


Q ss_pred             HHCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCC------------CHHHHHHHHHHHHhcCCHHHHHHHHH
Q 003295          699 RKEGLLPNVACYTALIGGYCKLGQMDEAESVLQEMASINIHP------------NKITYTIMIGGYCKLGDMKEAAKLLN  766 (833)
Q Consensus       699 ~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p------------~~~~~~~li~~~~~~g~~~~A~~~~~  766 (833)
                      .+.. +.+...+..+...+.+.|++++|.+.++++.+.. +.            +..+|..+..++.+.|++++|..+++
T Consensus       233 ~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~-~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  310 (327)
T 3cv0_A          233 LDIN-PGYVRVMYNMAVSYSNMSQYDLAAKQLVRAIYMQ-VGGTTPTGEASREATRSMWDFFRMLLNVMNRPDLVELTYA  310 (327)
T ss_dssp             HHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH-TTSCC-----CCTHHHHHHHHHHHHHHHTTCHHHHHHHTT
T ss_pred             HHcC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CccccccccchhhcCHHHHHHHHHHHHhcCCHHHHHHHHH
Confidence            8753 3457788888899999999999999999888642 22            46788899999999999999998887


Q ss_pred             HHHH
Q 003295          767 VMAE  770 (833)
Q Consensus       767 ~m~~  770 (833)
                      +.++
T Consensus       311 ~~l~  314 (327)
T 3cv0_A          311 QNVE  314 (327)
T ss_dssp             CCSH
T ss_pred             HHHH
Confidence            6543

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.71  E-value=2.4e-15  Score=154.30  Aligned_cols=249  Identities=11%  Similarity=0.049  Sum_probs=132.0

Q ss_pred             HhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHH
Q 003295          508 CEAGNLKEAGKLLMEMLQRGLILDKVTYNTLILGCCKDGKPEEGFKLKEDMIKRGIQPDNYTYNLLLHGLCSLGKMEEAI  587 (833)
Q Consensus       508 ~~~g~~~~A~~~l~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~  587 (833)
                      ...|+++.|+..+++.....+.........+..+|...|++++|+..++.    .-.|+..++..+...+...++.++|+
T Consensus        10 ~~~g~y~~ai~~~~~~~~~~p~~~~e~~~~l~r~yi~~g~~~~al~~~~~----~~~~~~~a~~~la~~~~~~~~~~~A~   85 (291)
T 3mkr_A           10 FYIGSYQQCINEAQRVKPSSPERDVERDVFLYRAYLAQRKYGVVLDEIKP----SSAPELQAVRMFAEYLASHSRRDAIV   85 (291)
T ss_dssp             HHTTCHHHHHHHHHHSCCCSHHHHHHHHHHHHHHHHHTTCHHHHHHHSCT----TSCHHHHHHHHHHHHHHCSTTHHHHH
T ss_pred             HHHHHHHHHHHHHHhcccCCchhhHHHHHHHHHHHHHCCCHHHHHHHhcc----cCChhHHHHHHHHHHHcCCCcHHHHH
Confidence            34455555555555443332111112334445555555555555544432    12334445555555555555566666


Q ss_pred             HHHHHHhhCCCCC-CHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHhC
Q 003295          588 ELWEECKRTVFGP-DIYTYGVMIDGFCKADKIEEGETLFNEMISKKMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSR  666 (833)
Q Consensus       588 ~~~~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  666 (833)
                      +.++++...+..| +...+..+...+.+.|++++|++.+++      ..+...+..++..+.+.|++++|.+.++++.+.
T Consensus        86 ~~l~~ll~~~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~------~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~  159 (291)
T 3mkr_A           86 AELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ------GDSLECMAMTVQILLKLDRLDLARKELKKMQDQ  159 (291)
T ss_dssp             HHHHHHHHSCCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT------CCSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhcccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC------CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhh
Confidence            6665555543222 334444445555566666666665554      235555666666666666666666666666554


Q ss_pred             CCCCCHHHH---HHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHH
Q 003295          667 GILPTSVTY---SSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKI  743 (833)
Q Consensus       667 ~~~p~~~~~---~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~  743 (833)
                      .  |+....   ..++..+...|++++|..+|+++.+. .+.+...|+.+..++.+.|++++|...++++.+.. +.+..
T Consensus       160 ~--p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~-~p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~~-p~~~~  235 (291)
T 3mkr_A          160 D--EDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADK-CSPTLLLLNGQAACHMAQGRWEAAEGVLQEALDKD-SGHPE  235 (291)
T ss_dssp             C--TTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHH-SCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHH
T ss_pred             C--cCcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHh-CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHH
Confidence            2  332111   11222233346666666666666665 24455666666666666666666666666666543 44555


Q ss_pred             HHHHHHHHHHhcCCHHH-HHHHHHHHHH
Q 003295          744 TYTIMIGGYCKLGDMKE-AAKLLNVMAE  770 (833)
Q Consensus       744 ~~~~li~~~~~~g~~~~-A~~~~~~m~~  770 (833)
                      ++..++..+...|+.++ +.++++++.+
T Consensus       236 ~l~~l~~~~~~~g~~~eaa~~~~~~~~~  263 (291)
T 3mkr_A          236 TLINLVVLSQHLGKPPEVTNRYLSQLKD  263 (291)
T ss_dssp             HHHHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCCHHHHHHHHHHHHH
Confidence            66666666666666654 4566666665

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.70  E-value=3.6e-15  Score=152.89  Aligned_cols=256  Identities=12%  Similarity=0.066  Sum_probs=210.1

Q ss_pred             HHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHccCCHH
Q 003295          540 LGCCKDGKPEEGFKLKEDMIKRGIQPDNYTYNLLLHGLCSLGKMEEAIELWEECKRTVFGPDIYTYGVMIDGFCKADKIE  619 (833)
Q Consensus       540 ~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~  619 (833)
                      .-....|++..|+...+........+.......+..+|...|+++.|+..++.    .-+|+..++..+...+...++.+
T Consensus         7 ~~~~~~g~y~~ai~~~~~~~~~~p~~~~e~~~~l~r~yi~~g~~~~al~~~~~----~~~~~~~a~~~la~~~~~~~~~~   82 (291)
T 3mkr_A            7 KNAFYIGSYQQCINEAQRVKPSSPERDVERDVFLYRAYLAQRKYGVVLDEIKP----SSAPELQAVRMFAEYLASHSRRD   82 (291)
T ss_dssp             HHHHHTTCHHHHHHHHHHSCCCSHHHHHHHHHHHHHHHHHTTCHHHHHHHSCT----TSCHHHHHHHHHHHHHHCSTTHH
T ss_pred             HHHHHHHHHHHHHHHHHhcccCCchhhHHHHHHHHHHHHHCCCHHHHHHHhcc----cCChhHHHHHHHHHHHcCCCcHH
Confidence            44556899999999988765542222234556678999999999999986654    23567888899999999999999


Q ss_pred             HHHHHHHHHHHCCCcc-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 003295          620 EGETLFNEMISKKMEL-NPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEM  698 (833)
Q Consensus       620 ~A~~~~~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m  698 (833)
                      +|++.++++...+..| +...+..+...+.+.|++++|++.+++      +.+...+..++..+.+.|++++|.+.++++
T Consensus        83 ~A~~~l~~ll~~~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~------~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~  156 (291)
T 3mkr_A           83 AIVAELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ------GDSLECMAMTVQILLKLDRLDLARKELKKM  156 (291)
T ss_dssp             HHHHHHHHHHHSCCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT------CCSHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC------CCCHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            9999999999876434 667788888999999999999999987      467888999999999999999999999999


Q ss_pred             HHCCCCCChhHH---HHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC
Q 003295          699 RKEGLLPNVACY---TALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISP  775 (833)
Q Consensus       699 ~~~g~~p~~~~~---~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p  775 (833)
                      .+.  .|+....   ..++..+...|++++|..+|+++.+. .+.+...|+.++.++.+.|++++|.+.++++++.. +-
T Consensus       157 ~~~--~p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~-~p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~~-p~  232 (291)
T 3mkr_A          157 QDQ--DEDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADK-CSPTLLLLNGQAACHMAQGRWEAAEGVLQEALDKD-SG  232 (291)
T ss_dssp             HHH--CTTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHH-SCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TT
T ss_pred             Hhh--CcCcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHh-CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CC
Confidence            986  3654322   22334445568999999999999987 37789999999999999999999999999999853 33


Q ss_pred             CHHHHHHHHHHHhcCCCHHH-HHHHHHHHHHCCCCCC
Q 003295          776 DSITYNVFMDGHCKGGNVEE-AFKVCDRMLSEGLSLD  811 (833)
Q Consensus       776 ~~~~~~~l~~~~~~~g~~~~-A~~~~~~m~~~g~~p~  811 (833)
                      +..++..++..+...|+.++ +.++++++++  +.|+
T Consensus       233 ~~~~l~~l~~~~~~~g~~~eaa~~~~~~~~~--~~P~  267 (291)
T 3mkr_A          233 HPETLINLVVLSQHLGKPPEVTNRYLSQLKD--AHRS  267 (291)
T ss_dssp             CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHH--HCTT
T ss_pred             CHHHHHHHHHHHHHcCCCHHHHHHHHHHHHH--hCCC
Confidence            77899999999999999976 5789999988  5666

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.64  E-value=4.5e-14  Score=154.70  Aligned_cols=383  Identities=13%  Similarity=0.065  Sum_probs=187.4

Q ss_pred             HHHHHHHcCChHHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCCh---hHHHHHHHHHHHCCCCCCcccHHHHHHHHHh
Q 003295          363 LIDGYCKKGNISEALKIRDDMVSKGMSPNSVTFNSLIHGFCKSGQM---DNAENALEEMLSRGLSINQGAYTSVIKWLCI  439 (833)
Q Consensus       363 li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~---~~A~~~l~~~~~~g~~~~~~~~~~li~~~~~  439 (833)
                      +...+.+.|++++|.++|++..+.|   +...+..|...|...|+.   ++|.+.|++..+.    +...+..+...+..
T Consensus         9 la~~~~~~g~~~~A~~~~~~aa~~g---~~~A~~~Lg~~y~~~g~~~d~~~A~~~~~~A~~~----~~~A~~~Lg~~~~~   81 (452)
T 3e4b_A            9 LANEALKRGDTVTAQQNYQQLAELG---YSEAQVGLADIQVGTRDPAQIKQAEATYRAAADT----SPRAQARLGRLLAA   81 (452)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHT---CCTGGGTCC--------------------------------CHHHHHHHHHT
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHccCCCCCHHHHHHHHHHHHhC----CHHHHHHHHHHHHh
Confidence            4455566666677776666666544   233344455555555555   6666666665533    34444444443333


Q ss_pred             cCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCH---HHH
Q 003295          440 NSRFNSALHFTKEMLLRNLRPGDGLLTLLVSGLCKNGKQAEATELCFRLFEKGFTVNTVTSNALIHGMCEAGNL---KEA  516 (833)
Q Consensus       440 ~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~---~~A  516 (833)
                      .+..                              ..++.++|...+++..+.|..   ..+..|...|...+..   .++
T Consensus        82 ~~~~------------------------------~~~~~~~A~~~~~~Aa~~g~~---~A~~~Lg~~y~~~~~~~~~~~a  128 (452)
T 3e4b_A           82 KPGA------------------------------TEAEHHEAESLLKKAFANGEG---NTLIPLAMLYLQYPHSFPNVNA  128 (452)
T ss_dssp             C--C------------------------------CHHHHHHHHHHHHHHHHTTCS---SCHHHHHHHHHHCGGGCTTCCH
T ss_pred             CCCC------------------------------CCcCHHHHHHHHHHHHHCCCH---HHHHHHHHHHHhCCCCCCCHHH
Confidence            3300                              001344444444444443322   1344444444443332   223


Q ss_pred             HHHHHHHhhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC---CHHHHHHHHHHH
Q 003295          517 GKLLMEMLQRGLILDKVTYNTLILGCCKDGKPEEGFKLKEDMIKRGIQPDNYTYNLLLHGLCSLG---KMEEAIELWEEC  593 (833)
Q Consensus       517 ~~~l~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g---~~~~A~~~~~~~  593 (833)
                      .+.+....+.|   +...+..|...|...+.++++......+.+.-...++..+..+...|...|   +.++|++.|++.
T Consensus       129 ~~~~~~a~~~g---~~~a~~~Lg~~y~~~~~~~~~~~~a~~~~~~a~~~~~~a~~~Lg~~~~~~g~~~~~~~A~~~~~~a  205 (452)
T 3e4b_A          129 QQQISQWQAAG---YPEAGLAQVLLYRTQGTYDQHLDDVERICKAALNTTDICYVELATVYQKKQQPEQQAELLKQMEAG  205 (452)
T ss_dssp             HHHHHHHHHHT---CTTHHHHHHHHHHHHTCGGGGHHHHHHHHHHHTTTCTTHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCC---CHHHHHHHHHHHHcCCCcccCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcccHHHHHHHHHHH
Confidence            33444444333   233444555555555544444433222222211223335666666666666   666777777766


Q ss_pred             hhCCCCCCHhhHHHHHHHHHcc----CCHHHHHHHHHHHHHCCCccCHHHHHHHHHH-H--HHcCChHHHHHHHHHHHhC
Q 003295          594 KRTVFGPDIYTYGVMIDGFCKA----DKIEEGETLFNEMISKKMELNPVVYNTLIRA-Y--CKIGNTTAAFRLSNDMKSR  666 (833)
Q Consensus       594 ~~~~~~~~~~~~~~li~~~~~~----g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~-~--~~~g~~~~A~~~~~~m~~~  666 (833)
                      .+.| .++...+..+...|...    +++++|+..|++.. .   -++..+..+... +  ...|++++|++.|++..+.
T Consensus       206 a~~g-~~~a~~~~~Lg~~y~~g~~~~~d~~~A~~~~~~aa-~---g~~~a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~  280 (452)
T 3e4b_A          206 VSRG-TVTAQRVDSVARVLGDATLGTPDEKTAQALLEKIA-P---GYPASWVSLAQLLYDFPELGDVEQMMKYLDNGRAA  280 (452)
T ss_dssp             HHTT-CSCHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHG-G---GSTHHHHHHHHHHHHSGGGCCHHHHHHHHHHHHHT
T ss_pred             HHCC-CHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHHHc-C---CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHC
Confidence            6665 23444334455555443    56777777777765 2   245555555555 3  3466777777777777766


Q ss_pred             CCCCCHHHHHHHHHHHHhcC-----CHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHh----cCChhHHHHHHHHHHhCC
Q 003295          667 GILPTSVTYSSLIHGLCNIG-----LIEDAKCLFDEMRKEGLLPNVACYTALIGGYCK----LGQMDEAESVLQEMASIN  737 (833)
Q Consensus       667 ~~~p~~~~~~~li~~~~~~g-----~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~g  737 (833)
                      |   +...+..|...|. .|     ++++|..+|++.. .|   +...+..|...|..    ..+.++|...|++..+.|
T Consensus       281 g---~~~A~~~Lg~~y~-~G~g~~~d~~~A~~~~~~Aa-~g---~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g  352 (452)
T 3e4b_A          281 D---QPRAELLLGKLYY-EGKWVPADAKAAEAHFEKAV-GR---EVAADYYLGQIYRRGYLGKVYPQKALDHLLTAARNG  352 (452)
T ss_dssp             T---CHHHHHHHHHHHH-HCSSSCCCHHHHHHHHHTTT-TT---CHHHHHHHHHHHHTTTTSSCCHHHHHHHHHHHHTTT
T ss_pred             C---CHHHHHHHHHHHH-cCCCCCCCHHHHHHHHHHHh-CC---CHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHhhC
Confidence            5   5555666666555 44     7777777777666 32   45555666666554    237777777777777655


Q ss_pred             CCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHH
Q 003295          738 IHPNKITYTIMIGGYCK----LGDMKEAAKLLNVMAEKGISPDSITYNVFMDGHCKGGNVEEAFKVCDRMLS  805 (833)
Q Consensus       738 ~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  805 (833)
                         +......|...|..    ..+.++|..++++..+.|. ++.......+......++.++|..+.++-.+
T Consensus       353 ---~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~A~~~g~-~~a~~~l~~l~~~~~~~~~~~a~~~~~~~~~  420 (452)
T 3e4b_A          353 ---QNSADFAIAQLFSQGKGTKPDPLNAYVFSQLAKAQDT-PEANDLATQLEAPLTPAQRAEGQRLVQQELA  420 (452)
T ss_dssp             ---CTTHHHHHHHHHHSCTTBCCCHHHHHHHHHHHHTTCC-HHHHHHHHHHHTTCCHHHHHHHHHHHHHHHH
T ss_pred             ---hHHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHCCC-HHHHHHHHHHHHhCCHHHHHHHHHHHHHHHH
Confidence               23344455555543    4577777777777777652 2222222222222233455566666655443

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.63  E-value=8.2e-14  Score=140.32  Aligned_cols=223  Identities=14%  Similarity=0.060  Sum_probs=150.4

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCcc--C----HHHHHH
Q 003295          569 TYNLLLHGLCSLGKMEEAIELWEECKRTVFGPDIYTYGVMIDGFCKADKIEEGETLFNEMISKKMEL--N----PVVYNT  642 (833)
Q Consensus       569 ~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~--~----~~~~~~  642 (833)
                      .+..+...+...|++++|...|+++.+..  .+...+..+...|...|++++|...+++..+..+..  +    ..+|..
T Consensus         7 ~~~~~g~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~   84 (258)
T 3uq3_A            7 KEKAEGNKFYKARQFDEAIEHYNKAWELH--KDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISKSFAR   84 (258)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHS--CCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHHhh--ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHHHHHH
Confidence            44455555555555555555555555544  445555555555666666666666665555432211  1    456666


Q ss_pred             HHHHHHHcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCC
Q 003295          643 LIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQ  722 (833)
Q Consensus       643 li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~  722 (833)
                      +...+...|++++|.+.+++..+..  |+.       ..+...|++++|...++++.... +.+...+..+...+...|+
T Consensus        85 l~~~~~~~~~~~~A~~~~~~a~~~~--~~~-------~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~  154 (258)
T 3uq3_A           85 IGNAYHKLGDLKKTIEYYQKSLTEH--RTA-------DILTKLRNAEKELKKAEAEAYVN-PEKAEEARLEGKEYFTKSD  154 (258)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC--CCH-------HHHHHHHHHHHHHHHHHHHHHCC-HHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHcccHHHHHHHHHHHHhcC--chh-------HHHHHHhHHHHHHHHHHHHHHcC-cchHHHHHHHHHHHHHhcC
Confidence            7777777777777777777776642  332       33555677788888888877742 2245667777788888888


Q ss_pred             hhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCCHHHHHHHHHH
Q 003295          723 MDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISPDSITYNVFMDGHCKGGNVEEAFKVCDR  802 (833)
Q Consensus       723 ~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~  802 (833)
                      +++|...++++.+.. +.+..+|..++.+|...|++++|++.++++++.. +.+..+|..++..+...|++++|.+.+++
T Consensus       155 ~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  232 (258)
T 3uq3_A          155 WPNAVKAYTEMIKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKD-PNFVRAYIRKATAQIAVKEYASALETLDA  232 (258)
T ss_dssp             HHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-HHHHHHHHHHHHHHHHHhhHHHHHHHHHH
Confidence            888888888887753 4567778888888888888888888888888753 33567788888888888888888888888


Q ss_pred             HHH
Q 003295          803 MLS  805 (833)
Q Consensus       803 m~~  805 (833)
                      .++
T Consensus       233 a~~  235 (258)
T 3uq3_A          233 ART  235 (258)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            776

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.62  E-value=1.3e-13  Score=151.18  Aligned_cols=109  Identities=12%  Similarity=-0.046  Sum_probs=49.5

Q ss_pred             CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH-H--HhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcC-----C
Q 003295          476 GKQAEATELCFRLFEKGFTVNTVTSNALIHG-M--CEAGNLKEAGKLLMEMLQRGLILDKVTYNTLILGCCKDG-----K  547 (833)
Q Consensus       476 g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~-~--~~~g~~~~A~~~l~~m~~~g~~~~~~~~~~li~~~~~~g-----~  547 (833)
                      ++.++|...|++..    +-+...+..|... +  ...++.++|...|++..+.|   +...+..|...|. .|     +
T Consensus       231 ~d~~~A~~~~~~aa----~g~~~a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~g---~~~A~~~Lg~~y~-~G~g~~~d  302 (452)
T 3e4b_A          231 PDEKTAQALLEKIA----PGYPASWVSLAQLLYDFPELGDVEQMMKYLDNGRAAD---QPRAELLLGKLYY-EGKWVPAD  302 (452)
T ss_dssp             CCHHHHHHHHHHHG----GGSTHHHHHHHHHHHHSGGGCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHH-HCSSSCCC
T ss_pred             CCHHHHHHHHHHHc----CCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHH-cCCCCCCC
Confidence            34555555555544    1233444444444 2  23455555555555555444   3444444444444 22     4


Q ss_pred             hhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHhhC
Q 003295          548 PEEGFKLKEDMIKRGIQPDNYTYNLLLHGLCS----LGKMEEAIELWEECKRT  596 (833)
Q Consensus       548 ~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~~~~~  596 (833)
                      .++|.++|++.. .|   +...+..+...|..    ..++++|..+|+...+.
T Consensus       303 ~~~A~~~~~~Aa-~g---~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~  351 (452)
T 3e4b_A          303 AKAAEAHFEKAV-GR---EVAADYYLGQIYRRGYLGKVYPQKALDHLLTAARN  351 (452)
T ss_dssp             HHHHHHHHHTTT-TT---CHHHHHHHHHHHHTTTTSSCCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHh-CC---CHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHhh
Confidence            555555555444 21   33444444444433    22445555555544443

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.60  E-value=1.7e-13  Score=137.95  Aligned_cols=223  Identities=11%  Similarity=0.027  Sum_probs=136.1

Q ss_pred             HHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCC--CC----HhhHHH
Q 003295          534 TYNTLILGCCKDGKPEEGFKLKEDMIKRGIQPDNYTYNLLLHGLCSLGKMEEAIELWEECKRTVFG--PD----IYTYGV  607 (833)
Q Consensus       534 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~--~~----~~~~~~  607 (833)
                      .|..+...+...|++++|...++++++..  .+...+..+..++...|++++|...++++.+....  ++    ..++..
T Consensus         7 ~~~~~g~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~   84 (258)
T 3uq3_A            7 KEKAEGNKFYKARQFDEAIEHYNKAWELH--KDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISKSFAR   84 (258)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHS--CCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHHhh--ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHHHHHH
Confidence            34444444444455555555554444443  34444444555555555555555555544432100  11    344555


Q ss_pred             HHHHHHccCCHHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC
Q 003295          608 MIDGFCKADKIEEGETLFNEMISKKMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIGL  687 (833)
Q Consensus       608 li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~  687 (833)
                      +...|.+.|++++|...|+++.+...  +       ...+.+.|++++|.+.++++.... +.+...+..+...+...|+
T Consensus        85 l~~~~~~~~~~~~A~~~~~~a~~~~~--~-------~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~  154 (258)
T 3uq3_A           85 IGNAYHKLGDLKKTIEYYQKSLTEHR--T-------ADILTKLRNAEKELKKAEAEAYVN-PEKAEEARLEGKEYFTKSD  154 (258)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCC--C-------HHHHHHHHHHHHHHHHHHHHHHCC-HHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHcccHHHHHHHHHHHHhcCc--h-------hHHHHHHhHHHHHHHHHHHHHHcC-cchHHHHHHHHHHHHHhcC
Confidence            55556666666666666666555422  2       123455566777777777766653 2245566677777777788


Q ss_pred             HHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 003295          688 IEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNV  767 (833)
Q Consensus       688 ~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~  767 (833)
                      +++|...++++.+.. +.+..+|..+...+.+.|++++|...++++.+.. +.+...|..++.++...|++++|.+.+++
T Consensus       155 ~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  232 (258)
T 3uq3_A          155 WPNAVKAYTEMIKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKD-PNFVRAYIRKATAQIAVKEYASALETLDA  232 (258)
T ss_dssp             HHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-HHHHHHHHHHHHHHHHHhhHHHHHHHHHH
Confidence            888888887777653 3456777777888888888888888888877653 44577788888888888888888888888


Q ss_pred             HHH
Q 003295          768 MAE  770 (833)
Q Consensus       768 m~~  770 (833)
                      +.+
T Consensus       233 a~~  235 (258)
T 3uq3_A          233 ART  235 (258)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            776

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.59  E-value=1.2e-13  Score=135.12  Aligned_cols=199  Identities=16%  Similarity=0.140  Sum_probs=142.8

Q ss_pred             CCHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHHHHHHHH
Q 003295          600 PDIYTYGVMIDGFCKADKIEEGETLFNEMISKKMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLI  679 (833)
Q Consensus       600 ~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li  679 (833)
                      ++...+..+...+.+.|++++|...|++.++..+. +...+..+...+.+.|++++|+..+++..+.. +.+...+..+.
T Consensus         3 ~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg   80 (217)
T 2pl2_A            3 TAEQNPLRLGVQLYALGRYDAALTLFERALKENPQ-DPEALYWLARTQLKLGLVNPALENGKTLVART-PRYLGGYMVLS   80 (217)
T ss_dssp             -CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSS-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHH
Confidence            45556666667777777777777777777766554 66777777777777777777777777777654 33556677777


Q ss_pred             HHHHhc-----------CCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHH
Q 003295          680 HGLCNI-----------GLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIM  748 (833)
Q Consensus       680 ~~~~~~-----------g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l  748 (833)
                      ..+...           |++++|+..+++.++.. +-+...+..+...+...|++++|+..|+++.+..  .+...+..+
T Consensus        81 ~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~l  157 (217)
T 2pl2_A           81 EAYVALYRQAEDRERGKGYLEQALSVLKDAERVN-PRYAPLHLQRGLVYALLGERDKAEASLKQALALE--DTPEIRSAL  157 (217)
T ss_dssp             HHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHHH
T ss_pred             HHHHHhhhhhhhhcccccCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCChHHHHHHHHHHHhcc--cchHHHHHH
Confidence            777777           99999999999998853 3356788888899999999999999999998876  678889999


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHH
Q 003295          749 IGGYCKLGDMKEAAKLLNVMAEKGISPDSITYNVFMDGHCKGGNVEEAFKVCDRML  804 (833)
Q Consensus       749 i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~  804 (833)
                      ..+|...|++++|+..++++++.. +.+...+..++..+...|++++|+..+++..
T Consensus       158 a~~~~~~g~~~~A~~~~~~al~~~-P~~~~~~~~la~~~~~~g~~~~A~~~~~~~~  212 (217)
T 2pl2_A          158 AELYLSMGRLDEALAQYAKALEQA-PKDLDLRVRYASALLLKGKAEEAARAAALEH  212 (217)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHTC---------------
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHccCHHHHHHHHHHHh
Confidence            999999999999999999998852 3367888899999999999999998887653

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.59  E-value=6.2e-14  Score=137.10  Aligned_cols=198  Identities=13%  Similarity=-0.004  Sum_probs=137.5

Q ss_pred             CCHHHHHHHHHHHHhcCChhHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHH
Q 003295          216 PSLKTCNFLLNSLVKANEVQKGIEVFETMCRGVSPDVFLFSTAINAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIH  295 (833)
Q Consensus       216 p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~  295 (833)
                      ++...+..+...+.+.|++++|...|++.+.-.|.+...+..+..++.+.|++++|...|++..+..+. +...+..+..
T Consensus         3 ~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~lg~   81 (217)
T 2pl2_A            3 TAEQNPLRLGVQLYALGRYDAALTLFERALKENPQDPEALYWLARTQLKLGLVNPALENGKTLVARTPR-YLGGYMVLSE   81 (217)
T ss_dssp             -CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-cHHHHHHHHH
Confidence            355677777888888888888888888888666777888888888888888888888888888876432 5667777888


Q ss_pred             HHHhc-----------CChhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHH
Q 003295          296 GLCRN-----------GRLYEAFHLKEKMVLREVEPSLITYSILINGLIKLEKFDDANFVLKEMSVRGFVPNYVVYNTLI  364 (833)
Q Consensus       296 ~~~~~-----------g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~y~~li  364 (833)
                      .+.+.           |++++|+..+++..+.. +.+...|..+...+...|++++|+..|++..+..  .+...+..+.
T Consensus        82 ~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~la  158 (217)
T 2pl2_A           82 AYVALYRQAEDRERGKGYLEQALSVLKDAERVN-PRYAPLHLQRGLVYALLGERDKAEASLKQALALE--DTPEIRSALA  158 (217)
T ss_dssp             HHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHHHH
T ss_pred             HHHHhhhhhhhhcccccCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCChHHHHHHHHHHHhcc--cchHHHHHHH
Confidence            88777           88888888887777653 3355667777777777888888888888777765  4677777777


Q ss_pred             HHHHHcCChHHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHH
Q 003295          365 DGYCKKGNISEALKIRDDMVSKGMSPNSVTFNSLIHGFCKSGQMDNAENALEEM  418 (833)
Q Consensus       365 ~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~l~~~  418 (833)
                      ..|...|++++|+..|++..+..+. +...+..+...+.+.|++++|.+.+++.
T Consensus       159 ~~~~~~g~~~~A~~~~~~al~~~P~-~~~~~~~la~~~~~~g~~~~A~~~~~~~  211 (217)
T 2pl2_A          159 ELYLSMGRLDEALAQYAKALEQAPK-DLDLRVRYASALLLKGKAEEAARAAALE  211 (217)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHTC--------------
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHccCHHHHHHHHHHH
Confidence            7777788888888888777765322 5566777777777777777777777654

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.57  E-value=1.2e-13  Score=140.77  Aligned_cols=247  Identities=12%  Similarity=-0.068  Sum_probs=191.1

Q ss_pred             hccCHHHHHHHHHHHHhCCCC---CCHHHHHHHHHHHHhcCChhHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHH
Q 003295          195 KNLGFGYAIDVFSIFSSKGIF---PSLKTCNFLLNSLVKANEVQKGIEVFETMCRGVSPDVFLFSTAINAFCKRGRIEDA  271 (833)
Q Consensus       195 ~~~~~~~A~~~f~~~~~~~~~---p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A  271 (833)
                      ..|++++|++.|+.+.+....   .+..+|..+...+...|++++|...|+++..-.+.+..+|..+..+|...|++++|
T Consensus        17 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~~~~~~A   96 (275)
T 1xnf_A           17 PTLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIRPDMPEVFNYLGIYLTQAGNFDAA   96 (275)
T ss_dssp             CCHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHHHH
T ss_pred             ccchHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHccCHHHH
Confidence            356788999999998876432   24678889999999999999999999999955567889999999999999999999


Q ss_pred             HHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHC
Q 003295          272 IGLFTKMEELGIAPNVVTYNNIIHGLCRNGRLYEAFHLKEKMVLREVEPSLITYSILINGLIKLEKFDDANFVLKEMSVR  351 (833)
Q Consensus       272 ~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~  351 (833)
                      .+.|+++.+... .+..++..++..|.+.|++++|...|+++.+.  .|+.......+..+...|++++|...+++....
T Consensus        97 ~~~~~~al~~~~-~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~--~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~  173 (275)
T 1xnf_A           97 YEAFDSVLELDP-TYNYAHLNRGIALYYGGRDKLAQDDLLAFYQD--DPNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEK  173 (275)
T ss_dssp             HHHHHHHHHHCT-TCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCc-cccHHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHhcCHHHHHHHHHHHHhc
Confidence            999999998743 26788999999999999999999999999875  455555555566667789999999999888765


Q ss_pred             CCCCChhhHHHHHHHHHHcCChHHHHHHHHHHHhCCCCC---ChhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCcc
Q 003295          352 GFVPNYVVYNTLIDGYCKKGNISEALKIRDDMVSKGMSP---NSVTFNSLIHGFCKSGQMDNAENALEEMLSRGLSINQG  428 (833)
Q Consensus       352 g~~p~~~~y~~li~~~~~~g~~~~A~~~~~~m~~~g~~p---~~~~~~~li~~~~~~g~~~~A~~~l~~~~~~g~~~~~~  428 (833)
                      . .++...+ .++..+...++.++|.+.+++........   +..++..+...|.+.|++++|...|+++.+..  |  .
T Consensus       174 ~-~~~~~~~-~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~--p--~  247 (275)
T 1xnf_A          174 S-DKEQWGW-NIVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANN--V--H  247 (275)
T ss_dssp             S-CCCSTHH-HHHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC--C--T
T ss_pred             C-CcchHHH-HHHHHHHHhcCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhCC--c--h
Confidence            3 2233343 47777888889999999999887653211   14678888889999999999999999988753  2  2


Q ss_pred             cHHHHHHHHHhcCChhHHHHHH
Q 003295          429 AYTSVIKWLCINSRFNSALHFT  450 (833)
Q Consensus       429 ~~~~li~~~~~~g~~~~A~~~~  450 (833)
                      .+......+...|++++|++.+
T Consensus       248 ~~~~~~~~~~~l~~~~~a~~~~  269 (275)
T 1xnf_A          248 NFVEHRYALLELSLLGQDQDDL  269 (275)
T ss_dssp             TCHHHHHHHHHHHHHHHC----
T ss_pred             hHHHHHHHHHHHHHHHhhHHHH
Confidence            2334455566667776666554

>1ouv_A Conserved hypothetical secreted protein; TPR repeat, HCP repeat, cysteine rich protein, loop-helix-TU repeat protein, hydrolase; 2.00A {Helicobacter pylori} SCOP: a.118.18.1

Probab=99.56  E-value=6.2e-12  Score=127.92  Aligned_cols=224  Identities=11%  Similarity=-0.018  Sum_probs=160.2

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHc----cCCHHHHHHHHHHHHHCCCccCHHHHH
Q 003295          566 DNYTYNLLLHGLCSLGKMEEAIELWEECKRTVFGPDIYTYGVMIDGFCK----ADKIEEGETLFNEMISKKMELNPVVYN  641 (833)
Q Consensus       566 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~~~  641 (833)
                      +..++..+...+...|++++|.+.|++..+.   .+...+..+...|..    .+++++|...|++..+.+   ++..+.
T Consensus         5 ~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~---~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~   78 (273)
T 1ouv_A            5 DPKELVGLGAKSYKEKDFTQAKKYFEKACDL---KENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCH   78 (273)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT---TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHH
T ss_pred             ChHHHHHHHHHHHhCCCHHHHHHHHHHHHHC---CCHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC---CHHHHH
Confidence            4455556666666666666676666666652   244555666666666    777777777777776664   566677


Q ss_pred             HHHHHHHH----cCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHCCCCCChhHHHHH
Q 003295          642 TLIRAYCK----IGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCN----IGLIEDAKCLFDEMRKEGLLPNVACYTAL  713 (833)
Q Consensus       642 ~li~~~~~----~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~g~~p~~~~~~~l  713 (833)
                      .+...|..    .+++++|++.|++..+.+   +...+..+...|..    .+++++|...|++..+.+   +...+..+
T Consensus        79 ~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~l  152 (273)
T 1ouv_A           79 LLGNLYYSGQGVSQNTNKALQYYSKACDLK---YAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLN---DGDGCTIL  152 (273)
T ss_dssp             HHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHHHH
T ss_pred             HHHHHHhCCCCcccCHHHHHHHHHHHHHcC---CccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhcC---cHHHHHHH
Confidence            77777777    777777777777777664   56667777777777    778888888888877754   45566667


Q ss_pred             HHHHHh----cCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 003295          714 IGGYCK----LGQMDEAESVLQEMASINIHPNKITYTIMIGGYCK----LGDMKEAAKLLNVMAEKGISPDSITYNVFMD  785 (833)
Q Consensus       714 i~~~~~----~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~  785 (833)
                      ...|..    .+++++|...+++..+.+   +...+..+...|..    .+++++|++.+++..+.+   +...+..+..
T Consensus       153 g~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~l~~  226 (273)
T 1ouv_A          153 GSLYDAGRGTPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE---NGGGCFNLGA  226 (273)
T ss_dssp             HHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHH
T ss_pred             HHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHhCC---CHHHHHHHHH
Confidence            777776    778888888888887753   46677778888888    888888888888888754   2667777888


Q ss_pred             HHhc----CCCHHHHHHHHHHHHHCC
Q 003295          786 GHCK----GGNVEEAFKVCDRMLSEG  807 (833)
Q Consensus       786 ~~~~----~g~~~~A~~~~~~m~~~g  807 (833)
                      .|..    .+++++|.+++++..+.|
T Consensus       227 ~~~~g~~~~~~~~~A~~~~~~a~~~~  252 (273)
T 1ouv_A          227 MQYNGEGVTRNEKQAIENFKKGCKLG  252 (273)
T ss_dssp             HHHTTSSSSCCSTTHHHHHHHHHHHT
T ss_pred             HHHcCCCcccCHHHHHHHHHHHHHcC
Confidence            8877    788888888888888743

>2ho1_A Type 4 fimbrial biogenesis protein PILF; type IV pilus biogenesis, TPR, superhelix, protein binding; HET: MSE; 2.00A {Pseudomonas aeruginosa} PDB: 2fi7_A

Probab=99.55  E-value=1.2e-12  Score=131.45  Aligned_cols=199  Identities=10%  Similarity=-0.000  Sum_probs=113.7

Q ss_pred             hhHHHHHHHHHccCCHHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 003295          603 YTYGVMIDGFCKADKIEEGETLFNEMISKKMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGL  682 (833)
Q Consensus       603 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~  682 (833)
                      ..+..+...+...|++++|...|+++.+..+. +...+..+...+...|++++|.+.++++.+.. +.+...+..+...+
T Consensus        38 ~~~~~~a~~~~~~~~~~~A~~~~~~al~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~  115 (252)
T 2ho1_A           38 DAYIQLGLGYLQRGNTEQAKVPLRKALEIDPS-SADAHAALAVVFQTEMEPKLADEEYRKALASD-SRNARVLNNYGGFL  115 (252)
T ss_dssp             HHHHHHHHHHHHTTCTGGGHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHhcCCC-hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHH
Confidence            33444455555555555555555555544322 45555555555666666666666666555543 22445555556666


Q ss_pred             HhcCCHHHHHHHHHHHHHCCCCC-ChhHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHH
Q 003295          683 CNIGLIEDAKCLFDEMRKEGLLP-NVACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEA  761 (833)
Q Consensus       683 ~~~g~~~~A~~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A  761 (833)
                      ...|++++|.++++++.+.+..| +...+..+...+...|++++|.+.++++.+.. +.+...+..++..+...|++++|
T Consensus       116 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~g~~~~A  194 (252)
T 2ho1_A          116 YEQKRYEEAYQRLLEASQDTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLN-RNQPSVALEMADLLYKEREYVPA  194 (252)
T ss_dssp             HHTTCHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHhHHHHHHHHHHHHHhCccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHcCCHHHH
Confidence            66666666666666665522223 34455556666666666666666666666542 33455666666666666666666


Q ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHH
Q 003295          762 AKLLNVMAEKGISPDSITYNVFMDGHCKGGNVEEAFKVCDRMLS  805 (833)
Q Consensus       762 ~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  805 (833)
                      ...++++.+.. +.+...+..++..+...|++++|.++++++.+
T Consensus       195 ~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~  237 (252)
T 2ho1_A          195 RQYYDLFAQGG-GQNARSLLLGIRLAKVFEDRDTAASYGLQLKR  237 (252)
T ss_dssp             HHHHHHHHTTS-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhC-cCcHHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            66666666532 23455566666666666666666666666665

>2h6f_A Protein farnesyltransferase/geranylgeranyltransferase type I alpha subunit; ftase, farnesyltransferase, farnesyl transferase, prenyltransferase, CAAX, RAS, lipid modification, prenylation; HET: SUC FAR; 1.50A {Homo sapiens} SCOP: a.118.6.1 PDB: 1jcq_A* 1ld7_A* 1mzc_A* 1s63_A* 1sa4_A* 1tn6_A* 1ld8_A* 2h6g_A* 2h6h_A* 2h6i_A* 2iej_A* 3e37_A* 2f0y_A* 3ksl_A* 2zir_A* 2zis_A* 1o5m_A* 3ksq_A* 1o1t_A* 1o1s_A* ...

Probab=99.54  E-value=1.2e-12  Score=138.87  Aligned_cols=247  Identities=12%  Similarity=0.073  Sum_probs=149.2

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHccCC-HHHHHHHHHHHHHCCCccCHHHHHHHHHH
Q 003295          568 YTYNLLLHGLCSLGKMEEAIELWEECKRTVFGPDIYTYGVMIDGFCKADK-IEEGETLFNEMISKKMELNPVVYNTLIRA  646 (833)
Q Consensus       568 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~-~~~A~~~~~~~~~~~~~~~~~~~~~li~~  646 (833)
                      ..|..+...+.+.|++++|+..++++++.. +.+...|+.+..++.+.|+ +++|+..|+++++..+. +...|..+..+
T Consensus        98 ~a~~~lg~~~~~~g~~~~Al~~~~~al~l~-P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~P~-~~~a~~~~g~~  175 (382)
T 2h6f_A           98 DVYDYFRAVLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPK-NYQVWHHRRVL  175 (382)
T ss_dssp             HHHHHHHHHHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTT-CHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCChHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHCCC-CHHHHHHHHHH
Confidence            345555555566666666666666665542 2235556666666666664 66666666666665544 56666666666


Q ss_pred             HHHcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHh-cCChhH
Q 003295          647 YCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCK-LGQMDE  725 (833)
Q Consensus       647 ~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~-~g~~~~  725 (833)
                      +.+.|++++|+..|+++++.. +-+...|..+..++.+.|++++|+..++++++.. +-+...|+.+..++.+ .|..++
T Consensus       176 ~~~~g~~~eAl~~~~kal~ld-P~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l~-P~~~~a~~~lg~~l~~l~~~~~e  253 (382)
T 2h6f_A          176 VEWLRDPSQELEFIADILNQD-AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKED-VRNNSVWNQRYFVISNTTGYNDR  253 (382)
T ss_dssp             HHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCSCSH
T ss_pred             HHHccCHHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCcchH
Confidence            666677777777776666654 3355666666666667777777777777776642 2345666666666666 444466


Q ss_pred             H-----HHHHHHHHhCCCCCCHHHHHHHHHHHHhcC--CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCC-------
Q 003295          726 A-----ESVLQEMASINIHPNKITYTIMIGGYCKLG--DMKEAAKLLNVMAEKGISPDSITYNVFMDGHCKGG-------  791 (833)
Q Consensus       726 A-----~~~~~~m~~~g~~p~~~~~~~li~~~~~~g--~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g-------  791 (833)
                      |     +..+++.++.. +-+...|..+...+...|  ++++|++.+.++ +. -+.+...+..++..|.+.|       
T Consensus       254 A~~~~el~~~~~Al~l~-P~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~-~~-~p~~~~al~~La~~~~~~~~~~~~~~  330 (382)
T 2h6f_A          254 AVLEREVQYTLEMIKLV-PHNESAWNYLKGILQDRGLSKYPNLLNQLLDL-QP-SHSSPYLIAFLVDIYEDMLENQCDNK  330 (382)
T ss_dssp             HHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHTTTCGGGCHHHHHHHHHH-TT-TCCCHHHHHHHHHHHHHHHHTTCSSH
T ss_pred             HHHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHccCccchHHHHHHHHHh-cc-CCCCHHHHHHHHHHHHHHhcccccch
Confidence            6     36666666543 345566766776666666  466777776666 32 2234566666777776653       


Q ss_pred             --CHHHHHHHHHHH-HHCCCCCC-HHHHHHHHHhhc
Q 003295          792 --NVEEAFKVCDRM-LSEGLSLD-EITYTTLIDGWQ  823 (833)
Q Consensus       792 --~~~~A~~~~~~m-~~~g~~p~-~~~~~~l~~~~~  823 (833)
                        ..++|+++++++ .+  +.|+ ...|..+...+.
T Consensus       331 ~~~~~~A~~~~~~l~~~--~DP~r~~~w~~~~~~l~  364 (382)
T 2h6f_A          331 EDILNKALELCEILAKE--KDTIRKEYWRYIGRSLQ  364 (382)
T ss_dssp             HHHHHHHHHHHHHHHHT--TCGGGHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHH--hCchhHHHHHHHHHHHH
Confidence              246777777776 44  4454 455555544443

>4e6h_A MRNA 3'-END-processing protein RNA14; HAT domain, heat repeat, CLP1, PCF11, structural protein; 2.30A {Kluyveromyces lactis} PDB: 4e85_A 4eba_A

Probab=99.54  E-value=1.5e-10  Score=130.97  Aligned_cols=458  Identities=11%  Similarity=0.016  Sum_probs=228.0

Q ss_pred             HHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCC---hhHHHHHHH
Q 003295          200 GYAIDVFSIFSSKGIFPSLKTCNFLLNSLVKANEVQKGIEVFETMCRGVSPDVFLFSTAINAFCKRGR---IEDAIGLFT  276 (833)
Q Consensus       200 ~~A~~~f~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~---~~~A~~~~~  276 (833)
                      .+.+..|+..+..++. |..+|..++..+.+.+.++.+..+|+.++.-+|.....|...+..-.+.|.   ++.+..+|+
T Consensus        49 ~d~i~~lE~~l~~np~-d~~~W~~yi~~~~~~~~~~~aR~vyEraL~~fP~~~~lW~~Yi~~E~~~~~~~~~~~v~~lfe  127 (679)
T 4e6h_A           49 SDVIGKLNDMIEEQPT-DIFLYVKLLKHHVSLKQWKQVYETFDKLHDRFPLMANIWCMRLSLEFDKMEELDAAVIEPVLA  127 (679)
T ss_dssp             SCHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTC--CCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCcC-CHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHhhCCcchHHHHHHHHH
Confidence            4555666666666654 788888888888888888888888888886677777788888877777777   888888888


Q ss_pred             HHHHcCC-CCChhhHHHHHHHHHhcCCh----hH----HHHHHHHHHh-CCC-CCC-hhhHHHHHHHHHh---------c
Q 003295          277 KMEELGI-APNVVTYNNIIHGLCRNGRL----YE----AFHLKEKMVL-REV-EPS-LITYSILINGLIK---------L  335 (833)
Q Consensus       277 ~m~~~g~-~p~~~~~~~li~~~~~~g~~----~~----A~~~~~~m~~-~~~-~p~-~~t~~~li~~~~~---------~  335 (833)
                      +...... .|++..|...+....+.++.    ++    ..++|+.+.. .|. .++ ...|...+.....         .
T Consensus       128 Ral~~~~~~~sv~LW~~Yl~f~~~~~~~~~~~~~~r~~vr~~FErAl~~vG~~d~~s~~iW~~Yi~f~~~~~~~~~~eeq  207 (679)
T 4e6h_A          128 RCLSKELGNNDLSLWLSYITYVRKKNDIITGGEEARNIVIQAFQVVVDKCAIFEPKSIQFWNEYLHFLEHWKPVNKFEEQ  207 (679)
T ss_dssp             HHTCSSSCCCCHHHHHHHHHHHHHHSCSTTTHHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHTCCCCSHHHHH
T ss_pred             HHHHhcCCCCCHHHHHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHhccccCcHHHH
Confidence            8876531 26777777777665555543    22    3366666553 244 333 3556666654332         2


Q ss_pred             CChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChhHHHHHH
Q 003295          336 EKFDDANFVLKEMSVRGFVPNYVVYNTLIDGYCKKGNISEALKIRDDMVSKGMSPNSVTFNSLIHGFCKSGQMDNAENAL  415 (833)
Q Consensus       336 g~~~~A~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~l  415 (833)
                      ++++.+..+|+.++......-..+|..... +.+.-+...+.+++.+                     ...+++.|...+
T Consensus       208 ~~~~~~R~iy~raL~iP~~~~~~~w~~Y~~-fe~~~~~~~a~~~~~e---------------------~~~~y~~Ar~~~  265 (679)
T 4e6h_A          208 QRVQYIRKLYKTLLCQPMDCLESMWQRYTQ-WEQDVNQLTARRHIGE---------------------LSAQYMNARSLY  265 (679)
T ss_dssp             HHHHHHHHHHHHHTTSCCSSHHHHHHHHHH-HHHHHCTTTHHHHHHH---------------------HHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHhCccHHHHHHHHHHHH-HHHhcCcchHHHHHHH---------------------hhHHHHHHHHHH
Confidence            334556666666553211000111111110 0000000001111110                     011233344444


Q ss_pred             HHHHHC--CCC---CCc-cc--HHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcC-------CHHH
Q 003295          416 EEMLSR--GLS---INQ-GA--YTSVIKWLCINSRFNSALHFTKEMLLRNLRPGDGLLTLLVSGLCKNG-------KQAE  480 (833)
Q Consensus       416 ~~~~~~--g~~---~~~-~~--~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g-------~~~~  480 (833)
                      .++...  ++.   |.. .+  ...+ ...  .......+.++..               .+..--..+       ..+.
T Consensus       266 ~e~~~~~~~l~r~~p~~~~~~~~~~~-p~~--~~~~~~ql~lW~~---------------yi~fEk~~~~~l~~~~~~~R  327 (679)
T 4e6h_A          266 QDWLNITKGLKRNLPITLNQATESNL-PKP--NEYDVQQLLIWLE---------------WIRWESDNKLELSDDLHKAR  327 (679)
T ss_dssp             HHHHHHTTTCCCCCCSSSTTCCTTTS-CCT--TCCCHHHHHHHHH---------------HHHHHHTCTTCCCHHHHHHH
T ss_pred             HHHHHHHHhHhhccccccccchhccC-CCC--chhHHHHHHHHHH---------------HHHHHHhCCccccchhhHHH
Confidence            433221  110   000 00  0000 000  0000011111111               111111111       1223


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHH-HHHHHHhhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHH
Q 003295          481 ATELCFRLFEKGFTVNTVTSNALIHGMCEAGNLKEAG-KLLMEMLQRGLILDKVTYNTLILGCCKDGKPEEGFKLKEDMI  559 (833)
Q Consensus       481 A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~-~~l~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~  559 (833)
                      +..+|++.+.. ++.+...|...+..+...|+.++|. .+|++..... +.+...|...+...-+.|++++|.++|+.++
T Consensus       328 v~~~Ye~aL~~-~p~~~~lW~~ya~~~~~~~~~~~a~r~il~rAi~~~-P~s~~Lwl~~a~~ee~~~~~e~aR~iyek~l  405 (679)
T 4e6h_A          328 MTYVYMQAAQH-VCFAPEIWFNMANYQGEKNTDSTVITKYLKLGQQCI-PNSAVLAFSLSEQYELNTKIPEIETTILSCI  405 (679)
T ss_dssp             HHHHHHHHHHH-TTTCHHHHHHHHHHHHHHSCCTTHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHH-cCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhCCHHHHHHHHHHHH
Confidence            44455555554 3335666666666666666666665 7777666542 2245555556666666677777777777666


Q ss_pred             HCCC---------CCC------------HHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHcc-CC
Q 003295          560 KRGI---------QPD------------NYTYNLLLHGLCSLGKMEEAIELWEECKRTVFGPDIYTYGVMIDGFCKA-DK  617 (833)
Q Consensus       560 ~~g~---------~p~------------~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~-g~  617 (833)
                      +...         .|+            ...|...+....+.|+.+.|..+|..+.+.-.......|...+..-.+. ++
T Consensus       406 ~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi~y~~~erR~~~l~~AR~vf~~A~~~~~~~~~~lyi~~A~lE~~~~~d  485 (679)
T 4e6h_A          406 DRIHLDLAALMEDDPTNESAINQLKSKLTYVYCVYMNTMKRIQGLAASRKIFGKCRRLKKLVTPDIYLENAYIEYHISKD  485 (679)
T ss_dssp             HHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHTGGGSCTHHHHHHHHHHHTTTSC
T ss_pred             HHHHHHhhhhhhccCcchhhhhhhccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHhCCC
Confidence            5310         121            2245555555555666666666666665541011122232222222232 33


Q ss_pred             HHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCC--CHHHHHHHHHHHHhcCCHHHHHHHH
Q 003295          618 IEEGETLFNEMISKKMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILP--TSVTYSSLIHGLCNIGLIEDAKCLF  695 (833)
Q Consensus       618 ~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p--~~~~~~~li~~~~~~g~~~~A~~~~  695 (833)
                      .+.|.++|+..++.-+. +...|...+......|+.+.|..+|++.......+  ....|...+..-.+.|+.+.+.++.
T Consensus       486 ~e~Ar~ife~~Lk~~p~-~~~~w~~y~~fe~~~~~~~~AR~lferal~~~~~~~~~~~lw~~~~~fE~~~G~~~~~~~v~  564 (679)
T 4e6h_A          486 TKTACKVLELGLKYFAT-DGEYINKYLDFLIYVNEESQVKSLFESSIDKISDSHLLKMIFQKVIFFESKVGSLNSVRTLE  564 (679)
T ss_dssp             CHHHHHHHHHHHHHHTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHTTTSSSTTHHHHHHHHHHHHHHHTCCSHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCC-chHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            66666666666655222 45555566666666666666666666666543211  2234555555555666666666666


Q ss_pred             HHHHHC
Q 003295          696 DEMRKE  701 (833)
Q Consensus       696 ~~m~~~  701 (833)
                      +++.+.
T Consensus       565 ~R~~~~  570 (679)
T 4e6h_A          565 KRFFEK  570 (679)
T ss_dssp             HHHHHH
T ss_pred             HHHHHh
Confidence            666654

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.54  E-value=8.6e-13  Score=134.14  Aligned_cols=228  Identities=12%  Similarity=0.035  Sum_probs=97.4

Q ss_pred             HHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCcc--CHHHHHHHHHHHHHcC
Q 003295          574 LHGLCSLGKMEEAIELWEECKRTVFGPDIYTYGVMIDGFCKADKIEEGETLFNEMISKKMEL--NPVVYNTLIRAYCKIG  651 (833)
Q Consensus       574 i~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~--~~~~~~~li~~~~~~g  651 (833)
                      ...+...|++++|+..|+++.+.. +.+...+..+...|...|++++|+..+++..+....+  ....|..+...+...|
T Consensus        10 a~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg~~~~~~~   88 (272)
T 3u4t_A           10 ADFLFKNNNYAEAIEVFNKLEAKK-YNSPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSADFEYYGKILMKKG   88 (272)
T ss_dssp             HHHHHTTTCHHHHHHHHHHHHHTT-CCCSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHHHHHHHHcc
Confidence            333444444444444444444332 1122234444444444444444444444444421111  1222444444444444


Q ss_pred             ChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCChhHHHHHHH
Q 003295          652 NTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESVLQ  731 (833)
Q Consensus       652 ~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~  731 (833)
                      ++++|++.+++..+.. +.+..++..+...+...|++++|...+++..+.. +.+...|..+...+...+++++|.+.++
T Consensus        89 ~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~  166 (272)
T 3u4t_A           89 QDSLAIQQYQAAVDRD-TTRLDMYGQIGSYFYNKGNFPLAIQYMEKQIRPT-TTDPKVFYELGQAYYYNKEYVKADSSFV  166 (272)
T ss_dssp             CHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHGGGCCSS-CCCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHhhcC-CCcHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4444444444444432 1233444444445555555555555555444431 2233334444412222335555555555


Q ss_pred             HHHhCCCCCCHHHHHHHHHHHHhcCC---HHHHHHHHHHHHHcC-CCCC------HHHHHHHHHHHhcCCCHHHHHHHHH
Q 003295          732 EMASINIHPNKITYTIMIGGYCKLGD---MKEAAKLLNVMAEKG-ISPD------SITYNVFMDGHCKGGNVEEAFKVCD  801 (833)
Q Consensus       732 ~m~~~g~~p~~~~~~~li~~~~~~g~---~~~A~~~~~~m~~~g-~~p~------~~~~~~l~~~~~~~g~~~~A~~~~~  801 (833)
                      ++.+.. +.+...+..+..++...|+   +++|...++++.+.. -.|+      ..+|..++..|...|++++|.+.++
T Consensus       167 ~a~~~~-p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~  245 (272)
T 3u4t_A          167 KVLELK-PNIYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVCAPGGAKYKDELIEANEYIAYYYTINRDKVKADAAWK  245 (272)
T ss_dssp             HHHHHS-TTCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHHGGGGGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHhC-ccchHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            554432 2234444444444444444   444555555444320 0111      1344455555555555555555555


Q ss_pred             HHHH
Q 003295          802 RMLS  805 (833)
Q Consensus       802 ~m~~  805 (833)
                      ++++
T Consensus       246 ~al~  249 (272)
T 3u4t_A          246 NILA  249 (272)
T ss_dssp             HHHH
T ss_pred             HHHh
Confidence            5555

>4e6h_A MRNA 3'-END-processing protein RNA14; HAT domain, heat repeat, CLP1, PCF11, structural protein; 2.30A {Kluyveromyces lactis} PDB: 4e85_A 4eba_A

Probab=99.54  E-value=8.4e-11  Score=132.94  Aligned_cols=436  Identities=11%  Similarity=0.049  Sum_probs=258.0

Q ss_pred             hhhHHHHHHHHHHhhhccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC---hhHHHHHHHHhhcCC--CCCHHH
Q 003295          180 VQIADLLVHVYCTQFKNLGFGYAIDVFSIFSSKGIFPSLKTCNFLLNSLVKANE---VQKGIEVFETMCRGV--SPDVFL  254 (833)
Q Consensus       180 ~~~~~~l~~~~~~~~~~~~~~~A~~~f~~~~~~~~~p~~~~~~~ll~~~~~~g~---~~~A~~~~~~~~~~~--~~~~~~  254 (833)
                      ...+..+++...   +.+.+..+..+|+++...-+ .+...|..-+..-.+.|.   ++.+..+|++.+...  +|++..
T Consensus        66 ~~~W~~yi~~~~---~~~~~~~aR~vyEraL~~fP-~~~~lW~~Yi~~E~~~~~~~~~~~v~~lfeRal~~~~~~~sv~L  141 (679)
T 4e6h_A           66 IFLYVKLLKHHV---SLKQWKQVYETFDKLHDRFP-LMANIWCMRLSLEFDKMEELDAAVIEPVLARCLSKELGNNDLSL  141 (679)
T ss_dssp             HHHHHHHHHHHH---HTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHTC--CCCHHHHHHHHHHHTCSSSCCCCHHH
T ss_pred             HHHHHHHHHHHH---hcCcHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHhhCCcchHHHHHHHHHHHHHhcCCCCCHHH
Confidence            344555565543   46789999999999987643 378889999999889998   999999999999655  489999


Q ss_pred             HHHHHHHHHhcCCh----hH----HHHHHHHHHH-cCC-CCC-hhhHHHHHHHHHh---------cCChhHHHHHHHHHH
Q 003295          255 FSTAINAFCKRGRI----ED----AIGLFTKMEE-LGI-APN-VVTYNNIIHGLCR---------NGRLYEAFHLKEKMV  314 (833)
Q Consensus       255 ~~~li~~~~~~g~~----~~----A~~~~~~m~~-~g~-~p~-~~~~~~li~~~~~---------~g~~~~A~~~~~~m~  314 (833)
                      |...+.-..+.++.    ++    ..++|+.... .|. .++ ...|...+.....         .++++.++.+|++++
T Consensus       142 W~~Yl~f~~~~~~~~~~~~~~r~~vr~~FErAl~~vG~~d~~s~~iW~~Yi~f~~~~~~~~~~eeq~~~~~~R~iy~raL  221 (679)
T 4e6h_A          142 WLSYITYVRKKNDIITGGEEARNIVIQAFQVVVDKCAIFEPKSIQFWNEYLHFLEHWKPVNKFEEQQRVQYIRKLYKTLL  221 (679)
T ss_dssp             HHHHHHHHHHHSCSTTTHHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHTCCCCSHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHhccccCcHHHHhHHHHHHHHHHHHH
Confidence            99988877776654    33    4578887654 465 554 4678888876542         346788999999988


Q ss_pred             hCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHHcCChHHHHHHHHHHHh--CCCC---
Q 003295          315 LREVEPSLITYSILINGLIKLEKFDDANFVLKEMSVRGFVPNYVVYNTLIDGYCKKGNISEALKIRDDMVS--KGMS---  389 (833)
Q Consensus       315 ~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~A~~~~~~m~~--~g~~---  389 (833)
                      ......-..+|......--..+. ..+..++.+                     ...+++.|...+.++..  .++.   
T Consensus       222 ~iP~~~~~~~w~~Y~~fe~~~~~-~~a~~~~~e---------------------~~~~y~~Ar~~~~e~~~~~~~l~r~~  279 (679)
T 4e6h_A          222 CQPMDCLESMWQRYTQWEQDVNQ-LTARRHIGE---------------------LSAQYMNARSLYQDWLNITKGLKRNL  279 (679)
T ss_dssp             TSCCSSHHHHHHHHHHHHHHHCT-TTHHHHHHH---------------------HHHHHHHHHHHHHHHHHHTTTCCCCC
T ss_pred             hCccHHHHHHHHHHHHHHHhcCc-chHHHHHHH---------------------hhHHHHHHHHHHHHHHHHHHhHhhcc
Confidence            53111112233222211111011 111222111                     11234445555544321  1111   


Q ss_pred             CC--------------------hhHHHHHHHHHHhcC-------ChhHHHHHHHHHHHCCCCCCcccHHHHHHHHHhcCC
Q 003295          390 PN--------------------SVTFNSLIHGFCKSG-------QMDNAENALEEMLSRGLSINQGAYTSVIKWLCINSR  442 (833)
Q Consensus       390 p~--------------------~~~~~~li~~~~~~g-------~~~~A~~~l~~~~~~g~~~~~~~~~~li~~~~~~g~  442 (833)
                      |.                    ...|...+..--..+       ..+.+..+|++++.. .+-+.               
T Consensus       280 p~~~~~~~~~~~p~~~~~~~~ql~lW~~yi~fEk~~~~~l~~~~~~~Rv~~~Ye~aL~~-~p~~~---------------  343 (679)
T 4e6h_A          280 PITLNQATESNLPKPNEYDVQQLLIWLEWIRWESDNKLELSDDLHKARMTYVYMQAAQH-VCFAP---------------  343 (679)
T ss_dssp             CSSSTTCCTTTSCCTTCCCHHHHHHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHH-TTTCH---------------
T ss_pred             ccccccchhccCCCCchhHHHHHHHHHHHHHHHHhCCccccchhhHHHHHHHHHHHHHH-cCCCH---------------
Confidence            10                    112333332211111       011223344444433 22233               


Q ss_pred             hhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHH-HHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 003295          443 FNSALHFTKEMLLRNLRPGDGLLTLLVSGLCKNGKQAEAT-ELCFRLFEKGFTVNTVTSNALIHGMCEAGNLKEAGKLLM  521 (833)
Q Consensus       443 ~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~-~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~l~  521 (833)
                                          ..+...+..+...|+.++|. +++++.+.. ++.+...|-..+...-+.|++++|.++|+
T Consensus       344 --------------------~lW~~ya~~~~~~~~~~~a~r~il~rAi~~-~P~s~~Lwl~~a~~ee~~~~~e~aR~iye  402 (679)
T 4e6h_A          344 --------------------EIWFNMANYQGEKNTDSTVITKYLKLGQQC-IPNSAVLAFSLSEQYELNTKIPEIETTIL  402 (679)
T ss_dssp             --------------------HHHHHHHHHHHHHSCCTTHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             --------------------HHHHHHHHHHHhcCcHHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHhCCHHHHHHHHH
Confidence                                34444444444455555554 555555543 33345555555555556666666666666


Q ss_pred             HHhhCCC---------CC------------CHHHHHHHHHHHHhcCChhhHHHHHHHHHHC-CCCCCHHHHHHHHHHHHh
Q 003295          522 EMLQRGL---------IL------------DKVTYNTLILGCCKDGKPEEGFKLKEDMIKR-GIQPDNYTYNLLLHGLCS  579 (833)
Q Consensus       522 ~m~~~g~---------~~------------~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-g~~p~~~~~~~li~~~~~  579 (833)
                      ++.+...         .|            ....|...+....+.|+.+.|..+|..+++. +.. ....|...+..-.+
T Consensus       403 k~l~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi~y~~~erR~~~l~~AR~vf~~A~~~~~~~-~~~lyi~~A~lE~~  481 (679)
T 4e6h_A          403 SCIDRIHLDLAALMEDDPTNESAINQLKSKLTYVYCVYMNTMKRIQGLAASRKIFGKCRRLKKLV-TPDIYLENAYIEYH  481 (679)
T ss_dssp             HHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHTGGGS-CTHHHHHHHHHHHT
T ss_pred             HHHHHHHHHhhhhhhccCcchhhhhhhccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcCCC-ChHHHHHHHHHHHH
Confidence            6554210         01            2335777777777888889999999988876 211 22233332222333


Q ss_pred             c-CCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCc--cCHHHHHHHHHHHHHcCChHHH
Q 003295          580 L-GKMEEAIELWEECKRTVFGPDIYTYGVMIDGFCKADKIEEGETLFNEMISKKME--LNPVVYNTLIRAYCKIGNTTAA  656 (833)
Q Consensus       580 ~-g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~--~~~~~~~~li~~~~~~g~~~~A  656 (833)
                      . ++.+.|..+|+...+. ++.+...+...++.....|+.+.|..+|+..+.....  -....|...+..-.+.|+.+.+
T Consensus       482 ~~~d~e~Ar~ife~~Lk~-~p~~~~~w~~y~~fe~~~~~~~~AR~lferal~~~~~~~~~~~lw~~~~~fE~~~G~~~~~  560 (679)
T 4e6h_A          482 ISKDTKTACKVLELGLKY-FATDGEYINKYLDFLIYVNEESQVKSLFESSIDKISDSHLLKMIFQKVIFFESKVGSLNSV  560 (679)
T ss_dssp             TTSCCHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHTTTSSSTTHHHHHHHHHHHHHHHTCCSHHH
T ss_pred             hCCCHHHHHHHHHHHHHH-CCCchHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCCHHHH
Confidence            3 4588999999988876 4456667778888888889999999999998877542  2456888888888899999999


Q ss_pred             HHHHHHHHhCCCCCCHHHHHHHHHHH
Q 003295          657 FRLSNDMKSRGILPTSVTYSSLIHGL  682 (833)
Q Consensus       657 ~~~~~~m~~~~~~p~~~~~~~li~~~  682 (833)
                      .++.+++.+.-  |+......+++-|
T Consensus       561 ~~v~~R~~~~~--P~~~~~~~f~~ry  584 (679)
T 4e6h_A          561 RTLEKRFFEKF--PEVNKLEEFTNKY  584 (679)
T ss_dssp             HHHHHHHHHHS--TTCCHHHHHHHHT
T ss_pred             HHHHHHHHHhC--CCCcHHHHHHHHh
Confidence            99999998873  4433344444333

>1ouv_A Conserved hypothetical secreted protein; TPR repeat, HCP repeat, cysteine rich protein, loop-helix-TU repeat protein, hydrolase; 2.00A {Helicobacter pylori} SCOP: a.118.18.1

Probab=99.54  E-value=7.3e-12  Score=127.39  Aligned_cols=223  Identities=11%  Similarity=-0.027  Sum_probs=126.3

Q ss_pred             CHHHHHHHHHHHHhcCChhHHHHHHHHhhcCCCCCHHHHHHHHHHHHh----cCChhHHHHHHHHHHHcCCCCChhhHHH
Q 003295          217 SLKTCNFLLNSLVKANEVQKGIEVFETMCRGVSPDVFLFSTAINAFCK----RGRIEDAIGLFTKMEELGIAPNVVTYNN  292 (833)
Q Consensus       217 ~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~g~~p~~~~~~~  292 (833)
                      +..++..+...+.+.|++++|...|++...  +.+..++..+...|..    .|++++|...|++..+.+   +...+..
T Consensus         5 ~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~--~~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~   79 (273)
T 1ouv_A            5 DPKELVGLGAKSYKEKDFTQAKKYFEKACD--LKENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCHL   79 (273)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--TTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHH
T ss_pred             ChHHHHHHHHHHHhCCCHHHHHHHHHHHHH--CCCHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC---CHHHHHH
Confidence            344555555556666666666666666553  2334555556666666    666666666666666543   4555556


Q ss_pred             HHHHHHh----cCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHHh----cCChhHHHHHHHHHHHCCCCCChhhHHHHH
Q 003295          293 IIHGLCR----NGRLYEAFHLKEKMVLREVEPSLITYSILINGLIK----LEKFDDANFVLKEMSVRGFVPNYVVYNTLI  364 (833)
Q Consensus       293 li~~~~~----~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~----~g~~~~A~~~~~~m~~~g~~p~~~~y~~li  364 (833)
                      +...|..    .|++++|++.|++..+.+   +..++..+...|..    .+++++|...|++..+.+   +...+..+.
T Consensus        80 lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg  153 (273)
T 1ouv_A           80 LGNLYYSGQGVSQNTNKALQYYSKACDLK---YAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLN---DGDGCTILG  153 (273)
T ss_dssp             HHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHH
T ss_pred             HHHHHhCCCCcccCHHHHHHHHHHHHHcC---CccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhcC---cHHHHHHHH
Confidence            6666666    666666666666666543   45555556666655    666666666666665543   344555555


Q ss_pred             HHHHH----cCChHHHHHHHHHHHhCCCCCChhHHHHHHHHHHh----cCChhHHHHHHHHHHHCCCCCCcccHHHHHHH
Q 003295          365 DGYCK----KGNISEALKIRDDMVSKGMSPNSVTFNSLIHGFCK----SGQMDNAENALEEMLSRGLSINQGAYTSVIKW  436 (833)
Q Consensus       365 ~~~~~----~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~----~g~~~~A~~~l~~~~~~g~~~~~~~~~~li~~  436 (833)
                      ..|..    .+++++|...|++..+.+   +...+..+...|.+    .+++++|.+.|++..+.+   +...+..+...
T Consensus       154 ~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~l~~~  227 (273)
T 1ouv_A          154 SLYDAGRGTPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE---NGGGCFNLGAM  227 (273)
T ss_dssp             HHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHH
T ss_pred             HHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHhCC---CHHHHHHHHHH
Confidence            55555    566666666666655542   34455555555655    666666666666655543   23444444555


Q ss_pred             HHh----cCChhHHHHHHHHHHHC
Q 003295          437 LCI----NSRFNSALHFTKEMLLR  456 (833)
Q Consensus       437 ~~~----~g~~~~A~~~~~~~~~~  456 (833)
                      |..    .+++++|.+.++...+.
T Consensus       228 ~~~g~~~~~~~~~A~~~~~~a~~~  251 (273)
T 1ouv_A          228 QYNGEGVTRNEKQAIENFKKGCKL  251 (273)
T ss_dssp             HHTTSSSSCCSTTHHHHHHHHHHH
T ss_pred             HHcCCCcccCHHHHHHHHHHHHHc
Confidence            554    45555555555544443

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.53  E-value=2.5e-12  Score=126.34  Aligned_cols=207  Identities=10%  Similarity=0.009  Sum_probs=129.6

Q ss_pred             HhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 003295          602 IYTYGVMIDGFCKADKIEEGETLFNEMISKKMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHG  681 (833)
Q Consensus       602 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~  681 (833)
                      ...+..+...+...|++++|.+.++++.+..+. +...+..+...+...|++++|.+.++++.+.. +.+..++..+...
T Consensus         8 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~   85 (225)
T 2vq2_A            8 SNIKTQLAMEYMRGQDYRQATASIEDALKSDPK-NELAWLVRAEIYQYLKVNDKAQESFRQALSIK-PDSAEINNNYGWF   85 (225)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhHHHHHHHHHHHHHhCcc-chHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCChHHHHHHHHH
Confidence            444555555666666666666666666554332 45566666666666666666666666666543 3355566666666


Q ss_pred             HHhc-CCHHHHHHHHHHHHHCCCCC-ChhHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHH
Q 003295          682 LCNI-GLIEDAKCLFDEMRKEGLLP-NVACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMK  759 (833)
Q Consensus       682 ~~~~-g~~~~A~~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~  759 (833)
                      +... |++++|...++++.+.+..| +...+..+...+...|++++|...++++.+.. +.+...+..++..+...|+++
T Consensus        86 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~  164 (225)
T 2vq2_A           86 LCGRLNRPAESMAYFDKALADPTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAAQ-PQFPPAFKELARTKMLAGQLG  164 (225)
T ss_dssp             HHTTTCCHHHHHHHHHHHHTSTTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCHH
T ss_pred             HHHhcCcHHHHHHHHHHHHcCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCchHHHHHHHHHHHcCCHH
Confidence            6677 77777777777766622223 24556666677777777777777777776643 344666777777777777777


Q ss_pred             HHHHHHHHHHHcCCC-CCHHHHHHHHHHHhcCCCHHHHHHHHHHHHHCCCCCCHHH
Q 003295          760 EAAKLLNVMAEKGIS-PDSITYNVFMDGHCKGGNVEEAFKVCDRMLSEGLSLDEIT  814 (833)
Q Consensus       760 ~A~~~~~~m~~~g~~-p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~  814 (833)
                      +|.+.++++.+.. + .+...+..+...+...|+.++|..+++.+.+  ..|+...
T Consensus       165 ~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~--~~p~~~~  217 (225)
T 2vq2_A          165 DADYYFKKYQSRV-EVLQADDLLLGWKIAKALGNAQAAYEYEAQLQA--NFPYSEE  217 (225)
T ss_dssp             HHHHHHHHHHHHH-CSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHH
T ss_pred             HHHHHHHHHHHhC-CCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHH--hCCCCHH
Confidence            7777777776642 2 3555666666666777777777777777665  2455333

>2h6f_A Protein farnesyltransferase/geranylgeranyltransferase type I alpha subunit; ftase, farnesyltransferase, farnesyl transferase, prenyltransferase, CAAX, RAS, lipid modification, prenylation; HET: SUC FAR; 1.50A {Homo sapiens} SCOP: a.118.6.1 PDB: 1jcq_A* 1ld7_A* 1mzc_A* 1s63_A* 1sa4_A* 1tn6_A* 1ld8_A* 2h6g_A* 2h6h_A* 2h6i_A* 2iej_A* 3e37_A* 2f0y_A* 3ksl_A* 2zir_A* 2zis_A* 1o5m_A* 3ksq_A* 1o1t_A* 1o1s_A* ...

Probab=99.52  E-value=1.6e-12  Score=137.74  Aligned_cols=147  Identities=7%  Similarity=-0.017  Sum_probs=64.7

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCC-hhhHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 003295          499 TSNALIHGMCEAGNLKEAGKLLMEMLQRGLILDKVTYNTLILGCCKDGK-PEEGFKLKEDMIKRGIQPDNYTYNLLLHGL  577 (833)
Q Consensus       499 ~~~~li~~~~~~g~~~~A~~~l~~m~~~g~~~~~~~~~~li~~~~~~g~-~~~A~~~~~~m~~~g~~p~~~~~~~li~~~  577 (833)
                      .|+.+...+.+.|++++|+..++++++..+. +...|+.+...+...|+ +++|+..++++++.... +...|..+..++
T Consensus        99 a~~~lg~~~~~~g~~~~Al~~~~~al~l~P~-~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~P~-~~~a~~~~g~~~  176 (382)
T 2h6f_A           99 VYDYFRAVLQRDERSERAFKLTRDAIELNAA-NYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPK-NYQVWHHRRVLV  176 (382)
T ss_dssp             HHHHHHHHHHHTCCCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCChHHHHHHHHHHHHhCcc-CHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHH
Confidence            4444444455555555555555555544433 44444545555555553 55555555554444322 344444444444


Q ss_pred             HhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCccCHHHHHHHHHHHHH
Q 003295          578 CSLGKMEEAIELWEECKRTVFGPDIYTYGVMIDGFCKADKIEEGETLFNEMISKKMELNPVVYNTLIRAYCK  649 (833)
Q Consensus       578 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~  649 (833)
                      ...|++++|+..|+++++.. +.+...|..+..++.+.|++++|+..++++++..+. +...|+.+..++.+
T Consensus       177 ~~~g~~~eAl~~~~kal~ld-P~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l~P~-~~~a~~~lg~~l~~  246 (382)
T 2h6f_A          177 EWLRDPSQELEFIADILNQD-AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDVR-NNSVWNQRYFVISN  246 (382)
T ss_dssp             HHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTT-CHHHHHHHHHHHHH
T ss_pred             HHccCHHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHH
Confidence            44444444444444444332 122333333444444444444444444444433322 33334444333333

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.52  E-value=5.1e-13  Score=136.00  Aligned_cols=246  Identities=11%  Similarity=-0.081  Sum_probs=150.1

Q ss_pred             cCChhhHHHHHHHHHHCCCC---CCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHccCCHHHH
Q 003295          545 DGKPEEGFKLKEDMIKRGIQ---PDNYTYNLLLHGLCSLGKMEEAIELWEECKRTVFGPDIYTYGVMIDGFCKADKIEEG  621 (833)
Q Consensus       545 ~g~~~~A~~~~~~m~~~g~~---p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A  621 (833)
                      .|++++|+..++++++....   .+..++..+...+...|++++|...|+++.+.. +.+..++..+...|...|++++|
T Consensus        18 ~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A   96 (275)
T 1xnf_A           18 TLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDAA   96 (275)
T ss_dssp             CHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHH
T ss_pred             cchHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHccCHHHH
Confidence            34555666666665554221   123455556666666666666666666665543 23455666666666666777777


Q ss_pred             HHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 003295          622 ETLFNEMISKKMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKE  701 (833)
Q Consensus       622 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  701 (833)
                      ...|+++++..+. +...+..+...|.+.|++++|.+.++++.+..  |+.......+..+...|++++|...+++....
T Consensus        97 ~~~~~~al~~~~~-~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~  173 (275)
T 1xnf_A           97 YEAFDSVLELDPT-YNYAHLNRGIALYYGGRDKLAQDDLLAFYQDD--PNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEK  173 (275)
T ss_dssp             HHHHHHHHHHCTT-CTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCcc-ccHHHHHHHHHHHHhccHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHhcCHHHHHHHHHHHHhc
Confidence            7776666665433 55667777777777777777777777776652  33333334444456667888888888777665


Q ss_pred             CCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHhCCCC---CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHH
Q 003295          702 GLLPNVACYTALIGGYCKLGQMDEAESVLQEMASINIH---PNKITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISPDSI  778 (833)
Q Consensus       702 g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~---p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~  778 (833)
                      . +++...+. ++..+...++.++|...++++.+....   .+...|..++..|...|++++|...++++++.  .|+. 
T Consensus       174 ~-~~~~~~~~-~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~--~p~~-  248 (275)
T 1xnf_A          174 S-DKEQWGWN-IVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVAN--NVHN-  248 (275)
T ss_dssp             S-CCCSTHHH-HHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT--CCTT-
T ss_pred             C-CcchHHHH-HHHHHHHhcCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhC--Cchh-
Confidence            2 33433333 566666777777888888777653210   01467778888888888888888888888874  4532 


Q ss_pred             HHHHHHHHHhcCCCHHHHHHHH
Q 003295          779 TYNVFMDGHCKGGNVEEAFKVC  800 (833)
Q Consensus       779 ~~~~l~~~~~~~g~~~~A~~~~  800 (833)
                       +.....++...|++++|++.+
T Consensus       249 -~~~~~~~~~~l~~~~~a~~~~  269 (275)
T 1xnf_A          249 -FVEHRYALLELSLLGQDQDDL  269 (275)
T ss_dssp             -CHHHHHHHHHHHHHHHC----
T ss_pred             -HHHHHHHHHHHHHHHhhHHHH
Confidence             222345666777777777665

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.52  E-value=2.2e-12  Score=131.17  Aligned_cols=244  Identities=10%  Similarity=-0.011  Sum_probs=136.7

Q ss_pred             HHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCC--HhhHHHHHHHHHcc
Q 003295          538 LILGCCKDGKPEEGFKLKEDMIKRGIQPDNYTYNLLLHGLCSLGKMEEAIELWEECKRTVFGPD--IYTYGVMIDGFCKA  615 (833)
Q Consensus       538 li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~--~~~~~~li~~~~~~  615 (833)
                      ....+...|++++|+..++++++.... +...+..+...+...|++++|...++++.+....++  ...|..+...|...
T Consensus         9 ~a~~~~~~~~~~~A~~~~~~~l~~~p~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg~~~~~~   87 (272)
T 3u4t_A            9 YADFLFKNNNYAEAIEVFNKLEAKKYN-SPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSADFEYYGKILMKK   87 (272)
T ss_dssp             HHHHHHTTTCHHHHHHHHHHHHHTTCC-CSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHhcCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHHHHHHHHc
Confidence            344444555555555555555544222 333444555555555555555555555554221111  22255555566666


Q ss_pred             CCHHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 003295          616 DKIEEGETLFNEMISKKMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLF  695 (833)
Q Consensus       616 g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~  695 (833)
                      |++++|++.|++..+..+. +..+|..+...|...|++++|.+.+++..+.. +.+...+..+...+...+++++|.+.|
T Consensus        88 ~~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~  165 (272)
T 3u4t_A           88 GQDSLAIQQYQAAVDRDTT-RLDMYGQIGSYFYNKGNFPLAIQYMEKQIRPT-TTDPKVFYELGQAYYYNKEYVKADSSF  165 (272)
T ss_dssp             TCHHHHHHHHHHHHHHSTT-CTHHHHHHHHHHHHTTCHHHHHHHHGGGCCSS-CCCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHhcCcc-cHHHHHHHHHHHHHccCHHHHHHHHHHHhhcC-CCcHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            6666666666666554433 45566666666666777777777776666552 334555555552333445777777777


Q ss_pred             HHHHHCCCCCChhHHHHHHHHHHhcCC---hhHHHHHHHHHHhCC-CCCC------HHHHHHHHHHHHhcCCHHHHHHHH
Q 003295          696 DEMRKEGLLPNVACYTALIGGYCKLGQ---MDEAESVLQEMASIN-IHPN------KITYTIMIGGYCKLGDMKEAAKLL  765 (833)
Q Consensus       696 ~~m~~~g~~p~~~~~~~li~~~~~~g~---~~~A~~~~~~m~~~g-~~p~------~~~~~~li~~~~~~g~~~~A~~~~  765 (833)
                      +++.+.. +.+...+..+...+...|+   .++|...++++.+.. -.|+      ..+|..+...|...|++++|.+.+
T Consensus       166 ~~a~~~~-p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~  244 (272)
T 3u4t_A          166 VKVLELK-PNIYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVCAPGGAKYKDELIEANEYIAYYYTINRDKVKADAAW  244 (272)
T ss_dssp             HHHHHHS-TTCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHHGGGGGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHhC-ccchHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            7777642 2235566666666666666   666777777666421 0122      246667777777778888888888


Q ss_pred             HHHHHcCCCC-CHHHHHHHHHHH
Q 003295          766 NVMAEKGISP-DSITYNVFMDGH  787 (833)
Q Consensus       766 ~~m~~~g~~p-~~~~~~~l~~~~  787 (833)
                      +++++.  .| +...+..+....
T Consensus       245 ~~al~~--~p~~~~a~~~l~~~~  265 (272)
T 3u4t_A          245 KNILAL--DPTNKKAIDGLKMKL  265 (272)
T ss_dssp             HHHHHH--CTTCHHHHHHHC---
T ss_pred             HHHHhc--CccHHHHHHHhhhhh
Confidence            877774  34 455555554443

>2ho1_A Type 4 fimbrial biogenesis protein PILF; type IV pilus biogenesis, TPR, superhelix, protein binding; HET: MSE; 2.00A {Pseudomonas aeruginosa} PDB: 2fi7_A

Probab=99.52  E-value=3.9e-12  Score=127.60  Aligned_cols=198  Identities=13%  Similarity=0.010  Sum_probs=120.9

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCccCHHHHHHHHHHHHH
Q 003295          570 YNLLLHGLCSLGKMEEAIELWEECKRTVFGPDIYTYGVMIDGFCKADKIEEGETLFNEMISKKMELNPVVYNTLIRAYCK  649 (833)
Q Consensus       570 ~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~  649 (833)
                      +..+...+...|++++|.+.|+++.+.. +.+...+..+...|...|++++|.+.++++.+..+. +...+..+...+..
T Consensus        40 ~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~la~~~~~  117 (252)
T 2ho1_A           40 YIQLGLGYLQRGNTEQAKVPLRKALEID-PSSADAHAALAVVFQTEMEPKLADEEYRKALASDSR-NARVLNNYGGFLYE  117 (252)
T ss_dssp             HHHHHHHHHHTTCTGGGHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHhcC-CChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcC-cHHHHHHHHHHHHH
Confidence            3334444444444444444444444332 223444445555555555555555555555544332 45556666666666


Q ss_pred             cCChHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCChhHHHH
Q 003295          650 IGNTTAAFRLSNDMKSRGILP-TSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAES  728 (833)
Q Consensus       650 ~g~~~~A~~~~~~m~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~  728 (833)
                      .|++++|.+.++++.+.+..| +...+..+...+...|++++|...++++.+.. +.+...+..+...+...|++++|..
T Consensus       118 ~g~~~~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~g~~~~A~~  196 (252)
T 2ho1_A          118 QKRYEEAYQRLLEASQDTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLN-RNQPSVALEMADLLYKEREYVPARQ  196 (252)
T ss_dssp             TTCHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HhHHHHHHHHHHHHHhCccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHcCCHHHHHH
Confidence            666666666666666522223 34556666677777777777777777777653 3346667777777777788888888


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 003295          729 VLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAEK  771 (833)
Q Consensus       729 ~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  771 (833)
                      .++++.+.. +.+...+..+...+...|++++|.++++++.+.
T Consensus       197 ~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~  238 (252)
T 2ho1_A          197 YYDLFAQGG-GQNARSLLLGIRLAKVFEDRDTAASYGLQLKRL  238 (252)
T ss_dssp             HHHHHHTTS-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhC-cCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence            887777653 456667777777777888888888888887774

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.51  E-value=1.3e-12  Score=130.10  Aligned_cols=198  Identities=15%  Similarity=0.134  Sum_probs=110.7

Q ss_pred             hhHHHHHHHHHccCCHHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 003295          603 YTYGVMIDGFCKADKIEEGETLFNEMISKKMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGL  682 (833)
Q Consensus       603 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~  682 (833)
                      ..|..+...+...|++++|...|+++.+..+. +...+..+...+.+.|++++|.+.++++.+.. +.+...+..+...+
T Consensus        24 ~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~  101 (243)
T 2q7f_A           24 MTGGQQMGRGSEFGDYEKAAEAFTKAIEENKE-DAIPYINFANLLSSVNELERALAFYDKALELD-SSAATAYYGAGNVY  101 (243)
T ss_dssp             ------------------CCTTHHHHHTTCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CcchHHHHHHHHHH
Confidence            34444555555566666666666666554333 45556666666666666666666666665543 23455566666666


Q ss_pred             HhcCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHH
Q 003295          683 CNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAA  762 (833)
Q Consensus       683 ~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~  762 (833)
                      ...|++++|.+.++++.+.. +.+...+..+...+.+.|++++|...++++.+.. +.+...+..++..+...|++++|.
T Consensus       102 ~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~  179 (243)
T 2q7f_A          102 VVKEMYKEAKDMFEKALRAG-MENGDLFYMLGTVLVKLEQPKLALPYLQRAVELN-ENDTEARFQFGMCLANEGMLDEAL  179 (243)
T ss_dssp             HHTTCHHHHHHHHHHHHHHT-CCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCHHHH
T ss_pred             HHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHcCCHHHHH
Confidence            66666666666666666542 3345556666666666666666666666666542 345566666666666666677776


Q ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHH
Q 003295          763 KLLNVMAEKGISPDSITYNVFMDGHCKGGNVEEAFKVCDRMLS  805 (833)
Q Consensus       763 ~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  805 (833)
                      +.++++.+.. +.+..++..++..|...|++++|.+.++++++
T Consensus       180 ~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~  221 (243)
T 2q7f_A          180 SQFAAVTEQD-PGHADAFYNAGVTYAYKENREKALEMLDKAID  221 (243)
T ss_dssp             HHHHHHHHHC-TTCHHHHHHHHHHHHHTTCTTHHHHHHHHHHH
T ss_pred             HHHHHHHHhC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHHc
Confidence            6666666642 23455666666666667777777777766666

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.51  E-value=7e-13  Score=132.15  Aligned_cols=201  Identities=15%  Similarity=0.071  Sum_probs=135.8

Q ss_pred             CHHHHHHHHHHHHhcCChhHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHH
Q 003295          217 SLKTCNFLLNSLVKANEVQKGIEVFETMCRGVSPDVFLFSTAINAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIHG  296 (833)
Q Consensus       217 ~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~  296 (833)
                      ...+|..+...+.+.|++++|...|+++....+.+..++..+...+.+.|++++|.+.|+++.+... .+..++..+...
T Consensus        22 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~la~~  100 (243)
T 2q7f_A           22 ASMTGGQQMGRGSEFGDYEKAAEAFTKAIEENKEDAIPYINFANLLSSVNELERALAFYDKALELDS-SAATAYYGAGNV  100 (243)
T ss_dssp             --------------------CCTTHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCC-cchHHHHHHHHH
Confidence            4556667777777888888888888888765566777788888888888888888888888777643 256677777888


Q ss_pred             HHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHHcCChHHH
Q 003295          297 LCRNGRLYEAFHLKEKMVLREVEPSLITYSILINGLIKLEKFDDANFVLKEMSVRGFVPNYVVYNTLIDGYCKKGNISEA  376 (833)
Q Consensus       297 ~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~A  376 (833)
                      |...|++++|.+.++++.+.. +.+...+..+...+.+.|++++|...++++.+... .+...+..+...|.+.|++++|
T Consensus       101 ~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A  178 (243)
T 2q7f_A          101 YVVKEMYKEAKDMFEKALRAG-MENGDLFYMLGTVLVKLEQPKLALPYLQRAVELNE-NDTEARFQFGMCLANEGMLDEA  178 (243)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHT-CCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCCHHH
T ss_pred             HHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCC-ccHHHHHHHHHHHHHcCCHHHH
Confidence            888888888888888877653 34566777777788888888888888888776532 2566777777788888888888


Q ss_pred             HHHHHHHHhCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHHC
Q 003295          377 LKIRDDMVSKGMSPNSVTFNSLIHGFCKSGQMDNAENALEEMLSR  421 (833)
Q Consensus       377 ~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~l~~~~~~  421 (833)
                      .+.++++.+... .+..++..+...+.+.|++++|.+.++++.+.
T Consensus       179 ~~~~~~~~~~~~-~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~  222 (243)
T 2q7f_A          179 LSQFAAVTEQDP-GHADAFYNAGVTYAYKENREKALEMLDKAIDI  222 (243)
T ss_dssp             HHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCc-ccHHHHHHHHHHHHHccCHHHHHHHHHHHHcc
Confidence            888888776532 25667777778888888888888888887765

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.49  E-value=8e-12  Score=122.62  Aligned_cols=201  Identities=10%  Similarity=0.025  Sum_probs=131.3

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCccCHHHHHHHHHH
Q 003295          567 NYTYNLLLHGLCSLGKMEEAIELWEECKRTVFGPDIYTYGVMIDGFCKADKIEEGETLFNEMISKKMELNPVVYNTLIRA  646 (833)
Q Consensus       567 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~  646 (833)
                      ...+..+...+...|++++|.+.++++.+.. +.+...+..+...|...|++++|.+.++++.+..+. +..++..+...
T Consensus         8 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~   85 (225)
T 2vq2_A            8 SNIKTQLAMEYMRGQDYRQATASIEDALKSD-PKNELAWLVRAEIYQYLKVNDKAQESFRQALSIKPD-SAEINNNYGWF   85 (225)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCC-ChHHHHHHHHH
Confidence            3445555555666666666666666655542 223555556666666666666666666666655433 55666666777


Q ss_pred             HHHc-CChHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCChh
Q 003295          647 YCKI-GNTTAAFRLSNDMKSRGILP-TSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMD  724 (833)
Q Consensus       647 ~~~~-g~~~~A~~~~~~m~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~  724 (833)
                      +... |++++|.+.++++.+.+..| +...+..+...+...|++++|...++++.+.. +.+...+..+...+.+.|+++
T Consensus        86 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~  164 (225)
T 2vq2_A           86 LCGRLNRPAESMAYFDKALADPTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAAQ-PQFPPAFKELARTKMLAGQLG  164 (225)
T ss_dssp             HHTTTCCHHHHHHHHHHHHTSTTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCHH
T ss_pred             HHHhcCcHHHHHHHHHHHHcCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCchHHHHHHHHHHHcCCHH
Confidence            7777 77777777777766622222 24566667777777777777777777777652 334667777777777888888


Q ss_pred             HHHHHHHHHHhCCCC-CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 003295          725 EAESVLQEMASINIH-PNKITYTIMIGGYCKLGDMKEAAKLLNVMAEK  771 (833)
Q Consensus       725 ~A~~~~~~m~~~g~~-p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  771 (833)
                      +|...++++.+.. + .+...+..+...+...|+.++|..+++.+.+.
T Consensus       165 ~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~  211 (225)
T 2vq2_A          165 DADYYFKKYQSRV-EVLQADDLLLGWKIAKALGNAQAAYEYEAQLQAN  211 (225)
T ss_dssp             HHHHHHHHHHHHH-CSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhC-CCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHh
Confidence            8888888777643 3 46666777777777788888888887777663

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.46  E-value=1.2e-12  Score=142.28  Aligned_cols=278  Identities=15%  Similarity=0.097  Sum_probs=171.4

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCH----HHHHHHHHHHHhcCChhhHHHHHHHHHHCC----C-CCCHH
Q 003295          498 VTSNALIHGMCEAGNLKEAGKLLMEMLQRGLILDK----VTYNTLILGCCKDGKPEEGFKLKEDMIKRG----I-QPDNY  568 (833)
Q Consensus       498 ~~~~~li~~~~~~g~~~~A~~~l~~m~~~g~~~~~----~~~~~li~~~~~~g~~~~A~~~~~~m~~~g----~-~p~~~  568 (833)
                      ..+..+...+...|++++|...|+++.+.+.. +.    ..|..+...+...|++++|...+++.++..    . .....
T Consensus        49 ~~l~~~g~~~~~~g~~~~A~~~~~~al~~~~~-~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~  127 (411)
T 4a1s_A           49 LELALEGERLCNAGDCRAGVAFFQAAIQAGTE-DLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEAK  127 (411)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCS-CHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHHhCcHHHHHHHHHHHHHhccc-ChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchHHHH
Confidence            34445555666666777777776666665433 22    345556666666666666666666654420    0 11223


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCccCHHHHHHHHHHHH
Q 003295          569 TYNLLLHGLCSLGKMEEAIELWEECKRTVFGPDIYTYGVMIDGFCKADKIEEGETLFNEMISKKMELNPVVYNTLIRAYC  648 (833)
Q Consensus       569 ~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~  648 (833)
                      .+..+...+...|++++|...++++.+....                            .  ........++..+...|.
T Consensus       128 ~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~----------------------------~--~~~~~~~~~~~~l~~~~~  177 (411)
T 4a1s_A          128 SSGNLGNTLKVMGRFDEAAICCERHLTLARQ----------------------------L--GDRLSEGRALYNLGNVYH  177 (411)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH----------------------------H--TCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHHHH----------------------------h--hchHHHHHHHHHHHHHHH
Confidence            4444455555555555555555544331000                            0  000112334555555566


Q ss_pred             HcCC-----------------hHHHHHHHHHHHhC----CC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC-CC
Q 003295          649 KIGN-----------------TTAAFRLSNDMKSR----GI-LPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGL-LP  705 (833)
Q Consensus       649 ~~g~-----------------~~~A~~~~~~m~~~----~~-~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~-~p  705 (833)
                      ..|+                 +++|++.+++..+.    +. .....++..+...+...|++++|...+++..+..- .+
T Consensus       178 ~~g~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~  257 (411)
T 4a1s_A          178 AKGKHLGQRNPGKFGDDVKEALTRAVEFYQENLKLMRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFG  257 (411)
T ss_dssp             HHHHHHHHHSTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHT
T ss_pred             HcCcccccccchhhhhhhhHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcC
Confidence            6666                 66666665554331    11 11234667777888888888888888888776310 01


Q ss_pred             C----hhHHHHHHHHHHhcCChhHHHHHHHHHHhCC--CC---CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc----C
Q 003295          706 N----VACYTALIGGYCKLGQMDEAESVLQEMASIN--IH---PNKITYTIMIGGYCKLGDMKEAAKLLNVMAEK----G  772 (833)
Q Consensus       706 ~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g--~~---p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----g  772 (833)
                      +    ..++..+...|...|++++|...+++..+..  ..   ....++..+...|...|++++|.+.++++++.    +
T Consensus       258 ~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~  337 (411)
T 4a1s_A          258 DRAAERRANSNLGNSHIFLGQFEDAAEHYKRTLALAVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAIAQELG  337 (411)
T ss_dssp             CHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHT
T ss_pred             CcHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCC
Confidence            1    2367788888999999999999998877521  00   11457888899999999999999999988763    1


Q ss_pred             CCC-CHHHHHHHHHHHhcCCCHHHHHHHHHHHHHC
Q 003295          773 ISP-DSITYNVFMDGHCKGGNVEEAFKVCDRMLSE  806 (833)
Q Consensus       773 ~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  806 (833)
                      ..+ ...++..++..|...|++++|.+.+++.++.
T Consensus       338 ~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  372 (411)
T 4a1s_A          338 DRIGEARACWSLGNAHSAIGGHERALKYAEQHLQL  372 (411)
T ss_dssp             CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             ChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHH
Confidence            111 1357888999999999999999999998873

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.43  E-value=3.8e-12  Score=138.18  Aligned_cols=278  Identities=14%  Similarity=0.071  Sum_probs=188.3

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH----HHHHHHHHHHHhcCCHHHHHHHHHHHhhC----C-CCCCHH
Q 003295          463 GLLTLLVSGLCKNGKQAEATELCFRLFEKGFTVNT----VTSNALIHGMCEAGNLKEAGKLLMEMLQR----G-LILDKV  533 (833)
Q Consensus       463 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~----~~~~~li~~~~~~g~~~~A~~~l~~m~~~----g-~~~~~~  533 (833)
                      ..+..+...+...|++++|...++++++.... +.    .++..+...|...|++++|...+++..+.    + ......
T Consensus        49 ~~l~~~g~~~~~~g~~~~A~~~~~~al~~~~~-~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~  127 (411)
T 4a1s_A           49 LELALEGERLCNAGDCRAGVAFFQAAIQAGTE-DLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEAK  127 (411)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCS-CHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHHhCcHHHHHHHHHHHHHhccc-ChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchHHHH
Confidence            34456677889999999999999999987443 33    57889999999999999999999998754    1 122456


Q ss_pred             HHHHHHHHHHhcCChhhHHHHHHHHHHCC-----CCCCHHHHHHHHHHHHhcCC-----------------HHHHHHHHH
Q 003295          534 TYNTLILGCCKDGKPEEGFKLKEDMIKRG-----IQPDNYTYNLLLHGLCSLGK-----------------MEEAIELWE  591 (833)
Q Consensus       534 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g-----~~p~~~~~~~li~~~~~~g~-----------------~~~A~~~~~  591 (833)
                      .+..+...+...|++++|...+++.++..     ......++..+...+...|+                 +++|.+.++
T Consensus       128 ~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~~  207 (411)
T 4a1s_A          128 SSGNLGNTLKVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTRAVEFYQ  207 (411)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHcCcccccccchhhhhhhhHHHHHHHHHHH
Confidence            78888999999999999999999987641     11123456666777777777                 555555555


Q ss_pred             HHhhCCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCC-C
Q 003295          592 ECKRTVFGPDIYTYGVMIDGFCKADKIEEGETLFNEMISKKMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGIL-P  670 (833)
Q Consensus       592 ~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~-p  670 (833)
                      +..+.                            ....  ........++..+...|...|++++|.+.+++..+.... +
T Consensus       208 ~al~~----------------------------~~~~--~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~  257 (411)
T 4a1s_A          208 ENLKL----------------------------MRDL--GDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFG  257 (411)
T ss_dssp             HHHHH----------------------------HHHH--TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHH----------------------------HHHc--CCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcC
Confidence            44321                            1111  000112234555556666666666666666655442100 0


Q ss_pred             C----HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC--CC---CChhHHHHHHHHHHhcCChhHHHHHHHHHHhC----C
Q 003295          671 T----SVTYSSLIHGLCNIGLIEDAKCLFDEMRKEG--LL---PNVACYTALIGGYCKLGQMDEAESVLQEMASI----N  737 (833)
Q Consensus       671 ~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g--~~---p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----g  737 (833)
                      +    ..++..+...+...|++++|...++++.+..  ..   ....++..+...|...|++++|...+++..+.    +
T Consensus       258 ~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~  337 (411)
T 4a1s_A          258 DRAAERRANSNLGNSHIFLGQFEDAAEHYKRTLALAVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAIAQELG  337 (411)
T ss_dssp             CHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHT
T ss_pred             CcHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCC
Confidence            1    2356677777888888888888888776531  00   11456777888888888888888888887652    1


Q ss_pred             CC-CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 003295          738 IH-PNKITYTIMIGGYCKLGDMKEAAKLLNVMAEK  771 (833)
Q Consensus       738 ~~-p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  771 (833)
                      .. ....++..+...|...|++++|.++++++.+.
T Consensus       338 ~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  372 (411)
T 4a1s_A          338 DRIGEARACWSLGNAHSAIGGHERALKYAEQHLQL  372 (411)
T ss_dssp             CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             ChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHH
Confidence            01 11347778888889999999999999988773

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.43  E-value=2.7e-12  Score=138.96  Aligned_cols=99  Identities=18%  Similarity=0.132  Sum_probs=54.1

Q ss_pred             CHHHHHHHHHHHHhcCChhHHHHHHHHhhcCCCCC----HHHHHHHHHHHHhcCChhHHHHHHHHHHHc----CCCC-Ch
Q 003295          217 SLKTCNFLLNSLVKANEVQKGIEVFETMCRGVSPD----VFLFSTAINAFCKRGRIEDAIGLFTKMEEL----GIAP-NV  287 (833)
Q Consensus       217 ~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----g~~p-~~  287 (833)
                      ....+......+.+.|++++|...|+++..-.+.+    ..++..+...+...|++++|...|++....    +-.| ..
T Consensus         8 ~~~~l~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~   87 (406)
T 3sf4_A            8 SCLELALEGERLCKSGDCRAGVSFFEAAVQVGTEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEA   87 (406)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHHHhccHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccccHHHH
Confidence            44455556666666666666666666666222222    245556666666666666666666665432    1111 13


Q ss_pred             hhHHHHHHHHHhcCChhHHHHHHHHHHh
Q 003295          288 VTYNNIIHGLCRNGRLYEAFHLKEKMVL  315 (833)
Q Consensus       288 ~~~~~li~~~~~~g~~~~A~~~~~~m~~  315 (833)
                      .++..+...|...|++++|...+++..+
T Consensus        88 ~~~~~la~~~~~~g~~~~A~~~~~~al~  115 (406)
T 3sf4_A           88 KASGNLGNTLKVLGNFDEAIVCCQRHLD  115 (406)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            3455555555666666666666665554

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.43  E-value=6e-12  Score=136.15  Aligned_cols=278  Identities=15%  Similarity=0.113  Sum_probs=144.6

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCC----HHHHHHHHHHHHhcCChhhHHHHHHHHHHC----CCCC-C
Q 003295          496 NTVTSNALIHGMCEAGNLKEAGKLLMEMLQRGLILD----KVTYNTLILGCCKDGKPEEGFKLKEDMIKR----GIQP-D  566 (833)
Q Consensus       496 ~~~~~~~li~~~~~~g~~~~A~~~l~~m~~~g~~~~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----g~~p-~  566 (833)
                      ....+......+...|++++|...|+++.+.+.. +    ...+..+...+...|++++|...+++++..    +..| .
T Consensus         8 ~~~~l~~~g~~~~~~g~~~~A~~~~~~al~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~   86 (406)
T 3sf4_A            8 SCLELALEGERLCKSGDCRAGVSFFEAAVQVGTE-DLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGE   86 (406)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCS-CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHHHhccHHHHHHHHHHHHhcCcc-cHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccccHHH
Confidence            3445555566666666666666666666655332 2    234555555666666666666666655432    1111 1


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCC-CCHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCccCHHHHHHHHH
Q 003295          567 NYTYNLLLHGLCSLGKMEEAIELWEECKRTVFG-PDIYTYGVMIDGFCKADKIEEGETLFNEMISKKMELNPVVYNTLIR  645 (833)
Q Consensus       567 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~  645 (833)
                      ..++..+...+...|++++|...+++..+.... ++                               ......++..+..
T Consensus        87 ~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~-------------------------------~~~~~~~~~~l~~  135 (406)
T 3sf4_A           87 AKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELND-------------------------------KVGEARALYNLGN  135 (406)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTC-------------------------------HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhccc-------------------------------ccchHHHHHHHHH
Confidence            233444445555555555555555554443110 00                               0001234445555


Q ss_pred             HHHHcCC--------------------hHHHHHHHHHHHhC----CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 003295          646 AYCKIGN--------------------TTAAFRLSNDMKSR----GILP-TSVTYSSLIHGLCNIGLIEDAKCLFDEMRK  700 (833)
Q Consensus       646 ~~~~~g~--------------------~~~A~~~~~~m~~~----~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  700 (833)
                      .|...|+                    +++|.+.+++....    +..+ ...++..+...+...|++++|...+++..+
T Consensus       136 ~~~~~g~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  215 (406)
T 3sf4_A          136 VYHAKGKSFGCPGPQDVGEFPEEVRDALQAAVDFYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLL  215 (406)
T ss_dssp             HHHHHHHTCC-------CCCCHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHH
T ss_pred             HHHHcCCcccccccchhhhhhhhHHHHHHHHHHHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            5555555                    55555555544321    1011 123455566666666666666666666654


Q ss_pred             CC-CCCC----hhHHHHHHHHHHhcCChhHHHHHHHHHHhCCC-CCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 003295          701 EG-LLPN----VACYTALIGGYCKLGQMDEAESVLQEMASINI-HPN----KITYTIMIGGYCKLGDMKEAAKLLNVMAE  770 (833)
Q Consensus       701 ~g-~~p~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~-~p~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~  770 (833)
                      .. -.++    ..++..+...|...|++++|...+++..+..- .++    ..++..++..|...|++++|.+.++++.+
T Consensus       216 ~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~  295 (406)
T 3sf4_A          216 IAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLA  295 (406)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHH
Confidence            20 0011    22556666666667777777766666553100 011    34566666667777777777777766654


Q ss_pred             cCC-CCC----HHHHHHHHHHHhcCCCHHHHHHHHHHHHH
Q 003295          771 KGI-SPD----SITYNVFMDGHCKGGNVEEAFKVCDRMLS  805 (833)
Q Consensus       771 ~g~-~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  805 (833)
                      ..- .++    ..++..++..|...|++++|.+.+++.++
T Consensus       296 ~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  335 (406)
T 3sf4_A          296 IAQELNDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLE  335 (406)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHhcCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            210 111    34566666677777777777777666554

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.41  E-value=7.3e-11  Score=122.26  Aligned_cols=218  Identities=7%  Similarity=-0.025  Sum_probs=173.6

Q ss_pred             HHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh-------cCCh-------hHHHHHHHHhhcC-CCCCHHHHHHHHHHHHh
Q 003295          200 GYAIDVFSIFSSKGIFPSLKTCNFLLNSLVK-------ANEV-------QKGIEVFETMCRG-VSPDVFLFSTAINAFCK  264 (833)
Q Consensus       200 ~~A~~~f~~~~~~~~~p~~~~~~~ll~~~~~-------~g~~-------~~A~~~~~~~~~~-~~~~~~~~~~li~~~~~  264 (833)
                      ..|+.+|++.++..+. ++..|..++..+..       .|++       ++|..+|++.+.. .+.+...|..++..+.+
T Consensus        33 ~~a~~~~~~al~~~p~-~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~~~~rAl~~~~p~~~~~~~~~~~~~~~  111 (308)
T 2ond_A           33 KRVMFAYEQCLLVLGH-HPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEES  111 (308)
T ss_dssp             HHHHHHHHHHHHHHTT-CHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCC-CHHHHHHHHHHHHHhchhhhhccchhhcccchHHHHHHHHHHHHHhCcccHHHHHHHHHHHHh
Confidence            5688888888776544 78888888887763       5886       8999999999963 55667799999999999


Q ss_pred             cCChhHHHHHHHHHHHcCCCCC-hh-hHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHH-hcCChhHH
Q 003295          265 RGRIEDAIGLFTKMEELGIAPN-VV-TYNNIIHGLCRNGRLYEAFHLKEKMVLREVEPSLITYSILINGLI-KLEKFDDA  341 (833)
Q Consensus       265 ~g~~~~A~~~~~~m~~~g~~p~-~~-~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~-~~g~~~~A  341 (833)
                      .|++++|.++|++..+.  .|+ .. +|..++..+.+.|++++|+.+|++..+.. +++...|...+.... ..|++++|
T Consensus       112 ~~~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~~a~~~~~~~~~~~~A  188 (308)
T 2ond_A          112 RMKYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDA-RTRHHVYVTAALMEYYCSKDKSVA  188 (308)
T ss_dssp             TTCHHHHHHHHHHHHTS--SSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTST-TCCTHHHHHHHHHHHHTSCCHHHH
T ss_pred             cCCHHHHHHHHHHHHhc--cccCccHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHcCCHHHH
Confidence            99999999999999985  444 33 79999999999999999999999998764 334444544333322 36999999


Q ss_pred             HHHHHHHHHCCCCCChhhHHHHHHHHHHcCChHHHHHHHHHHHhCC-CCC--ChhHHHHHHHHHHhcCChhHHHHHHHHH
Q 003295          342 NFVLKEMSVRGFVPNYVVYNTLIDGYCKKGNISEALKIRDDMVSKG-MSP--NSVTFNSLIHGFCKSGQMDNAENALEEM  418 (833)
Q Consensus       342 ~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~A~~~~~~m~~~g-~~p--~~~~~~~li~~~~~~g~~~~A~~~l~~~  418 (833)
                      ..+|++..+... -+...|..++..+.+.|++++|..+|++..... +.|  ....|..++..+.+.|+.++|..+++++
T Consensus       189 ~~~~~~al~~~p-~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~~~~~~g~~~~a~~~~~~a  267 (308)
T 2ond_A          189 FKIFELGLKKYG-DIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRR  267 (308)
T ss_dssp             HHHHHHHHHHHT-TCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCC-CcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            999999887532 257788888999999999999999999998863 344  4567888888888999999999999998


Q ss_pred             HHCC
Q 003295          419 LSRG  422 (833)
Q Consensus       419 ~~~g  422 (833)
                      .+..
T Consensus       268 ~~~~  271 (308)
T 2ond_A          268 FTAF  271 (308)
T ss_dssp             HHHT
T ss_pred             HHHc
Confidence            8753

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.41  E-value=5.3e-12  Score=132.41  Aligned_cols=274  Identities=14%  Similarity=0.091  Sum_probs=165.0

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCC----HHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHH
Q 003295          500 SNALIHGMCEAGNLKEAGKLLMEMLQRGLILD----KVTYNTLILGCCKDGKPEEGFKLKEDMIKRGIQPDNYTYNLLLH  575 (833)
Q Consensus       500 ~~~li~~~~~~g~~~~A~~~l~~m~~~g~~~~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~  575 (833)
                      +......+...|++++|...|+++.+.... +    ...+..+...+...|++++|...+++.++..             
T Consensus         8 l~~~g~~~~~~g~~~~A~~~~~~al~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-------------   73 (338)
T 3ro2_A            8 LALEGERLCKSGDCRAGVSFFEAAVQVGTE-DLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLA-------------   73 (338)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCCS-CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH-------------
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHhhCcc-cHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHh-------------
Confidence            334445555556666666666555554322 2    2344445555555555555555555543320             


Q ss_pred             HHHhcCCHHHHHHHHHHHhhCCCC-CCHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCc-----cCHHHHHHHHHHHHH
Q 003295          576 GLCSLGKMEEAIELWEECKRTVFG-PDIYTYGVMIDGFCKADKIEEGETLFNEMISKKME-----LNPVVYNTLIRAYCK  649 (833)
Q Consensus       576 ~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~-----~~~~~~~~li~~~~~  649 (833)
                                        ...+.. ....++..+...|...|++++|...+++..+....     ....++..+...+..
T Consensus        74 ------------------~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~  135 (338)
T 3ro2_A           74 ------------------RTIGDQLGEAKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHA  135 (338)
T ss_dssp             ------------------HHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             ------------------hcccccHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHH
Confidence                              000000 11223444444455555555555555444332100     012355555566666


Q ss_pred             cCC--------------------hHHHHHHHHHHHhC----CC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC---
Q 003295          650 IGN--------------------TTAAFRLSNDMKSR----GI-LPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKE---  701 (833)
Q Consensus       650 ~g~--------------------~~~A~~~~~~m~~~----~~-~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~---  701 (833)
                      .|+                    +++|.+.+++....    +. ......+..+...+...|++++|...++++.+.   
T Consensus       136 ~~~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~  215 (338)
T 3ro2_A          136 KGKSFGCPGPQDTGEFPEDVRNALQAAVDLYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKE  215 (338)
T ss_dssp             HHHTSSSSSCC----CCHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHH
T ss_pred             cCcccccchhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHh
Confidence            666                    66666666554431    11 112345777778888889999999988887653   


Q ss_pred             -CCCC-ChhHHHHHHHHHHhcCChhHHHHHHHHHHhCCC-CCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHHc---
Q 003295          702 -GLLP-NVACYTALIGGYCKLGQMDEAESVLQEMASINI-HPN----KITYTIMIGGYCKLGDMKEAAKLLNVMAEK---  771 (833)
Q Consensus       702 -g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~-~p~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~---  771 (833)
                       +..+ ...++..+...+...|++++|...+++..+... .++    ..++..+...|...|++++|...++++.+.   
T Consensus       216 ~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~  295 (338)
T 3ro2_A          216 FGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQE  295 (338)
T ss_dssp             HTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             cCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHh
Confidence             1011 123778888889999999999999998774210 112    457888899999999999999999998763   


Q ss_pred             -CCCC-CHHHHHHHHHHHhcCCCHHHHHHHHHHHHH
Q 003295          772 -GISP-DSITYNVFMDGHCKGGNVEEAFKVCDRMLS  805 (833)
Q Consensus       772 -g~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  805 (833)
                       +-.+ ...++..++..|.+.|++++|.+.+++.++
T Consensus       296 ~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~  331 (338)
T 3ro2_A          296 LKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLE  331 (338)
T ss_dssp             HTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             cCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHH
Confidence             1111 135788899999999999999999999987

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.40  E-value=4.2e-11  Score=113.46  Aligned_cols=171  Identities=16%  Similarity=0.082  Sum_probs=116.8

Q ss_pred             CHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhHHHHHHH
Q 003295          636 NPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIG  715 (833)
Q Consensus       636 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~  715 (833)
                      ++.+|..+...|.+.|++++|++.|++..+.. +-+..++..+...+.+.|++++|...+.+..... +.+...+..+..
T Consensus         4 ~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~   81 (184)
T 3vtx_A            4 TTTIYMDIGDKKRTKGDFDGAIRAYKKVLKAD-PNNVETLLKLGKTYMDIGLPNDAIESLKKFVVLD-TTSAEAYYILGS   81 (184)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-chhHHHHHHHHH
Confidence            45666677777777777777777777766654 3356666777777777777777777777776642 334555666666


Q ss_pred             HHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCCHHH
Q 003295          716 GYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISPDSITYNVFMDGHCKGGNVEE  795 (833)
Q Consensus       716 ~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~  795 (833)
                      .+...++++.|...+++..+.. +.+...+..++..|.+.|++++|++.++++++.. +.+..+|..++.+|.+.|++++
T Consensus        82 ~~~~~~~~~~a~~~~~~a~~~~-~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~lg~~~~~~g~~~~  159 (184)
T 3vtx_A           82 ANFMIDEKQAAIDALQRAIALN-TVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIK-PGFIRAYQSIGLAYEGKGLRDE  159 (184)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhc-chhhhHHHHHHHHHHHCCCHHH
Confidence            6777777777777777776643 4456677777777777777777777777777742 2356677777777777777777


Q ss_pred             HHHHHHHHHHCCCCCCH
Q 003295          796 AFKVCDRMLSEGLSLDE  812 (833)
Q Consensus       796 A~~~~~~m~~~g~~p~~  812 (833)
                      |++.|++.++  +.|+.
T Consensus       160 A~~~~~~al~--~~p~~  174 (184)
T 3vtx_A          160 AVKYFKKALE--KEEKK  174 (184)
T ss_dssp             HHHHHHHHHH--TTHHH
T ss_pred             HHHHHHHHHh--CCccC
Confidence            7777777776  45544

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.39  E-value=4.5e-11  Score=113.25  Aligned_cols=171  Identities=16%  Similarity=0.070  Sum_probs=136.8

Q ss_pred             CHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 003295          601 DIYTYGVMIDGFCKADKIEEGETLFNEMISKKMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIH  680 (833)
Q Consensus       601 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~  680 (833)
                      +...|..+...|.+.|++++|++.|++.++..+. +..+|..+...|.+.|++++|...++...... +.+...+..+..
T Consensus         4 ~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~   81 (184)
T 3vtx_A            4 TTTIYMDIGDKKRTKGDFDGAIRAYKKVLKADPN-NVETLLKLGKTYMDIGLPNDAIESLKKFVVLD-TTSAEAYYILGS   81 (184)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-chhHHHHHHHHH
Confidence            5667777888888888888888888888877655 77788888888888888888888888887764 346667777778


Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHH
Q 003295          681 GLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKE  760 (833)
Q Consensus       681 ~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~  760 (833)
                      .+...++++.|...+.+..+.. +.+...+..+...|.+.|++++|++.|++..+.. +.+..+|..++.+|.+.|++++
T Consensus        82 ~~~~~~~~~~a~~~~~~a~~~~-~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~lg~~~~~~g~~~~  159 (184)
T 3vtx_A           82 ANFMIDEKQAAIDALQRAIALN-TVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIK-PGFIRAYQSIGLAYEGKGLRDE  159 (184)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhc-chhhhHHHHHHHHHHHCCCHHH
Confidence            8888888888888888888753 3456778888888888999999999999888754 5567788889999999999999


Q ss_pred             HHHHHHHHHHcCCCCCH
Q 003295          761 AAKLLNVMAEKGISPDS  777 (833)
Q Consensus       761 A~~~~~~m~~~g~~p~~  777 (833)
                      |++.|+++++  +.|+.
T Consensus       160 A~~~~~~al~--~~p~~  174 (184)
T 3vtx_A          160 AVKYFKKALE--KEEKK  174 (184)
T ss_dssp             HHHHHHHHHH--TTHHH
T ss_pred             HHHHHHHHHh--CCccC
Confidence            9999999888  44544

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.38  E-value=1.1e-11  Score=130.11  Aligned_cols=277  Identities=16%  Similarity=0.078  Sum_probs=182.8

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHhhC----CCC-CCHHH
Q 003295          464 LLTLLVSGLCKNGKQAEATELCFRLFEKGFTVN----TVTSNALIHGMCEAGNLKEAGKLLMEMLQR----GLI-LDKVT  534 (833)
Q Consensus       464 ~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~----~~~~~~li~~~~~~g~~~~A~~~l~~m~~~----g~~-~~~~~  534 (833)
                      .+......+...|++++|...++++.+.... +    ...+..+...+...|++++|...+++..+.    +.. .....
T Consensus         7 ~l~~~g~~~~~~g~~~~A~~~~~~al~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~   85 (338)
T 3ro2_A            7 ELALEGERLCKSGDCRAGVSFFEAAVQVGTE-DLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKA   85 (338)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCCS-CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHH
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHhhCcc-cHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcccccHHHHHH
Confidence            3455677889999999999999999987433 3    467889999999999999999999987653    111 12455


Q ss_pred             HHHHHHHHHhcCChhhHHHHHHHHHHCCCC-CC----HHHHHHHHHHHHhcCC--------------------HHHHHHH
Q 003295          535 YNTLILGCCKDGKPEEGFKLKEDMIKRGIQ-PD----NYTYNLLLHGLCSLGK--------------------MEEAIEL  589 (833)
Q Consensus       535 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~-p~----~~~~~~li~~~~~~g~--------------------~~~A~~~  589 (833)
                      +..+...+...|++++|...+++.++.... ++    ..++..+...+...|+                    +++|.+.
T Consensus        86 ~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~A~~~  165 (338)
T 3ro2_A           86 SGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRNALQAAVDL  165 (338)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSSSSSCC----CCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHccCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHcCcccccchhhhhhhhhhhHHHHHHHHHHH
Confidence            666777777788888888877776653111 11    2245555555555555                    4444444


Q ss_pred             HHHHhhCCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHhC---
Q 003295          590 WEECKRTVFGPDIYTYGVMIDGFCKADKIEEGETLFNEMISKKMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSR---  666 (833)
Q Consensus       590 ~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~---  666 (833)
                      +++..+.                            ....  .........+..+...+...|++++|.+.+++..+.   
T Consensus       166 ~~~a~~~----------------------------~~~~--~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~  215 (338)
T 3ro2_A          166 YEENLSL----------------------------VTAL--GDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKE  215 (338)
T ss_dssp             HHHHHHH----------------------------HHHH--TCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHH----------------------------HHhc--CCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHh
Confidence            4433221                            0000  000112335566666677777777777777666542   


Q ss_pred             -CC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC----CCCC-ChhHHHHHHHHHHhcCChhHHHHHHHHHHhC---
Q 003295          667 -GI-LPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKE----GLLP-NVACYTALIGGYCKLGQMDEAESVLQEMASI---  736 (833)
Q Consensus       667 -~~-~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~---  736 (833)
                       +. .....++..+...+...|++++|...+++..+.    +..+ ...++..+...+...|++++|...++++.+.   
T Consensus       216 ~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~  295 (338)
T 3ro2_A          216 FGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQE  295 (338)
T ss_dssp             HTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             cCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHh
Confidence             10 011236677777888888888888888887653    1011 1456777888888999999999998887652   


Q ss_pred             -CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 003295          737 -NIHP-NKITYTIMIGGYCKLGDMKEAAKLLNVMAEK  771 (833)
Q Consensus       737 -g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  771 (833)
                       +-.+ ...++..+...|.+.|++++|...++++.+.
T Consensus       296 ~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~  332 (338)
T 3ro2_A          296 LKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEI  332 (338)
T ss_dssp             HTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHC
T ss_pred             cCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHH
Confidence             1011 1347778889999999999999999998873

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.37  E-value=3.3e-10  Score=117.32  Aligned_cols=219  Identities=12%  Similarity=0.066  Sum_probs=124.8

Q ss_pred             hhHHHHHHHHHHCCCCCCHHHHHHHHHHHH-------hcCCH-------HHHHHHHHHHhhCCCCCCHhhHHHHHHHHHc
Q 003295          549 EEGFKLKEDMIKRGIQPDNYTYNLLLHGLC-------SLGKM-------EEAIELWEECKRTVFGPDIYTYGVMIDGFCK  614 (833)
Q Consensus       549 ~~A~~~~~~m~~~g~~p~~~~~~~li~~~~-------~~g~~-------~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~  614 (833)
                      ++|...|+++++..+ .+...|..++..+.       +.|++       ++|..+|++..+.-.+.+...|..++..+.+
T Consensus        33 ~~a~~~~~~al~~~p-~~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~~~~rAl~~~~p~~~~~~~~~~~~~~~  111 (308)
T 2ond_A           33 KRVMFAYEQCLLVLG-HHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEES  111 (308)
T ss_dssp             HHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcC-CCHHHHHHHHHHHHHhchhhhhccchhhcccchHHHHHHHHHHHHHhCcccHHHHHHHHHHHHh
Confidence            455555666555422 24445555544443       23553       6666666666652112234456666666666


Q ss_pred             cCCHHHHHHHHHHHHHCCCccCHH-HHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH-hcCCHHHHH
Q 003295          615 ADKIEEGETLFNEMISKKMELNPV-VYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLC-NIGLIEDAK  692 (833)
Q Consensus       615 ~g~~~~A~~~~~~~~~~~~~~~~~-~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~-~~g~~~~A~  692 (833)
                      .|++++|..+|+++++..+. +.. .|..++..+.+.|++++|..+|++..+.. +.+...|........ ..|+.++|.
T Consensus       112 ~~~~~~A~~~~~~al~~~p~-~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~~a~~~~~~~~~~~~A~  189 (308)
T 2ond_A          112 RMKYEKVHSIYNRLLAIEDI-DPTLVYIQYMKFARRAEGIKSGRMIFKKAREDA-RTRHHVYVTAALMEYYCSKDKSVAF  189 (308)
T ss_dssp             TTCHHHHHHHHHHHHTSSSS-CTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTST-TCCTHHHHHHHHHHHHTSCCHHHHH
T ss_pred             cCCHHHHHHHHHHHHhcccc-CccHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHcCCHHHHH
Confidence            66666666666666654322 222 56666666666666777777776666553 223333433222211 256777777


Q ss_pred             HHHHHHHHCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHhCC-CCC--CHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 003295          693 CLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESVLQEMASIN-IHP--NKITYTIMIGGYCKLGDMKEAAKLLNVMA  769 (833)
Q Consensus       693 ~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g-~~p--~~~~~~~li~~~~~~g~~~~A~~~~~~m~  769 (833)
                      .+|+++++.. +-+...|..++..+.+.|++++|..+|++..+.. ++|  ....|..++..+.+.|+.++|..+++++.
T Consensus       190 ~~~~~al~~~-p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~~~~~~g~~~~a~~~~~~a~  268 (308)
T 2ond_A          190 KIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRF  268 (308)
T ss_dssp             HHHHHHHHHH-TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            7777666542 2345566666666666677777777777776642 233  34566666666666777777777777766


Q ss_pred             Hc
Q 003295          770 EK  771 (833)
Q Consensus       770 ~~  771 (833)
                      +.
T Consensus       269 ~~  270 (308)
T 2ond_A          269 TA  270 (308)
T ss_dssp             HH
T ss_pred             HH
Confidence            63

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.36  E-value=3.1e-11  Score=129.53  Aligned_cols=230  Identities=9%  Similarity=-0.082  Sum_probs=167.9

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHhhC----CCCC-CHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCC------ccCHHHHH
Q 003295          573 LLHGLCSLGKMEEAIELWEECKRT----VFGP-DIYTYGVMIDGFCKADKIEEGETLFNEMISKKM------ELNPVVYN  641 (833)
Q Consensus       573 li~~~~~~g~~~~A~~~~~~~~~~----~~~~-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~------~~~~~~~~  641 (833)
                      ....+...|++++|...+++..+.    +-.+ ...++..+...|...|++++|...+++..+...      .....+++
T Consensus       109 ~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  188 (383)
T 3ulq_A          109 RGMYELDQREYLSAIKFFKKAESKLIFVKDRIEKAEFFFKMSESYYYMKQTYFSMDYARQAYEIYKEHEAYNIRLLQCHS  188 (383)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTCSTTHHHHHHHHH
T ss_pred             HHHHHHHhcCHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCccchHHHHHHHH
Confidence            455667778888888888887653    1111 245677777888888888888888887765311      11245778


Q ss_pred             HHHHHHHHcCChHHHHHHHHHHHhCCCC-CC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHHC----CC-CCChhHHH
Q 003295          642 TLIRAYCKIGNTTAAFRLSNDMKSRGIL-PT----SVTYSSLIHGLCNIGLIEDAKCLFDEMRKE----GL-LPNVACYT  711 (833)
Q Consensus       642 ~li~~~~~~g~~~~A~~~~~~m~~~~~~-p~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----g~-~p~~~~~~  711 (833)
                      .+...|...|++++|.+.+++..+.... ++    ..++..+...|...|++++|...+++..+.    +. +....++.
T Consensus       189 ~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  268 (383)
T 3ulq_A          189 LFATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNILPSLPQAYF  268 (383)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGHHHHHH
T ss_pred             HHHHHHHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhccchhHHHHHH
Confidence            8888899999999999998887753111 11    246788889999999999999999998872    22 23456788


Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHhC----CCCCCHHHHHHHHHHHHhcCC---HHHHHHHHHHHHHcCCCC-CHHHHHHH
Q 003295          712 ALIGGYCKLGQMDEAESVLQEMASI----NIHPNKITYTIMIGGYCKLGD---MKEAAKLLNVMAEKGISP-DSITYNVF  783 (833)
Q Consensus       712 ~li~~~~~~g~~~~A~~~~~~m~~~----g~~p~~~~~~~li~~~~~~g~---~~~A~~~~~~m~~~g~~p-~~~~~~~l  783 (833)
                      .+...|.+.|++++|...+++..+.    +-+.....+..+...+...|+   +++|+.++++.   +..| ....+..+
T Consensus       269 ~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~al~~~~~~---~~~~~~~~~~~~l  345 (383)
T 3ulq_A          269 LITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQGFFDFLESK---MLYADLEDFAIDV  345 (383)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHHHHHHHHHHHT---TCHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHC---cCHHHHHHHHHHH
Confidence            8999999999999999999988752    111122346778888889998   77777777765   2233 33578889


Q ss_pred             HHHHhcCCCHHHHHHHHHHHHH
Q 003295          784 MDGHCKGGNVEEAFKVCDRMLS  805 (833)
Q Consensus       784 ~~~~~~~g~~~~A~~~~~~m~~  805 (833)
                      +..|...|++++|.+.+++..+
T Consensus       346 a~~y~~~g~~~~A~~~~~~al~  367 (383)
T 3ulq_A          346 AKYYHERKNFQKASAYFLKVEQ  367 (383)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHH
Confidence            9999999999999999998876

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.36  E-value=5.2e-11  Score=131.21  Aligned_cols=213  Identities=13%  Similarity=0.015  Sum_probs=162.0

Q ss_pred             HHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHccCCH-HHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHH
Q 003295          583 MEEAIELWEECKRTVFGPDIYTYGVMIDGFCKADKI-EEGETLFNEMISKKMELNPVVYNTLIRAYCKIGNTTAAFRLSN  661 (833)
Q Consensus       583 ~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~-~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~  661 (833)
                      +++++..+++..... +.+...+..+...|...|++ ++|++.|++.++..+. +...|..+...|.+.|++++|.+.|+
T Consensus        84 ~~~al~~l~~~~~~~-~~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~g~~~~A~~~~~  161 (474)
T 4abn_A           84 MEKTLQQMEEVLGSA-QVEAQALMLKGKALNVTPDYSPEAEVLLSKAVKLEPE-LVEAWNQLGEVYWKKGDVTSAHTCFS  161 (474)
T ss_dssp             HHHHHHHHHHHHTTC-CCCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccC-chhHHHHHHHHHHHHhccccHHHHHHHHHHHHhhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            455566666554432 34566777777778888888 8888888887776544 67788888888888888888888888


Q ss_pred             HHHhCCCCCCHHHHHHHHHHHHhc---------CCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhc--------CChh
Q 003295          662 DMKSRGILPTSVTYSSLIHGLCNI---------GLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKL--------GQMD  724 (833)
Q Consensus       662 ~m~~~~~~p~~~~~~~li~~~~~~---------g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~--------g~~~  724 (833)
                      +..+..  |+...+..+...+...         |++++|+..++++++.. +.+...|..+..+|...        |+++
T Consensus       162 ~al~~~--p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~~~~g~~~  238 (474)
T 4abn_A          162 GALTHC--KNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQMD-VLDGRSWYILGNAYLSLYFNTGQNPKISQ  238 (474)
T ss_dssp             HHHTTC--CCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHTTCCHHHHH
T ss_pred             HHHhhC--CCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHhhccccchHH
Confidence            887763  5567777788888887         88888888888888753 33567788888888887        8888


Q ss_pred             HHHHHHHHHHhCCCC---CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCCHHHHHHHHH
Q 003295          725 EAESVLQEMASINIH---PNKITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISPDSITYNVFMDGHCKGGNVEEAFKVCD  801 (833)
Q Consensus       725 ~A~~~~~~m~~~g~~---p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~  801 (833)
                      +|...|++..+.. +   .+...|..+..+|...|++++|.+.|+++++.. +.+...+..+...+...|++++|++.+.
T Consensus       239 ~A~~~~~~al~~~-p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~a~~~l~~~~~~lg~~~eAi~~~~  316 (474)
T 4abn_A          239 QALSAYAQAEKVD-RKASSNPDLHLNRATLHKYEESYGEALEGFSQAAALD-PAWPEPQQREQQLLEFLSRLTSLLESKG  316 (474)
T ss_dssp             HHHHHHHHHHHHC-GGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHhC-CCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            9998888888753 3   477888888888889999999999999888842 2356678888888888888888877554


Q ss_pred             H
Q 003295          802 R  802 (833)
Q Consensus       802 ~  802 (833)
                      +
T Consensus       317 ~  317 (474)
T 4abn_A          317 K  317 (474)
T ss_dssp             T
T ss_pred             c
Confidence            3

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.35  E-value=1.7e-11  Score=135.08  Aligned_cols=215  Identities=9%  Similarity=-0.038  Sum_probs=169.3

Q ss_pred             HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCh-hHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHH
Q 003295          199 FGYAIDVFSIFSSKGIFPSLKTCNFLLNSLVKANEV-QKGIEVFETMCRGVSPDVFLFSTAINAFCKRGRIEDAIGLFTK  277 (833)
Q Consensus       199 ~~~A~~~f~~~~~~~~~p~~~~~~~ll~~~~~~g~~-~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~  277 (833)
                      ++.+++.++....... .+...|..+...+...|++ ++|+..|+++++-.+.+..+|..+..+|.+.|++++|.+.|++
T Consensus        84 ~~~al~~l~~~~~~~~-~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~  162 (474)
T 4abn_A           84 MEKTLQQMEEVLGSAQ-VEAQALMLKGKALNVTPDYSPEAEVLLSKAVKLEPELVEAWNQLGEVYWKKGDVTSAHTCFSG  162 (474)
T ss_dssp             HHHHHHHHHHHHTTCC-CCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccCc-hhHHHHHHHHHHHHhccccHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            5667777776655443 3788888888889999999 9999999998854566788888999999999999999999999


Q ss_pred             HHHcCCCCChhhHHHHHHHHHhc---------CChhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhc--------CChhH
Q 003295          278 MEELGIAPNVVTYNNIIHGLCRN---------GRLYEAFHLKEKMVLREVEPSLITYSILINGLIKL--------EKFDD  340 (833)
Q Consensus       278 m~~~g~~p~~~~~~~li~~~~~~---------g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~--------g~~~~  340 (833)
                      ..+.  .|+...+..+...|...         |++++|++.|++..+.. +.+...|..+...|...        |++++
T Consensus       163 al~~--~p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~~~~g~~~~  239 (474)
T 4abn_A          163 ALTH--CKNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQMD-VLDGRSWYILGNAYLSLYFNTGQNPKISQQ  239 (474)
T ss_dssp             HHTT--CCCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHTTCCHHHHHH
T ss_pred             HHhh--CCCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHhhccccchHHH
Confidence            8876  46678888888888888         88999999999888763 44577888888888888        88889


Q ss_pred             HHHHHHHHHHCCCC--CChhhHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHH
Q 003295          341 ANFVLKEMSVRGFV--PNYVVYNTLIDGYCKKGNISEALKIRDDMVSKGMSPNSVTFNSLIHGFCKSGQMDNAENALEEM  418 (833)
Q Consensus       341 A~~~~~~m~~~g~~--p~~~~y~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~l~~~  418 (833)
                      |...|++..+....  -+...|..+...|.+.|++++|.+.|++..+.... +...+..+...+...|++++|.+.+.++
T Consensus       240 A~~~~~~al~~~p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~-~~~a~~~l~~~~~~lg~~~eAi~~~~~~  318 (474)
T 4abn_A          240 ALSAYAQAEKVDRKASSNPDLHLNRATLHKYEESYGEALEGFSQAAALDPA-WPEPQQREQQLLEFLSRLTSLLESKGKT  318 (474)
T ss_dssp             HHHHHHHHHHHCGGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHHHHHHHHTTTC
T ss_pred             HHHHHHHHHHhCCCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence            98888888876321  26778888888888888888888888888775332 5567777888888888888887655443

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.35  E-value=6.7e-11  Score=126.92  Aligned_cols=230  Identities=8%  Similarity=-0.027  Sum_probs=173.5

Q ss_pred             HHHHHHhcCChhhHHHHHHHHHHC----CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCC------CCHhhHH
Q 003295          538 LILGCCKDGKPEEGFKLKEDMIKR----GIQP-DNYTYNLLLHGLCSLGKMEEAIELWEECKRTVFG------PDIYTYG  606 (833)
Q Consensus       538 li~~~~~~g~~~~A~~~~~~m~~~----g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~------~~~~~~~  606 (833)
                      ....+...|++++|...+++.++.    +-.+ ...++..+...+...|++++|...+++..+....      ....+++
T Consensus       109 ~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  188 (383)
T 3ulq_A          109 RGMYELDQREYLSAIKFFKKAESKLIFVKDRIEKAEFFFKMSESYYYMKQTYFSMDYARQAYEIYKEHEAYNIRLLQCHS  188 (383)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTCSTTHHHHHHHHH
T ss_pred             HHHHHHHhcCHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCccchHHHHHHHH
Confidence            556677889999999999988764    1111 2457788888899999999999999887653111      1245678


Q ss_pred             HHHHHHHccCCHHHHHHHHHHHHHCCCc-----cCHHHHHHHHHHHHHcCChHHHHHHHHHHHhC----CC-CCCHHHHH
Q 003295          607 VMIDGFCKADKIEEGETLFNEMISKKME-----LNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSR----GI-LPTSVTYS  676 (833)
Q Consensus       607 ~li~~~~~~g~~~~A~~~~~~~~~~~~~-----~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----~~-~p~~~~~~  676 (833)
                      .+...|...|++++|...+++.++....     ....++..+...|...|++++|.+.+++..+.    +. +....++.
T Consensus       189 ~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  268 (383)
T 3ulq_A          189 LFATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNILPSLPQAYF  268 (383)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGHHHHHH
T ss_pred             HHHHHHHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhccchhHHHHHH
Confidence            8888999999999999999888754211     11247888999999999999999999998762    22 33456788


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHC----CCCCChhHHHHHHHHHHhcCC---hhHHHHHHHHHHhCCCCCC-HHHHHHH
Q 003295          677 SLIHGLCNIGLIEDAKCLFDEMRKE----GLLPNVACYTALIGGYCKLGQ---MDEAESVLQEMASINIHPN-KITYTIM  748 (833)
Q Consensus       677 ~li~~~~~~g~~~~A~~~~~~m~~~----g~~p~~~~~~~li~~~~~~g~---~~~A~~~~~~m~~~g~~p~-~~~~~~l  748 (833)
                      .+...+.+.|++++|...+++..+.    +-+.....+..+...+...|+   +++|..++++..   ..|+ ...+..+
T Consensus       269 ~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~al~~~~~~~---~~~~~~~~~~~l  345 (383)
T 3ulq_A          269 LITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQGFFDFLESKM---LYADLEDFAIDV  345 (383)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHHHHHHHHHHHTT---CHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCc---CHHHHHHHHHHH
Confidence            8999999999999999999998763    111122345677888888898   777888777762   2332 4477889


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHH
Q 003295          749 IGGYCKLGDMKEAAKLLNVMAE  770 (833)
Q Consensus       749 i~~~~~~g~~~~A~~~~~~m~~  770 (833)
                      ...|...|++++|.+.++++.+
T Consensus       346 a~~y~~~g~~~~A~~~~~~al~  367 (383)
T 3ulq_A          346 AKYYHERKNFQKASAYFLKVEQ  367 (383)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHH
Confidence            9999999999999999999876

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.29  E-value=3.3e-11  Score=124.94  Aligned_cols=245  Identities=16%  Similarity=0.048  Sum_probs=111.4

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHhhC-------CCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHC------CC
Q 003295          497 TVTSNALIHGMCEAGNLKEAGKLLMEMLQR-------GLILDKVTYNTLILGCCKDGKPEEGFKLKEDMIKR------GI  563 (833)
Q Consensus       497 ~~~~~~li~~~~~~g~~~~A~~~l~~m~~~-------g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~------g~  563 (833)
                      ..++..+...+...|++++|...++++.+.       ........+..+...+...|++++|...++++++.      +-
T Consensus        27 ~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~  106 (311)
T 3nf1_A           27 LRTLHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKTLGKD  106 (311)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCTT
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCC
Confidence            456666677777777777777777766652       11223344555556666666666666666655543      11


Q ss_pred             CC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCccCHHHHHH
Q 003295          564 QP-DNYTYNLLLHGLCSLGKMEEAIELWEECKRTVFGPDIYTYGVMIDGFCKADKIEEGETLFNEMISKKMELNPVVYNT  642 (833)
Q Consensus       564 ~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~  642 (833)
                      .| ...++..+...+...|++++|...++++.+..                            ..............+..
T Consensus       107 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~----------------------------~~~~~~~~~~~~~~~~~  158 (311)
T 3nf1_A          107 HPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIR----------------------------EKVLGKDHPDVAKQLNN  158 (311)
T ss_dssp             CHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHH----------------------------HHHHCTTCHHHHHHHHH
T ss_pred             ChHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHH----------------------------HHhcCCCChHHHHHHHH
Confidence            11 22334444444455555555555544443320                            00000001112334444


Q ss_pred             HHHHHHHcCChHHHHHHHHHHHhC------CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC-------CCCCCh-
Q 003295          643 LIRAYCKIGNTTAAFRLSNDMKSR------GILP-TSVTYSSLIHGLCNIGLIEDAKCLFDEMRKE-------GLLPNV-  707 (833)
Q Consensus       643 li~~~~~~g~~~~A~~~~~~m~~~------~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-------g~~p~~-  707 (833)
                      +...+...|++++|.+.++++.+.      +..| ...++..+...+...|++++|...++++.+.       ...+.. 
T Consensus       159 la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~  238 (311)
T 3nf1_A          159 LALLCQNQGKYEEVEYYYQRALEIYQTKLGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHEREFGSVDDENK  238 (311)
T ss_dssp             HHHHHHTTTCHHHHHHHHHHHHHHHHHTSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHC------C
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCCcchH
Confidence            555555555555555555554432      1111 2234555566666666666666666666542       011111 


Q ss_pred             ------hHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 003295          708 ------ACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAE  770 (833)
Q Consensus       708 ------~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  770 (833)
                            ..+..+...+...+.+.+|...++...... +.+..+|..++.+|.+.|++++|.++++++++
T Consensus       239 ~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  306 (311)
T 3nf1_A          239 PIWMHAEEREECKGKQKDGTSFGEYGGWYKACKVDS-PTVTTTLKNLGALYRRQGKFEAAETLEEAAMR  306 (311)
T ss_dssp             CHHHHHHHHHHC-------CCSCCCC---------C-HHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCchhhHHHHHHHHHHHhhcCCCC-chHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence                  111222223333445555555555554321 22344566666666666666666666666654

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.27  E-value=7.1e-11  Score=122.34  Aligned_cols=155  Identities=15%  Similarity=0.102  Sum_probs=74.5

Q ss_pred             hccCHHHHHHHHHHHHhC-------CCCCCHHHHHHHHHHHHhcCChhHHHHHHHHhhc-------CC-CCCHHHHHHHH
Q 003295          195 KNLGFGYAIDVFSIFSSK-------GIFPSLKTCNFLLNSLVKANEVQKGIEVFETMCR-------GV-SPDVFLFSTAI  259 (833)
Q Consensus       195 ~~~~~~~A~~~f~~~~~~-------~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~-------~~-~~~~~~~~~li  259 (833)
                      ..|++++|+..|+.+.+.       .......++..+...+...|++++|...|+++..       +. +....++..+.
T Consensus        39 ~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~  118 (311)
T 3nf1_A           39 SQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKTLGKDHPAVAATLNNLA  118 (311)
T ss_dssp             HTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHH
Confidence            455556666655555432       1112234455555555555555555555555541       11 12234455555


Q ss_pred             HHHHhcCChhHHHHHHHHHHHc------CCCC-ChhhHHHHHHHHHhcCChhHHHHHHHHHHhC------CCCC-ChhhH
Q 003295          260 NAFCKRGRIEDAIGLFTKMEEL------GIAP-NVVTYNNIIHGLCRNGRLYEAFHLKEKMVLR------EVEP-SLITY  325 (833)
Q Consensus       260 ~~~~~~g~~~~A~~~~~~m~~~------g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~------~~~p-~~~t~  325 (833)
                      ..|...|++++|...|+++.+.      +..| ...++..+...|...|++++|.+.++++...      +..| ...++
T Consensus       119 ~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~  198 (311)
T 3nf1_A          119 VLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLALLCQNQGKYEEVEYYYQRALEIYQTKLGPDDPNVAKTK  198 (311)
T ss_dssp             HHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTSCTTCHHHHHHH
T ss_pred             HHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCHHHHHHH
Confidence            5555555555555555555442      1111 1234445555555555555555555555432      1011 12344


Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHH
Q 003295          326 SILINGLIKLEKFDDANFVLKEMS  349 (833)
Q Consensus       326 ~~li~~~~~~g~~~~A~~~~~~m~  349 (833)
                      ..+...+.+.|++++|...++++.
T Consensus       199 ~~la~~~~~~g~~~~A~~~~~~al  222 (311)
T 3nf1_A          199 NNLASCYLKQGKFKQAETLYKEIL  222 (311)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHH
Confidence            445555555555555555555554

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.26  E-value=9.4e-10  Score=117.65  Aligned_cols=230  Identities=10%  Similarity=-0.022  Sum_probs=164.9

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHhhCCC-CCC----HhhHHHHHHHHHccCCHHHHHHHHHHHHHCCC-----c-cCHHHHH
Q 003295          573 LLHGLCSLGKMEEAIELWEECKRTVF-GPD----IYTYGVMIDGFCKADKIEEGETLFNEMISKKM-----E-LNPVVYN  641 (833)
Q Consensus       573 li~~~~~~g~~~~A~~~~~~~~~~~~-~~~----~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~-----~-~~~~~~~  641 (833)
                      ....+...|++++|...|+++.+... .++    ..++..+...|...|++++|...+++..+...     . ....+++
T Consensus       107 ~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  186 (378)
T 3q15_A          107 RGMYEFDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQSLF  186 (378)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHHHHH
T ss_pred             HHHHHHHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHHHHH
Confidence            44556677888888888888765321 122    44677777888888888888888887765311     1 1245677


Q ss_pred             HHHHHHHHcCChHHHHHHHHHHHhC----CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC----CCCCChhHHHH
Q 003295          642 TLIRAYCKIGNTTAAFRLSNDMKSR----GILP-TSVTYSSLIHGLCNIGLIEDAKCLFDEMRKE----GLLPNVACYTA  712 (833)
Q Consensus       642 ~li~~~~~~g~~~~A~~~~~~m~~~----~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----g~~p~~~~~~~  712 (833)
                      .+...|...|++++|.+.+++..+.    +..+ ...++..+...+...|++++|...+++..+.    +.+....++..
T Consensus       187 ~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  266 (378)
T 3q15_A          187 VIAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVPDLLPKVLFG  266 (378)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCGGGHHHHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCChhHHHHHHH
Confidence            8888888999999999888887653    1111 2346777888889999999999999988761    22233567888


Q ss_pred             HHHHHHhcCChhHHHHHHHHHHhC----CCCCCHHHHHHHHHHHHhcCC---HHHHHHHHHHHHHcCCCCC-HHHHHHHH
Q 003295          713 LIGGYCKLGQMDEAESVLQEMASI----NIHPNKITYTIMIGGYCKLGD---MKEAAKLLNVMAEKGISPD-SITYNVFM  784 (833)
Q Consensus       713 li~~~~~~g~~~~A~~~~~~m~~~----g~~p~~~~~~~li~~~~~~g~---~~~A~~~~~~m~~~g~~p~-~~~~~~l~  784 (833)
                      +...+.+.|++++|...+++..+.    +-+.....+..+...+...|+   +++|+.++++.   +..|+ ...+..++
T Consensus       267 la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~~~~~---~~~~~~~~~~~~la  343 (378)
T 3q15_A          267 LSWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLSYFEKK---NLHAYIEACARSAA  343 (378)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHHHHHHT---TCHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhC---CChhHHHHHHHHHH
Confidence            889999999999999999998763    112223456667777778888   77777777762   22232 35677899


Q ss_pred             HHHhcCCCHHHHHHHHHHHHH
Q 003295          785 DGHCKGGNVEEAFKVCDRMLS  805 (833)
Q Consensus       785 ~~~~~~g~~~~A~~~~~~m~~  805 (833)
                      ..|...|++++|.+.|++..+
T Consensus       344 ~~y~~~g~~~~A~~~~~~al~  364 (378)
T 3q15_A          344 AVFESSCHFEQAAAFYRKVLK  364 (378)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHH
Confidence            999999999999999998875

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.25  E-value=7.6e-10  Score=118.38  Aligned_cols=230  Identities=8%  Similarity=-0.012  Sum_probs=169.1

Q ss_pred             HHHHHHHhcCChhhHHHHHHHHHHCCCC-C----CHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCC-----C-CCHhhH
Q 003295          537 TLILGCCKDGKPEEGFKLKEDMIKRGIQ-P----DNYTYNLLLHGLCSLGKMEEAIELWEECKRTVF-----G-PDIYTY  605 (833)
Q Consensus       537 ~li~~~~~~g~~~~A~~~~~~m~~~g~~-p----~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~-----~-~~~~~~  605 (833)
                      .....+...|++++|...+++..+.... +    ...++..+...+...|+++.|...+++..+...     . ....++
T Consensus       106 ~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  185 (378)
T 3q15_A          106 FRGMYEFDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQSL  185 (378)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHHHH
T ss_pred             HHHHHHHHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHHHH
Confidence            3445566788899999998888764211 2    235677788888889999999988888765311     1 124567


Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHHC----CCc-cCHHHHHHHHHHHHHcCChHHHHHHHHHHHh-----CCCCCCHHHH
Q 003295          606 GVMIDGFCKADKIEEGETLFNEMISK----KME-LNPVVYNTLIRAYCKIGNTTAAFRLSNDMKS-----RGILPTSVTY  675 (833)
Q Consensus       606 ~~li~~~~~~g~~~~A~~~~~~~~~~----~~~-~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~-----~~~~p~~~~~  675 (833)
                      +.+...|...|++++|.+.|++.++.    +.. ....++..+...|...|++++|.+.+++..+     .. +....++
T Consensus       186 ~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~-~~~~~~~  264 (378)
T 3q15_A          186 FVIAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVP-DLLPKVL  264 (378)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCG-GGHHHHH
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCC-hhHHHHH
Confidence            78888899999999999998887753    111 1245778888999999999999999999876     43 3336778


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHCC----CCCChhHHHHHHHHHHhcCC---hhHHHHHHHHHHhCCCCC-CHHHHHH
Q 003295          676 SSLIHGLCNIGLIEDAKCLFDEMRKEG----LLPNVACYTALIGGYCKLGQ---MDEAESVLQEMASINIHP-NKITYTI  747 (833)
Q Consensus       676 ~~li~~~~~~g~~~~A~~~~~~m~~~g----~~p~~~~~~~li~~~~~~g~---~~~A~~~~~~m~~~g~~p-~~~~~~~  747 (833)
                      ..+...+.+.|++++|...+++..+..    -+.....+..+...+...|+   +++|...+++..   ..| ....+..
T Consensus       265 ~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~~~~~~---~~~~~~~~~~~  341 (378)
T 3q15_A          265 FGLSWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLSYFEKKN---LHAYIEACARS  341 (378)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHHHHHHTT---CHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhCC---ChhHHHHHHHH
Confidence            888999999999999999999998741    11123445666666777788   777877777632   222 2346778


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHH
Q 003295          748 MIGGYCKLGDMKEAAKLLNVMAE  770 (833)
Q Consensus       748 li~~~~~~g~~~~A~~~~~~m~~  770 (833)
                      ++..|...|++++|.+.++++.+
T Consensus       342 la~~y~~~g~~~~A~~~~~~al~  364 (378)
T 3q15_A          342 AAAVFESSCHFEQAAAFYRKVLK  364 (378)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHH
Confidence            99999999999999999999875

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.24  E-value=2.3e-09  Score=114.44  Aligned_cols=300  Identities=14%  Similarity=0.038  Sum_probs=197.2

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHH----HHHHHHHHHHhcCChhhHHHHHHHHHHCCCC-CCH----HH
Q 003295          499 TSNALIHGMCEAGNLKEAGKLLMEMLQRGLILDKV----TYNTLILGCCKDGKPEEGFKLKEDMIKRGIQ-PDN----YT  569 (833)
Q Consensus       499 ~~~~li~~~~~~g~~~~A~~~l~~m~~~g~~~~~~----~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~-p~~----~~  569 (833)
                      ........+...|++++|...+++........+..    .++.+...+...|++++|...+++....... .+.    .+
T Consensus        16 ~~~~~a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~   95 (373)
T 1hz4_A           16 FNALRAQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWS   95 (373)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHHH
Confidence            44455566778899999999999987765433332    4566677788889999999998887764211 122    23


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHhhC----CCC--C-CHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCc----cCHH
Q 003295          570 YNLLLHGLCSLGKMEEAIELWEECKRT----VFG--P-DIYTYGVMIDGFCKADKIEEGETLFNEMISKKME----LNPV  638 (833)
Q Consensus       570 ~~~li~~~~~~g~~~~A~~~~~~~~~~----~~~--~-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~----~~~~  638 (833)
                      +..+...+...|++++|...+++..+.    +..  | ....+..+...+...|++++|...+++..+....    ....
T Consensus        96 ~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~  175 (373)
T 1hz4_A           96 LIQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQ  175 (373)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHH
Confidence            566777788889999999988887653    211  2 2345566777888889999999888887764322    1235


Q ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCC--HHHHH----HHHHHHHhcCCHHHHHHHHHHHHHCCCCC---ChhH
Q 003295          639 VYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPT--SVTYS----SLIHGLCNIGLIEDAKCLFDEMRKEGLLP---NVAC  709 (833)
Q Consensus       639 ~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~--~~~~~----~li~~~~~~g~~~~A~~~~~~m~~~g~~p---~~~~  709 (833)
                      ++..+...+...|++++|...+++.......++  .....    ..+..+...|++++|...+++.......+   ....
T Consensus       176 ~~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~  255 (373)
T 1hz4_A          176 CLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQ  255 (373)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHHHHHCCCHHHHHHHHHhCCCCCCCcchhhHHH
Confidence            677777888888888888888888765311111  11111    22344668888888888888776542111   1224


Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHh----CCCCCCH-HHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHH
Q 003295          710 YTALIGGYCKLGQMDEAESVLQEMAS----INIHPNK-ITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISPDSITYNVFM  784 (833)
Q Consensus       710 ~~~li~~~~~~g~~~~A~~~~~~m~~----~g~~p~~-~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~  784 (833)
                      +..+...+...|++++|...+++...    .|..++. ..+..+..++...|+.++|...+++..+..  +.    ....
T Consensus       256 ~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~al~~~--~~----~g~~  329 (373)
T 1hz4_A          256 WRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALKLA--NR----TGFI  329 (373)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH--HH----HCCC
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCcchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHh--cc----ccHH
Confidence            56677788888888888888887754    2222222 256667777888888888888888887731  11    1122


Q ss_pred             HHHhcCCCHHHHHHHHHHHHHC
Q 003295          785 DGHCKGGNVEEAFKVCDRMLSE  806 (833)
Q Consensus       785 ~~~~~~g~~~~A~~~~~~m~~~  806 (833)
                      ..+...|  +....+++.+...
T Consensus       330 ~~~~~~g--~~~~~ll~~~~~~  349 (373)
T 1hz4_A          330 SHFVIEG--EAMAQQLRQLIQL  349 (373)
T ss_dssp             HHHHTTH--HHHHHHHHHHHHT
T ss_pred             HHHHHcc--HHHHHHHHHHHhC
Confidence            3444555  5667777777764

>3as5_A MAMA; tetratricopeptide repeats (TPR) containing protein, TPR PROT protein-protein interactions, protein binding; 2.00A {Magnetospirillum magnetotacticum} PDB: 3as4_A 3asd_A 3asg_A 3ash_A 3as8_A 3asf_A

Probab=99.23  E-value=8.2e-10  Score=104.22  Aligned_cols=164  Identities=17%  Similarity=0.077  Sum_probs=120.6

Q ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHH
Q 003295          638 VVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGY  717 (833)
Q Consensus       638 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~  717 (833)
                      ..|..+...+...|++++|.+.++++.+.. +.+...+..+...+...|++++|...++++.+.. +.+...+..+...+
T Consensus         9 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~   86 (186)
T 3as5_A            9 VYYRDKGISHAKAGRYSQAVMLLEQVYDAD-AFDVDVALHLGIAYVKTGAVDRGTELLERSLADA-PDNVKVATVLGLTY   86 (186)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHTTTCCTT-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-ccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHH
Confidence            455566667777777777777777766553 3356667777777777888888888888777652 34566777777778


Q ss_pred             HhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCCHHHHH
Q 003295          718 CKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISPDSITYNVFMDGHCKGGNVEEAF  797 (833)
Q Consensus       718 ~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~  797 (833)
                      ...|++++|.+.++++.+.. +.+...+..++..+...|++++|.+.++++.+.. +.+..++..++..+...|++++|.
T Consensus        87 ~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~  164 (186)
T 3as5_A           87 VQVQKYDLAVPLLIKVAEAN-PINFNVRFRLGVALDNLGRFDEAIDSFKIALGLR-PNEGKVHRAIAFSYEQMGRHEEAL  164 (186)
T ss_dssp             HHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHhcCHHHHHHHHHHHHhcC-cHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCHHHHH
Confidence            88888888888888877653 5567777778888888888888888888887753 335677888888888888888888


Q ss_pred             HHHHHHHH
Q 003295          798 KVCDRMLS  805 (833)
Q Consensus       798 ~~~~~m~~  805 (833)
                      +.++++.+
T Consensus       165 ~~~~~~~~  172 (186)
T 3as5_A          165 PHFKKANE  172 (186)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            88887776

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.23  E-value=3.3e-09  Score=113.13  Aligned_cols=298  Identities=13%  Similarity=0.113  Sum_probs=205.2

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHH----HHHHHHHHHHhcCCHHHHHHHHHHHhhCCCC-CCH----HHHH
Q 003295          466 TLLVSGLCKNGKQAEATELCFRLFEKGFTVNTV----TSNALIHGMCEAGNLKEAGKLLMEMLQRGLI-LDK----VTYN  536 (833)
Q Consensus       466 ~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~----~~~~li~~~~~~g~~~~A~~~l~~m~~~g~~-~~~----~~~~  536 (833)
                      ......+...|++++|...+++........+..    +++.+...+...|++++|...+++..+.... .+.    .++.
T Consensus        18 ~~~a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~   97 (373)
T 1hz4_A           18 ALRAQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLI   97 (373)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHHHHH
Confidence            344556778899999999999988764333332    5677778888999999999999887653211 122    3356


Q ss_pred             HHHHHHHhcCChhhHHHHHHHHHHC----CCC--C-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCC--C--CHhhH
Q 003295          537 TLILGCCKDGKPEEGFKLKEDMIKR----GIQ--P-DNYTYNLLLHGLCSLGKMEEAIELWEECKRTVFG--P--DIYTY  605 (833)
Q Consensus       537 ~li~~~~~~g~~~~A~~~~~~m~~~----g~~--p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~--~--~~~~~  605 (833)
                      .+...+...|++++|...+++.++.    +..  | ....+..+...+...|++++|...+++.......  +  ...++
T Consensus        98 ~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~  177 (373)
T 1hz4_A           98 QQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCL  177 (373)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHHHH
Confidence            6777888899999999999988764    221  2 2345666788889999999999999988764321  1  23467


Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHHCCCccC-HHHHH-----HHHHHHHHcCChHHHHHHHHHHHhCCCCCC---HHHHH
Q 003295          606 GVMIDGFCKADKIEEGETLFNEMISKKMELN-PVVYN-----TLIRAYCKIGNTTAAFRLSNDMKSRGILPT---SVTYS  676 (833)
Q Consensus       606 ~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~-~~~~~-----~li~~~~~~g~~~~A~~~~~~m~~~~~~p~---~~~~~  676 (833)
                      ..+...+...|++++|...+++.......++ ...+.     ..+..+...|++++|...+++.......+.   ...+.
T Consensus       178 ~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~  257 (373)
T 1hz4_A          178 AMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWR  257 (373)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHHHHHCCCHHHHHHHHHhCCCCCCCcchhhHHHHH
Confidence            7788888999999999999998875422211 11222     233447789999999999988876432211   22456


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHC----CCCCCh-hHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 003295          677 SLIHGLCNIGLIEDAKCLFDEMRKE----GLLPNV-ACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGG  751 (833)
Q Consensus       677 ~li~~~~~~g~~~~A~~~~~~m~~~----g~~p~~-~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~  751 (833)
                      .+...+...|++++|...+++....    |..++. ..+..+..++...|+.++|...+++.....  +.    ...+..
T Consensus       258 ~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~al~~~--~~----~g~~~~  331 (373)
T 1hz4_A          258 NIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALKLA--NR----TGFISH  331 (373)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH--HH----HCCCHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHhCcchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHh--cc----ccHHHH
Confidence            7778888999999999999988653    222222 356667788889999999999999988631  10    112233


Q ss_pred             HHhcCCHHHHHHHHHHHHHc
Q 003295          752 YCKLGDMKEAAKLLNVMAEK  771 (833)
Q Consensus       752 ~~~~g~~~~A~~~~~~m~~~  771 (833)
                      +...|  +....+++.+...
T Consensus       332 ~~~~g--~~~~~ll~~~~~~  349 (373)
T 1hz4_A          332 FVIEG--EAMAQQLRQLIQL  349 (373)
T ss_dssp             HHTTH--HHHHHHHHHHHHT
T ss_pred             HHHcc--HHHHHHHHHHHhC
Confidence            44444  5666667766664

>3as5_A MAMA; tetratricopeptide repeats (TPR) containing protein, TPR PROT protein-protein interactions, protein binding; 2.00A {Magnetospirillum magnetotacticum} PDB: 3as4_A 3asd_A 3asg_A 3ash_A 3as8_A 3asf_A

Probab=99.22  E-value=7.5e-10  Score=104.50  Aligned_cols=163  Identities=17%  Similarity=0.005  Sum_probs=90.4

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHh
Q 003295          220 TCNFLLNSLVKANEVQKGIEVFETMCRGVSPDVFLFSTAINAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIHGLCR  299 (833)
Q Consensus       220 ~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~  299 (833)
                      .|..+...+...|++++|...|+++....+.+..++..+...+...|++++|...++++.+... .+...+..++..+..
T Consensus        10 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~a~~~~~   88 (186)
T 3as5_A           10 YYRDKGISHAKAGRYSQAVMLLEQVYDADAFDVDVALHLGIAYVKTGAVDRGTELLERSLADAP-DNVKVATVLGLTYVQ   88 (186)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHTTTCCTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHhCccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHH
Confidence            4445555666666666666666666644445566666666666666666666666666665432 244555556666666


Q ss_pred             cCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHHcCChHHHHHH
Q 003295          300 NGRLYEAFHLKEKMVLREVEPSLITYSILINGLIKLEKFDDANFVLKEMSVRGFVPNYVVYNTLIDGYCKKGNISEALKI  379 (833)
Q Consensus       300 ~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~A~~~  379 (833)
                      .|++++|.+.++++.... +.+...+..+...+...|++++|...++++.+... .+...+..+...+.+.|++++|.+.
T Consensus        89 ~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~la~~~~~~~~~~~A~~~  166 (186)
T 3as5_A           89 VQKYDLAVPLLIKVAEAN-PINFNVRFRLGVALDNLGRFDEAIDSFKIALGLRP-NEGKVHRAIAFSYEQMGRHEEALPH  166 (186)
T ss_dssp             HTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             hcCHHHHHHHHHHHHhcC-cHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcCc-cchHHHHHHHHHHHHcCCHHHHHHH
Confidence            666666666666655432 23444455555555555555555555555544321 1344445555555555555555555


Q ss_pred             HHHHHh
Q 003295          380 RDDMVS  385 (833)
Q Consensus       380 ~~~m~~  385 (833)
                      +++..+
T Consensus       167 ~~~~~~  172 (186)
T 3as5_A          167 FKKANE  172 (186)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            555443

>4i17_A Hypothetical protein; TPR repeats protein, structural genomics, joint center for S genomics, JCSG, protein structure initiative; HET: MSE; 1.83A {Bacteroides fragilis}

Probab=99.20  E-value=1e-09  Score=107.96  Aligned_cols=207  Identities=11%  Similarity=0.023  Sum_probs=157.1

Q ss_pred             CCHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHHHHHHHH
Q 003295          600 PDIYTYGVMIDGFCKADKIEEGETLFNEMISKKMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLI  679 (833)
Q Consensus       600 ~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li  679 (833)
                      .|+..+......+.+.|++++|+..|++.++..+.++...+..+..++...|++++|++.+++..+.. +.+...+..+.
T Consensus         5 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~   83 (228)
T 4i17_A            5 TDPNQLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKN-YNLANAYIGKS   83 (228)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT-CSHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhC-cchHHHHHHHH
Confidence            45677888888899999999999999999988764677888788999999999999999999998874 33667788889


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHCCCCCCh-------hHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCC---HHHHHHHH
Q 003295          680 HGLCNIGLIEDAKCLFDEMRKEGLLPNV-------ACYTALIGGYCKLGQMDEAESVLQEMASINIHPN---KITYTIMI  749 (833)
Q Consensus       680 ~~~~~~g~~~~A~~~~~~m~~~g~~p~~-------~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~---~~~~~~li  749 (833)
                      ..+...|++++|...+++..+.. +.+.       ..|..+...+...|++++|++.|+++.+.  .|+   ...|..+.
T Consensus        84 ~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~l~  160 (228)
T 4i17_A           84 AAYRDMKNNQEYIATLTEGIKAV-PGNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDV--TSKKWKTDALYSLG  160 (228)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS--SCHHHHHHHHHHHH
T ss_pred             HHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhc--CCCcccHHHHHHHH
Confidence            99999999999999999998853 2234       45777888888999999999999999875  454   56778888


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 003295          750 GGYCKLGDMKEAAKLLNVMAEKGISPDSITYNVFMDGHCKGGNVEEAFKVCDRMLSEGLSLDEITYTTLID  820 (833)
Q Consensus       750 ~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~  820 (833)
                      .+|...|     ...++++...+ ..+...|....  ....+.+++|+..+++.++  +.|+......++.
T Consensus       161 ~~~~~~~-----~~~~~~a~~~~-~~~~~~~~~~~--~~~~~~~~~A~~~~~~a~~--l~p~~~~~~~~l~  221 (228)
T 4i17_A          161 VLFYNNG-----ADVLRKATPLA-SSNKEKYASEK--AKADAAFKKAVDYLGEAVT--LSPNRTEIKQMQD  221 (228)
T ss_dssp             HHHHHHH-----HHHHHHHGGGT-TTCHHHHHHHH--HHHHHHHHHHHHHHHHHHH--HCTTCHHHHHHHH
T ss_pred             HHHHHHH-----HHHHHHHHhcc-cCCHHHHHHHH--HHHHHHHHHHHHHHHHHhh--cCCCCHHHHHHHH
Confidence            8886554     34455555542 23444444433  3345778999999999998  5677444444443

>4gyw_A UDP-N-acetylglucosamine--peptide N- acetylglucosaminyltransferase 110 kDa subunit...; GT-B, glycosyltransferase, glcnacylation, transferase-peptid; HET: UDP NAG; 1.70A {Homo sapiens} PDB: 3pe3_A* 3pe4_A* 4ay5_A* 4ay6_A* 3tax_A* 4gyy_A* 4gz3_A* 4gz5_A* 4gz6_A*

Probab=99.19  E-value=6.2e-10  Score=127.48  Aligned_cols=164  Identities=14%  Similarity=0.043  Sum_probs=84.2

Q ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhHHHHHHHH
Q 003295          637 PVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGG  716 (833)
Q Consensus       637 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~  716 (833)
                      ..+|+.+...|.+.|++++|++.|++.++.. +-+..+|..+...|.+.|++++|++.|+++++.. +-+...|..+..+
T Consensus         9 a~al~nLG~~~~~~G~~~eAi~~~~kAl~l~-P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l~-P~~~~a~~nLg~~   86 (723)
T 4gyw_A            9 ADSLNNLANIKREQGNIEEAVRLYRKALEVF-PEFAAAHSNLASVLQQQGKLQEALMHYKEAIRIS-PTFADAYSNMGNT   86 (723)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHH
Confidence            3445555555555555555555555555442 2234445555555555555555555555555431 1234455555555


Q ss_pred             HHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhcCCCHHH
Q 003295          717 YCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISP-DSITYNVFMDGHCKGGNVEE  795 (833)
Q Consensus       717 ~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~~~~~l~~~~~~~g~~~~  795 (833)
                      |.+.|++++|++.|++..+.. +-+...|..++.+|...|++++|++.|+++++.  .| +...|..|+..|...|++++
T Consensus        87 l~~~g~~~~A~~~~~kAl~l~-P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l--~P~~~~a~~~L~~~l~~~g~~~~  163 (723)
T 4gyw_A           87 LKEMQDVQGALQCYTRAIQIN-PAFADAHSNLASIHKDSGNIPEAIASYRTALKL--KPDFPDAYCNLAHCLQIVCDWTD  163 (723)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSCCHHHHHHHHHHHHHTTCCTT
T ss_pred             HHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCChHHHhhhhhHHHhcccHHH
Confidence            555555555555555555432 233445555555555555555555555555552  23 34455555555555555555


Q ss_pred             HHHHHHHHHH
Q 003295          796 AFKVCDRMLS  805 (833)
Q Consensus       796 A~~~~~~m~~  805 (833)
                      |.+.++++++
T Consensus       164 A~~~~~kal~  173 (723)
T 4gyw_A          164 YDERMKKLVS  173 (723)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            5555554443

>4gyw_A UDP-N-acetylglucosamine--peptide N- acetylglucosaminyltransferase 110 kDa subunit...; GT-B, glycosyltransferase, glcnacylation, transferase-peptid; HET: UDP NAG; 1.70A {Homo sapiens} PDB: 3pe3_A* 3pe4_A* 4ay5_A* 4ay6_A* 3tax_A* 4gyy_A* 4gz3_A* 4gz5_A* 4gz6_A*

Probab=99.18  E-value=5.5e-10  Score=127.95  Aligned_cols=164  Identities=16%  Similarity=0.109  Sum_probs=87.0

Q ss_pred             HHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHH
Q 003295          252 VFLFSTAINAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIHGLCRNGRLYEAFHLKEKMVLREVEPSLITYSILING  331 (833)
Q Consensus       252 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~  331 (833)
                      ..+|+.+..+|.+.|++++|++.|++..+.... +..+|+.+...|.+.|++++|++.|++..+.. +.+..+|..+...
T Consensus         9 a~al~nLG~~~~~~G~~~eAi~~~~kAl~l~P~-~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l~-P~~~~a~~nLg~~   86 (723)
T 4gyw_A            9 ADSLNNLANIKREQGNIEEAVRLYRKALEVFPE-FAAAHSNLASVLQQQGKLQEALMHYKEAIRIS-PTFADAYSNMGNT   86 (723)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHH
Confidence            445555555555555555555555555544221 34455555555555555555555555555432 2234455555555


Q ss_pred             HHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChhHH
Q 003295          332 LIKLEKFDDANFVLKEMSVRGFVPNYVVYNTLIDGYCKKGNISEALKIRDDMVSKGMSPNSVTFNSLIHGFCKSGQMDNA  411 (833)
Q Consensus       332 ~~~~g~~~~A~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A  411 (833)
                      |.+.|++++|++.|++..+.... +...|+.+...|.+.|++++|++.|++..+.... +...|..+...+...|++++|
T Consensus        87 l~~~g~~~~A~~~~~kAl~l~P~-~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~P~-~~~a~~~L~~~l~~~g~~~~A  164 (723)
T 4gyw_A           87 LKEMQDVQGALQCYTRAIQINPA-FADAHSNLASIHKDSGNIPEAIASYRTALKLKPD-FPDAYCNLAHCLQIVCDWTDY  164 (723)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSC-CHHHHHHHHHHHHHTTCCTTH
T ss_pred             HHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-ChHHHhhhhhHHHhcccHHHH
Confidence            55555555555555555544211 3445555666666666666666666665554222 344555566666666666666


Q ss_pred             HHHHHHHH
Q 003295          412 ENALEEML  419 (833)
Q Consensus       412 ~~~l~~~~  419 (833)
                      .+.++++.
T Consensus       165 ~~~~~kal  172 (723)
T 4gyw_A          165 DERMKKLV  172 (723)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            66555554

>4i17_A Hypothetical protein; TPR repeats protein, structural genomics, joint center for S genomics, JCSG, protein structure initiative; HET: MSE; 1.83A {Bacteroides fragilis}

Probab=99.13  E-value=3.8e-09  Score=103.81  Aligned_cols=206  Identities=16%  Similarity=0.056  Sum_probs=163.6

Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCccCHHHHHHHH
Q 003295          565 PDNYTYNLLLHGLCSLGKMEEAIELWEECKRTVFGPDIYTYGVMIDGFCKADKIEEGETLFNEMISKKMELNPVVYNTLI  644 (833)
Q Consensus       565 p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li  644 (833)
                      .|+..+......+...|++++|...|++..+....++...+..+..++.+.|++++|+..+++.++..+. +...|..+.
T Consensus         5 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l~   83 (228)
T 4i17_A            5 TDPNQLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKNYN-LANAYIGKS   83 (228)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCS-HHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCcc-hHHHHHHHH
Confidence            4678888899999999999999999999998764467778877999999999999999999999998665 778899999


Q ss_pred             HHHHHcCChHHHHHHHHHHHhCCCCCCH-------HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC---hhHHHHHH
Q 003295          645 RAYCKIGNTTAAFRLSNDMKSRGILPTS-------VTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPN---VACYTALI  714 (833)
Q Consensus       645 ~~~~~~g~~~~A~~~~~~m~~~~~~p~~-------~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~---~~~~~~li  714 (833)
                      ..|...|++++|.+.+++..+.. +.+.       ..|..+...+...|++++|++.|+++++.  .|+   ...|..+.
T Consensus        84 ~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~l~  160 (228)
T 4i17_A           84 AAYRDMKNNQEYIATLTEGIKAV-PGNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDV--TSKKWKTDALYSLG  160 (228)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS--SCHHHHHHHHHHHH
T ss_pred             HHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhc--CCCcccHHHHHHHH
Confidence            99999999999999999999864 3345       45778888899999999999999999985  465   56777788


Q ss_pred             HHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC-HHHHHHHH
Q 003295          715 GGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISPD-SITYNVFM  784 (833)
Q Consensus       715 ~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~~~~~l~  784 (833)
                      ..|...|     ...++++...+ ..+...|....  ....+.+++|+..++++.+.  .|+ ..+...+.
T Consensus       161 ~~~~~~~-----~~~~~~a~~~~-~~~~~~~~~~~--~~~~~~~~~A~~~~~~a~~l--~p~~~~~~~~l~  221 (228)
T 4i17_A          161 VLFYNNG-----ADVLRKATPLA-SSNKEKYASEK--AKADAAFKKAVDYLGEAVTL--SPNRTEIKQMQD  221 (228)
T ss_dssp             HHHHHHH-----HHHHHHHGGGT-TTCHHHHHHHH--HHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHH
T ss_pred             HHHHHHH-----HHHHHHHHhcc-cCCHHHHHHHH--HHHHHHHHHHHHHHHHHhhc--CCCCHHHHHHHH
Confidence            8876544     44556666543 34455554443  34567799999999999984  464 44444443

>3edt_B KLC 2, kinesin light chain 2; superhelical, structural genomics, structural genomics conso SGC, microtubule, motor protein, phosphoprotein; 2.70A {Homo sapiens} PDB: 3ceq_A

Probab=99.09  E-value=7.3e-10  Score=112.75  Aligned_cols=226  Identities=16%  Similarity=0.111  Sum_probs=157.6

Q ss_pred             HhcCCHHHHHHHHHHHhhC-------CCCCCHhhHHHHHHHHHccCCHHHHHHHHHHHHHC------C-CccCHHHHHHH
Q 003295          578 CSLGKMEEAIELWEECKRT-------VFGPDIYTYGVMIDGFCKADKIEEGETLFNEMISK------K-MELNPVVYNTL  643 (833)
Q Consensus       578 ~~~g~~~~A~~~~~~~~~~-------~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~------~-~~~~~~~~~~l  643 (833)
                      ...|++++|..++++..+.       ..+....++..+...|...|++++|...++++.+.      + ......++..+
T Consensus        12 ~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l   91 (283)
T 3edt_B           12 SGLVPRGSAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNL   91 (283)
T ss_dssp             -CCSCSSSHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHH
Confidence            3457777777777766542       22234667888899999999999999999998764      1 12345678889


Q ss_pred             HHHHHHcCChHHHHHHHHHHHhC------C-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC------CCCC-ChhH
Q 003295          644 IRAYCKIGNTTAAFRLSNDMKSR------G-ILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKE------GLLP-NVAC  709 (833)
Q Consensus       644 i~~~~~~g~~~~A~~~~~~m~~~------~-~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~------g~~p-~~~~  709 (833)
                      ...|...|++++|.+.+++..+.      . .+....++..+...+...|++++|...++++.+.      +-.| ...+
T Consensus        92 ~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  171 (283)
T 3edt_B           92 AVLYGKRGKYKEAEPLCKRALEIREKVLGKFHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAKT  171 (283)
T ss_dssp             HHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHH
T ss_pred             HHHHHHhccHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHH
Confidence            99999999999999999998764      1 1224567788888999999999999999998864      1123 3467


Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHhC-------CCCC-CHHHHHHHHHHHHhcCCHHHHH------HHHHHHHHcCCCC
Q 003295          710 YTALIGGYCKLGQMDEAESVLQEMASI-------NIHP-NKITYTIMIGGYCKLGDMKEAA------KLLNVMAEKGISP  775 (833)
Q Consensus       710 ~~~li~~~~~~g~~~~A~~~~~~m~~~-------g~~p-~~~~~~~li~~~~~~g~~~~A~------~~~~~m~~~g~~p  775 (833)
                      +..+...|...|++++|...++++.+.       ...+ ....|..+...+...+....+.      ..++....  ..|
T Consensus       172 ~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~  249 (283)
T 3edt_B          172 KNNLASCYLKQGKYQDAETLYKEILTRAHEKEFGSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACKV--DSP  249 (283)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHSSSCCSSCCCHHHHHHHHHHTTCCCCC------------CCCC--CCH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcCC--CCH
Confidence            888899999999999999999988752       1122 2234444444444433333222      22221111  112


Q ss_pred             -CHHHHHHHHHHHhcCCCHHHHHHHHHHHHH
Q 003295          776 -DSITYNVFMDGHCKGGNVEEAFKVCDRMLS  805 (833)
Q Consensus       776 -~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  805 (833)
                       ...++..++..|...|++++|..++++.++
T Consensus       250 ~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  280 (283)
T 3edt_B          250 TVNTTLRSLGALYRRQGKLEAAHTLEDCASR  280 (283)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence             346788999999999999999999999876

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.09  E-value=3.3e-09  Score=108.67  Aligned_cols=196  Identities=13%  Similarity=0.002  Sum_probs=118.7

Q ss_pred             HHccCCHHHHHHHHHHHHHC----CCcc-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhC----CCCC-CHHHHHHHHHH
Q 003295          612 FCKADKIEEGETLFNEMISK----KMEL-NPVVYNTLIRAYCKIGNTTAAFRLSNDMKSR----GILP-TSVTYSSLIHG  681 (833)
Q Consensus       612 ~~~~g~~~~A~~~~~~~~~~----~~~~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----~~~p-~~~~~~~li~~  681 (833)
                      |...|++++|...|.+..+.    +..+ ...+|+.+..+|.+.|++++|+..+++..+.    |-.. -..++..+...
T Consensus        47 ~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~  126 (292)
T 1qqe_A           47 YRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELGEI  126 (292)
T ss_dssp             HHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            44455555555555554432    1111 1345666666666666666666666665542    1000 12456677777


Q ss_pred             HHhc-CCHHHHHHHHHHHHHCCC-CCC----hhHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCH------HHHHHHH
Q 003295          682 LCNI-GLIEDAKCLFDEMRKEGL-LPN----VACYTALIGGYCKLGQMDEAESVLQEMASINIHPNK------ITYTIMI  749 (833)
Q Consensus       682 ~~~~-g~~~~A~~~~~~m~~~g~-~p~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~------~~~~~li  749 (833)
                      |... |++++|+..|++.++..- ..+    ..++..+...+.+.|++++|+..|++..+.......      ..|..++
T Consensus       127 ~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg  206 (292)
T 1qqe_A          127 LENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLKKG  206 (292)
T ss_dssp             HHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHHHH
T ss_pred             HHHhhcCHHHHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhcCCcccHHHHHHHHHHH
Confidence            8775 888888888888776310 001    345777888888888888888888888874322111      1567777


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCCCH------HHHHHHHHHHh--cCCCHHHHHHHHHHHHHCCCCCC
Q 003295          750 GGYCKLGDMKEAAKLLNVMAEKGISPDS------ITYNVFMDGHC--KGGNVEEAFKVCDRMLSEGLSLD  811 (833)
Q Consensus       750 ~~~~~~g~~~~A~~~~~~m~~~g~~p~~------~~~~~l~~~~~--~~g~~~~A~~~~~~m~~~g~~p~  811 (833)
                      .++...|++++|+..+++.++  +.|+.      ..+..++.++.  ..+++++|+..|+++..  +.|+
T Consensus       207 ~~~~~~g~~~~A~~~~~~al~--l~p~~~~~~~~~~l~~l~~~~~~~~~~~~~~A~~~~~~~~~--l~~~  272 (292)
T 1qqe_A          207 LCQLAATDAVAAARTLQEGQS--EDPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNFMR--LDKW  272 (292)
T ss_dssp             HHHHHTTCHHHHHHHHHGGGC--C---------HHHHHHHHHHHHTTCTTTHHHHHHHHTTSSC--CCHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHh--hCCCCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHhccCCc--cHHH
Confidence            788888888888888888776  34432      23445556554  45678888887766554  4444

>3edt_B KLC 2, kinesin light chain 2; superhelical, structural genomics, structural genomics conso SGC, microtubule, motor protein, phosphoprotein; 2.70A {Homo sapiens} PDB: 3ceq_A

Probab=99.08  E-value=1.1e-09  Score=111.26  Aligned_cols=220  Identities=15%  Similarity=0.088  Sum_probs=143.9

Q ss_pred             HHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHhhc-------CC-CCCHHHHHHHHHHHHhcCChhHH
Q 003295          200 GYAIDVFSIFSSKGIFPSLKTCNFLLNSLVKANEVQKGIEVFETMCR-------GV-SPDVFLFSTAINAFCKRGRIEDA  271 (833)
Q Consensus       200 ~~A~~~f~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~-------~~-~~~~~~~~~li~~~~~~g~~~~A  271 (833)
                      +.|++.+..+...+......++..+...+...|++++|...|+++..       +. +....++..+..+|...|++++|
T Consensus        25 ~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  104 (283)
T 3edt_B           25 KQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNLAVLYGKRGKYKEA  104 (283)
T ss_dssp             HHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHHHHHHHTTTCHHHH
T ss_pred             HHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHHHHHHHHhccHHHH
Confidence            34455554444333233567888999999999999999999999872       22 33466888899999999999999


Q ss_pred             HHHHHHHHHc-----CC-CC-ChhhHHHHHHHHHhcCChhHHHHHHHHHHhC------C-CCCChhhHHHHHHHHHhcCC
Q 003295          272 IGLFTKMEEL-----GI-AP-NVVTYNNIIHGLCRNGRLYEAFHLKEKMVLR------E-VEPSLITYSILINGLIKLEK  337 (833)
Q Consensus       272 ~~~~~~m~~~-----g~-~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~------~-~~p~~~t~~~li~~~~~~g~  337 (833)
                      .+.|++..+.     +. .| ...+|..+...|...|++++|...++++.+.      + .+....++..+...+.+.|+
T Consensus       105 ~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~  184 (283)
T 3edt_B          105 EPLCKRALEIREKVLGKFHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAKTKNNLASCYLKQGK  184 (283)
T ss_dssp             HHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcCC
Confidence            9999998764     11 12 3567888889999999999999999988764      1 12234677888888888999


Q ss_pred             hhHHHHHHHHHHHC-------CCCCC-hhhHHHHHHHHHHcCChHHHHH------HHHHHHhCCCCCChhHHHHHHHHHH
Q 003295          338 FDDANFVLKEMSVR-------GFVPN-YVVYNTLIDGYCKKGNISEALK------IRDDMVSKGMSPNSVTFNSLIHGFC  403 (833)
Q Consensus       338 ~~~A~~~~~~m~~~-------g~~p~-~~~y~~li~~~~~~g~~~~A~~------~~~~m~~~g~~p~~~~~~~li~~~~  403 (833)
                      +++|...+++..+.       ...+. ...|..+...+...+....+..      .++..... ......++..+...|.
T Consensus       185 ~~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~la~~~~  263 (283)
T 3edt_B          185 YQDAETLYKEILTRAHEKEFGSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACKVD-SPTVNTTLRSLGALYR  263 (283)
T ss_dssp             HHHHHHHHHHHHHHHHHHHSSSCCSSCCCHHHHHHHHHHTTCCCCC------------CCCCC-CHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHHH
Confidence            99999988888753       11222 2233333333333333222222      22111111 1113346677777788


Q ss_pred             hcCChhHHHHHHHHHHH
Q 003295          404 KSGQMDNAENALEEMLS  420 (833)
Q Consensus       404 ~~g~~~~A~~~l~~~~~  420 (833)
                      +.|++++|...+++..+
T Consensus       264 ~~g~~~~A~~~~~~al~  280 (283)
T 3edt_B          264 RQGKLEAAHTLEDCASR  280 (283)
T ss_dssp             HTTCHHHHHHHHHHHHT
T ss_pred             HcCCHHHHHHHHHHHHH
Confidence            88888888888877654

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=99.02  E-value=5.5e-08  Score=97.40  Aligned_cols=178  Identities=12%  Similarity=0.059  Sum_probs=94.9

Q ss_pred             HHHHHHHHhhCCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCC-ccCHHHHHHHHHHHHHcCChHHHHHHHHHHH
Q 003295          586 AIELWEECKRTVFGPDIYTYGVMIDGFCKADKIEEGETLFNEMISKKM-ELNPVVYNTLIRAYCKIGNTTAAFRLSNDMK  664 (833)
Q Consensus       586 A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~  664 (833)
                      |+..+++..+.+ .++..++..+..++...|++++|++++.+.+..+. .-+...+...+..+.+.|+.+.|.+.+++|.
T Consensus        85 a~~~l~~l~~~~-~~~~~~~~~la~i~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~~~  163 (310)
T 3mv2_B           85 NIEELENLLKDK-QNSPYELYLLATAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDNYT  163 (310)
T ss_dssp             CCHHHHHTTTTS-CCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            455555555443 33444444555666666666666666666655543 1245555566666666666666666666665


Q ss_pred             hCCCCC-----CHHHHHHHHHH--HHhcC--CHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHh
Q 003295          665 SRGILP-----TSVTYSSLIHG--LCNIG--LIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESVLQEMAS  735 (833)
Q Consensus       665 ~~~~~p-----~~~~~~~li~~--~~~~g--~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  735 (833)
                      +.  .|     +..+...+..+  ....|  +..+|..+|+++.+.  .|+..+...+..++.+.|++++|.+.++.+.+
T Consensus       164 ~~--~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~--~p~~~~~~lLln~~~~~g~~~eAe~~L~~l~~  239 (310)
T 3mv2_B          164 NA--IEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQT--FPTWKTQLGLLNLHLQQRNIAEAQGIVELLLS  239 (310)
T ss_dssp             HH--SCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTT--SCSHHHHHHHHHHHHHHTCHHHHHHHHHHHHS
T ss_pred             hc--CccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHh--CCCcccHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            54  33     23333444434  22223  566666666666553  24322223333356666666666666665443


Q ss_pred             C-----CC----CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 003295          736 I-----NI----HPNKITYTIMIGGYCKLGDMKEAAKLLNVMAE  770 (833)
Q Consensus       736 ~-----g~----~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  770 (833)
                      .     +.    +.|..++..+|......|+  +|.++++++.+
T Consensus       240 ~~p~~~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~  281 (310)
T 3mv2_B          240 DYYSVEQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQLVK  281 (310)
T ss_dssp             HHHHTTTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHHH
T ss_pred             hcccccccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHHH
Confidence            1     00    2344455455544445554  66666666666

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=99.00  E-value=3.5e-07  Score=100.46  Aligned_cols=125  Identities=9%  Similarity=0.005  Sum_probs=79.0

Q ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh-cCCHHHHHHHHHHHHHCCCCCChhHHHHHHHH
Q 003295          638 VVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCN-IGLIEDAKCLFDEMRKEGLLPNVACYTALIGG  716 (833)
Q Consensus       638 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~-~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~  716 (833)
                      ..|...+..+.+.+..+.|..+|++. .. ...+...|......-.. .++.+.|..+|+...+.. +-+...+...++.
T Consensus       287 ~lw~~y~~~~~r~~~~~~AR~i~~~A-~~-~~~~~~v~i~~A~lE~~~~~d~~~ar~ife~al~~~-~~~~~~~~~yid~  363 (493)
T 2uy1_A          287 LLRINHLNYVLKKRGLELFRKLFIEL-GN-EGVGPHVFIYCAFIEYYATGSRATPYNIFSSGLLKH-PDSTLLKEEFFLF  363 (493)
T ss_dssp             HHHHHHHHHHHHHHCHHHHHHHHHHH-TT-SCCCHHHHHHHHHHHHHHHCCSHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHh-hC-CCCChHHHHHHHHHHHHHCCChHHHHHHHHHHHHHC-CCCHHHHHHHHHH
Confidence            45666666666677778888888777 22 12233444332222222 235788888888877752 2234445556666


Q ss_pred             HHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 003295          717 YCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAE  770 (833)
Q Consensus       717 ~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  770 (833)
                      ..+.|+.+.|..+|+++.     .....|...+..-...|+.+.+.++++++.+
T Consensus       364 e~~~~~~~~aR~l~er~~-----k~~~lw~~~~~fE~~~G~~~~~r~v~~~~~~  412 (493)
T 2uy1_A          364 LLRIGDEENARALFKRLE-----KTSRMWDSMIEYEFMVGSMELFRELVDQKMD  412 (493)
T ss_dssp             HHHHTCHHHHHHHHHHSC-----CBHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHH-----HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            677788888888888762     2466777777766777888888887777764

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.00  E-value=2e-08  Score=102.85  Aligned_cols=89  Identities=10%  Similarity=-0.076  Sum_probs=41.5

Q ss_pred             HHhcCChhHHHHHHHHHHHC----CCCCC-hhhHHHHHHHHHHcCChHHHHHHHHHHHhCCC---CC--ChhHHHHHHHH
Q 003295          332 LIKLEKFDDANFVLKEMSVR----GFVPN-YVVYNTLIDGYCKKGNISEALKIRDDMVSKGM---SP--NSVTFNSLIHG  401 (833)
Q Consensus       332 ~~~~g~~~~A~~~~~~m~~~----g~~p~-~~~y~~li~~~~~~g~~~~A~~~~~~m~~~g~---~p--~~~~~~~li~~  401 (833)
                      |...|++++|...|++..+.    |-.++ ..+|+.+...|.+.|++++|+..+++..+...   .+  -..+++.+...
T Consensus        47 ~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~  126 (292)
T 1qqe_A           47 YRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELGEI  126 (292)
T ss_dssp             HHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            34445555555555544321    11111 33455555555555666666555555443100   00  02244555555


Q ss_pred             HHhc-CChhHHHHHHHHHHH
Q 003295          402 FCKS-GQMDNAENALEEMLS  420 (833)
Q Consensus       402 ~~~~-g~~~~A~~~l~~~~~  420 (833)
                      |... |++++|.+.|++..+
T Consensus       127 ~~~~lg~~~~A~~~~~~Al~  146 (292)
T 1qqe_A          127 LENDLHDYAKAIDCYELAGE  146 (292)
T ss_dssp             HHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHhhcCHHHHHHHHHHHHH
Confidence            5553 556655555555543

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=98.98  E-value=1.2e-07  Score=95.00  Aligned_cols=182  Identities=10%  Similarity=0.056  Sum_probs=139.7

Q ss_pred             HHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 003295          621 GETLFNEMISKKMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGI-LPTSVTYSSLIHGLCNIGLIEDAKCLFDEMR  699 (833)
Q Consensus       621 A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~-~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~  699 (833)
                      |+..|++..+.+ .++..++..+..++...|++++|++++.+.+..+. .-+...+..++..+.+.|+.+.|.+.+++|.
T Consensus        85 a~~~l~~l~~~~-~~~~~~~~~la~i~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~~~  163 (310)
T 3mv2_B           85 NIEELENLLKDK-QNSPYELYLLATAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDNYT  163 (310)
T ss_dssp             CCHHHHHTTTTS-CCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            678888887765 44666677888999999999999999999877653 2366678888999999999999999999998


Q ss_pred             HCCCCC-----ChhHHHHHHHH--HHhcC--ChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 003295          700 KEGLLP-----NVACYTALIGG--YCKLG--QMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAE  770 (833)
Q Consensus       700 ~~g~~p-----~~~~~~~li~~--~~~~g--~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  770 (833)
                      +.  .|     +..+...|+.+  ....|  +..+|..+|+++.+.  .|+..+-..+..++.+.|++++|.+.++.+.+
T Consensus       164 ~~--~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~--~p~~~~~~lLln~~~~~g~~~eAe~~L~~l~~  239 (310)
T 3mv2_B          164 NA--IEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQT--FPTWKTQLGLLNLHLQQRNIAEAQGIVELLLS  239 (310)
T ss_dssp             HH--SCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTT--SCSHHHHHHHHHHHHHHTCHHHHHHHHHHHHS
T ss_pred             hc--CccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHh--CCCcccHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            84  56     35555556655  33344  899999999999864  46644444445589999999999999997665


Q ss_pred             c-----CC---CC-CHHHHHHHHHHHhcCCCHHHHHHHHHHHHHCCCCCC
Q 003295          771 K-----GI---SP-DSITYNVFMDGHCKGGNVEEAFKVCDRMLSEGLSLD  811 (833)
Q Consensus       771 ~-----g~---~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~p~  811 (833)
                      .     +.   .| |..+...++......|+  +|.++++++.+  ..|+
T Consensus       240 ~~p~~~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~--~~P~  285 (310)
T 3mv2_B          240 DYYSVEQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQLVK--LDHE  285 (310)
T ss_dssp             HHHHTTTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHHH--TTCC
T ss_pred             hcccccccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHHH--hCCC
Confidence            3     10   14 56777677767777787  89999999998  5566

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=98.98  E-value=1.2e-06  Score=96.17  Aligned_cols=123  Identities=14%  Similarity=0.125  Sum_probs=59.9

Q ss_pred             hHHHHHHHHHccCCHHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcC-ChHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 003295          604 TYGVMIDGFCKADKIEEGETLFNEMISKKMELNPVVYNTLIRAYCKIG-NTTAAFRLSNDMKSRGILPTSVTYSSLIHGL  682 (833)
Q Consensus       604 ~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g-~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~  682 (833)
                      .|...+..+.+.+..+.|..+|+.. .. +..+...|...+..-...| +.+.|..+|+...+.. +-+...+...++..
T Consensus       288 lw~~y~~~~~r~~~~~~AR~i~~~A-~~-~~~~~~v~i~~A~lE~~~~~d~~~ar~ife~al~~~-~~~~~~~~~yid~e  364 (493)
T 2uy1_A          288 LRINHLNYVLKKRGLELFRKLFIEL-GN-EGVGPHVFIYCAFIEYYATGSRATPYNIFSSGLLKH-PDSTLLKEEFFLFL  364 (493)
T ss_dssp             HHHHHHHHHHHHHCHHHHHHHHHHH-TT-SCCCHHHHHHHHHHHHHHHCCSHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHh-hC-CCCChHHHHHHHHHHHHHCCChHHHHHHHHHHHHHC-CCCHHHHHHHHHHH
Confidence            3444444444455566666666655 21 1123333332222222222 4666666666655542 11233334444545


Q ss_pred             HhcCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHH
Q 003295          683 CNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESVLQEMA  734 (833)
Q Consensus       683 ~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~  734 (833)
                      .+.|+.+.|..+|+++.     .....|...+..-...|+.+.+.++++++.
T Consensus       365 ~~~~~~~~aR~l~er~~-----k~~~lw~~~~~fE~~~G~~~~~r~v~~~~~  411 (493)
T 2uy1_A          365 LRIGDEENARALFKRLE-----KTSRMWDSMIEYEFMVGSMELFRELVDQKM  411 (493)
T ss_dssp             HHHTCHHHHHHHHHHSC-----CBHHHHHHHHHHHHHHSCHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHH-----HHHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            55566666666666652     134555555555555566666666665554

>2fo7_A Synthetic consensus TPR protein; tetratricopeptide repeat, consensus protein, superhelix, de novo protein; 2.30A {Synthetic} SCOP: k.38.1.1 PDB: 2hyz_A

Probab=98.98  E-value=2.6e-08  Score=87.98  Aligned_cols=128  Identities=18%  Similarity=0.226  Sum_probs=81.0

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh
Q 003295          675 YSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCK  754 (833)
Q Consensus       675 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~  754 (833)
                      +..+...+...|++++|..+++++.+.+ +.+...+..+...+...|++++|...++++.+.+ +.+...+..++..+..
T Consensus         4 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~   81 (136)
T 2fo7_A            4 WYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYK   81 (136)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHcCcHHHHHHHHHHHHHcC-CcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHC-CCchHHHHHHHHHHHH
Confidence            4455556666666666666666666542 2345556666666666666666766666666543 3455566666666777


Q ss_pred             cCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHH
Q 003295          755 LGDMKEAAKLLNVMAEKGISPDSITYNVFMDGHCKGGNVEEAFKVCDRMLS  805 (833)
Q Consensus       755 ~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  805 (833)
                      .|++++|.+.++++.+.. +.+..++..++..+...|++++|.+.++++.+
T Consensus        82 ~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~  131 (136)
T 2fo7_A           82 QGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALE  131 (136)
T ss_dssp             TTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHH
T ss_pred             hcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHHccHHHHHHHHHHHHc
Confidence            777777777777766642 23456666677777777777777777776665

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=98.95  E-value=1.7e-08  Score=97.49  Aligned_cols=186  Identities=11%  Similarity=0.035  Sum_probs=90.7

Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh
Q 003295          605 YGVMIDGFCKADKIEEGETLFNEMISKKMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCN  684 (833)
Q Consensus       605 ~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~  684 (833)
                      +......+...|++++|+..|++.++..+. +...|...     .....              ..........+...+.+
T Consensus         7 ~~~~g~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~~-----~~~~~--------------~~~~~~~~~~lg~~~~~   66 (208)
T 3urz_A            7 MLQKVSAAIEAGQNGQAVSYFRQTIALNID-RTEMYYWT-----NVDKN--------------SEISSKLATELALAYKK   66 (208)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCHH-HHHHHHHH-----HSCTT--------------SHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-ChHHHHHh-----hhcch--------------hhhhHHHHHHHHHHHHH
Confidence            333445566777888888888777765332 23333330     00000              00001112225555556


Q ss_pred             cCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC--HHHHH
Q 003295          685 IGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGD--MKEAA  762 (833)
Q Consensus       685 ~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~--~~~A~  762 (833)
                      .|++++|+..|++.++.. +-+...+..+...+...|++++|...|++..+.. +.+..+|..++..|...|+  .+.+.
T Consensus        67 ~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~~~~~~~~~~  144 (208)
T 3urz_A           67 NRNYDKAYLFYKELLQKA-PNNVDCLEACAEMQVCRGQEKDALRMYEKILQLE-ADNLAANIFLGNYYYLTAEQEKKKLE  144 (208)
T ss_dssp             TTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHHhHHHHHHHH
Confidence            666666666666665542 2244555556666666666666666666665542 3345555556555544433  22333


Q ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHHCCCCCCHHHHH
Q 003295          763 KLLNVMAEKGISPDSITYNVFMDGHCKGGNVEEAFKVCDRMLSEGLSLDEITYT  816 (833)
Q Consensus       763 ~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~  816 (833)
                      ..+++...  ..|....+..++.++...|++++|+..|++.++  +.|+.....
T Consensus       145 ~~~~~~~~--~~~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~--l~P~~~~~~  194 (208)
T 3urz_A          145 TDYKKLSS--PTKMQYARYRDGLSKLFTTRYEKARNSLQKVIL--RFPSTEAQK  194 (208)
T ss_dssp             HHHC---C--CCHHHHHHHHHHHHHHHHHTHHHHHHHHHHHTT--TSCCHHHHH
T ss_pred             HHHHHHhC--CCchhHHHHHHHHHHHHccCHHHHHHHHHHHHH--hCCCHHHHH
Confidence            44443321  112222334444455555666666666666655  455543333

>2fo7_A Synthetic consensus TPR protein; tetratricopeptide repeat, consensus protein, superhelix, de novo protein; 2.30A {Synthetic} SCOP: k.38.1.1 PDB: 2hyz_A

Probab=98.94  E-value=2.7e-08  Score=87.89  Aligned_cols=127  Identities=20%  Similarity=0.192  Sum_probs=59.4

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhc
Q 003295          221 CNFLLNSLVKANEVQKGIEVFETMCRGVSPDVFLFSTAINAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIHGLCRN  300 (833)
Q Consensus       221 ~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~  300 (833)
                      |..+...+.+.|++++|..+|+++....+.+...+..++..+...|++++|...|+++.+.+. .+...+..++..+.+.
T Consensus         4 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~   82 (136)
T 2fo7_A            4 WYNLGNAYYKQGDYDEAIEYYQKALELDPRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELDP-RSAEAWYNLGNAYYKQ   82 (136)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHcCcHHHHHHHHHHHHHcCCcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHCC-CchHHHHHHHHHHHHh
Confidence            444444555555555555555555422233444455555555555555555555555544321 1333444444455555


Q ss_pred             CChhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHH
Q 003295          301 GRLYEAFHLKEKMVLREVEPSLITYSILINGLIKLEKFDDANFVLKEMS  349 (833)
Q Consensus       301 g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~  349 (833)
                      |++++|.+.++++.... +.+..++..+...+.+.|++++|...++++.
T Consensus        83 ~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~  130 (136)
T 2fo7_A           83 GDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKAL  130 (136)
T ss_dssp             TCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHHccHHHHHHHHHHHH
Confidence            55555555555444432 1233344444444444444444444444443

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=98.92  E-value=4e-08  Score=94.79  Aligned_cols=192  Identities=13%  Similarity=0.035  Sum_probs=129.0

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCH-hhHHHHHHHHHccCCHHHHHHHHHHHHHCCCccCHHHHHHHHH
Q 003295          567 NYTYNLLLHGLCSLGKMEEAIELWEECKRTVFGPDI-YTYGVMIDGFCKADKIEEGETLFNEMISKKMELNPVVYNTLIR  645 (833)
Q Consensus       567 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~-~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~  645 (833)
                      ...+......+...|++++|...|++..+..  |+. ..|..     .....              ...........+..
T Consensus         4 ~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~-----~~~~~--------------~~~~~~~~~~~lg~   62 (208)
T 3urz_A            4 VDEMLQKVSAAIEAGQNGQAVSYFRQTIALN--IDRTEMYYW-----TNVDK--------------NSEISSKLATELAL   62 (208)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--HHHHHHHHH-----HHSCT--------------TSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCChHHHHH-----hhhcc--------------hhhhhHHHHHHHHH
Confidence            3444556667889999999999999998763  432 22221     00111              11112334455777


Q ss_pred             HHHHcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCC--h
Q 003295          646 AYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQ--M  723 (833)
Q Consensus       646 ~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~--~  723 (833)
                      .|.+.|++++|+..|++..+.. +.+...+..+...+...|++++|...|+++++.. +.+...|..+...|...|+  .
T Consensus        63 ~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~~~~~~  140 (208)
T 3urz_A           63 AYKKNRNYDKAYLFYKELLQKA-PNNVDCLEACAEMQVCRGQEKDALRMYEKILQLE-ADNLAANIFLGNYYYLTAEQEK  140 (208)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHHhHHHH
Confidence            8888899999999998888764 3467788888888899999999999999988853 3356778888887766553  3


Q ss_pred             hHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 003295          724 DEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISPDSITYNVFMD  785 (833)
Q Consensus       724 ~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~  785 (833)
                      +.+...++....  ..|....+..+..++...|++++|+..|+++++  +.|+......+..
T Consensus       141 ~~~~~~~~~~~~--~~~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~--l~P~~~~~~~l~~  198 (208)
T 3urz_A          141 KKLETDYKKLSS--PTKMQYARYRDGLSKLFTTRYEKARNSLQKVIL--RFPSTEAQKTLDK  198 (208)
T ss_dssp             HHHHHHHC---C--CCHHHHHHHHHHHHHHHHHTHHHHHHHHHHHTT--TSCCHHHHHHHHH
T ss_pred             HHHHHHHHHHhC--CCchhHHHHHHHHHHHHccCHHHHHHHHHHHHH--hCCCHHHHHHHHH
Confidence            455556655542  123333455566777788999999999999888  5687665554443

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=98.92  E-value=3.5e-08  Score=99.19  Aligned_cols=100  Identities=9%  Similarity=-0.019  Sum_probs=55.1

Q ss_pred             CHHHHHHHHHHHHhcCChhHHHHHHHHhhcCCCCC---HHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCC-CC-hhhHH
Q 003295          217 SLKTCNFLLNSLVKANEVQKGIEVFETMCRGVSPD---VFLFSTAINAFCKRGRIEDAIGLFTKMEELGIA-PN-VVTYN  291 (833)
Q Consensus       217 ~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~---~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~-p~-~~~~~  291 (833)
                      +...+..+...+.+.|++++|...|++++...|.+   ..++..+..+|.+.|++++|...|++..+..+. |+ ..++.
T Consensus        14 ~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~   93 (261)
T 3qky_A           14 SPQEAFERAMEFYNQGKYDRAIEYFKAVFTYGRTHEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQAEY   93 (261)
T ss_dssp             SHHHHHHHHHHHHHTTCHHHHHHHHHHHGGGCSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHH
T ss_pred             CHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHHHH
Confidence            34444555555566666666666666665333333   455555666666666666666666666654221 11 23444


Q ss_pred             HHHHHHHh--------cCChhHHHHHHHHHHhC
Q 003295          292 NIIHGLCR--------NGRLYEAFHLKEKMVLR  316 (833)
Q Consensus       292 ~li~~~~~--------~g~~~~A~~~~~~m~~~  316 (833)
                      .+...+.+        .|++++|+..|+++.+.
T Consensus        94 ~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~  126 (261)
T 3qky_A           94 ERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDR  126 (261)
T ss_dssp             HHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcccccccchhHHHHHHHHHHHHHH
Confidence            55555555        66666666666666554

>3rjv_A Putative SEL1 repeat protein; alpha-alpha superhelix, structural genomics, joint center FO structural genomics, JCSG; HET: MSE; 1.65A {Klebsiella pneumoniae subsp}

Probab=98.91  E-value=9.8e-08  Score=92.29  Aligned_cols=178  Identities=13%  Similarity=0.040  Sum_probs=113.1

Q ss_pred             HHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC----CHHHHHHHH
Q 003295          620 EGETLFNEMISKKMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIG----LIEDAKCLF  695 (833)
Q Consensus       620 ~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g----~~~~A~~~~  695 (833)
                      +|.+.|++..+.|   ++..+..+...|...+++++|++.|++..+.|   +...+..|...|.. +    +.++|..+|
T Consensus         4 eA~~~~~~aa~~g---~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g---~~~a~~~lg~~y~~-~g~~~~~~~A~~~~   76 (212)
T 3rjv_A            4 EPGSQYQQQAEAG---DRRAQYYLADTWVSSGDYQKAEYWAQKAAAQG---DGDALALLAQLKIR-NPQQADYPQARQLA   76 (212)
T ss_dssp             CTTHHHHHHHHTT---CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT---CHHHHHHHHHHTTS-STTSCCHHHHHHHH
T ss_pred             hHHHHHHHHHHCC---CHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHc-CCCCCCHHHHHHHH
Confidence            3455566655553   55666666666666677777777777766654   44555556666655 5    677777777


Q ss_pred             HHHHHCCCCCChhHHHHHHHHHHh----cCChhHHHHHHHHHHhCCCC-CCHHHHHHHHHHHHh----cCCHHHHHHHHH
Q 003295          696 DEMRKEGLLPNVACYTALIGGYCK----LGQMDEAESVLQEMASINIH-PNKITYTIMIGGYCK----LGDMKEAAKLLN  766 (833)
Q Consensus       696 ~~m~~~g~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~g~~-p~~~~~~~li~~~~~----~g~~~~A~~~~~  766 (833)
                      ++..+.|   +...+..|...|..    .+++++|.+.|++..+.|.. .+...+..|...|..    .+++++|+++|+
T Consensus        77 ~~A~~~g---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~  153 (212)
T 3rjv_A           77 EKAVEAG---SKSGEIVLARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFK  153 (212)
T ss_dssp             HHHHHTT---CHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHH
T ss_pred             HHHHHCC---CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHH
Confidence            7776643   45556666666655    66777777777777765411 015666677777776    667777777777


Q ss_pred             HHHHcCCCCCHHHHHHHHHHHhcC-C-----CHHHHHHHHHHHHHCCCC
Q 003295          767 VMAEKGISPDSITYNVFMDGHCKG-G-----NVEEAFKVCDRMLSEGLS  809 (833)
Q Consensus       767 ~m~~~g~~p~~~~~~~l~~~~~~~-g-----~~~~A~~~~~~m~~~g~~  809 (833)
                      +..+.  ..+...+..|...|... |     +.++|..+|++..+.|..
T Consensus       154 ~A~~~--~~~~~a~~~Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~~g~~  200 (212)
T 3rjv_A          154 GSSSL--SRTGYAEYWAGMMFQQGEKGFIEPNKQKALHWLNVSCLEGFD  200 (212)
T ss_dssp             HHHHT--SCTTHHHHHHHHHHHHCBTTTBCCCHHHHHHHHHHHHHHTCH
T ss_pred             HHHHc--CCCHHHHHHHHHHHHcCCCCCCCCCHHHHHHHHHHHHHcCCH
Confidence            77764  23444566666666542 2     677777777777776543

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=98.90  E-value=9.4e-07  Score=89.55  Aligned_cols=230  Identities=10%  Similarity=0.064  Sum_probs=150.0

Q ss_pred             hhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC--CHHHHHHHHHHHhhCCCCCCHhhHHHHHHHH----Hcc---CCH
Q 003295          548 PEEGFKLKEDMIKRGIQPDNYTYNLLLHGLCSLG--KMEEAIELWEECKRTVFGPDIYTYGVMIDGF----CKA---DKI  618 (833)
Q Consensus       548 ~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g--~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~----~~~---g~~  618 (833)
                      .++|+++++.++..++. +...|+.-...+...+  +++++++.++.+.... +.+..+|+.-...+    .+.   +++
T Consensus        49 s~~aL~~t~~~L~~nP~-~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~n-Pk~y~aW~~R~~iL~~~~~~l~~~~~~  126 (306)
T 3dra_A           49 SERALHITELGINELAS-HYTIWIYRFNILKNLPNRNLYDELDWCEEIALDN-EKNYQIWNYRQLIIGQIMELNNNDFDP  126 (306)
T ss_dssp             SHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHC-TTCCHHHHHHHHHHHHHHHHTTTCCCT
T ss_pred             CHHHHHHHHHHHHHCcH-HHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHC-cccHHHHHHHHHHHHHHHHhccccCCH
Confidence            35677777777665433 4455666666666666  7777777777776653 22333444333333    333   677


Q ss_pred             HHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChH--HHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC------HHH
Q 003295          619 EEGETLFNEMISKKMELNPVVYNTLIRAYCKIGNTT--AAFRLSNDMKSRGILPTSVTYSSLIHGLCNIGL------IED  690 (833)
Q Consensus       619 ~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~--~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~------~~~  690 (833)
                      ++++.+++++++..++ +..+|+.-...+.+.|.++  ++++.++++.+... -|...|+.-...+...|.      +++
T Consensus       127 ~~EL~~~~~~l~~~pk-ny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d~-~N~sAW~~R~~ll~~l~~~~~~~~~~e  204 (306)
T 3dra_A          127 YREFDILEAMLSSDPK-NHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTDL-KNNSAWSHRFFLLFSKKHLATDNTIDE  204 (306)
T ss_dssp             HHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHSSGGGCCHHHHHH
T ss_pred             HHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcccChHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHhccccchhhhHHH
Confidence            8888888888877665 7788887777777778777  88888888887653 366666666555656555      778


Q ss_pred             HHHHHHHHHHCCCCCChhHHHHHHHHHHhcCChhH-HHHHHHHHHhCC--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 003295          691 AKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDE-AESVLQEMASIN--IHPNKITYTIMIGGYCKLGDMKEAAKLLNV  767 (833)
Q Consensus       691 A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~-A~~~~~~m~~~g--~~p~~~~~~~li~~~~~~g~~~~A~~~~~~  767 (833)
                      +++.+++++... +-|...|+.+...+.+.|+..+ +..+.+++.+.+  -+.+...+..++.+|.+.|+.++|+++++.
T Consensus       205 El~~~~~aI~~~-p~n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~~A~~~~~~  283 (306)
T 3dra_A          205 ELNYVKDKIVKC-PQNPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKYNESRTVYDL  283 (306)
T ss_dssp             HHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHhC-CCCccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHH
Confidence            888888887753 4467777777777777776433 455666655432  134667777788888888888888888888


Q ss_pred             HHHcCCCC-CHHHHHHH
Q 003295          768 MAEKGISP-DSITYNVF  783 (833)
Q Consensus       768 m~~~g~~p-~~~~~~~l  783 (833)
                      +.++ +.| ....|+..
T Consensus       284 l~~~-~Dpir~~yW~~~  299 (306)
T 3dra_A          284 LKSK-YNPIRSNFWDYQ  299 (306)
T ss_dssp             HHHT-TCGGGHHHHHHH
T ss_pred             HHhc-cChHHHHHHHHH
Confidence            7764 344 33444433

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=98.89  E-value=3.6e-08  Score=99.10  Aligned_cols=184  Identities=11%  Similarity=0.023  Sum_probs=90.5

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCC---HhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCc--cCHHHH
Q 003295          566 DNYTYNLLLHGLCSLGKMEEAIELWEECKRTVFGPD---IYTYGVMIDGFCKADKIEEGETLFNEMISKKME--LNPVVY  640 (833)
Q Consensus       566 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~---~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~--~~~~~~  640 (833)
                      +...+..+...+.+.|++++|...|+++.+... .+   ...+..+..+|.+.|++++|+..|++.++..+.  .....+
T Consensus        14 ~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p-~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~   92 (261)
T 3qky_A           14 SPQEAFERAMEFYNQGKYDRAIEYFKAVFTYGR-THEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQAE   92 (261)
T ss_dssp             SHHHHHHHHHHHHHTTCHHHHHHHHHHHGGGCS-CSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHH
T ss_pred             CHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCC-CCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHHH
Confidence            344455555555566666666666666555421 11   344455555555555666666555555554321  112334


Q ss_pred             HHHHHHHHH--------cCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhHHHH
Q 003295          641 NTLIRAYCK--------IGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTA  712 (833)
Q Consensus       641 ~~li~~~~~--------~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~  712 (833)
                      ..+..++..        .|++++|...|++..+... .+......+.              .+..+...    ....+..
T Consensus        93 ~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~p-~~~~~~~a~~--------------~~~~~~~~----~~~~~~~  153 (261)
T 3qky_A           93 YERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDRYP-NHELVDDATQ--------------KIRELRAK----LARKQYE  153 (261)
T ss_dssp             HHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHHCT-TCTTHHHHHH--------------HHHHHHHH----HHHHHHH
T ss_pred             HHHHHHHHHhcccccccchhHHHHHHHHHHHHHHCc-CchhHHHHHH--------------HHHHHHHH----HHHHHHH
Confidence            444445544        5555555555555554321 1111111110              00000000    0011244


Q ss_pred             HHHHHHhcCChhHHHHHHHHHHhCCCCCC----HHHHHHHHHHHHhc----------CCHHHHHHHHHHHHHc
Q 003295          713 LIGGYCKLGQMDEAESVLQEMASINIHPN----KITYTIMIGGYCKL----------GDMKEAAKLLNVMAEK  771 (833)
Q Consensus       713 li~~~~~~g~~~~A~~~~~~m~~~g~~p~----~~~~~~li~~~~~~----------g~~~~A~~~~~~m~~~  771 (833)
                      +...|.+.|++++|+..|+++.+.  .|+    ...+..++.+|...          |++++|+..++++++.
T Consensus       154 la~~~~~~g~~~~A~~~~~~~l~~--~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~  224 (261)
T 3qky_A          154 AARLYERRELYEAAAVTYEAVFDA--YPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQI  224 (261)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH--CTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHccCHHHHHHHHHHHHHH--CCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHH
Confidence            566666777777777777776653  222    34556666666654          6677777777777663

>2pzi_A Probable serine/threonine-protein kinase PKNG; ATP-recognition, kinase-INH complex, rubredoxin fold, TPR domain, transferase; HET: AXX; 2.40A {Mycobacterium tuberculosis}

Probab=98.87  E-value=3.4e-08  Score=113.76  Aligned_cols=173  Identities=16%  Similarity=-0.023  Sum_probs=119.1

Q ss_pred             HccCCHHHHHHHHHHHH--------HCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh
Q 003295          613 CKADKIEEGETLFNEMI--------SKKMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCN  684 (833)
Q Consensus       613 ~~~g~~~~A~~~~~~~~--------~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~  684 (833)
                      ...|++++|++.+++..        +..+. +...+..+...+.+.|++++|++.+++..+.. +.+...|..+..++..
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~~p~-~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~  479 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVDFSE-SVELPLMEVRALLDLGDVAKATRKLDDLAERV-GWRWRLVWYRAVAELL  479 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------CCTT-CSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH-CCCHHHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhccccccccccc-chhHHHHHHHHHHhcCCHHHHHHHHHHHhccC-cchHHHHHHHHHHHHH
Confidence            45666777777776666        33322 55667777777777777777777777777653 3366677777777778


Q ss_pred             cCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHH
Q 003295          685 IGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKL  764 (833)
Q Consensus       685 ~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~  764 (833)
                      .|++++|++.|+++++.. +.+...|..+..+|.+.|++++ ++.|+++.+.+ +.+...|..+..++.+.|++++|++.
T Consensus       480 ~g~~~~A~~~~~~al~l~-P~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~  556 (681)
T 2pzi_A          480 TGDYDSATKHFTEVLDTF-PGELAPKLALAATAELAGNTDE-HKFYQTVWSTN-DGVISAAFGLARARSAEGDRVGAVRT  556 (681)
T ss_dssp             HTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCChHH-HHHHHHHHHhC-CchHHHHHHHHHHHHHcCCHHHHHHH
Confidence            888888888888877752 2355677777777888888888 88888877653 44567777888888888888888888


Q ss_pred             HHHHHHcCCCCC-HHHHHHHHHHHhcCCC
Q 003295          765 LNVMAEKGISPD-SITYNVFMDGHCKGGN  792 (833)
Q Consensus       765 ~~~m~~~g~~p~-~~~~~~l~~~~~~~g~  792 (833)
                      ++++++  +.|+ ...+..++.++...|+
T Consensus       557 ~~~al~--l~P~~~~a~~~~~~~~~~~~~  583 (681)
T 2pzi_A          557 LDEVPP--TSRHFTTARLTSAVTLLSGRS  583 (681)
T ss_dssp             HHTSCT--TSTTHHHHHHHHHHHTC----
T ss_pred             HHhhcc--cCcccHHHHHHHHHHHHccCC
Confidence            887776  4464 4567777777766554

>2pzi_A Probable serine/threonine-protein kinase PKNG; ATP-recognition, kinase-INH complex, rubredoxin fold, TPR domain, transferase; HET: AXX; 2.40A {Mycobacterium tuberculosis}

Probab=98.87  E-value=1.6e-08  Score=116.62  Aligned_cols=173  Identities=10%  Similarity=-0.058  Sum_probs=137.8

Q ss_pred             HhcCChhHHHHHHHHhh--------cCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhc
Q 003295          229 VKANEVQKGIEVFETMC--------RGVSPDVFLFSTAINAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIHGLCRN  300 (833)
Q Consensus       229 ~~~g~~~~A~~~~~~~~--------~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~  300 (833)
                      ...|++++|+..|+++.        ...+.+...+..+..++.+.|++++|.+.|++..+.... +...|..+...|.+.
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~~p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~  480 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVDFSESVELPLMEVRALLDLGDVAKATRKLDDLAERVGW-RWRLVWYRAVAELLT  480 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------CCTTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCC-CHHHHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhcccccccccccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccCcc-hHHHHHHHHHHHHHc
Confidence            67889999999999987        555677788888999999999999999999998886433 667888888999999


Q ss_pred             CChhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHHcCChHHHHHHH
Q 003295          301 GRLYEAFHLKEKMVLREVEPSLITYSILINGLIKLEKFDDANFVLKEMSVRGFVPNYVVYNTLIDGYCKKGNISEALKIR  380 (833)
Q Consensus       301 g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~A~~~~  380 (833)
                      |++++|.+.|++..+.. +.+...|..+...+.+.|++++ ...|++..+.... +...|..+..+|.+.|++++|.+.|
T Consensus       481 g~~~~A~~~~~~al~l~-P~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~P~-~~~a~~~lg~~~~~~g~~~~A~~~~  557 (681)
T 2pzi_A          481 GDYDSATKHFTEVLDTF-PGELAPKLALAATAELAGNTDE-HKFYQTVWSTNDG-VISAAFGLARARSAEGDRVGAVRTL  557 (681)
T ss_dssp             TCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCChHH-HHHHHHHHHhCCc-hHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            99999999999988763 3366778888889999999999 9999998876332 5678888889999999999999999


Q ss_pred             HHHHhCCCCCC-hhHHHHHHHHHHhcCC
Q 003295          381 DDMVSKGMSPN-SVTFNSLIHGFCKSGQ  407 (833)
Q Consensus       381 ~~m~~~g~~p~-~~~~~~li~~~~~~g~  407 (833)
                      ++..+.  .|+ ...+..+..++...|+
T Consensus       558 ~~al~l--~P~~~~a~~~~~~~~~~~~~  583 (681)
T 2pzi_A          558 DEVPPT--SRHFTTARLTSAVTLLSGRS  583 (681)
T ss_dssp             HTSCTT--STTHHHHHHHHHHHTC----
T ss_pred             Hhhccc--CcccHHHHHHHHHHHHccCC
Confidence            888775  343 5567777777766554

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=98.85  E-value=1.6e-06  Score=87.85  Aligned_cols=219  Identities=11%  Similarity=0.039  Sum_probs=148.7

Q ss_pred             CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC--CHHHHHHHHHHHhhCCCCCCHHHHHHHHHHH----Hhc---CC
Q 003295          477 KQAEATELCFRLFEKGFTVNTVTSNALIHGMCEAG--NLKEAGKLLMEMLQRGLILDKVTYNTLILGC----CKD---GK  547 (833)
Q Consensus       477 ~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g--~~~~A~~~l~~m~~~g~~~~~~~~~~li~~~----~~~---g~  547 (833)
                      ..++|++..+.++...+. +..+|+.-...+...|  ++++++..++.+...++. +..+|+.-...+    ...   ++
T Consensus        48 ~s~~aL~~t~~~L~~nP~-~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~nPk-~y~aW~~R~~iL~~~~~~l~~~~~  125 (306)
T 3dra_A           48 YSERALHITELGINELAS-HYTIWIYRFNILKNLPNRNLYDELDWCEEIALDNEK-NYQIWNYRQLIIGQIMELNNNDFD  125 (306)
T ss_dssp             CSHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHCTT-CCHHHHHHHHHHHHHHHHTTTCCC
T ss_pred             CCHHHHHHHHHHHHHCcH-HHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHCcc-cHHHHHHHHHHHHHHHHhccccCC
Confidence            346777777777776433 6667777777777777  888888888888887766 566666544444    444   67


Q ss_pred             hhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHH--HHHHHHHHHhhCCCCCCHhhHHHHHHHHHccCC------HH
Q 003295          548 PEEGFKLKEDMIKRGIQPDNYTYNLLLHGLCSLGKME--EAIELWEECKRTVFGPDIYTYGVMIDGFCKADK------IE  619 (833)
Q Consensus       548 ~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~--~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~------~~  619 (833)
                      +++++.+++.+++...+ +..+|+.-.-.+.+.|.++  ++++.++++.+.. +.|...|+.-...+.+.++      ++
T Consensus       126 ~~~EL~~~~~~l~~~pk-ny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d-~~N~sAW~~R~~ll~~l~~~~~~~~~~  203 (306)
T 3dra_A          126 PYREFDILEAMLSSDPK-NHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTD-LKNNSAWSHRFFLLFSKKHLATDNTID  203 (306)
T ss_dssp             THHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHSSGGGCCHHHHH
T ss_pred             HHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcccChHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhccccchhhhHH
Confidence            78888888888877544 7777777777777777777  7788888777764 3456666665555656555      77


Q ss_pred             HHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHH-HHHHHHHHHhCC--CCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 003295          620 EGETLFNEMISKKMELNPVVYNTLIRAYCKIGNTTA-AFRLSNDMKSRG--ILPTSVTYSSLIHGLCNIGLIEDAKCLFD  696 (833)
Q Consensus       620 ~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~-A~~~~~~m~~~~--~~p~~~~~~~li~~~~~~g~~~~A~~~~~  696 (833)
                      ++++.+++++...+. |...|+.....+.+.|+..+ +.++..++.+.+  -+.+...+..+...+.+.|+.++|.++++
T Consensus       204 eEl~~~~~aI~~~p~-n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~~A~~~~~  282 (306)
T 3dra_A          204 EELNYVKDKIVKCPQ-NPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKYNESRTVYD  282 (306)
T ss_dssp             HHHHHHHHHHHHCSS-CHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCC-CccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCHHHHHHHHH
Confidence            777777777776655 77777777777777776444 334555444322  13355666677777777777777777777


Q ss_pred             HHHH
Q 003295          697 EMRK  700 (833)
Q Consensus       697 ~m~~  700 (833)
                      .+.+
T Consensus       283 ~l~~  286 (306)
T 3dra_A          283 LLKS  286 (306)
T ss_dssp             HHHH
T ss_pred             HHHh
Confidence            7765

>2r5s_A Uncharacterized protein VP0806; APC090868.1, vibrio parahaemolyticus RIMD 22 structural genomics, PSI-2, protein structure initiative; HET: MES; 2.14A {Vibrio parahaemolyticus}

Probab=98.84  E-value=3.3e-08  Score=92.53  Aligned_cols=59  Identities=12%  Similarity=0.121  Sum_probs=32.7

Q ss_pred             HHHHHHHhcCChhHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHc
Q 003295          223 FLLNSLVKANEVQKGIEVFETMCRGVSPDVFLFSTAINAFCKRGRIEDAIGLFTKMEEL  281 (833)
Q Consensus       223 ~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  281 (833)
                      .+...+.+.|++++|...|++.+...|.+...+..+..++.+.|++++|...|++....
T Consensus        11 ~~a~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~   69 (176)
T 2r5s_A           11 KQVSELLQQGEHAQALNVIQTLSDELQSRGDVKLAKADCLLETKQFELAQELLATIPLE   69 (176)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHTSCHHHHTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGG
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhc
Confidence            34444555566666666665555333445555555566666666666666666555443

>3rjv_A Putative SEL1 repeat protein; alpha-alpha superhelix, structural genomics, joint center FO structural genomics, JCSG; HET: MSE; 1.65A {Klebsiella pneumoniae subsp}

Probab=98.83  E-value=2.2e-07  Score=89.80  Aligned_cols=175  Identities=13%  Similarity=0.049  Sum_probs=96.6

Q ss_pred             HHHHHHHHhhCCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcC----ChHHHHHHHH
Q 003295          586 AIELWEECKRTVFGPDIYTYGVMIDGFCKADKIEEGETLFNEMISKKMELNPVVYNTLIRAYCKIG----NTTAAFRLSN  661 (833)
Q Consensus       586 A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g----~~~~A~~~~~  661 (833)
                      |.+.|++..+.|   +...+..+...|...+++++|+..|++..+.|   ++..+..+...|.. +    ++++|++.|+
T Consensus         5 A~~~~~~aa~~g---~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g---~~~a~~~lg~~y~~-~g~~~~~~~A~~~~~   77 (212)
T 3rjv_A            5 PGSQYQQQAEAG---DRRAQYYLADTWVSSGDYQKAEYWAQKAAAQG---DGDALALLAQLKIR-NPQQADYPQARQLAE   77 (212)
T ss_dssp             TTHHHHHHHHTT---CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT---CHHHHHHHHHHTTS-STTSCCHHHHHHHHH
T ss_pred             HHHHHHHHHHCC---CHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHc-CCCCCCHHHHHHHHH
Confidence            344444444432   34444444455555555555555555555443   34444444444444 4    5566666666


Q ss_pred             HHHhCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHCCCC-CChhHHHHHHHHHHh----cCChhHHHHHHHH
Q 003295          662 DMKSRGILPTSVTYSSLIHGLCN----IGLIEDAKCLFDEMRKEGLL-PNVACYTALIGGYCK----LGQMDEAESVLQE  732 (833)
Q Consensus       662 ~m~~~~~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~g~~-p~~~~~~~li~~~~~----~g~~~~A~~~~~~  732 (833)
                      +..+.|   +...+..|...|..    .+++++|..+|++..+.|.. .+...+..|...|..    .++.++|...|++
T Consensus        78 ~A~~~g---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~  154 (212)
T 3rjv_A           78 KAVEAG---SKSGEIVLARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFKG  154 (212)
T ss_dssp             HHHHTT---CHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHHH
T ss_pred             HHHHCC---CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHHH
Confidence            655543   44455555555554    56666666666666665411 014556666666666    5667777777777


Q ss_pred             HHhCCCCCCHHHHHHHHHHHHhc-C-----CHHHHHHHHHHHHHcC
Q 003295          733 MASINIHPNKITYTIMIGGYCKL-G-----DMKEAAKLLNVMAEKG  772 (833)
Q Consensus       733 m~~~g~~p~~~~~~~li~~~~~~-g-----~~~~A~~~~~~m~~~g  772 (833)
                      ..+.  +.+...+..|...|... |     ++++|..++++..+.|
T Consensus       155 A~~~--~~~~~a~~~Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~~g  198 (212)
T 3rjv_A          155 SSSL--SRTGYAEYWAGMMFQQGEKGFIEPNKQKALHWLNVSCLEG  198 (212)
T ss_dssp             HHHT--SCTTHHHHHHHHHHHHCBTTTBCCCHHHHHHHHHHHHHHT
T ss_pred             HHHc--CCCHHHHHHHHHHHHcCCCCCCCCCHHHHHHHHHHHHHcC
Confidence            7664  23444566666666543 2     6777777777777665

>4ga2_A E3 SUMO-protein ligase ranbp2; TPR motif, nuclear pore complex component nucleocytoplasmic transport, transport protein; 0.95A {Pan troglodytes} PDB: 4ga0_A 4ga1_A*

Probab=98.81  E-value=1.7e-08  Score=91.54  Aligned_cols=110  Identities=7%  Similarity=-0.122  Sum_probs=49.5

Q ss_pred             hcCChhHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHH
Q 003295          230 KANEVQKGIEVFETMCRGVSPDVFLFSTAINAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIHGLCRNGRLYEAFHL  309 (833)
Q Consensus       230 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~  309 (833)
                      ..|++++|+..++......+.+...+..+...|.+.|++++|.+.|++..+..+. +..+|..+...|.+.|++++|+..
T Consensus         9 ~~~~~e~ai~~~~~a~~~~p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~~~~~~A~~~   87 (150)
T 4ga2_A            9 SKADVERYIASVQGSTPSPRQKSIKGFYFAKLYYEAKEYDLAKKYICTYINVQER-DPKAHRFLGLLYELEENTDKAVEC   87 (150)
T ss_dssp             CHHHHHHHHHHHHHHSCSHHHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HcChHHHHHHHHHHhcccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCchHHHHHH
Confidence            3344445555554444222223334444445555555555555555554443221 344444455555555555555555


Q ss_pred             HHHHHhCCCCCChhhHHHHHHHHHhcCChhHH
Q 003295          310 KEKMVLREVEPSLITYSILINGLIKLEKFDDA  341 (833)
Q Consensus       310 ~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A  341 (833)
                      |++..+.. +.+..+|..+...|.+.|++++|
T Consensus        88 ~~~al~~~-p~~~~~~~~la~~~~~~~~~~~a  118 (150)
T 4ga2_A           88 YRRSVELN-PTQKDLVLKIAELLCKNDVTDGR  118 (150)
T ss_dssp             HHHHHHHC-TTCHHHHHHHHHHHHHHCSSSSH
T ss_pred             HHHHHHhC-CCCHHHHHHHHHHHHHcCChHHH
Confidence            55444432 12334444444444444444433

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=98.80  E-value=2.5e-07  Score=90.45  Aligned_cols=184  Identities=11%  Similarity=-0.052  Sum_probs=116.3

Q ss_pred             HhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCccC--HHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCH--HHHHH
Q 003295          602 IYTYGVMIDGFCKADKIEEGETLFNEMISKKMELN--PVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTS--VTYSS  677 (833)
Q Consensus       602 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~--~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~--~~~~~  677 (833)
                      ...+..+...+.+.|++++|+..|+++++..+...  ...+..+..+|.+.|++++|+..|+++.+.......  ..+..
T Consensus         4 ~~~~~~~a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~P~~~~~~~a~~~   83 (225)
T 2yhc_A            4 PNEIYATAQQKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVMYM   83 (225)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCcHHHHHHH
Confidence            34455566677788888888888888877644311  356777778888888888888888888776322111  13444


Q ss_pred             HHHHHHh------------------cCCHHHHHHHHHHHHHCCCCCCh-hHHHHHHHHHHhcCChhHHHHHHHHHHhCCC
Q 003295          678 LIHGLCN------------------IGLIEDAKCLFDEMRKEGLLPNV-ACYTALIGGYCKLGQMDEAESVLQEMASINI  738 (833)
Q Consensus       678 li~~~~~------------------~g~~~~A~~~~~~m~~~g~~p~~-~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~  738 (833)
                      +..++..                  .|+.++|...|+++++.  .|+. ..+.......          .+...+     
T Consensus        84 ~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~--~P~~~~a~~a~~~l~----------~~~~~~-----  146 (225)
T 2yhc_A           84 RGLTNMALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVRG--YPNSQYTTDATKRLV----------FLKDRL-----  146 (225)
T ss_dssp             HHHHHHHHHC--------------CCHHHHHHHHHHHHHHTT--CTTCTTHHHHHHHHH----------HHHHHH-----
T ss_pred             HHHHHHhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHHH--CcCChhHHHHHHHHH----------HHHHHH-----
Confidence            4444443                  34555555555555553  2322 1111111000          000000     


Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC-H---HHHHHHHHHHhcCCCHHHHHHHHHHHHHCC
Q 003295          739 HPNKITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISPD-S---ITYNVFMDGHCKGGNVEEAFKVCDRMLSEG  807 (833)
Q Consensus       739 ~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~---~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g  807 (833)
                         ......++..|.+.|++++|+..|+++++.  .|+ .   ..+..++.++.+.|++++|++.++.+...+
T Consensus       147 ---~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~--~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~~  214 (225)
T 2yhc_A          147 ---AKYEYSVAEYYTERGAWVAVVNRVEGMLRD--YPDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAANS  214 (225)
T ss_dssp             ---HHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--STTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCC
T ss_pred             ---HHHHHHHHHHHHHcCcHHHHHHHHHHHHHH--CcCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhC
Confidence               011235677889999999999999999985  343 2   578889999999999999999999888753

>2r5s_A Uncharacterized protein VP0806; APC090868.1, vibrio parahaemolyticus RIMD 22 structural genomics, PSI-2, protein structure initiative; HET: MES; 2.14A {Vibrio parahaemolyticus}

Probab=98.80  E-value=5.1e-08  Score=91.20  Aligned_cols=163  Identities=12%  Similarity=0.067  Sum_probs=120.6

Q ss_pred             HHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHH-
Q 003295          253 FLFSTAINAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIHGLCRNGRLYEAFHLKEKMVLREVEPSLITYSILING-  331 (833)
Q Consensus       253 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~-  331 (833)
                      ..+......+.+.|++++|...|++..+..+. +...+..+...+.+.|++++|...+++.....  |+...+..+... 
T Consensus         7 ~~~~~~a~~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~~--p~~~~~~~~~~~~   83 (176)
T 2r5s_A            7 EQLLKQVSELLQQGEHAQALNVIQTLSDELQS-RGDVKLAKADCLLETKQFELAQELLATIPLEY--QDNSYKSLIAKLE   83 (176)
T ss_dssp             TTHHHHHHHHHHTTCHHHHHHHHHTSCHHHHT-SHHHHHHHHHHHHHTTCHHHHHHHHTTCCGGG--CCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCC-cHHHHHHHHHHHHHCCCHHHHHHHHHHhhhcc--CChHHHHHHHHHH
Confidence            34556778888999999999999988765432 56788889999999999999999998887653  344333322211 


Q ss_pred             HHhcCChhHHHHHHHHHHHCCCCC-ChhhHHHHHHHHHHcCChHHHHHHHHHHHhCCCCC-ChhHHHHHHHHHHhcCChh
Q 003295          332 LIKLEKFDDANFVLKEMSVRGFVP-NYVVYNTLIDGYCKKGNISEALKIRDDMVSKGMSP-NSVTFNSLIHGFCKSGQMD  409 (833)
Q Consensus       332 ~~~~g~~~~A~~~~~~m~~~g~~p-~~~~y~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~  409 (833)
                      +...++..+|...+++..+.  .| +...+..+...+.+.|++++|...|+++.+..+.+ +...+..+...+...|+.+
T Consensus        84 ~~~~~~~~~a~~~~~~al~~--~P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~  161 (176)
T 2r5s_A           84 LHQQAAESPELKRLEQELAA--NPDNFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQGN  161 (176)
T ss_dssp             HHHHHTSCHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSC
T ss_pred             HHhhcccchHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCCC
Confidence            22333445678888888776  34 47788888888899999999999999888875443 3557888888888889999


Q ss_pred             HHHHHHHHHHH
Q 003295          410 NAENALEEMLS  420 (833)
Q Consensus       410 ~A~~~l~~~~~  420 (833)
                      +|...|++...
T Consensus       162 ~A~~~y~~al~  172 (176)
T 2r5s_A          162 AIASKYRRQLY  172 (176)
T ss_dssp             HHHHHHHHHHH
T ss_pred             cHHHHHHHHHH
Confidence            99888887654

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=98.80  E-value=3.2e-07  Score=89.64  Aligned_cols=184  Identities=10%  Similarity=0.019  Sum_probs=99.3

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHhhcCCCCC---HHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCh--hhHHHHH
Q 003295          220 TCNFLLNSLVKANEVQKGIEVFETMCRGVSPD---VFLFSTAINAFCKRGRIEDAIGLFTKMEELGIAPNV--VTYNNII  294 (833)
Q Consensus       220 ~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~---~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~--~~~~~li  294 (833)
                      .+..+...+.+.|++++|...|+++....|.+   ...+..+..+|.+.|++++|...|+++.+..+....  ..+..+.
T Consensus         6 ~~~~~a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~P~~~~~~~a~~~~g   85 (225)
T 2yhc_A            6 EIYATAQQKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVMYMRG   85 (225)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCcHHHHHHHHH
Confidence            33444444555555555555555555211111   234444555555555555555555555554221111  1222233


Q ss_pred             HHHH------------------hcCChhHHHHHHHHHHhCCCCCCh-hhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCC
Q 003295          295 HGLC------------------RNGRLYEAFHLKEKMVLREVEPSL-ITYSILINGLIKLEKFDDANFVLKEMSVRGFVP  355 (833)
Q Consensus       295 ~~~~------------------~~g~~~~A~~~~~~m~~~~~~p~~-~t~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p  355 (833)
                      ..+.                  ..|++++|...|+++.+..  |+. ..+......          ..+...+.      
T Consensus        86 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~--P~~~~a~~a~~~l----------~~~~~~~~------  147 (225)
T 2yhc_A           86 LTNMALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVRGY--PNSQYTTDATKRL----------VFLKDRLA------  147 (225)
T ss_dssp             HHHHHHHC--------------CCHHHHHHHHHHHHHHTTC--TTCTTHHHHHHHH----------HHHHHHHH------
T ss_pred             HHHHhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHHHC--cCChhHHHHHHHH----------HHHHHHHH------
Confidence            3332                  3567777777777777652  332 222221110          00000000      


Q ss_pred             ChhhHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCC--hhHHHHHHHHHHhcCChhHHHHHHHHHHHCCC
Q 003295          356 NYVVYNTLIDGYCKKGNISEALKIRDDMVSKGMSPN--SVTFNSLIHGFCKSGQMDNAENALEEMLSRGL  423 (833)
Q Consensus       356 ~~~~y~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~--~~~~~~li~~~~~~g~~~~A~~~l~~~~~~g~  423 (833)
                        .....+...|.+.|++++|...|+++++..+...  ...+..+..++.+.|+.++|.+.++.+...+.
T Consensus       148 --~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~~~  215 (225)
T 2yhc_A          148 --KYEYSVAEYYTERGAWVAVVNRVEGMLRDYPDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAANSS  215 (225)
T ss_dssp             --HHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCCS
T ss_pred             --HHHHHHHHHHHHcCcHHHHHHHHHHHHHHCcCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCC
Confidence              1123456778888999999999988887532211  24577788888889999999999888877643

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=98.77  E-value=9.9e-08  Score=97.22  Aligned_cols=165  Identities=8%  Similarity=-0.051  Sum_probs=100.1

Q ss_pred             CHHHHHHHHHHHHhcCChhHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHH-HHHH
Q 003295          217 SLKTCNFLLNSLVKANEVQKGIEVFETMCRGVSPDVFLFSTAINAFCKRGRIEDAIGLFTKMEELGIAPNVVTYN-NIIH  295 (833)
Q Consensus       217 ~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~-~li~  295 (833)
                      +...+..+...+.+.|++++|...|++++...|.+...+..+...+.+.|++++|...+++.....  |+..... ....
T Consensus       116 ~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~~--p~~~~~~~~~~~  193 (287)
T 3qou_A          116 EEELXAQQAMQLMQESNYTDALPLLXDAWQLSNQNGEIGLLLAETLIALNRSEDAEAVLXTIPLQD--QDTRYQGLVAQI  193 (287)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGGG--CSHHHHHHHHHH
T ss_pred             chhhHHHHHHHHHhCCCHHHHHHHHHHHHHhCCcchhHHHHHHHHHHHCCCHHHHHHHHHhCchhh--cchHHHHHHHHH
Confidence            344555666667777777777777777775455666677777777777777777777777766542  3333222 2222


Q ss_pred             HHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCC-ChhhHHHHHHHHHHcCChH
Q 003295          296 GLCRNGRLYEAFHLKEKMVLREVEPSLITYSILINGLIKLEKFDDANFVLKEMSVRGFVP-NYVVYNTLIDGYCKKGNIS  374 (833)
Q Consensus       296 ~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~~y~~li~~~~~~g~~~  374 (833)
                      .+.+.|+.++|...+++..... +.+...+..+...+...|++++|...|+++.+..... +...+..++..|...|+.+
T Consensus       194 ~l~~~~~~~~a~~~l~~al~~~-P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~  272 (287)
T 3qou_A          194 ELLXQAADTPEIQQLQQQVAEN-PEDAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADGQTRXTFQEILAALGTGD  272 (287)
T ss_dssp             HHHHHHTSCHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGGHHHHHHHHHHHHHCTTC
T ss_pred             HHHhhcccCccHHHHHHHHhcC-CccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccchHHHHHHHHHHHcCCCC
Confidence            3445566666666666666543 3345566666666666666666666666666552221 1445666666666666666


Q ss_pred             HHHHHHHHHH
Q 003295          375 EALKIRDDMV  384 (833)
Q Consensus       375 ~A~~~~~~m~  384 (833)
                      +|...+++..
T Consensus       273 ~a~~~~r~al  282 (287)
T 3qou_A          273 ALASXYRRQL  282 (287)
T ss_dssp             HHHHHHHHHH
T ss_pred             cHHHHHHHHH
Confidence            6666665543

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=98.76  E-value=1.6e-07  Score=95.68  Aligned_cols=164  Identities=15%  Similarity=0.015  Sum_probs=127.8

Q ss_pred             CHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhHHHHH-H
Q 003295          636 NPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTAL-I  714 (833)
Q Consensus       636 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l-i  714 (833)
                      +...+..+...+.+.|++++|...|++..... +.+...+..+...+.+.|++++|...++++...  .|+....... .
T Consensus       116 ~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~--~p~~~~~~~~~~  192 (287)
T 3qou_A          116 EEELXAQQAMQLMQESNYTDALPLLXDAWQLS-NQNGEIGLLLAETLIALNRSEDAEAVLXTIPLQ--DQDTRYQGLVAQ  192 (287)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGG--GCSHHHHHHHHH
T ss_pred             chhhHHHHHHHHHhCCCHHHHHHHHHHHHHhC-CcchhHHHHHHHHHHHCCCHHHHHHHHHhCchh--hcchHHHHHHHH
Confidence            55666777778888888888888888888764 346677888888888899999999988888764  4554433322 3


Q ss_pred             HHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC---HHHHHHHHHHHhcCC
Q 003295          715 GGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISPD---SITYNVFMDGHCKGG  791 (833)
Q Consensus       715 ~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~---~~~~~~l~~~~~~~g  791 (833)
                      ..+.+.++.++|...+++..+.. +.+...+..+...+...|++++|+..+.++++.  .|+   ...+..++..+...|
T Consensus       193 ~~l~~~~~~~~a~~~l~~al~~~-P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~--~p~~~~~~a~~~l~~~~~~~g  269 (287)
T 3qou_A          193 IELLXQAADTPEIQQLQQQVAEN-PEDAALATQLALQLHQVGRNEEALELLFGHLRX--DLTAADGQTRXTFQEILAALG  269 (287)
T ss_dssp             HHHHHHHTSCHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTGGGGHHHHHHHHHHHHHC
T ss_pred             HHHHhhcccCccHHHHHHHHhcC-CccHHHHHHHHHHHHHcccHHHHHHHHHHHHhc--ccccccchHHHHHHHHHHHcC
Confidence            33667788888888888888764 567788889999999999999999999999885  343   567888999999999


Q ss_pred             CHHHHHHHHHHHHH
Q 003295          792 NVEEAFKVCDRMLS  805 (833)
Q Consensus       792 ~~~~A~~~~~~m~~  805 (833)
                      +.++|...+++.+.
T Consensus       270 ~~~~a~~~~r~al~  283 (287)
T 3qou_A          270 TGDALASXYRRQLY  283 (287)
T ss_dssp             TTCHHHHHHHHHHH
T ss_pred             CCCcHHHHHHHHHH
Confidence            99999888887654

>4ga2_A E3 SUMO-protein ligase ranbp2; TPR motif, nuclear pore complex component nucleocytoplasmic transport, transport protein; 0.95A {Pan troglodytes} PDB: 4ga0_A 4ga1_A*

Probab=98.75  E-value=4.7e-08  Score=88.58  Aligned_cols=141  Identities=12%  Similarity=-0.054  Sum_probs=78.2

Q ss_pred             HHHcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCChhHH
Q 003295          647 YCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEA  726 (833)
Q Consensus       647 ~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A  726 (833)
                      +...|++++|++.++...... +.+...+..+...|.+.|++++|++.|++.++.. +-+..+|..+..+|.+.|++++|
T Consensus         7 ~~~~~~~e~ai~~~~~a~~~~-p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~~~~~~A   84 (150)
T 4ga2_A            7 RRSKADVERYIASVQGSTPSP-RQKSIKGFYFAKLYYEAKEYDLAKKYICTYINVQ-ERDPKAHRFLGLLYELEENTDKA   84 (150)
T ss_dssp             CCCHHHHHHHHHHHHHHSCSH-HHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHcChHHHHHHHHHHhcccC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCchHHH
Confidence            334455566666555554431 1123334455566666666666666666666542 22455666666666666666666


Q ss_pred             HHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHH-HHHHHHcCCCC-CHHHHHHHHHHHhcCCC
Q 003295          727 ESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKL-LNVMAEKGISP-DSITYNVFMDGHCKGGN  792 (833)
Q Consensus       727 ~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~-~~~m~~~g~~p-~~~~~~~l~~~~~~~g~  792 (833)
                      +..|++..+.. +-+...|..++..|.+.|++++|.+. ++++++.  .| +..+|......+...|+
T Consensus        85 ~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l--~P~~~~~~~l~~~ll~~~G~  149 (150)
T 4ga2_A           85 VECYRRSVELN-PTQKDLVLKIAELLCKNDVTDGRAKYWVERAAKL--FPGSPAVYKLKEQLLDCEGE  149 (150)
T ss_dssp             HHHHHHHHHHC-TTCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHH--STTCHHHHHHHHHHHHTCCC
T ss_pred             HHHHHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHHh--CcCCHHHHHHHHHHHHHhCc
Confidence            66666666542 33455666666666666666554443 3555552  34 44555555555555553

>2ifu_A Gamma-SNAP; membrane fusion, snare complex disassembly, protein structure initiative, PSI, center for eukaryotic structural genomics, CESG; HET: MSE; 2.60A {Danio rerio}

Probab=98.71  E-value=1.6e-07  Score=96.91  Aligned_cols=156  Identities=11%  Similarity=0.033  Sum_probs=98.0

Q ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHhC----CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC----CCCC-Ch
Q 003295          638 VVYNTLIRAYCKIGNTTAAFRLSNDMKSR----GILP-TSVTYSSLIHGLCNIGLIEDAKCLFDEMRKE----GLLP-NV  707 (833)
Q Consensus       638 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~----~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----g~~p-~~  707 (833)
                      .+|+.+...|.+.|++++|+..+++..+.    |-.. ...++..+...|.. |++++|+..|++.++.    |-.. ..
T Consensus        77 ~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~-g~~~~A~~~~~~Al~~~~~~~~~~~~~  155 (307)
T 2ifu_A           77 KAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGKLMEP-LDLSKAVHLYQQAAAVFENEERLRQAA  155 (307)
T ss_dssp             HHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT-TCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc-CCHHHHHHHHHHHHHHHHhCCChhHHH
Confidence            35555666666667777777766665432    1110 12456667777777 8888888888877653    1000 13


Q ss_pred             hHHHHHHHHHHhcCChhHHHHHHHHHHhC----CCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC------
Q 003295          708 ACYTALIGGYCKLGQMDEAESVLQEMASI----NIHPN-KITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISPD------  776 (833)
Q Consensus       708 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~----g~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~------  776 (833)
                      .+++.+...|.+.|++++|+..|++..+.    +..++ ...+..++.++...|++++|...+++.+ .  .|+      
T Consensus       156 ~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~~~~~~g~~~~A~~~~~~al-~--~p~~~~~~e  232 (307)
T 2ifu_A          156 ELIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQVLVQLHRADYVAAQKCVRESY-S--IPGFSGSED  232 (307)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHT-T--STTSTTSHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHh-C--CCCCCCCHH
Confidence            56777888888888888888888887752    11111 2256667777777888888888888887 3  232      


Q ss_pred             HHHHHHHHHHHhcCCCHHHHHH
Q 003295          777 SITYNVFMDGHCKGGNVEEAFK  798 (833)
Q Consensus       777 ~~~~~~l~~~~~~~g~~~~A~~  798 (833)
                      ......++.++ ..|+.+.+.+
T Consensus       233 ~~~l~~l~~~~-~~~d~~~~~~  253 (307)
T 2ifu_A          233 CAALEDLLQAY-DEQDEEQLLR  253 (307)
T ss_dssp             HHHHHHHHHHH-HTTCHHHHHH
T ss_pred             HHHHHHHHHHH-HhcCHHHHHH
Confidence            12345555555 5677666655

>2vsy_A XCC0866; transferase, glycosyl transferase, GT-B, OGT, protein O-GLCN; HET: NHE; 2.10A {Xanthomonas campestris PV} PDB: 2jlb_A* 2xgm_A* 2xgo_A* 2xgs_A* 2vsn_A*

Probab=98.70  E-value=2e-07  Score=105.48  Aligned_cols=152  Identities=9%  Similarity=-0.082  Sum_probs=66.9

Q ss_pred             cCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHH
Q 003295          197 LGFGYAIDVFSIFSSKGIFPSLKTCNFLLNSLVKANEVQKGIEVFETMCRGVSPDVFLFSTAINAFCKRGRIEDAIGLFT  276 (833)
Q Consensus       197 ~~~~~A~~~f~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~  276 (833)
                      |++++|++.|++..+..+. +..+|..+...+.+.|++++|...|++..+-.+.+..++..+..+|.+.|++++|.+.|+
T Consensus         3 g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~   81 (568)
T 2vsy_A            3 ADGPRELLQLRAAVRHRPQ-DFVAWLMLADAELGMGDTTAGEMAVQRGLALHPGHPEAVARLGRVRWTQQRHAEAAVLLQ   81 (568)
T ss_dssp             ------------------C-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTSTTCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            3445555555554443322 344555555555555555555555555553334445555555555555555555555555


Q ss_pred             HHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhc---CChhHHHHHHHHHHHC
Q 003295          277 KMEELGIAPNVVTYNNIIHGLCRNGRLYEAFHLKEKMVLREVEPSLITYSILINGLIKL---EKFDDANFVLKEMSVR  351 (833)
Q Consensus       277 ~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~---g~~~~A~~~~~~m~~~  351 (833)
                      +..+.... +...|..+...|.+.|++++|.+.+++..+.. +.+...+..+...+...   |++++|.+.+++..+.
T Consensus        82 ~al~~~p~-~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~~  157 (568)
T 2vsy_A           82 QASDAAPE-HPGIALWLGHALEDAGQAEAAAAAYTRAHQLL-PEEPYITAQLLNWRRRLCDWRALDVLSAQVRAAVAQ  157 (568)
T ss_dssp             HHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHHH
T ss_pred             HHHhcCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhhccccHHHHHHHHHHHHhc
Confidence            55544221 34445555555555555555555555554432 22334444444444444   5555555555554443

>2vsy_A XCC0866; transferase, glycosyl transferase, GT-B, OGT, protein O-GLCN; HET: NHE; 2.10A {Xanthomonas campestris PV} PDB: 2jlb_A* 2xgm_A* 2xgo_A* 2xgs_A* 2vsn_A*

Probab=98.69  E-value=3.4e-07  Score=103.59  Aligned_cols=152  Identities=13%  Similarity=0.041  Sum_probs=71.7

Q ss_pred             CCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHH
Q 003295          581 GKMEEAIELWEECKRTVFGPDIYTYGVMIDGFCKADKIEEGETLFNEMISKKMELNPVVYNTLIRAYCKIGNTTAAFRLS  660 (833)
Q Consensus       581 g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~  660 (833)
                      |++++|.+.++++.+.. +.+...+..+...|.+.|++++|.+.+++..+..+. +...|..+...|...|++++|.+.+
T Consensus         3 g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~   80 (568)
T 2vsy_A            3 ADGPRELLQLRAAVRHR-PQDFVAWLMLADAELGMGDTTAGEMAVQRGLALHPG-HPEAVARLGRVRWTQQRHAEAAVLL   80 (568)
T ss_dssp             -------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTSTT-CHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            45555666655555432 223445555555555556666666665555554333 4555555555555555555555555


Q ss_pred             HHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhc---CChhHHHHHHHHHHhC
Q 003295          661 NDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKL---GQMDEAESVLQEMASI  736 (833)
Q Consensus       661 ~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~---g~~~~A~~~~~~m~~~  736 (833)
                      ++..+.. +.+...+..+...+.+.|++++|.+.+++..+.. +.+...+..+...+...   |+.++|.+.+++..+.
T Consensus        81 ~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~~  157 (568)
T 2vsy_A           81 QQASDAA-PEHPGIALWLGHALEDAGQAEAAAAAYTRAHQLL-PEEPYITAQLLNWRRRLCDWRALDVLSAQVRAAVAQ  157 (568)
T ss_dssp             HHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHHH
T ss_pred             HHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhhccccHHHHHHHHHHHHhc
Confidence            5555542 2244455555555555555555555555555532 22344455555555555   5555555555555543

>2ifu_A Gamma-SNAP; membrane fusion, snare complex disassembly, protein structure initiative, PSI, center for eukaryotic structural genomics, CESG; HET: MSE; 2.60A {Danio rerio}

Probab=98.67  E-value=9e-07  Score=91.14  Aligned_cols=160  Identities=13%  Similarity=0.081  Sum_probs=72.3

Q ss_pred             HHHHHHhcCChhHHHHHHHHhhc-----CCCCC-HHHHHHHHHHHHhcCChhHHHHHHHHHHHcCC---CCC--hhhHHH
Q 003295          224 LLNSLVKANEVQKGIEVFETMCR-----GVSPD-VFLFSTAINAFCKRGRIEDAIGLFTKMEELGI---APN--VVTYNN  292 (833)
Q Consensus       224 ll~~~~~~g~~~~A~~~~~~~~~-----~~~~~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~---~p~--~~~~~~  292 (833)
                      ....|...|++++|...|.+...     +.+.. ..+|+.+..+|.+.|++++|...|++..+.-.   .+.  ..+++.
T Consensus        42 a~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~  121 (307)
T 2ifu_A           42 AAVAFKNAKQLEQAKDAYLQEAEAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDR  121 (307)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            34445555666666666655541     11111 23455555555555666666665555443200   011  234445


Q ss_pred             HHHHHHhcCChhHHHHHHHHHHhCCCCC-----ChhhHHHHHHHHHhcCChhHHHHHHHHHHHC----CCCCC-hhhHHH
Q 003295          293 IIHGLCRNGRLYEAFHLKEKMVLREVEP-----SLITYSILINGLIKLEKFDDANFVLKEMSVR----GFVPN-YVVYNT  362 (833)
Q Consensus       293 li~~~~~~g~~~~A~~~~~~m~~~~~~p-----~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~----g~~p~-~~~y~~  362 (833)
                      +...|.+ |++++|++.|++..+.....     ...+++.+...|.+.|++++|+..|++..+.    +..+. ...+..
T Consensus       122 lg~~~~~-g~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  200 (307)
T 2ifu_A          122 AGKLMEP-LDLSKAVHLYQQAAAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIA  200 (307)
T ss_dssp             HHHHHTT-TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHc-CCHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHH
Confidence            5555544 55555555555554321000     0234444555555555555555555554432    10000 113333


Q ss_pred             HHHHHHHcCChHHHHHHHHHHH
Q 003295          363 LIDGYCKKGNISEALKIRDDMV  384 (833)
Q Consensus       363 li~~~~~~g~~~~A~~~~~~m~  384 (833)
                      +...+...|++++|...|++..
T Consensus       201 ~g~~~~~~g~~~~A~~~~~~al  222 (307)
T 2ifu_A          201 QVLVQLHRADYVAAQKCVRESY  222 (307)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHT
T ss_pred             HHHHHHHcCCHHHHHHHHHHHh
Confidence            4444444455555555555544

>3u3w_A Transcriptional activator PLCR protein; ternary complex, PLCR-PAPR7-DNA, HTH DNA-binding domain, QUO sensing; 2.40A {Bacillus thuringiensis} PDB: 2qfc_A

Probab=98.64  E-value=3.8e-06  Score=85.79  Aligned_cols=163  Identities=9%  Similarity=-0.065  Sum_probs=117.1

Q ss_pred             HHHHHHHcCChHHHHHHHHHHHhCCC-CCCH----HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC-CC----hhHHHH
Q 003295          643 LIRAYCKIGNTTAAFRLSNDMKSRGI-LPTS----VTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLL-PN----VACYTA  712 (833)
Q Consensus       643 li~~~~~~g~~~~A~~~~~~m~~~~~-~p~~----~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~-p~----~~~~~~  712 (833)
                      .+..+...|++++|.+.+++..+... .|+.    ..+..+...+...|++++|+..++++.+.... ++    ..+|+.
T Consensus        81 ~i~~~~~~~~y~~a~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~~  160 (293)
T 3u3w_A           81 QVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIENA  160 (293)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHHH
T ss_pred             HHHHHHHHhhHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHHHH
Confidence            35667778888888888888776421 1221    12334566666778889999999988874211 22    236888


Q ss_pred             HHHHHHhcCChhHHHHHHHHHHh----C-CCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHc----CCCCC-HHHHH
Q 003295          713 LIGGYCKLGQMDEAESVLQEMAS----I-NIHPN-KITYTIMIGGYCKLGDMKEAAKLLNVMAEK----GISPD-SITYN  781 (833)
Q Consensus       713 li~~~~~~g~~~~A~~~~~~m~~----~-g~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----g~~p~-~~~~~  781 (833)
                      +...|...|++++|...++++.+    . +..+. ..+|..++..|.+.|++++|+++++++++.    +..+. ..+|.
T Consensus       161 lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~~~~~  240 (293)
T 3u3w_A          161 IANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLYY  240 (293)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHHHHHH
Confidence            88889999999999999988873    1 11222 237888999999999999999999988752    22222 57889


Q ss_pred             HHHHHHhcCCC-HHHHHHHHHHHHH
Q 003295          782 VFMDGHCKGGN-VEEAFKVCDRMLS  805 (833)
Q Consensus       782 ~l~~~~~~~g~-~~~A~~~~~~m~~  805 (833)
                      .++.++.+.|+ +++|.+.+++.+.
T Consensus       241 ~lg~~~~~~g~~~~~A~~~~~~Al~  265 (293)
T 3u3w_A          241 QRGECLRKLEYEEAEIEDAYKKASF  265 (293)
T ss_dssp             HHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCcHHHHHHHHHHHHH
Confidence            99999999994 6999999988875

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.63  E-value=7.1e-07  Score=77.82  Aligned_cols=107  Identities=15%  Similarity=0.019  Sum_probs=64.5

Q ss_pred             hHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 003295          708 ACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISPDSITYNVFMDGH  787 (833)
Q Consensus       708 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~  787 (833)
                      ..+......|.+.|++++|++.|++.++.. +.+...|..++.+|.+.|++++|++.++++++.. +.+...|..++.++
T Consensus        14 ~~~~~~G~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~   91 (126)
T 4gco_A           14 QEEKNKGNEYFKKGDYPTAMRHYNEAVKRD-PENAILYSNRAACLTKLMEFQRALDDCDTCIRLD-SKFIKGYIRKAACL   91 (126)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhh-hhhhHHHHHHHHHH
Confidence            345555666666666666666666666543 4455666666666666666666666666666632 22455666666666


Q ss_pred             hcCCCHHHHHHHHHHHHHCCCCCC-HHHHHHH
Q 003295          788 CKGGNVEEAFKVCDRMLSEGLSLD-EITYTTL  818 (833)
Q Consensus       788 ~~~g~~~~A~~~~~~m~~~g~~p~-~~~~~~l  818 (833)
                      ...|++++|++.|++.++  +.|+ ...+..|
T Consensus        92 ~~~~~~~~A~~~~~~al~--l~P~~~~a~~~l  121 (126)
T 4gco_A           92 VAMREWSKAQRAYEDALQ--VDPSNEEAREGV  121 (126)
T ss_dssp             HHTTCHHHHHHHHHHHHH--HCTTCHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHH--HCcCCHHHHHHH
Confidence            666666666666666666  4454 3333333

>1hh8_A P67PHOX, NCF-2, neutrophil cytosol factor 2; cell cycle, phagocyte oxidase factor, SH3 domain, repeat, TPR repeat cell cycle; HET: FLC; 1.8A {Homo sapiens} SCOP: a.118.8.1 PDB: 1wm5_A 1e96_B*

Probab=98.61  E-value=1.3e-06  Score=84.31  Aligned_cols=129  Identities=13%  Similarity=-0.023  Sum_probs=91.9

Q ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhHHHHHHHH
Q 003295          637 PVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGG  716 (833)
Q Consensus       637 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~  716 (833)
                      ...+..+...+...|++++|.+.+++..    .|+...+..+...+...|++++|...+++..+.. +.+...|..+..+
T Consensus         6 ~~~~~~~g~~~~~~~~~~~A~~~~~~a~----~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~lg~~   80 (213)
T 1hh8_A            6 AISLWNEGVLAADKKDWKGALDAFSAVQ----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGML   80 (213)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHTSS----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCHHHHHHHHHHHc----CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHH
Confidence            3445566667777788888888777653    4566777777777778888888888888777653 3455677777777


Q ss_pred             HHhcCChhHHHHHHHHHHhCCCCCCH----------------HHHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 003295          717 YCKLGQMDEAESVLQEMASINIHPNK----------------ITYTIMIGGYCKLGDMKEAAKLLNVMAEK  771 (833)
Q Consensus       717 ~~~~g~~~~A~~~~~~m~~~g~~p~~----------------~~~~~li~~~~~~g~~~~A~~~~~~m~~~  771 (833)
                      |...|++++|.+.|++..+.. +.+.                ..+..++.+|...|++++|.+.++++.+.
T Consensus        81 ~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~  150 (213)
T 1hh8_A           81 YYQTEKYDLAIKDLKEALIQL-RGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSM  150 (213)
T ss_dssp             HHHTTCHHHHHHHHHHHHHTT-TTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHcccHHHHHHHHHHHHHhC-CCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHc
Confidence            777888888888887777643 2222                56777777777777777777777777763

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.61  E-value=4.5e-06  Score=85.24  Aligned_cols=185  Identities=9%  Similarity=-0.050  Sum_probs=125.9

Q ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCH-----HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC---CCC--hh
Q 003295          639 VYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTS-----VTYSSLIHGLCNIGLIEDAKCLFDEMRKEGL---LPN--VA  708 (833)
Q Consensus       639 ~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~-----~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~---~p~--~~  708 (833)
                      .+...+..+...|++++|.+.+++..+.......     ..+..+...+...|++++|...+++..+...   .+.  ..
T Consensus        77 ~l~~~~~~~~~~~~y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~  156 (293)
T 2qfc_A           77 QFKDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLY  156 (293)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHHHH
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHHHH
Confidence            4444566677778888888888777665322111     1233455566778899999999988875311   111  34


Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHHhC--CCCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC----CCC-CH
Q 003295          709 CYTALIGGYCKLGQMDEAESVLQEMASI--NIHPN----KITYTIMIGGYCKLGDMKEAAKLLNVMAEKG----ISP-DS  777 (833)
Q Consensus       709 ~~~~li~~~~~~g~~~~A~~~~~~m~~~--g~~p~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g----~~p-~~  777 (833)
                      +|+.+...|...|++++|...++++.+.  ..+.+    ..+|..++..|...|++++|++++++.++..    ... -.
T Consensus       157 ~~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~~~~~~~~~~  236 (293)
T 2qfc_A          157 IENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIG  236 (293)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCSSHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHhcCcHHHHH
Confidence            7888889999999999999999988731  11121    2578889999999999999999999887631    111 15


Q ss_pred             HHHHHHHHHHhcCCCHHHH-HHHHHHHHH----CCCCCCHHHHHHHHHhhc
Q 003295          778 ITYNVFMDGHCKGGNVEEA-FKVCDRMLS----EGLSLDEITYTTLIDGWQ  823 (833)
Q Consensus       778 ~~~~~l~~~~~~~g~~~~A-~~~~~~m~~----~g~~p~~~~~~~l~~~~~  823 (833)
                      .+|..++..|.+.|++++| ...+++.+.    .|-..-...+..++..+.
T Consensus       237 ~~~~~lg~~y~~~g~~~~Ai~~~~~~Al~~~~~~~~~~~~~~~~~~~~~~~  287 (293)
T 2qfc_A          237 QLYYQRGECLRKLEYEEAEIEDAYKKASFFFDILEMHAYKEALVNKISRLE  287 (293)
T ss_dssp             HHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHC-
T ss_pred             HHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHHhCcHhhHHHHHHHHHHHh
Confidence            7889999999999999999 777777654    232223556666665554

>3q7a_A Farnesyltransferase alpha subunit; protein prenyltransferase, transferase-transferase inhibitor; HET: SUC 3FX FPP 778; 2.00A {Cryptococcus neoformans} PDB: 3q73_A* 3q78_A* 3q79_A* 3q75_A* 3q7f_A* 3sfx_A* 3sfy_A*

Probab=98.60  E-value=2.2e-05  Score=80.22  Aligned_cols=174  Identities=11%  Similarity=0.042  Sum_probs=117.1

Q ss_pred             cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC-CHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhc-C-ChhhH
Q 003295          475 NGKQAEATELCFRLFEKGFTVNTVTSNALIHGMCEAG-NLKEAGKLLMEMLQRGLILDKVTYNTLILGCCKD-G-KPEEG  551 (833)
Q Consensus       475 ~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g-~~~~A~~~l~~m~~~g~~~~~~~~~~li~~~~~~-g-~~~~A  551 (833)
                      .+..++|++++++++...+. +..+|+.-...+...| .+++++..++.+...+++ +..+|+.-...+.+. + +++++
T Consensus        67 ~e~se~AL~lt~~~L~~nP~-~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~nPK-ny~aW~hR~wlL~~l~~~~~~~E  144 (349)
T 3q7a_A           67 EEKSERALELTEIIVRMNPA-HYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQNLK-SYQVWHHRLLLLDRISPQDPVSE  144 (349)
T ss_dssp             TCCSHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTTCC-CHHHHHHHHHHHHHHCCSCCHHH
T ss_pred             CCCCHHHHHHHHHHHHhCch-hHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHhcCCChHHH
Confidence            34456777777777776433 6667777777777777 488888888888887776 777777766666665 6 77888


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHH--------HHHHHHHHHhhCCCCCCHhhHHHHHHHHHccCC------
Q 003295          552 FKLKEDMIKRGIQPDNYTYNLLLHGLCSLGKME--------EAIELWEECKRTVFGPDIYTYGVMIDGFCKADK------  617 (833)
Q Consensus       552 ~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~--------~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~------  617 (833)
                      +++++.+++...+ |...|+.-.-.+.+.|.++        ++++.++++.+.. +.|...|+.....+.+.++      
T Consensus       145 L~~~~k~L~~dpk-Ny~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~d-p~N~SAW~~R~~lL~~l~~~~~~~~  222 (349)
T 3q7a_A          145 IEYIHGSLLPDPK-NYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVD-GRNNSAWGWRWYLRVSRPGAETSSR  222 (349)
T ss_dssp             HHHHHHHTSSCTT-CHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHTTSTTCCCCHH
T ss_pred             HHHHHHHHHhCCC-CHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhccccccchH
Confidence            8888888876544 6666666555555555554        7777777777654 3466666666666666654      


Q ss_pred             -HHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCCh
Q 003295          618 -IEEGETLFNEMISKKMELNPVVYNTLIRAYCKIGNT  653 (833)
Q Consensus       618 -~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~  653 (833)
                       ++++++.+++++...+. |...|+.+-..+.+.|+.
T Consensus       223 ~~~eELe~~~~aI~~~P~-n~SaW~Ylr~Ll~~~~~~  258 (349)
T 3q7a_A          223 SLQDELIYILKSIHLIPH-NVSAWNYLRGFLKHFSLP  258 (349)
T ss_dssp             HHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCC
T ss_pred             HHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhcCCC
Confidence             56777777777766555 666776666666555543

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.58  E-value=9.8e-07  Score=87.16  Aligned_cols=197  Identities=9%  Similarity=-0.058  Sum_probs=128.0

Q ss_pred             ccCCHHHHHHHHHHHHHCCCccCHHHHHHH-------HHHHHHcCChHHHHHHHHHHHhCCCCCC---------------
Q 003295          614 KADKIEEGETLFNEMISKKMELNPVVYNTL-------IRAYCKIGNTTAAFRLSNDMKSRGILPT---------------  671 (833)
Q Consensus       614 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l-------i~~~~~~g~~~~A~~~~~~m~~~~~~p~---------------  671 (833)
                      ..++...|.+.|.++.+..+. ....|..+       ...+.+.++..+++..+..-...  .|+               
T Consensus        18 ~~~d~~~A~~~F~~a~~~dP~-~~Daw~g~~a~g~~~~~~L~~~~r~~~a~~~~~~~l~l--~p~~l~a~~~~~g~y~~~   94 (282)
T 4f3v_A           18 LPMSEARSLDLFTEITNYDES-ACDAWIGRIRCGDTDRVTLFRAWYSRRNFGQLSGSVQI--SMSTLNARIAIGGLYGDI   94 (282)
T ss_dssp             TTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHTTCCCHHHHHHHHHTGGGTTHHHHTTTC--CGGGGCCEEECCTTTCCC
T ss_pred             cCCCHHHHHHHHHHHHHhChh-hhHHHHhHHHccCCcHHHHHHHHHHHHHHHHHHHHhcC--ChhhhhhhhccCCccccc
Confidence            466777777777777766544 56666666       45555555555555555544431  111               


Q ss_pred             -------HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCC--H
Q 003295          672 -------SVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESVLQEMASINIHPN--K  742 (833)
Q Consensus       672 -------~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~--~  742 (833)
                             ......+...+...|++++|.++|+.+...+  |+......+...+.+.|++++|+..|+...+.. .|.  .
T Consensus        95 ~~~v~~r~dl~LayA~~L~~~g~y~eA~~~l~~~~~~~--p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~~-d~~~~~  171 (282)
T 4f3v_A           95 TYPVTSPLAITMGFAACEAAQGNYADAMEALEAAPVAG--SEHLVAWMKAVVYGAAERWTDVIDQVKSAGKWP-DKFLAG  171 (282)
T ss_dssp             EEECSSHHHHHHHHHHHHHHHTCHHHHHHHHTSSCCTT--CHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGCS-CHHHHH
T ss_pred             ccccCCHhHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CchHHHHHHHHHHHHcCCHHHHHHHHHHhhccC-CcccHH
Confidence                   1123345566778888888888888777643  544455666667788888888888887665421 111  2


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC--HHHHHHHHHHHhcCCCHHHHHHHHHHHHHCCCCCCHHHHHHH
Q 003295          743 ITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISPD--SITYNVFMDGHCKGGNVEEAFKVCDRMLSEGLSLDEITYTTL  818 (833)
Q Consensus       743 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~--~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l  818 (833)
                      ..+..+..++...|++++|+..|++.......|.  ......++.++.+.|+.++|...|+++..  ..|+...+..|
T Consensus       172 ~a~~~LG~al~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a--~~P~~~~~~aL  247 (282)
T 4f3v_A          172 AAGVAHGVAAANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQT--THPEPKVAAAL  247 (282)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH--HSCCHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHh--cCCcHHHHHHH
Confidence            3677788888888888888888888875332253  34667777888888888888888888888  45554444443

>3q7a_A Farnesyltransferase alpha subunit; protein prenyltransferase, transferase-transferase inhibitor; HET: SUC 3FX FPP 778; 2.00A {Cryptococcus neoformans} PDB: 3q73_A* 3q78_A* 3q79_A* 3q75_A* 3q7f_A* 3sfx_A* 3sfy_A*

Probab=98.57  E-value=2.8e-05  Score=79.55  Aligned_cols=169  Identities=11%  Similarity=0.026  Sum_probs=82.8

Q ss_pred             hhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC-CHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHcc-C-CHHHHHHHH
Q 003295          549 EEGFKLKEDMIKRGIQPDNYTYNLLLHGLCSLG-KMEEAIELWEECKRTVFGPDIYTYGVMIDGFCKA-D-KIEEGETLF  625 (833)
Q Consensus       549 ~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g-~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~-g-~~~~A~~~~  625 (833)
                      ++|++++++++..... +..+|+.-...+...| .+++++.+++.+.... +.+..+|+.-...+.+. + +++++++++
T Consensus        71 e~AL~lt~~~L~~nP~-~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~n-PKny~aW~hR~wlL~~l~~~~~~~EL~~~  148 (349)
T 3q7a_A           71 ERALELTEIIVRMNPA-HYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQN-LKSYQVWHHRLLLLDRISPQDPVSEIEYI  148 (349)
T ss_dssp             HHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTT-CCCHHHHHHHHHHHHHHCCSCCHHHHHHH
T ss_pred             HHHHHHHHHHHHhCch-hHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHhcCCChHHHHHHH
Confidence            4455555555554322 3334444444444444 3555555555555432 22333444433333333 3 455555555


Q ss_pred             HHHHHCCCccCHHHHHHHHHHHHHcCChH--------HHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC-------HHH
Q 003295          626 NEMISKKMELNPVVYNTLIRAYCKIGNTT--------AAFRLSNDMKSRGILPTSVTYSSLIHGLCNIGL-------IED  690 (833)
Q Consensus       626 ~~~~~~~~~~~~~~~~~li~~~~~~g~~~--------~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~-------~~~  690 (833)
                      +++++..++ |..+|+.-...+.+.|.++        ++++.++++.+.. +-|...|+.....+.+.+.       +++
T Consensus       149 ~k~L~~dpk-Ny~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~d-p~N~SAW~~R~~lL~~l~~~~~~~~~~~e  226 (349)
T 3q7a_A          149 HGSLLPDPK-NYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVD-GRNNSAWGWRWYLRVSRPGAETSSRSLQD  226 (349)
T ss_dssp             HHHTSSCTT-CHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHTTSTTCCCCHHHHHH
T ss_pred             HHHHHhCCC-CHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhccccccchHHHHH
Confidence            555555444 5555555444444444444        5666666665543 2255555555555544443       466


Q ss_pred             HHHHHHHHHHCCCCCChhHHHHHHHHHHhcCC
Q 003295          691 AKCLFDEMRKEGLLPNVACYTALIGGYCKLGQ  722 (833)
Q Consensus       691 A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~  722 (833)
                      +++.+++++... +-|...|+.+-..+.+.|+
T Consensus       227 ELe~~~~aI~~~-P~n~SaW~Ylr~Ll~~~~~  257 (349)
T 3q7a_A          227 ELIYILKSIHLI-PHNVSAWNYLRGFLKHFSL  257 (349)
T ss_dssp             HHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCC
Confidence            666666666542 3355555555555555444

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.57  E-value=1.2e-06  Score=78.98  Aligned_cols=102  Identities=15%  Similarity=0.031  Sum_probs=81.6

Q ss_pred             ChhHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC-CHHHHHHHH
Q 003295          706 NVACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISP-DSITYNVFM  784 (833)
Q Consensus       706 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~~~~~l~  784 (833)
                      +...+..+...+.+.|++++|...|+++.+.. +.+...|..+..+|...|++++|+..|+++++.  .| +...|..++
T Consensus        35 ~~~~~~~lg~~~~~~g~~~eA~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l--~P~~~~~~~~lg  111 (151)
T 3gyz_A           35 MMDDIYSYAYDFYNKGRIEEAEVFFRFLCIYD-FYNVDYIMGLAAIYQIKEQFQQAADLYAVAFAL--GKNDYTPVFHTG  111 (151)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--SSSCCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhh--CCCCcHHHHHHH
Confidence            34567777888888888888888888888764 556778888888888888888888888888884  34 567888888


Q ss_pred             HHHhcCCCHHHHHHHHHHHHHCCCCCCH
Q 003295          785 DGHCKGGNVEEAFKVCDRMLSEGLSLDE  812 (833)
Q Consensus       785 ~~~~~~g~~~~A~~~~~~m~~~g~~p~~  812 (833)
                      .+|...|++++|+..|++.++  +.||.
T Consensus       112 ~~~~~lg~~~eA~~~~~~al~--l~~~~  137 (151)
T 3gyz_A          112 QCQLRLKAPLKAKECFELVIQ--HSNDE  137 (151)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH--HCCCH
T ss_pred             HHHHHcCCHHHHHHHHHHHHH--hCCCH
Confidence            888888888888888888888  44553

>3u3w_A Transcriptional activator PLCR protein; ternary complex, PLCR-PAPR7-DNA, HTH DNA-binding domain, QUO sensing; 2.40A {Bacillus thuringiensis} PDB: 2qfc_A

Probab=98.57  E-value=3.3e-06  Score=86.24  Aligned_cols=202  Identities=9%  Similarity=0.004  Sum_probs=130.1

Q ss_pred             CCCCHHHHHHHHHHHHhcCChhHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCC-CCh----h
Q 003295          214 IFPSLKTCNFLLNSLVKANEVQKGIEVFETMCRGVSPDVFLFSTAINAFCKRGRIEDAIGLFTKMEELGIA-PNV----V  288 (833)
Q Consensus       214 ~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~-p~~----~  288 (833)
                      ..|+..+...+...+.-.  .+   .++..-..........+...+..+...|++++|...+++..+.... |+.    .
T Consensus        42 ~~~~~~~l~~i~~~l~~~--~~---~~~~~~~~~~~~~~~~l~~~i~~~~~~~~y~~a~~~~~~~l~~~~~~~~~~~~~~  116 (293)
T 3u3w_A           42 VYPSMDILQGIAAKLQIP--II---HFYEVLIYSDIERKKQFKDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQ  116 (293)
T ss_dssp             CCCCHHHHHHHHHHHTCC--TH---HHHHTTTSSCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCCCHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHhCcC--HH---HHhCCCCCCcchhHHHHHHHHHHHHHHhhHHHHHHHHHHHhccccCChHHHHHHH
Confidence            457777766666665322  11   1221111000111223334467788889999999999888764221 221    1


Q ss_pred             hHHHHHHHHHhcCChhHHHHHHHHHHhCCCC-CC----hhhHHHHHHHHHhcCChhHHHHHHHHHHH----C-CCCCC-h
Q 003295          289 TYNNIIHGLCRNGRLYEAFHLKEKMVLREVE-PS----LITYSILINGLIKLEKFDDANFVLKEMSV----R-GFVPN-Y  357 (833)
Q Consensus       289 ~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~-p~----~~t~~~li~~~~~~g~~~~A~~~~~~m~~----~-g~~p~-~  357 (833)
                      .|..+...+...|++++|+..|+++...... ++    ..+|+.+...|...|++++|...|+++.+    . +..+. .
T Consensus       117 ~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~  196 (293)
T 3u3w_A          117 WQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDV  196 (293)
T ss_dssp             HHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHH
T ss_pred             HHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHH
Confidence            3345666677778899999999988874322 22    22578888888889999999988888873    1 11222 3


Q ss_pred             hhHHHHHHHHHHcCChHHHHHHHHHHHhC----CCCCC-hhHHHHHHHHHHhcCC-hhHHHHHHHHHHH
Q 003295          358 VVYNTLIDGYCKKGNISEALKIRDDMVSK----GMSPN-SVTFNSLIHGFCKSGQ-MDNAENALEEMLS  420 (833)
Q Consensus       358 ~~y~~li~~~~~~g~~~~A~~~~~~m~~~----g~~p~-~~~~~~li~~~~~~g~-~~~A~~~l~~~~~  420 (833)
                      .+|..+...|.+.|++++|.+.+++..+.    +..+. ..+|..+...|.+.|+ +++|.+.+++...
T Consensus       197 ~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~~A~~~~~~Al~  265 (293)
T 3u3w_A          197 KVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLYYQRGECLRKLEYEEAEIEDAYKKASF  265 (293)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHHHH
Confidence            37788888899999999999988877642    22222 4577888888888884 5888888887654

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.57  E-value=1.3e-06  Score=76.17  Aligned_cols=109  Identities=11%  Similarity=0.034  Sum_probs=82.6

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 003295          673 VTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGY  752 (833)
Q Consensus       673 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~  752 (833)
                      ..+......+.+.|++++|++.|++.++.. +.+...|..+..+|.+.|++++|+..+++.++.+ +.+...|..++.+|
T Consensus        14 ~~~~~~G~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~   91 (126)
T 4gco_A           14 QEEKNKGNEYFKKGDYPTAMRHYNEAVKRD-PENAILYSNRAACLTKLMEFQRALDDCDTCIRLD-SKFIKGYIRKAACL   91 (126)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhh-hhhhHHHHHHHHHH
Confidence            346667777888888888888888887753 3466778888888888888888888888888754 55677888888888


Q ss_pred             HhcCCHHHHHHHHHHHHHcCCCC-CHHHHHHHHH
Q 003295          753 CKLGDMKEAAKLLNVMAEKGISP-DSITYNVFMD  785 (833)
Q Consensus       753 ~~~g~~~~A~~~~~~m~~~g~~p-~~~~~~~l~~  785 (833)
                      ...|++++|++.|+++++.  .| +...+..|..
T Consensus        92 ~~~~~~~~A~~~~~~al~l--~P~~~~a~~~l~~  123 (126)
T 4gco_A           92 VAMREWSKAQRAYEDALQV--DPSNEEAREGVRN  123 (126)
T ss_dssp             HHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHH--CcCCHHHHHHHHH
Confidence            8888888888888888883  45 4555555543

>1hh8_A P67PHOX, NCF-2, neutrophil cytosol factor 2; cell cycle, phagocyte oxidase factor, SH3 domain, repeat, TPR repeat cell cycle; HET: FLC; 1.8A {Homo sapiens} SCOP: a.118.8.1 PDB: 1wm5_A 1e96_B*

Probab=98.55  E-value=4.2e-06  Score=80.68  Aligned_cols=126  Identities=10%  Similarity=-0.043  Sum_probs=81.6

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhc
Q 003295          221 CNFLLNSLVKANEVQKGIEVFETMCRGVSPDVFLFSTAINAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIHGLCRN  300 (833)
Q Consensus       221 ~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~  300 (833)
                      +..+...+.+.|++++|...|++..   .|+..+|..+..+|.+.|++++|.+.|++..+... .+...|..+...|.+.
T Consensus         9 ~~~~g~~~~~~~~~~~A~~~~~~a~---~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~-~~~~~~~~lg~~~~~~   84 (213)
T 1hh8_A            9 LWNEGVLAADKKDWKGALDAFSAVQ---DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRDK-HLAVAYFQRGMLYYQT   84 (213)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHTSS---SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHc---CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCc-cchHHHHHHHHHHHHc
Confidence            3444555666777777777776663   44666777777777777777777777777766532 2456666777777777


Q ss_pred             CChhHHHHHHHHHHhCCCCCCh----------------hhHHHHHHHHHhcCChhHHHHHHHHHHHC
Q 003295          301 GRLYEAFHLKEKMVLREVEPSL----------------ITYSILINGLIKLEKFDDANFVLKEMSVR  351 (833)
Q Consensus       301 g~~~~A~~~~~~m~~~~~~p~~----------------~t~~~li~~~~~~g~~~~A~~~~~~m~~~  351 (833)
                      |++++|.+.|++..+.. +.+.                ..+..+...+.+.|++++|...|++..+.
T Consensus        85 ~~~~~A~~~~~~al~~~-~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~  150 (213)
T 1hh8_A           85 EKYDLAIKDLKEALIQL-RGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSM  150 (213)
T ss_dssp             TCHHHHHHHHHHHHHTT-TTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             ccHHHHHHHHHHHHHhC-CCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHc
Confidence            77777777777776642 1111                45566666666777777777777766655

>2vgx_A Chaperone SYCD; alternative dimer assembly, tetratricopeptide repeat, type III secretion; HET: MLY; 1.95A {Yersinia enterocolitica} SCOP: k.38.1.1 PDB: 2vgx_B* 2vgy_A*

Probab=98.53  E-value=3.6e-07  Score=82.36  Aligned_cols=97  Identities=12%  Similarity=0.012  Sum_probs=60.6

Q ss_pred             hhHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 003295          707 VACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISPDSITYNVFMDG  786 (833)
Q Consensus       707 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~  786 (833)
                      ...+..+...+.+.|++++|...|++..+.. +.+...|..+..+|...|++++|++.++++++.. +.+...+..++.+
T Consensus        21 ~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg~~   98 (148)
T 2vgx_A           21 LEQLYSLAFNQYQSGXYEDAHXVFQALCVLD-HYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMD-IXEPRFPFHAAEC   98 (148)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHHcC-cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCchHHHHHHHH
Confidence            3445555666666666666666666666543 4455666666666666666666666666666632 2244566666666


Q ss_pred             HhcCCCHHHHHHHHHHHHH
Q 003295          787 HCKGGNVEEAFKVCDRMLS  805 (833)
Q Consensus       787 ~~~~g~~~~A~~~~~~m~~  805 (833)
                      |...|++++|.+.|++.++
T Consensus        99 ~~~~g~~~~A~~~~~~al~  117 (148)
T 2vgx_A           99 LLQXGELAEAESGLFLAQE  117 (148)
T ss_dssp             HHHTTCHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHH
Confidence            6666666666666666665

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.52  E-value=3.5e-07  Score=90.34  Aligned_cols=187  Identities=11%  Similarity=-0.027  Sum_probs=135.5

Q ss_pred             hccCHHHHHHHHHHHHhCCCCCCHHHHHHH-------HHHHHhcCChhHHHHHHHHhhcCCCCC----------------
Q 003295          195 KNLGFGYAIDVFSIFSSKGIFPSLKTCNFL-------LNSLVKANEVQKGIEVFETMCRGVSPD----------------  251 (833)
Q Consensus       195 ~~~~~~~A~~~f~~~~~~~~~p~~~~~~~l-------l~~~~~~g~~~~A~~~~~~~~~~~~~~----------------  251 (833)
                      ..++...|.+.|.++.+.++. ....|+.+       ..++.+.++..+++..++..+. ..|+                
T Consensus        18 ~~~d~~~A~~~F~~a~~~dP~-~~Daw~g~~a~g~~~~~~L~~~~r~~~a~~~~~~~l~-l~p~~l~a~~~~~g~y~~~~   95 (282)
T 4f3v_A           18 LPMSEARSLDLFTEITNYDES-ACDAWIGRIRCGDTDRVTLFRAWYSRRNFGQLSGSVQ-ISMSTLNARIAIGGLYGDIT   95 (282)
T ss_dssp             TTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHTTCCCHHHHHHHHHTGGGTTHHHHTTT-CCGGGGCCEEECCTTTCCCE
T ss_pred             cCCCHHHHHHHHHHHHHhChh-hhHHHHhHHHccCCcHHHHHHHHHHHHHHHHHHHHhc-CChhhhhhhhccCCcccccc
Confidence            467889999999999888766 68889888       6888888888888888777652 2221                


Q ss_pred             ------HHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCC--hh
Q 003295          252 ------VFLFSTAINAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIHGLCRNGRLYEAFHLKEKMVLREVEPS--LI  323 (833)
Q Consensus       252 ------~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~--~~  323 (833)
                            ...+......+...|++++|.++|+.+...+  |+......+...+.+.|++++|+..|+...... .|.  ..
T Consensus        96 ~~v~~r~dl~LayA~~L~~~g~y~eA~~~l~~~~~~~--p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~~-d~~~~~~  172 (282)
T 4f3v_A           96 YPVTSPLAITMGFAACEAAQGNYADAMEALEAAPVAG--SEHLVAWMKAVVYGAAERWTDVIDQVKSAGKWP-DKFLAGA  172 (282)
T ss_dssp             EECSSHHHHHHHHHHHHHHHTCHHHHHHHHTSSCCTT--CHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGCS-CHHHHHH
T ss_pred             cccCCHhHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CchHHHHHHHHHHHHcCCHHHHHHHHHHhhccC-CcccHHH
Confidence                  1223446677888999999999998887654  443366666667888899999999987655431 111  23


Q ss_pred             hHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCC--hhhHHHHHHHHHHcCChHHHHHHHHHHHhC
Q 003295          324 TYSILINGLIKLEKFDDANFVLKEMSVRGFVPN--YVVYNTLIDGYCKKGNISEALKIRDDMVSK  386 (833)
Q Consensus       324 t~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~--~~~y~~li~~~~~~g~~~~A~~~~~~m~~~  386 (833)
                      .+..+...+.+.|++++|+..|++.......|.  .........++.+.|+.++|..+|+++...
T Consensus       173 a~~~LG~al~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~  237 (282)
T 4f3v_A          173 AGVAHGVAAANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTT  237 (282)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            567777888888888888888888874322143  235556666777888888888888888875

>1a17_A Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, S helix; 2.45A {Homo sapiens} SCOP: a.118.8.1 PDB: 2bug_A

Probab=98.51  E-value=2.9e-06  Score=77.85  Aligned_cols=130  Identities=12%  Similarity=0.008  Sum_probs=89.8

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 003295          673 VTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGY  752 (833)
Q Consensus       673 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~  752 (833)
                      ..+..+...+...|++++|...|++..+.. +.+...+..+...+...|++++|...+++..+.. +.+...|..++.++
T Consensus        14 ~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~~   91 (166)
T 1a17_A           14 EELKTQANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASN   91 (166)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHH
Confidence            345566666777777777777777777652 3356677777777777888888888888777653 44667777788888


Q ss_pred             HhcCCHHHHHHHHHHHHHcCCCCCHHHHHH--HHHHHhcCCCHHHHHHHHHHHHH
Q 003295          753 CKLGDMKEAAKLLNVMAEKGISPDSITYNV--FMDGHCKGGNVEEAFKVCDRMLS  805 (833)
Q Consensus       753 ~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~--l~~~~~~~g~~~~A~~~~~~m~~  805 (833)
                      ...|++++|.+.++++.+.. +.+...+..  ++..+...|++++|.+.++....
T Consensus        92 ~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~  145 (166)
T 1a17_A           92 MALGKFRAALRDYETVVKVK-PHDKDAKMKYQECNKIVKQKAFERAIAGDEHKRS  145 (166)
T ss_dssp             HHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHHHHcccchHH
Confidence            88888888888888887742 224444433  33336677888888887776543

>2c2l_A CHIP, carboxy terminus of HSP70-interacting protein; chaperone, E3 ligase, ubiquitinylation, TPR, heat-shock protein complex; 3.3A {Mus musculus} SCOP: a.118.8.1 g.44.1.2

Probab=98.50  E-value=4.2e-07  Score=92.16  Aligned_cols=193  Identities=9%  Similarity=-0.023  Sum_probs=121.6

Q ss_pred             CHHHHHHHHHHHHhcCChhHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHH
Q 003295          217 SLKTCNFLLNSLVKANEVQKGIEVFETMCRGVSPDVFLFSTAINAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIHG  296 (833)
Q Consensus       217 ~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~  296 (833)
                      +...+..+...+.+.|++++|...|++.+...+.+...|..+..+|.+.|++++|...+++..+... .+...+..+..+
T Consensus         3 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~lg~~   81 (281)
T 2c2l_A            3 SAQELKEQGNRLFVGRKYPEAAACYGRAITRNPLVAVYYTNRALCYLKMQQPEQALADCRRALELDG-QSVKAHFFLGQC   81 (281)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCT-TCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCC-CCHHHHHHHHHH
Confidence            4566777788888888888888888888854556778888888888888888888888888887643 256778888888


Q ss_pred             HHhcCChhHHHHHHHHHHhCCCCCCh-hhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHHcCChHH
Q 003295          297 LCRNGRLYEAFHLKEKMVLREVEPSL-ITYSILINGLIKLEKFDDANFVLKEMSVRGFVPNYVVYNTLIDGYCKKGNISE  375 (833)
Q Consensus       297 ~~~~g~~~~A~~~~~~m~~~~~~p~~-~t~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~  375 (833)
                      |...|++++|...|++..+.+  |+. ..+...+....+.   .++... ..........+......+.. + ..|+.++
T Consensus        82 ~~~~g~~~~A~~~~~~al~l~--p~~~~~~~~~~~~~~~~---~~~~~~-~~~~~~~~~~~~~i~~~l~~-l-~~~~~~~  153 (281)
T 2c2l_A           82 QLEMESYDEAIANLQRAYSLA--KEQRLNFGDDIPSALRI---AKKKRW-NSIEERRIHQESELHSYLTR-L-IAAERER  153 (281)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHH--HHTTCCCCSHHHHHHHH---HHHHHH-HHHHHTCCCCCCHHHHHHHH-H-HHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhC--ccchhhHHHHHHHHHHH---HHHHHH-HHHHHHHHhhhHHHHHHHHH-H-HHHHHHH
Confidence            888888888888888877642  221 1111122211111   111111 11222222334433333322 2 3688888


Q ss_pred             HHHHHHHHHhCCCCCCh-hHHHHHHHHHHhc-CChhHHHHHHHHHHH
Q 003295          376 ALKIRDDMVSKGMSPNS-VTFNSLIHGFCKS-GQMDNAENALEEMLS  420 (833)
Q Consensus       376 A~~~~~~m~~~g~~p~~-~~~~~li~~~~~~-g~~~~A~~~l~~~~~  420 (833)
                      |.+.+++..+.  .|+. .....+...+.+. +.+++|.++|+++.+
T Consensus       154 A~~~~~~al~~--~p~~~~~~~~l~~~~~~~~~~~~~a~~~f~~a~~  198 (281)
T 2c2l_A          154 ELEECQRNHEG--HEDDGHIRAQQACIEAKHDKYMADMDELFSQVDE  198 (281)
T ss_dssp             HHTTTSGGGTT--TSCHHHHTHHHHHHHHHHHHHHHHHHHHHHHSSC
T ss_pred             HHHHHHhhhcc--ccchhhhhhHHHHHHHHHHHHHHHHHHHHHhhhc
Confidence            88888877764  4443 3333343444444 667788888887765

>1a17_A Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, S helix; 2.45A {Homo sapiens} SCOP: a.118.8.1 PDB: 2bug_A

Probab=98.47  E-value=3e-06  Score=77.74  Aligned_cols=127  Identities=15%  Similarity=0.098  Sum_probs=67.5

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHh
Q 003295          220 TCNFLLNSLVKANEVQKGIEVFETMCRGVSPDVFLFSTAINAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIHGLCR  299 (833)
Q Consensus       220 ~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~  299 (833)
                      .|..+...+...|++++|...|++.....+.+..++..+..++...|++++|...|++..+... .+...|..+...+.+
T Consensus        15 ~~~~~a~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~~a~~~~~   93 (166)
T 1a17_A           15 ELKTQANDYFKAKDYENAIKFYSQAIELNPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDK-KYIKGYYRRAASNMA   93 (166)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCc-ccHHHHHHHHHHHHH
Confidence            3445555556666666666666666533344555666666666666666666666666655432 234555555666666


Q ss_pred             cCChhHHHHHHHHHHhCCCCCChhhHHHH--HHHHHhcCChhHHHHHHHHH
Q 003295          300 NGRLYEAFHLKEKMVLREVEPSLITYSIL--INGLIKLEKFDDANFVLKEM  348 (833)
Q Consensus       300 ~g~~~~A~~~~~~m~~~~~~p~~~t~~~l--i~~~~~~g~~~~A~~~~~~m  348 (833)
                      .|++++|...|+++.+.. +.+...+..+  +..+.+.|++++|...++..
T Consensus        94 ~~~~~~A~~~~~~a~~~~-p~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~  143 (166)
T 1a17_A           94 LGKFRAALRDYETVVKVK-PHDKDAKMKYQECNKIVKQKAFERAIAGDEHK  143 (166)
T ss_dssp             TTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHHHHcccch
Confidence            666666666666655432 1222233222  22244445555555554443

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.47  E-value=8.1e-06  Score=83.29  Aligned_cols=127  Identities=11%  Similarity=-0.006  Sum_probs=58.1

Q ss_pred             HHHHHHHhcCChhHHHHHHHHhhcCCCCCH------HHHHHHHHHHHhcCChhHHHHHHHHHHHcCCC---CC--hhhHH
Q 003295          223 FLLNSLVKANEVQKGIEVFETMCRGVSPDV------FLFSTAINAFCKRGRIEDAIGLFTKMEELGIA---PN--VVTYN  291 (833)
Q Consensus       223 ~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~------~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~---p~--~~~~~  291 (833)
                      ..+..+...|++++|...+++.....+...      ..+..+...+...|++++|...|++..+....   +.  ..+|+
T Consensus        80 ~~~~~~~~~~~y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  159 (293)
T 2qfc_A           80 DQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIEN  159 (293)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHHHHHHH
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHHHHHHH
Confidence            344455566666666666655552111111      12233444445555666666666555432111   11  22455


Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHhCC-CCCC-----hhhHHHHHHHHHhcCChhHHHHHHHHHH
Q 003295          292 NIIHGLCRNGRLYEAFHLKEKMVLRE-VEPS-----LITYSILINGLIKLEKFDDANFVLKEMS  349 (833)
Q Consensus       292 ~li~~~~~~g~~~~A~~~~~~m~~~~-~~p~-----~~t~~~li~~~~~~g~~~~A~~~~~~m~  349 (833)
                      .+...|...|++++|...|+++.+.. ..|+     ..+|..+...|.+.|++++|...+++..
T Consensus       160 ~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal  223 (293)
T 2qfc_A          160 AIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAI  223 (293)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHH
Confidence            55555555555555555555554110 0011     1244444444445555555555444443

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.46  E-value=2.3e-06  Score=77.00  Aligned_cols=103  Identities=17%  Similarity=0.091  Sum_probs=75.3

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 003295          672 SVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGG  751 (833)
Q Consensus       672 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~  751 (833)
                      ...+..+...+.+.|++++|...|+++++.. +.+...|..+..+|...|++++|+..|+++.+.. +.+...|..+..+
T Consensus        36 ~~~~~~lg~~~~~~g~~~eA~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~-P~~~~~~~~lg~~  113 (151)
T 3gyz_A           36 MDDIYSYAYDFYNKGRIEEAEVFFRFLCIYD-FYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALG-KNDYTPVFHTGQC  113 (151)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-SSCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-CCCcHHHHHHHHH
Confidence            3456666777777888888888888877753 3356777777788888888888888888887753 4456777788888


Q ss_pred             HHhcCCHHHHHHHHHHHHHcCCCCCHH
Q 003295          752 YCKLGDMKEAAKLLNVMAEKGISPDSI  778 (833)
Q Consensus       752 ~~~~g~~~~A~~~~~~m~~~g~~p~~~  778 (833)
                      |...|++++|+..|+++++.  .|+..
T Consensus       114 ~~~lg~~~eA~~~~~~al~l--~~~~~  138 (151)
T 3gyz_A          114 QLRLKAPLKAKECFELVIQH--SNDEK  138 (151)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH--CCCHH
T ss_pred             HHHcCCHHHHHHHHHHHHHh--CCCHH
Confidence            88888888888888888773  46553

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.46  E-value=1.1e-06  Score=84.00  Aligned_cols=84  Identities=8%  Similarity=-0.077  Sum_probs=34.6

Q ss_pred             cCChhHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHc----CCC-CChhhHHHHHHHHHhcCChhH
Q 003295          231 ANEVQKGIEVFETMCRGVSPDVFLFSTAINAFCKRGRIEDAIGLFTKMEEL----GIA-PNVVTYNNIIHGLCRNGRLYE  305 (833)
Q Consensus       231 ~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----g~~-p~~~~~~~li~~~~~~g~~~~  305 (833)
                      .|++++|.+.++...........++..+...+...|++++|...|++..+.    |.. ....+++.+...|...|++++
T Consensus         5 ~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~   84 (203)
T 3gw4_A            5 AHDYALAERQAQALLAHPATASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAGNWDA   84 (203)
T ss_dssp             --CHHHHHHHHHHHHTSTTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             cccHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcCCHHH
Confidence            444555544333222111123344444555555555555555555544331    000 112334444444555555555


Q ss_pred             HHHHHHHHH
Q 003295          306 AFHLKEKMV  314 (833)
Q Consensus       306 A~~~~~~m~  314 (833)
                      |.+.+++..
T Consensus        85 A~~~~~~al   93 (203)
T 3gw4_A           85 ARRCFLEER   93 (203)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            555544443

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.46  E-value=3e-06  Score=73.16  Aligned_cols=98  Identities=20%  Similarity=0.228  Sum_probs=56.5

Q ss_pred             HHHHHHHHHHHHhcCChhHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHH
Q 003295          218 LKTCNFLLNSLVKANEVQKGIEVFETMCRGVSPDVFLFSTAINAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIHGL  297 (833)
Q Consensus       218 ~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~  297 (833)
                      ..+|..+...+.+.|++++|...|+++....+.+..++..+...+.+.|++++|...|+++.+... .+..++..+...|
T Consensus         9 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~la~~~   87 (125)
T 1na0_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDP-NNAEAWYNLGNAY   87 (125)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCC-ccHHHHHHHHHHH
Confidence            345555556666666666666666666533344555566666666666666666666666655432 2445555555666


Q ss_pred             HhcCChhHHHHHHHHHHhC
Q 003295          298 CRNGRLYEAFHLKEKMVLR  316 (833)
Q Consensus       298 ~~~g~~~~A~~~~~~m~~~  316 (833)
                      .+.|++++|...++++.+.
T Consensus        88 ~~~~~~~~A~~~~~~~~~~  106 (125)
T 1na0_A           88 YKQGDYDEAIEYYQKALEL  106 (125)
T ss_dssp             HHTTCHHHHHHHHHHHHHH
T ss_pred             HHhcCHHHHHHHHHHHHHh
Confidence            6666666666666655543

>3dss_A Geranylgeranyl transferase type-2 subunit alpha; protein prenylation, metal-binding, prenyltransferase, zinc, phosphoprotein; 1.80A {Rattus norvegicus} PDB: 3dst_A* 3dsu_A* 3dsv_A* 3dsw_A* 3dsx_A* 3hxb_A* 3hxc_A* 3hxd_A* 3hxe_A* 3hxf_A* 3pz1_A* 3pz2_A* 3pz3_A* 3c72_A* 4gtv_A* 4gts_A* 4ehm_A* 4gtt_A*

Probab=98.45  E-value=6.3e-05  Score=76.55  Aligned_cols=192  Identities=5%  Similarity=-0.030  Sum_probs=90.7

Q ss_pred             HHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCC--hHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC-HHHHHHHH
Q 003295          619 EEGETLFNEMISKKMELNPVVYNTLIRAYCKIGN--TTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIGL-IEDAKCLF  695 (833)
Q Consensus       619 ~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~--~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~-~~~A~~~~  695 (833)
                      ++++.+++.++...++ +..+|+.-...+.+.|+  +++++++++++.+.. +-|...|+--...+...|. ++++++.+
T Consensus        91 ~~EL~~~~~~L~~~PK-ny~aW~hR~wlL~~l~~~~~~~EL~~~~k~l~~d-prNy~AW~~R~~vl~~l~~~~~eel~~~  168 (331)
T 3dss_A           91 KAELGFLESCLRVNPK-SYGTWHHRCWLLSRLPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFT  168 (331)
T ss_dssp             HHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHCSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCC-CHHHHHHHHHHHhccCcccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhCcCHHHHHHHH
Confidence            3444444444444333 44444444444444442  445555555554443 2244444444444444444 34555555


Q ss_pred             HHHHHCCCCCChhHHHHHHHHHHhc--------------CChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc------
Q 003295          696 DEMRKEGLLPNVACYTALIGGYCKL--------------GQMDEAESVLQEMASINIHPNKITYTIMIGGYCKL------  755 (833)
Q Consensus       696 ~~m~~~g~~p~~~~~~~li~~~~~~--------------g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~------  755 (833)
                      +++++.. +-|...|+.....+.+.              +.++++++.+.+.+... +-|...|+-+-..+.+.      
T Consensus       169 ~~~I~~~-p~N~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~~~eEle~~~~ai~~~-P~d~SaW~Y~r~ll~~~~~~~~~  246 (331)
T 3dss_A          169 DSLITRN-FSNYSSWHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFTD-PNDQSAWFYHRWLLGAGSGRCEL  246 (331)
T ss_dssp             HHHHHHC-SCCHHHHHHHHHHHHHHSCCC------CCCHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHSSSCGGGC
T ss_pred             HHHHHHC-CCCHHHHHHHHHHHHHhhhccccccccccchHHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhccCcccc
Confidence            5555432 22334444433333332              23455566666555532 44455555444444433      


Q ss_pred             -----CCHHHHHHHHHHHHHcCCCCCH-HHHHHH---HHHHhcCCCHHHHHHHHHHHHHCCCCCC-HHHHHHH
Q 003295          756 -----GDMKEAAKLLNVMAEKGISPDS-ITYNVF---MDGHCKGGNVEEAFKVCDRMLSEGLSLD-EITYTTL  818 (833)
Q Consensus       756 -----g~~~~A~~~~~~m~~~g~~p~~-~~~~~l---~~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~~~~~l  818 (833)
                           +.++++++.++++.+  +.||. ..+..+   ..+....|..+++..++.++.+  +.|. ..-|.-+
T Consensus       247 ~~~~~~~l~~el~~~~elle--~~pd~~w~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~--~Dp~r~~~y~d~  315 (331)
T 3dss_A          247 SVEKSTVLQSELESCKELQE--LEPENKWCLLTIILLMRALDPLLYEKETLQYFSTLKA--VDPMRAAYLDDL  315 (331)
T ss_dssp             CHHHHHHHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHHCTTTTHHHHHHHHHHHHH--HCGGGHHHHHHH
T ss_pred             chHHHHHHHHHHHHHHHHHh--hCcccchHHHHHHHHHHhhcccccHHHHHHHHHHHHH--hCcchhhHHHHH
Confidence                 346677777777776  34543 122111   1222345666777777777776  5555 4444443

>2e2e_A Formate-dependent nitrite reductase complex NRFG; TPR, cytochrome C biogenesis, O157:H7 EDL933, formate- nitrite reductase complex, lyase; 2.05A {Escherichia coli}

Probab=98.45  E-value=1.1e-06  Score=81.99  Aligned_cols=120  Identities=11%  Similarity=0.088  Sum_probs=71.7

Q ss_pred             HHcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhHHHHHHHH-HHhcCCh--h
Q 003295          648 CKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGG-YCKLGQM--D  724 (833)
Q Consensus       648 ~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~-~~~~g~~--~  724 (833)
                      ...|++++|...+++..+.. +.+...+..+...+...|++++|...|+++.+.. +.+...+..+... +...|++  +
T Consensus        21 ~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~l~~~~~~~~~~   98 (177)
T 2e2e_A           21 ASQQNPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLR-GENAELYAALATVLYYQASQHMTA   98 (177)
T ss_dssp             C-----CCCCHHHHHHHHHC-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH-CSCHHHHHHHHHHHHHHTTTCCCH
T ss_pred             hhccCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhcCCcchH
Confidence            34566666666666666543 3355666666666666777777777776666542 2345555556666 5566666  6


Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 003295          725 EAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAE  770 (833)
Q Consensus       725 ~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  770 (833)
                      +|...++++.+.. +.+...+..++..|...|++++|...++++++
T Consensus        99 ~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  143 (177)
T 2e2e_A           99 QTRAMIDKALALD-SNEITALMLLASDAFMQANYAQAIELWQKVMD  143 (177)
T ss_dssp             HHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcccHHHHHHHHHHHHh
Confidence            6777666666543 33455666666666666777777776666666

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.44  E-value=6.1e-06  Score=71.21  Aligned_cols=112  Identities=18%  Similarity=0.196  Sum_probs=57.6

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 003295          673 VTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGY  752 (833)
Q Consensus       673 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~  752 (833)
                      ..+..+...+...|++++|.++++++.+.. +.+...+..+...+.+.|++++|...++++.+.. +.+..++..++..+
T Consensus        10 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~   87 (125)
T 1na0_A           10 EAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAY   87 (125)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHH
Confidence            344445555555555555555555555432 2234455555555555555555555555555432 33445555555555


Q ss_pred             HhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 003295          753 CKLGDMKEAAKLLNVMAEKGISPDSITYNVFMDGH  787 (833)
Q Consensus       753 ~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~  787 (833)
                      ...|++++|...++++.+.. +.+...+..+...+
T Consensus        88 ~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~  121 (125)
T 1na0_A           88 YKQGDYDEAIEYYQKALELD-PNNAEAKQNLGNAK  121 (125)
T ss_dssp             HHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHH
Confidence            56666666666665555532 22334444444443

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.41  E-value=4.2e-06  Score=73.37  Aligned_cols=99  Identities=11%  Similarity=0.039  Sum_probs=59.4

Q ss_pred             CHHHHHHHHHHHHhcCChhHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHH
Q 003295          217 SLKTCNFLLNSLVKANEVQKGIEVFETMCRGVSPDVFLFSTAINAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIHG  296 (833)
Q Consensus       217 ~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~  296 (833)
                      +...|..+...+.+.|++++|...|++...-.+.+..++..+..++...|++++|...|++..+... .+...+..+...
T Consensus        15 ~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~la~~   93 (133)
T 2lni_A           15 LALMVKNKGNECFQKGDYPQAMKHYTEAIKRNPKDAKLYSNRAACYTKLLEFQLALKDCEECIQLEP-TFIKGYTRKAAA   93 (133)
T ss_dssp             HHHHHHHHHHHHHHTTCSHHHHHHHHHHHTTCTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCC-CchHHHHHHHHH
Confidence            3455556666666666666666666666644444556666666666666666666666666665432 244555556666


Q ss_pred             HHhcCChhHHHHHHHHHHhC
Q 003295          297 LCRNGRLYEAFHLKEKMVLR  316 (833)
Q Consensus       297 ~~~~g~~~~A~~~~~~m~~~  316 (833)
                      +.+.|++++|.+.|++..+.
T Consensus        94 ~~~~~~~~~A~~~~~~~~~~  113 (133)
T 2lni_A           94 LEAMKDYTKAMDVYQKALDL  113 (133)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHhhHHHHHHHHHHHHHh
Confidence            66666666666666665543

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.41  E-value=1.6e-06  Score=82.76  Aligned_cols=154  Identities=10%  Similarity=-0.024  Sum_probs=105.9

Q ss_pred             hccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHhhc------CCCCCHHHHHHHHHHHHhcCCh
Q 003295          195 KNLGFGYAIDVFSIFSSKGIFPSLKTCNFLLNSLVKANEVQKGIEVFETMCR------GVSPDVFLFSTAINAFCKRGRI  268 (833)
Q Consensus       195 ~~~~~~~A~~~f~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~------~~~~~~~~~~~li~~~~~~g~~  268 (833)
                      ..|++++|.+.++.+.. .+.....+++.+...+...|++++|...|++...      ..+....++..+...+...|++
T Consensus         4 ~~g~~~~A~~~~~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~   82 (203)
T 3gw4_A            4 EAHDYALAERQAQALLA-HPATASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAGNW   82 (203)
T ss_dssp             ---CHHHHHHHHHHHHT-STTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCH
T ss_pred             ccccHHHHHHHHHHhcC-ChHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcCCH
Confidence            46889999996555443 3334678899999999999999999999999873      2223356788899999999999


Q ss_pred             hHHHHHHHHHHHc----CCCC--ChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCC-CCC----hhhHHHHHHHHHhcCC
Q 003295          269 EDAIGLFTKMEEL----GIAP--NVVTYNNIIHGLCRNGRLYEAFHLKEKMVLREV-EPS----LITYSILINGLIKLEK  337 (833)
Q Consensus       269 ~~A~~~~~~m~~~----g~~p--~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~-~p~----~~t~~~li~~~~~~g~  337 (833)
                      ++|.+.+++..+.    +-.+  ....+..+...+...|++++|...+++.....- ..+    ..++..+...+...|+
T Consensus        83 ~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~  162 (203)
T 3gw4_A           83 DAARRCFLEERELLASLPEDPLAASANAYEVATVALHFGDLAGARQEYEKSLVYAQQADDQVAIACAFRGLGDLAQQEKN  162 (203)
T ss_dssp             HHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHCcC
Confidence            9999999997653    1111  134577788888888999999988888764210 011    1223455555556666


Q ss_pred             hhHHHHHHHHHH
Q 003295          338 FDDANFVLKEMS  349 (833)
Q Consensus       338 ~~~A~~~~~~m~  349 (833)
                      +++|...+++..
T Consensus       163 ~~~A~~~~~~al  174 (203)
T 3gw4_A          163 LLEAQQHWLRAR  174 (203)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            666666555554

>2vgx_A Chaperone SYCD; alternative dimer assembly, tetratricopeptide repeat, type III secretion; HET: MLY; 1.95A {Yersinia enterocolitica} SCOP: k.38.1.1 PDB: 2vgx_B* 2vgy_A*

Probab=98.40  E-value=1.1e-06  Score=79.11  Aligned_cols=109  Identities=15%  Similarity=0.019  Sum_probs=80.4

Q ss_pred             HHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCC
Q 003295          206 FSIFSSKGIFPSLKTCNFLLNSLVKANEVQKGIEVFETMCRGVSPDVFLFSTAINAFCKRGRIEDAIGLFTKMEELGIAP  285 (833)
Q Consensus       206 f~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p  285 (833)
                      |+++.+..+. +...+..+...+.+.|++++|...|++.+.-.+.+...|..+..+|.+.|++++|...|++.....+. 
T Consensus        10 ~~~al~~~p~-~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~-   87 (148)
T 2vgx_A           10 IAMLNEISSD-TLEQLYSLAFNQYQSGXYEDAHXVFQALCVLDHYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMDIX-   87 (148)
T ss_dssp             HHHHTTCCHH-HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-
T ss_pred             HHHHHcCCHh-hHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCC-
Confidence            4444443322 45566777778888888888888888887545667778888888888888888888888888776432 


Q ss_pred             ChhhHHHHHHHHHhcCChhHHHHHHHHHHhC
Q 003295          286 NVVTYNNIIHGLCRNGRLYEAFHLKEKMVLR  316 (833)
Q Consensus       286 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  316 (833)
                      +...|..+...|...|++++|...|++..+.
T Consensus        88 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~  118 (148)
T 2vgx_A           88 EPRFPFHAAECLLQXGELAEAESGLFLAQEL  118 (148)
T ss_dssp             CTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CchHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            5667777888888888888888888887764

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.40  E-value=5.5e-06  Score=72.19  Aligned_cols=117  Identities=14%  Similarity=0.060  Sum_probs=69.8

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 003295          673 VTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGY  752 (833)
Q Consensus       673 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~  752 (833)
                      ..+..+...+...|++++|...++++.+.. +.+...+..+...+...|++++|...+++..+.. +.+...+..++..+
T Consensus        13 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~   90 (131)
T 2vyi_A           13 ERLKTEGNEQMKVENFEAAVHFYGKAIELN-PANAVYFCNRAAAYSKLGNYAGAVQDCERAICID-PAYSKAYGRMGLAL   90 (131)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcC-ccCHHHHHHHHHHH
Confidence            345555556666666666666666666542 2345556666666666666666666666666542 33455666666666


Q ss_pred             HhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCC
Q 003295          753 CKLGDMKEAAKLLNVMAEKGISPDSITYNVFMDGHCKGGN  792 (833)
Q Consensus       753 ~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~  792 (833)
                      ...|++++|.+.++++.+.. +.+...+..+...+...|+
T Consensus        91 ~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~  129 (131)
T 2vyi_A           91 SSLNKHVEAVAYYKKALELD-PDNETYKSNLKIAELKLRE  129 (131)
T ss_dssp             HHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTT
T ss_pred             HHhCCHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHHhc
Confidence            66666667766666666642 2245556666666655554

>2c2l_A CHIP, carboxy terminus of HSP70-interacting protein; chaperone, E3 ligase, ubiquitinylation, TPR, heat-shock protein complex; 3.3A {Mus musculus} SCOP: a.118.8.1 g.44.1.2

Probab=98.40  E-value=1.1e-06  Score=89.14  Aligned_cols=192  Identities=8%  Similarity=-0.030  Sum_probs=103.3

Q ss_pred             HhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 003295          602 IYTYGVMIDGFCKADKIEEGETLFNEMISKKMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHG  681 (833)
Q Consensus       602 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~  681 (833)
                      ...+..+...+.+.|++++|+..|++.++..+. +...|..+...|.+.|++++|...+++..+.. +.+...+..+..+
T Consensus         4 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~   81 (281)
T 2c2l_A            4 AQELKEQGNRLFVGRKYPEAAACYGRAITRNPL-VAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLGQC   81 (281)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCc-cHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHH
Confidence            344555566666666666666666666665433 56666666777777777777777777766653 3355666667777


Q ss_pred             HHhcCCHHHHHHHHHHHHHCCCCCCh-hHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHH
Q 003295          682 LCNIGLIEDAKCLFDEMRKEGLLPNV-ACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKE  760 (833)
Q Consensus       682 ~~~~g~~~~A~~~~~~m~~~g~~p~~-~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~  760 (833)
                      +...|++++|...|+++.+.  .|+. ..+...+....+.   .++.. +........+.+......+...  ..|++++
T Consensus        82 ~~~~g~~~~A~~~~~~al~l--~p~~~~~~~~~~~~~~~~---~~~~~-~~~~~~~~~~~~~~i~~~l~~l--~~~~~~~  153 (281)
T 2c2l_A           82 QLEMESYDEAIANLQRAYSL--AKEQRLNFGDDIPSALRI---AKKKR-WNSIEERRIHQESELHSYLTRL--IAAERER  153 (281)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH--HHHTTCCCCSHHHHHHHH---HHHHH-HHHHHHTCCCCCCHHHHHHHHH--HHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHh--CccchhhHHHHHHHHHHH---HHHHH-HHHHHHHHHhhhHHHHHHHHHH--HHHHHHH
Confidence            77777777777777776653  1211 1111111111111   11111 1112222234444444444322  2577777


Q ss_pred             HHHHHHHHHHcCCCCCH-HHHHHHHHHHhcC-CCHHHHHHHHHHHHH
Q 003295          761 AAKLLNVMAEKGISPDS-ITYNVFMDGHCKG-GNVEEAFKVCDRMLS  805 (833)
Q Consensus       761 A~~~~~~m~~~g~~p~~-~~~~~l~~~~~~~-g~~~~A~~~~~~m~~  805 (833)
                      |++.++++.+  ..|+. .....+...+.+. +.+++|.++|..+.+
T Consensus       154 A~~~~~~al~--~~p~~~~~~~~l~~~~~~~~~~~~~a~~~f~~a~~  198 (281)
T 2c2l_A          154 ELEECQRNHE--GHEDDGHIRAQQACIEAKHDKYMADMDELFSQVDE  198 (281)
T ss_dssp             HHTTTSGGGT--TTSCHHHHTHHHHHHHHHHHHHHHHHHHHHHHSSC
T ss_pred             HHHHHHhhhc--cccchhhhhhHHHHHHHHHHHHHHHHHHHHHhhhc
Confidence            7777777666  34543 3333343334443 556777777776654

>4gcn_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; HET: PGE; 1.85A {Caenorhabditis elegans}

Probab=98.40  E-value=2.5e-06  Score=74.50  Aligned_cols=104  Identities=15%  Similarity=0.094  Sum_probs=61.4

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC--CCCC----HHHHHH
Q 003295          709 CYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAEKG--ISPD----SITYNV  782 (833)
Q Consensus       709 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g--~~p~----~~~~~~  782 (833)
                      .+..+...+.+.|++++|+..|++.++.. +.+...|..+..+|...|++++|++.++++++..  ..++    ..+|..
T Consensus        10 a~~~lG~~~~~~~~~~~A~~~y~~Al~~~-p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~   88 (127)
T 4gcn_A           10 AEKDLGNAAYKQKDFEKAHVHYDKAIELD-PSNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAMSR   88 (127)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHHHH
Confidence            44556666666666666666666666543 3445566666666666666666666666665521  1111    135666


Q ss_pred             HHHHHhcCCCHHHHHHHHHHHHHCCCCCCHHHH
Q 003295          783 FMDGHCKGGNVEEAFKVCDRMLSEGLSLDEITY  815 (833)
Q Consensus       783 l~~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~  815 (833)
                      ++.++...|++++|++.|++.+.  ..||....
T Consensus        89 lg~~~~~~~~~~~A~~~~~kal~--~~~~~~~~  119 (127)
T 4gcn_A           89 AGNAFQKQNDLSLAVQWFHRSLS--EFRDPELV  119 (127)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHH--HSCCHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHh--hCcCHHHH
Confidence            66666667777777777766665  34454433

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.40  E-value=4.5e-06  Score=72.76  Aligned_cols=117  Identities=14%  Similarity=0.092  Sum_probs=60.8

Q ss_pred             HHHHHHHHHHHhcCChhHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHH
Q 003295          219 KTCNFLLNSLVKANEVQKGIEVFETMCRGVSPDVFLFSTAINAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIHGLC  298 (833)
Q Consensus       219 ~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~  298 (833)
                      ..+..+...+...|++++|...|+++....+.+...+..+..++...|++++|.+.+++..+... .+...+..+...+.
T Consensus        13 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~~~~~~   91 (131)
T 2vyi_A           13 ERLKTEGNEQMKVENFEAAVHFYGKAIELNPANAVYFCNRAAAYSKLGNYAGAVQDCERAICIDP-AYSKAYGRMGLALS   91 (131)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcCc-cCHHHHHHHHHHHH
Confidence            34444555555556666666666655533334455555555555666666666666655555422 13445555555555


Q ss_pred             hcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCC
Q 003295          299 RNGRLYEAFHLKEKMVLREVEPSLITYSILINGLIKLEK  337 (833)
Q Consensus       299 ~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~  337 (833)
                      +.|++++|...+++..+.. +.+...+..+...+.+.|+
T Consensus        92 ~~~~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~  129 (131)
T 2vyi_A           92 SLNKHVEAVAYYKKALELD-PDNETYKSNLKIAELKLRE  129 (131)
T ss_dssp             HTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTT
T ss_pred             HhCCHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHHhc
Confidence            5555555555555555432 2233444444444444443

>2e2e_A Formate-dependent nitrite reductase complex NRFG; TPR, cytochrome C biogenesis, O157:H7 EDL933, formate- nitrite reductase complex, lyase; 2.05A {Escherichia coli}

Probab=98.39  E-value=2.2e-06  Score=79.88  Aligned_cols=121  Identities=7%  Similarity=0.032  Sum_probs=93.1

Q ss_pred             hccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHhhcCCCCCHHHHHHHHHH-HHhcCCh--hHH
Q 003295          195 KNLGFGYAIDVFSIFSSKGIFPSLKTCNFLLNSLVKANEVQKGIEVFETMCRGVSPDVFLFSTAINA-FCKRGRI--EDA  271 (833)
Q Consensus       195 ~~~~~~~A~~~f~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~-~~~~g~~--~~A  271 (833)
                      ..|++++|+..|+...+..+. +..+|..+...+...|++++|...|+++..-.+.+...+..+..+ +.+.|++  ++|
T Consensus        22 ~~~~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~l~~~~~~~~~~~A  100 (177)
T 2e2e_A           22 SQQNPEAQLQALQDKIRANPQ-NSEQWALLGEYYLWQNDYSNSLLAYRQALQLRGENAELYAALATVLYYQASQHMTAQT  100 (177)
T ss_dssp             -----CCCCHHHHHHHHHCCS-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHCSCHHHHHHHHHHHHHHTTTCCCHHH
T ss_pred             hccCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhcCCcchHHH
Confidence            356677888888877766543 678888888889999999999999998884445677788888888 7788888  999


Q ss_pred             HHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhCC
Q 003295          272 IGLFTKMEELGIAPNVVTYNNIIHGLCRNGRLYEAFHLKEKMVLRE  317 (833)
Q Consensus       272 ~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~  317 (833)
                      ...|+++.+.... +...+..+...|...|++++|...|+++.+..
T Consensus       101 ~~~~~~al~~~p~-~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~  145 (177)
T 2e2e_A          101 RAMIDKALALDSN-EITALMLLASDAFMQANYAQAIELWQKVMDLN  145 (177)
T ss_dssp             HHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHhCCC-cHHHHHHHHHHHHHcccHHHHHHHHHHHHhhC
Confidence            9999988876432 56778888888888999999999998888763

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.37  E-value=4.5e-06  Score=73.16  Aligned_cols=96  Identities=15%  Similarity=0.075  Sum_probs=46.9

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 003295          673 VTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGY  752 (833)
Q Consensus       673 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~  752 (833)
                      ..+..+...+...|++++|...++++.+.. +.+...+..+...+...|++++|.+.++++.+.. +.+...+..++.++
T Consensus        17 ~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~   94 (133)
T 2lni_A           17 LMVKNKGNECFQKGDYPQAMKHYTEAIKRN-PKDAKLYSNRAACYTKLLEFQLALKDCEECIQLE-PTFIKGYTRKAAAL   94 (133)
T ss_dssp             HHHHHHHHHHHHTTCSHHHHHHHHHHHTTC-TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCchHHHHHHHHHH
Confidence            344444444555555555555555554431 2234444445555555555555555555554432 23344555555555


Q ss_pred             HhcCCHHHHHHHHHHHHH
Q 003295          753 CKLGDMKEAAKLLNVMAE  770 (833)
Q Consensus       753 ~~~g~~~~A~~~~~~m~~  770 (833)
                      ...|++++|.+.++++.+
T Consensus        95 ~~~~~~~~A~~~~~~~~~  112 (133)
T 2lni_A           95 EAMKDYTKAMDVYQKALD  112 (133)
T ss_dssp             HHTTCHHHHHHHHHHHHH
T ss_pred             HHHhhHHHHHHHHHHHHH
Confidence            555555555555555544

>1p5q_A FKBP52, FK506-binding protein 4; isomerase; 2.80A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 PDB: 1qz2_A

Probab=98.35  E-value=5.9e-06  Score=86.06  Aligned_cols=95  Identities=11%  Similarity=-0.040  Sum_probs=54.3

Q ss_pred             hHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 003295          708 ACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISPDSITYNVFMDGH  787 (833)
Q Consensus       708 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~  787 (833)
                      ..|..+..+|.+.|++++|+..++++++.. +.+...|..+..+|...|++++|+..|+++++.. +.+..++..+..++
T Consensus       197 ~~~~nla~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~-P~~~~a~~~l~~~~  274 (336)
T 1p5q_A          197 ASHLNLAMCHLKLQAFSAAIESCNKALELD-SNNEKGLSRRGEAHLAVNDFELARADFQKVLQLY-PNNKAAKTQLAVCQ  274 (336)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHH
Confidence            455556666666666666666666666543 3345566666666666666666666666666531 22445566666666


Q ss_pred             hcCCCHHHH-HHHHHHHH
Q 003295          788 CKGGNVEEA-FKVCDRML  804 (833)
Q Consensus       788 ~~~g~~~~A-~~~~~~m~  804 (833)
                      ...|+.++| ...++.|.
T Consensus       275 ~~~~~~~~a~~~~~~~~~  292 (336)
T 1p5q_A          275 QRIRRQLAREKKLYANMF  292 (336)
T ss_dssp             HHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHH
Confidence            666666655 33444443

>3dss_A Geranylgeranyl transferase type-2 subunit alpha; protein prenylation, metal-binding, prenyltransferase, zinc, phosphoprotein; 1.80A {Rattus norvegicus} PDB: 3dst_A* 3dsu_A* 3dsv_A* 3dsw_A* 3dsx_A* 3hxb_A* 3hxc_A* 3hxd_A* 3hxe_A* 3hxf_A* 3pz1_A* 3pz2_A* 3pz3_A* 3c72_A* 4gtv_A* 4gts_A* 4ehm_A* 4gtt_A*

Probab=98.33  E-value=0.00011  Score=74.73  Aligned_cols=221  Identities=7%  Similarity=-0.036  Sum_probs=147.6

Q ss_pred             hccCH-HHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC----------hhHHHHHHHHhhcCCCCCHHHHHHHHHHHH
Q 003295          195 KNLGF-GYAIDVFSIFSSKGIFPSLKTCNFLLNSLVKANE----------VQKGIEVFETMCRGVSPDVFLFSTAINAFC  263 (833)
Q Consensus       195 ~~~~~-~~A~~~f~~~~~~~~~p~~~~~~~ll~~~~~~g~----------~~~A~~~~~~~~~~~~~~~~~~~~li~~~~  263 (833)
                      +.|.+ ++|++.++.++..++. +..+||.--..+...+.          +++++.+++.++...|-+..+|+--.-++.
T Consensus        41 ~~~e~s~eaL~~t~~~L~~nP~-~ytaWn~Rr~iL~~l~~~~~~~~~~~~l~~EL~~~~~~L~~~PKny~aW~hR~wlL~  119 (331)
T 3dss_A           41 QAGELDESVLELTSQILGANPD-FATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPKSYGTWHHRCWLLS  119 (331)
T ss_dssp             HTTCCSHHHHHHHHHHHTTCTT-CHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HcCCCCHHHHHHHHHHHHHCch-hHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHh
Confidence            44555 4789999999888776 67788875555544443          678888888888666778888888888888


Q ss_pred             hcCC--hhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCC-hhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhc-----
Q 003295          264 KRGR--IEDAIGLFTKMEELGIAPNVVTYNNIIHGLCRNGR-LYEAFHLKEKMVLREVEPSLITYSILINGLIKL-----  335 (833)
Q Consensus       264 ~~g~--~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~-~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~-----  335 (833)
                      +.|+  +++++.+++++.+..+. |..+|+--.-.+...|. ++++++.++++.+.. +-|...|+-....+.+.     
T Consensus       120 ~l~~~~~~~EL~~~~k~l~~dpr-Ny~AW~~R~~vl~~l~~~~~eel~~~~~~I~~~-p~N~SAW~~R~~ll~~l~~~~~  197 (331)
T 3dss_A          120 RLPEPNWARELELCARFLEADER-NFHCWDYRRFVAAQAAVAPAEELAFTDSLITRN-FSNYSSWHYRSCLLPQLHPQPD  197 (331)
T ss_dssp             HCSSCCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHHSCCC-
T ss_pred             ccCcccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHhhhccc
Confidence            8884  78999999999887644 67777777777777787 588999999988865 44667777666555554     


Q ss_pred             ---------CChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHHc-----------CChHHHHHHHHHHHhCCCCCCh-hH
Q 003295          336 ---------EKFDDANFVLKEMSVRGFVPNYVVYNTLIDGYCKK-----------GNISEALKIRDDMVSKGMSPNS-VT  394 (833)
Q Consensus       336 ---------g~~~~A~~~~~~m~~~g~~p~~~~y~~li~~~~~~-----------g~~~~A~~~~~~m~~~g~~p~~-~~  394 (833)
                               +.++++++.+.+.....+. |...|+-+-..+.+.           +.++++++.++++.+.  .||. ..
T Consensus       198 ~~~~~~~~~~~~~eEle~~~~ai~~~P~-d~SaW~Y~r~ll~~~~~~~~~~~~~~~~l~~el~~~~elle~--~pd~~w~  274 (331)
T 3dss_A          198 SGPQGRLPENVLLKELELVQNAFFTDPN-DQSAWFYHRWLLGAGSGRCELSVEKSTVLQSELESCKELQEL--EPENKWC  274 (331)
T ss_dssp             -----CCCHHHHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHSSSCGGGCCHHHHHHHHHHHHHHHHHHHH--CTTCHHH
T ss_pred             cccccccchHHHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhccCccccchHHHHHHHHHHHHHHHHHhh--CcccchH
Confidence                     3467777888777765332 566666554444443           3466777777777764  3432 22


Q ss_pred             HHHHHH---HHHhcCChhHHHHHHHHHHHC
Q 003295          395 FNSLIH---GFCKSGQMDNAENALEEMLSR  421 (833)
Q Consensus       395 ~~~li~---~~~~~g~~~~A~~~l~~~~~~  421 (833)
                      +..++.   .....|..+++...+.++.+.
T Consensus       275 l~~~~~~~~~~~~~~~~~~~~~~l~~l~~~  304 (331)
T 3dss_A          275 LLTIILLMRALDPLLYEKETLQYFSTLKAV  304 (331)
T ss_dssp             HHHHHHHHHHHCTTTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhcccccHHHHHHHHHHHHHh
Confidence            222211   111244555555666665553

>3upv_A Heat shock protein STI1; TPR-fold, adaptor protein for HSP70 and HSP90, C-terminal PA HSP70, peptide binding protein; 1.60A {Saccharomyces cerevisiae}

Probab=98.33  E-value=8.3e-06  Score=70.90  Aligned_cols=95  Identities=16%  Similarity=0.013  Sum_probs=51.8

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHh
Q 003295          709 CYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISPDSITYNVFMDGHC  788 (833)
Q Consensus       709 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~  788 (833)
                      .|..+...+.+.|++++|...|++..+.. +.+...|..++.+|.+.|++++|+..++++++.. +.+...|..++.++.
T Consensus         6 ~~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~   83 (126)
T 3upv_A            6 EARLEGKEYFTKSDWPNAVKAYTEMIKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKD-PNFVRAYIRKATAQI   83 (126)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHH
Confidence            34444555555555555555555555432 3345555555555555566666666655555532 123455555555555


Q ss_pred             cCCCHHHHHHHHHHHHH
Q 003295          789 KGGNVEEAFKVCDRMLS  805 (833)
Q Consensus       789 ~~g~~~~A~~~~~~m~~  805 (833)
                      ..|++++|...+++.++
T Consensus        84 ~~~~~~~A~~~~~~al~  100 (126)
T 3upv_A           84 AVKEYASALETLDAART  100 (126)
T ss_dssp             HTTCHHHHHHHHHHHHH
T ss_pred             HHhCHHHHHHHHHHHHH
Confidence            66666666665555555

>1p5q_A FKBP52, FK506-binding protein 4; isomerase; 2.80A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 PDB: 1qz2_A

Probab=98.27  E-value=1.4e-05  Score=83.29  Aligned_cols=133  Identities=13%  Similarity=0.002  Sum_probs=99.5

Q ss_pred             CHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCC--------------HHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 003295          636 NPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPT--------------SVTYSSLIHGLCNIGLIEDAKCLFDEMRKE  701 (833)
Q Consensus       636 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~--------------~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  701 (833)
                      +...|..+...+.+.|++++|+..|++..+......              ...|..+..++.+.|++++|+..++++++.
T Consensus       146 ~a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~  225 (336)
T 1p5q_A          146 QSTIVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALEL  225 (336)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhccccCChHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            345566666666777777777777777666532211              467888888888899999999999988886


Q ss_pred             CCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHH-HHHHHHHHH
Q 003295          702 GLLPNVACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEA-AKLLNVMAE  770 (833)
Q Consensus       702 g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A-~~~~~~m~~  770 (833)
                      . +.+...|..+..+|...|++++|...|+++.+.. +.+...+..+..++.+.|++++| ...+++|..
T Consensus       226 ~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~-P~~~~a~~~l~~~~~~~~~~~~a~~~~~~~~~~  293 (336)
T 1p5q_A          226 D-SNNEKGLSRRGEAHLAVNDFELARADFQKVLQLY-PNNKAAKTQLAVCQQRIRRQLAREKKLYANMFE  293 (336)
T ss_dssp             C-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             C-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3 3467788888888999999999999999988753 55677888888888888888888 456666653

>3upv_A Heat shock protein STI1; TPR-fold, adaptor protein for HSP70 and HSP90, C-terminal PA HSP70, peptide binding protein; 1.60A {Saccharomyces cerevisiae}

Probab=98.26  E-value=1.5e-05  Score=69.22  Aligned_cols=96  Identities=13%  Similarity=0.004  Sum_probs=73.3

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 003295          673 VTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGY  752 (833)
Q Consensus       673 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~  752 (833)
                      ..+..+...+.+.|++++|...|++.++.. +.+...|..+..+|.+.|++++|+..+++..+.. +.+...|..+..++
T Consensus         5 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~   82 (126)
T 3upv_A            5 EEARLEGKEYFTKSDWPNAVKAYTEMIKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKD-PNFVRAYIRKATAQ   82 (126)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHH
Confidence            456666777778888888888888877753 3456777778888888888888888888887753 44577788888888


Q ss_pred             HhcCCHHHHHHHHHHHHH
Q 003295          753 CKLGDMKEAAKLLNVMAE  770 (833)
Q Consensus       753 ~~~g~~~~A~~~~~~m~~  770 (833)
                      ...|++++|++.++++++
T Consensus        83 ~~~~~~~~A~~~~~~al~  100 (126)
T 3upv_A           83 IAVKEYASALETLDAART  100 (126)
T ss_dssp             HHTTCHHHHHHHHHHHHH
T ss_pred             HHHhCHHHHHHHHHHHHH
Confidence            888888888888888877

>4gcn_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; HET: PGE; 1.85A {Caenorhabditis elegans}

Probab=98.25  E-value=1e-05  Score=70.54  Aligned_cols=107  Identities=11%  Similarity=0.081  Sum_probs=70.5

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHhCC--CCCC----HHHHHH
Q 003295          674 TYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESVLQEMASIN--IHPN----KITYTI  747 (833)
Q Consensus       674 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g--~~p~----~~~~~~  747 (833)
                      .+..+...+.+.|++++|+..|++.++.. +.+...|..+..+|.+.|++++|++.+++.++.+  ..++    ..+|..
T Consensus        10 a~~~lG~~~~~~~~~~~A~~~y~~Al~~~-p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~   88 (127)
T 4gcn_A           10 AEKDLGNAAYKQKDFEKAHVHYDKAIELD-PSNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAMSR   88 (127)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHHHH
Confidence            45566667777777777777777777642 3345667777777777777777777777766421  1111    235667


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHH
Q 003295          748 MIGGYCKLGDMKEAAKLLNVMAEKGISPDSITYNVF  783 (833)
Q Consensus       748 li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l  783 (833)
                      ++.++...|++++|++.|++.++  ..||..+...|
T Consensus        89 lg~~~~~~~~~~~A~~~~~kal~--~~~~~~~~~~l  122 (127)
T 4gcn_A           89 AGNAFQKQNDLSLAVQWFHRSLS--EFRDPELVKKV  122 (127)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHH--HSCCHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHh--hCcCHHHHHHH
Confidence            77778888888888888888777  35666554433

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.24  E-value=6e-06  Score=73.70  Aligned_cols=93  Identities=15%  Similarity=0.050  Sum_probs=43.1

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc
Q 003295          676 SSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKL  755 (833)
Q Consensus       676 ~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~  755 (833)
                      ..+...+.+.|++++|...|++++... +.+...|..+..+|.+.|++++|...|++..+.+ +.+...|..+..+|...
T Consensus        22 ~~~a~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~   99 (142)
T 2xcb_A           22 YALGFNQYQAGKWDDAQKIFQALCMLD-HYDARYFLGLGACRQSLGLYEQALQSYSYGALMD-INEPRFPFHAAECHLQL   99 (142)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCcHHHHHHHHHHHHc
Confidence            333444444555555555555544432 2233444444444445555555555555544432 23334444444445555


Q ss_pred             CCHHHHHHHHHHHHH
Q 003295          756 GDMKEAAKLLNVMAE  770 (833)
Q Consensus       756 g~~~~A~~~~~~m~~  770 (833)
                      |++++|.+.|+++++
T Consensus       100 g~~~~A~~~~~~al~  114 (142)
T 2xcb_A          100 GDLDGAESGFYSARA  114 (142)
T ss_dssp             TCHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHH
Confidence            555555555554444

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.24  E-value=4.8e-06  Score=74.34  Aligned_cols=98  Identities=14%  Similarity=-0.028  Sum_probs=72.8

Q ss_pred             HHHHHHHHHHHHhcCChhHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHH
Q 003295          218 LKTCNFLLNSLVKANEVQKGIEVFETMCRGVSPDVFLFSTAINAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIHGL  297 (833)
Q Consensus       218 ~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~  297 (833)
                      ...+..+...+.+.|++++|...|++.+...|.+...|..+..+|.+.|++++|...|++.....+. +...|..+..+|
T Consensus        18 ~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~   96 (142)
T 2xcb_A           18 LEQLYALGFNQYQAGKWDDAQKIFQALCMLDHYDARYFLGLGACRQSLGLYEQALQSYSYGALMDIN-EPRFPFHAAECH   96 (142)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHccHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCC-CcHHHHHHHHHH
Confidence            4455566677777888888888888877545667777777888888888888888888887776532 556677777778


Q ss_pred             HhcCChhHHHHHHHHHHhC
Q 003295          298 CRNGRLYEAFHLKEKMVLR  316 (833)
Q Consensus       298 ~~~g~~~~A~~~~~~m~~~  316 (833)
                      ...|++++|.+.|++..+.
T Consensus        97 ~~~g~~~~A~~~~~~al~~  115 (142)
T 2xcb_A           97 LQLGDLDGAESGFYSARAL  115 (142)
T ss_dssp             HHTTCHHHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHh
Confidence            8888888888888877754

>1elw_A TPR1-domain of HOP; HOP, TPR-domain, peptide-complex, helical repeat, HSP70, protein binding, chaperone; 1.60A {Homo sapiens} SCOP: a.118.8.1

Probab=98.21  E-value=2.9e-05  Score=65.99  Aligned_cols=98  Identities=15%  Similarity=0.094  Sum_probs=63.7

Q ss_pred             HHHHHHHHHHHHhcCChhHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHH
Q 003295          218 LKTCNFLLNSLVKANEVQKGIEVFETMCRGVSPDVFLFSTAINAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIHGL  297 (833)
Q Consensus       218 ~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~  297 (833)
                      ...+..+...+...|++++|...|++.....+.+...+..+..++...|++++|...+++..+... .+...+..+...+
T Consensus         4 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~a~~~   82 (118)
T 1elw_A            4 VNELKEKGNKALSVGNIDDALQCYSEAIKLDPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKP-DWGKGYSRKAAAL   82 (118)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhCc-ccHHHHHHHHHHH
Confidence            345556666666777777777777776643445566666677777777777777777777666532 2455666666666


Q ss_pred             HhcCChhHHHHHHHHHHhC
Q 003295          298 CRNGRLYEAFHLKEKMVLR  316 (833)
Q Consensus       298 ~~~g~~~~A~~~~~~m~~~  316 (833)
                      ...|++++|.+.+++..+.
T Consensus        83 ~~~~~~~~A~~~~~~~~~~  101 (118)
T 1elw_A           83 EFLNRFEEAKRTYEEGLKH  101 (118)
T ss_dssp             HHTTCHHHHHHHHHHHHTT
T ss_pred             HHHhhHHHHHHHHHHHHHc
Confidence            6777777777777666654

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.21  E-value=1.5e-05  Score=67.06  Aligned_cols=99  Identities=14%  Similarity=0.015  Sum_probs=73.0

Q ss_pred             ChhHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC--CHHHHHHH
Q 003295          706 NVACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISP--DSITYNVF  783 (833)
Q Consensus       706 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p--~~~~~~~l  783 (833)
                      +...+..+...+...|++++|...+++..+.. +.+...|..++..+...|++++|++.++++++.. +.  +...+..+
T Consensus         5 ~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~~l   82 (112)
T 2kck_A            5 NPEEYYLEGVLQYDAGNYTESIDLFEKAIQLD-PEESKYWLMKGKALYNLERYEEAVDCYNYVINVI-EDEYNKDVWAAK   82 (112)
T ss_dssp             STTGGGGHHHHHHSSCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTS-CCTTCHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-cccchHHHHHHH
Confidence            34556667777777888888888888777653 4466777778888888888888888888887742 22  46777788


Q ss_pred             HHHHhcC-CCHHHHHHHHHHHHHC
Q 003295          784 MDGHCKG-GNVEEAFKVCDRMLSE  806 (833)
Q Consensus       784 ~~~~~~~-g~~~~A~~~~~~m~~~  806 (833)
                      +..+... |++++|.+.+++....
T Consensus        83 ~~~~~~~~~~~~~A~~~~~~~~~~  106 (112)
T 2kck_A           83 ADALRYIEGKEVEAEIAEARAKLE  106 (112)
T ss_dssp             HHHHTTCSSCSHHHHHHHHHHGGG
T ss_pred             HHHHHHHhCCHHHHHHHHHHHhhc
Confidence            8888888 8888888888877764

>1elw_A TPR1-domain of HOP; HOP, TPR-domain, peptide-complex, helical repeat, HSP70, protein binding, chaperone; 1.60A {Homo sapiens} SCOP: a.118.8.1

Probab=98.21  E-value=4.1e-05  Score=65.01  Aligned_cols=92  Identities=17%  Similarity=0.107  Sum_probs=37.4

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC
Q 003295          677 SLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLG  756 (833)
Q Consensus       677 ~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g  756 (833)
                      .+...+...|++++|...+++..+.. +.+...+..+...+...|++++|...+++..+.. +.+...+..++.++...|
T Consensus         9 ~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~   86 (118)
T 1elw_A            9 EKGNKALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAAALEFLN   86 (118)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHHh
Confidence            33334444444444444444444321 1133333444444444444444444444444321 223334444444444444


Q ss_pred             CHHHHHHHHHHHHH
Q 003295          757 DMKEAAKLLNVMAE  770 (833)
Q Consensus       757 ~~~~A~~~~~~m~~  770 (833)
                      ++++|.+.+++..+
T Consensus        87 ~~~~A~~~~~~~~~  100 (118)
T 1elw_A           87 RFEEAKRTYEEGLK  100 (118)
T ss_dssp             CHHHHHHHHHHHHT
T ss_pred             hHHHHHHHHHHHHH
Confidence            44444444444443

>2fbn_A 70 kDa peptidylprolyl isomerase, putative; sulfur SAD, PFL2275C, TPR-containing domain, structural genomics; 1.63A {Plasmodium falciparum} SCOP: a.118.8.1

Probab=98.16  E-value=2.4e-05  Score=74.38  Aligned_cols=129  Identities=14%  Similarity=0.027  Sum_probs=78.9

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC----------------hhHHHHHHHHHHhcCChhHHHHHHHHHHhCCC
Q 003295          675 YSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPN----------------VACYTALIGGYCKLGQMDEAESVLQEMASINI  738 (833)
Q Consensus       675 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~----------------~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~  738 (833)
                      +..+...+...|++++|...|++.++.. +.+                ...|..+..+|.+.|++++|+..+++..+.. 
T Consensus        41 ~~~~g~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-  118 (198)
T 2fbn_A           41 IKEEGNEFFKKNEINEAIVKYKEALDFF-IHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLKID-  118 (198)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHTT-TTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHH-hcccccchhhHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-
Confidence            3344444555555555555555555421 011                2566777778888888888888888887753 


Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCCHHHHH-HHHHHHHHC
Q 003295          739 HPNKITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISPDSITYNVFMDGHCKGGNVEEAF-KVCDRMLSE  806 (833)
Q Consensus       739 ~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~-~~~~~m~~~  806 (833)
                      +.+...|..++.+|...|++++|++.|+++++.. +.+..++..+..++...|+.+++. ..+..|...
T Consensus       119 p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~f~~  186 (198)
T 2fbn_A          119 KNNVKALYKLGVANMYFGFLEEAKENLYKAASLN-PNNLDIRNSYELCVNKLKEARKKDKLTFGGMFDK  186 (198)
T ss_dssp             TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHC------------
T ss_pred             cccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            4567778888888888888888888888887742 235667777777777777766666 455555543

>1elr_A TPR2A-domain of HOP; HOP, TPR-domain, peptide-complex, helical repeat, protein binding, chaperone; 1.90A {Homo sapiens} SCOP: a.118.8.1 PDB: 3esk_A 3fwv_A

Probab=98.16  E-value=1.3e-05  Score=69.72  Aligned_cols=95  Identities=14%  Similarity=0.154  Sum_probs=41.7

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHhCCC--CCC----HHHHHHH
Q 003295          675 YSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESVLQEMASINI--HPN----KITYTIM  748 (833)
Q Consensus       675 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~--~p~----~~~~~~l  748 (833)
                      +..+...+...|++++|...|++..+.. +.+...+..+...+...|++++|...++++.+...  .++    ..+|..+
T Consensus         7 ~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~l   85 (131)
T 1elr_A            7 EKELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARI   85 (131)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHHHHH
Confidence            3334444444444444444444444431 22334444444444444444444444444443210  111    3344444


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHH
Q 003295          749 IGGYCKLGDMKEAAKLLNVMAE  770 (833)
Q Consensus       749 i~~~~~~g~~~~A~~~~~~m~~  770 (833)
                      +.++...|++++|.+.++++.+
T Consensus        86 a~~~~~~~~~~~A~~~~~~~~~  107 (131)
T 1elr_A           86 GNSYFKEEKYKDAIHFYNKSLA  107 (131)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHhccHHHHHHHHHHHHH
Confidence            4455555555555555555544

>3q49_B STIP1 homology and U box-containing protein 1; E3 ubiquitin ligase, ligase-chaperone complex; 1.54A {Mus musculus} PDB: 3q47_B 3q4a_B*

Probab=98.15  E-value=3.4e-05  Score=68.01  Aligned_cols=98  Identities=11%  Similarity=-0.010  Sum_probs=50.2

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 003295          671 TSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIG  750 (833)
Q Consensus       671 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~  750 (833)
                      +...+..+...+...|++++|...|++.++.. +.+...|..+..++...|++++|...+++..+.. +.+...|..+..
T Consensus         8 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~   85 (137)
T 3q49_B            8 SAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLGQ   85 (137)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhCcHHHHHHHHHHHHhhC-cCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-chhHHHHHHHHH
Confidence            34445555555555555555555555555432 2234445555555555555555555555555432 333445555555


Q ss_pred             HHHhcCCHHHHHHHHHHHHH
Q 003295          751 GYCKLGDMKEAAKLLNVMAE  770 (833)
Q Consensus       751 ~~~~~g~~~~A~~~~~~m~~  770 (833)
                      +|...|++++|+..++++++
T Consensus        86 ~~~~~~~~~~A~~~~~~a~~  105 (137)
T 3q49_B           86 CQLEMESYDEAIANLQRAYS  105 (137)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHhhHHHHHHHHHHHHH
Confidence            55555555555555555544

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.15  E-value=1.6e-05  Score=72.84  Aligned_cols=99  Identities=13%  Similarity=0.030  Sum_probs=75.5

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 003295          671 TSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIG  750 (833)
Q Consensus       671 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~  750 (833)
                      +...+..+...+.+.|++++|+..|++.++.. +.+...|..+..+|.+.|++++|+..+++.++.. +.+...|..+..
T Consensus        10 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~   87 (164)
T 3sz7_A           10 ESDKLKSEGNAAMARKEYSKAIDLYTQALSIA-PANPIYLSNRAAAYSASGQHEKAAEDAELATVVD-PKYSKAWSRLGL   87 (164)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHH
Confidence            45567777777888888888888888887753 3366777778888888888888888888887753 445777888888


Q ss_pred             HHHhcCCHHHHHHHHHHHHHc
Q 003295          751 GYCKLGDMKEAAKLLNVMAEK  771 (833)
Q Consensus       751 ~~~~~g~~~~A~~~~~~m~~~  771 (833)
                      +|...|++++|++.|+++++.
T Consensus        88 ~~~~~g~~~~A~~~~~~al~~  108 (164)
T 3sz7_A           88 ARFDMADYKGAKEAYEKGIEA  108 (164)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHccCHHHHHHHHHHHHHh
Confidence            888888888888888888773

>1elr_A TPR2A-domain of HOP; HOP, TPR-domain, peptide-complex, helical repeat, protein binding, chaperone; 1.90A {Homo sapiens} SCOP: a.118.8.1 PDB: 3esk_A 3fwv_A

Probab=98.15  E-value=2.1e-05  Score=68.48  Aligned_cols=111  Identities=16%  Similarity=0.122  Sum_probs=92.0

Q ss_pred             hhHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCC--CCC----HHHH
Q 003295          707 VACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAEKGI--SPD----SITY  780 (833)
Q Consensus       707 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~--~p~----~~~~  780 (833)
                      ...+..+...+...|++++|...+++..+.. +.+...+..++..+...|++++|...++++.+...  .++    ..++
T Consensus         4 ~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~   82 (131)
T 1elr_A            4 ALKEKELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAY   82 (131)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHH
Confidence            4567788899999999999999999999864 56788999999999999999999999999987421  122    7789


Q ss_pred             HHHHHHHhcCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 003295          781 NVFMDGHCKGGNVEEAFKVCDRMLSEGLSLDEITYTTLID  820 (833)
Q Consensus       781 ~~l~~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~  820 (833)
                      ..++..+...|++++|.+.++++.+.  .|+...+..+-.
T Consensus        83 ~~la~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~l~~  120 (131)
T 1elr_A           83 ARIGNSYFKEEKYKDAIHFYNKSLAE--HRTPDVLKKCQQ  120 (131)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH--CCCHHHHHHHHH
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHHh--CCCHHHHHHHHH
Confidence            99999999999999999999999984  456555444433

>2fbn_A 70 kDa peptidylprolyl isomerase, putative; sulfur SAD, PFL2275C, TPR-containing domain, structural genomics; 1.63A {Plasmodium falciparum} SCOP: a.118.8.1

Probab=98.12  E-value=2.2e-05  Score=74.67  Aligned_cols=121  Identities=16%  Similarity=-0.024  Sum_probs=64.2

Q ss_pred             HHHHHHHHHHHhcCChhHHHHHHHHhhcCCCCCH----------------HHHHHHHHHHHhcCChhHHHHHHHHHHHcC
Q 003295          219 KTCNFLLNSLVKANEVQKGIEVFETMCRGVSPDV----------------FLFSTAINAFCKRGRIEDAIGLFTKMEELG  282 (833)
Q Consensus       219 ~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~----------------~~~~~li~~~~~~g~~~~A~~~~~~m~~~g  282 (833)
                      ..+..+...+.+.|++++|...|++.+.-.+.+.                ..|..+..+|.+.|++++|...+++..+..
T Consensus        39 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~  118 (198)
T 2fbn_A           39 FDIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLKID  118 (198)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccchhhHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC
Confidence            3455566667777777777777777763222222                455555555566666666666666655542


Q ss_pred             CCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChhHH
Q 003295          283 IAPNVVTYNNIIHGLCRNGRLYEAFHLKEKMVLREVEPSLITYSILINGLIKLEKFDDA  341 (833)
Q Consensus       283 ~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A  341 (833)
                      . .+...|..+..+|...|++++|.+.|++..+.. +.+...+..+...+...++.+++
T Consensus       119 p-~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~~  175 (198)
T 2fbn_A          119 K-NNVKALYKLGVANMYFGFLEEAKENLYKAASLN-PNNLDIRNSYELCVNKLKEARKK  175 (198)
T ss_dssp             T-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHC-
T ss_pred             c-ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHHHHHHH
Confidence            2 234455555555555555555555555555432 22333444444444444443333

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.12  E-value=1.6e-05  Score=68.47  Aligned_cols=93  Identities=14%  Similarity=0.007  Sum_probs=60.6

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHh
Q 003295          710 YTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISP-DSITYNVFMDGHC  788 (833)
Q Consensus       710 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~~~~~l~~~~~  788 (833)
                      +..+...+.+.|++++|...+++..+.. +.+...|..+..++...|++++|+..++++++.  .| +...+..++.++.
T Consensus        20 ~~~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l--~P~~~~~~~~la~~~~   96 (121)
T 1hxi_A           20 PMEEGLSMLKLANLAEAALAFEAVCQKE-PEREEAWRSLGLTQAENEKDGLAIIALNHARML--DPKDIAVHAALAVSHT   96 (121)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHH
Confidence            3445556666677777777777766643 445666666677777777777777777776663  33 4556666777777


Q ss_pred             cCCCHHHHHHHHHHHHH
Q 003295          789 KGGNVEEAFKVCDRMLS  805 (833)
Q Consensus       789 ~~g~~~~A~~~~~~m~~  805 (833)
                      ..|++++|+..+++.++
T Consensus        97 ~~g~~~~A~~~~~~al~  113 (121)
T 1hxi_A           97 NEHNANAALASLRAWLL  113 (121)
T ss_dssp             HHHHHHHHHHHHHHHHC
T ss_pred             HcCCHHHHHHHHHHHHH
Confidence            77777777777766665

>3q49_B STIP1 homology and U box-containing protein 1; E3 ubiquitin ligase, ligase-chaperone complex; 1.54A {Mus musculus} PDB: 3q47_B 3q4a_B*

Probab=98.12  E-value=2.4e-05  Score=69.02  Aligned_cols=98  Identities=13%  Similarity=-0.028  Sum_probs=63.8

Q ss_pred             ChhHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 003295          706 NVACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISPDSITYNVFMD  785 (833)
Q Consensus       706 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~  785 (833)
                      +...+..+...+...|++++|...|++..+.. +.+...|..++.++...|++++|+..++++++.. +.+...+..++.
T Consensus         8 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~   85 (137)
T 3q49_B            8 SAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLGQ   85 (137)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhCcHHHHHHHHHHHHhhC-cCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-chhHHHHHHHHH
Confidence            45566666666667777777777777666543 4455666666667777777777777777766642 224566666677


Q ss_pred             HHhcCCCHHHHHHHHHHHHH
Q 003295          786 GHCKGGNVEEAFKVCDRMLS  805 (833)
Q Consensus       786 ~~~~~g~~~~A~~~~~~m~~  805 (833)
                      ++...|++++|+..|++.++
T Consensus        86 ~~~~~~~~~~A~~~~~~a~~  105 (137)
T 3q49_B           86 CQLEMESYDEAIANLQRAYS  105 (137)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHhhHHHHHHHHHHHHH
Confidence            77777777777777766665

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.10  E-value=9.1e-05  Score=66.03  Aligned_cols=96  Identities=14%  Similarity=-0.005  Sum_probs=46.4

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC----hhHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHH
Q 003295          672 SVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPN----VACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTI  747 (833)
Q Consensus       672 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~  747 (833)
                      ...+..+...+...|++++|...|++..+.  .|+    ...|..+...|...|++++|...+++..+.. +.+...|..
T Consensus        28 ~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~  104 (148)
T 2dba_A           28 VEQLRKEGNELFKCGDYGGALAAYTQALGL--DATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKD-GGDVKALYR  104 (148)
T ss_dssp             HHHHHHHHHHHHTTTCHHHHHHHHHHHHTS--CCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-SCCHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCHHHHHHHHHHHHHH--cccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-ccCHHHHHH
Confidence            334444444455555555555555555442  233    3444444445555555555555555544431 223444445


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHH
Q 003295          748 MIGGYCKLGDMKEAAKLLNVMAE  770 (833)
Q Consensus       748 li~~~~~~g~~~~A~~~~~~m~~  770 (833)
                      +..++...|++++|.+.++++++
T Consensus       105 ~a~~~~~~~~~~~A~~~~~~al~  127 (148)
T 2dba_A          105 RSQALEKLGRLDQAVLDLQRCVS  127 (148)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHH
Confidence            55555555555555555555544

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.10  E-value=0.00012  Score=79.31  Aligned_cols=121  Identities=12%  Similarity=0.051  Sum_probs=58.5

Q ss_pred             hcCCHHHHHHHHHHHHHC----CCCCC-hhHHHHHHHHHHhcCChhHHHHHHHHHHhC--CC--CC-CHHHHHHHHHHHH
Q 003295          684 NIGLIEDAKCLFDEMRKE----GLLPN-VACYTALIGGYCKLGQMDEAESVLQEMASI--NI--HP-NKITYTIMIGGYC  753 (833)
Q Consensus       684 ~~g~~~~A~~~~~~m~~~----g~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~--g~--~p-~~~~~~~li~~~~  753 (833)
                      ..|+.++|..++.+....    +..+. ..++..+...|...|++++|..+++++...  +.  .+ ...+|..++..|.
T Consensus       107 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~  186 (434)
T 4b4t_Q          107 VPDSLDDQIFVCEKSIEFAKREKRVFLKHSLSIKLATLHYQKKQYKDSLALINDLLREFKKLDDKPSLVDVHLLESKVYH  186 (434)
T ss_dssp             CCSCHHHHHHHHHHHHHHHHHSSCCSSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSSCSTHHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHHccChHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHH
Confidence            345555555555554431    11121 234455555566666666666665555421  11  11 1234555556666


Q ss_pred             hcCCHHHHHHHHHHHHHc--CCC-C-C--HHHHHHHHHHHhcCCCHHHHHHHHHHHH
Q 003295          754 KLGDMKEAAKLLNVMAEK--GIS-P-D--SITYNVFMDGHCKGGNVEEAFKVCDRML  804 (833)
Q Consensus       754 ~~g~~~~A~~~~~~m~~~--g~~-p-~--~~~~~~l~~~~~~~g~~~~A~~~~~~m~  804 (833)
                      ..|++++|..++++....  .+. | .  ...+..++..+...|++++|...|.+..
T Consensus       187 ~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~g~~~~~~~~y~~A~~~~~~a~  243 (434)
T 4b4t_Q          187 KLRNLAKSKASLTAARTAANSIYCPTQTVAELDLMSGILHCEDKDYKTAFSYFFESF  243 (434)
T ss_dssp             HTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHTTSSSCHHHHHHHHHHHH
T ss_pred             HhCcHHHHHHHHHHHHHHhhcCCCchHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Confidence            666666666666555431  111 1 1  1344455555555666666655555544

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.09  E-value=2.7e-05  Score=65.55  Aligned_cols=57  Identities=18%  Similarity=0.079  Sum_probs=21.7

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHH
Q 003295          257 TAINAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIHGLCRNGRLYEAFHLKEKMV  314 (833)
Q Consensus       257 ~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~  314 (833)
                      .+...+.+.|++++|...|++..+... .+...|..+...+.+.|++++|.+.+++..
T Consensus        11 ~~~~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~   67 (112)
T 2kck_A           11 LEGVLQYDAGNYTESIDLFEKAIQLDP-EESKYWLMKGKALYNLERYEEAVDCYNYVI   67 (112)
T ss_dssp             GHHHHHHSSCCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHHhCc-CCHHHHHHHHHHHHHccCHHHHHHHHHHHH
Confidence            333334444444444444444333221 122333333333334444444444444333

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.08  E-value=0.0001  Score=65.71  Aligned_cols=112  Identities=16%  Similarity=0.060  Sum_probs=93.9

Q ss_pred             CChhHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHH
Q 003295          705 PNVACYTALIGGYCKLGQMDEAESVLQEMASINIHPN----KITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISPDSITY  780 (833)
Q Consensus       705 p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~  780 (833)
                      .+...+..+...+...|++++|...|++..+.  .|+    ...|..+..+|...|++++|+..++++++.. +.+...+
T Consensus        26 ~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~  102 (148)
T 2dba_A           26 SSVEQLRKEGNELFKCGDYGGALAAYTQALGL--DATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKD-GGDVKAL  102 (148)
T ss_dssp             CCHHHHHHHHHHHHTTTCHHHHHHHHHHHHTS--CCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-SCCHHHH
T ss_pred             HHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHH--cccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-ccCHHHH
Confidence            35677888899999999999999999999985  566    6788999999999999999999999999852 3367889


Q ss_pred             HHHHHHHhcCCCHHHHHHHHHHHHHCCCCCC-HHHHHHHHHh
Q 003295          781 NVFMDGHCKGGNVEEAFKVCDRMLSEGLSLD-EITYTTLIDG  821 (833)
Q Consensus       781 ~~l~~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~~~~~l~~~  821 (833)
                      ..++.++...|++++|.+.+++.++  +.|+ ...+..+...
T Consensus       103 ~~~a~~~~~~~~~~~A~~~~~~al~--~~p~~~~~~~~l~~~  142 (148)
T 2dba_A          103 YRRSQALEKLGRLDQAVLDLQRCVS--LEPKNKVFQEALRNI  142 (148)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHH--HCSSCHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHH--cCCCcHHHHHHHHHH
Confidence            9999999999999999999999998  4565 4444444433

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.07  E-value=3.7e-05  Score=70.40  Aligned_cols=98  Identities=12%  Similarity=0.024  Sum_probs=61.5

Q ss_pred             HHHHHHHHHHHHhcCChhHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHH
Q 003295          218 LKTCNFLLNSLVKANEVQKGIEVFETMCRGVSPDVFLFSTAINAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIHGL  297 (833)
Q Consensus       218 ~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~  297 (833)
                      ...|..+...+.+.|++++|+..|++.+.-.+.+...|..+..+|.+.|++++|+..|++..+.... +...|..+...|
T Consensus        11 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~   89 (164)
T 3sz7_A           11 SDKLKSEGNAAMARKEYSKAIDLYTQALSIAPANPIYLSNRAAAYSASGQHEKAAEDAELATVVDPK-YSKAWSRLGLAR   89 (164)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHH
Confidence            3455556666666666666666666666434455666666666666666666666666666665322 455666666666


Q ss_pred             HhcCChhHHHHHHHHHHhC
Q 003295          298 CRNGRLYEAFHLKEKMVLR  316 (833)
Q Consensus       298 ~~~g~~~~A~~~~~~m~~~  316 (833)
                      .+.|++++|...|++..+.
T Consensus        90 ~~~g~~~~A~~~~~~al~~  108 (164)
T 3sz7_A           90 FDMADYKGAKEAYEKGIEA  108 (164)
T ss_dssp             HHTTCHHHHHHHHHHHHHH
T ss_pred             HHccCHHHHHHHHHHHHHh
Confidence            6666666666666666653

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.04  E-value=2.5e-05  Score=67.33  Aligned_cols=93  Identities=11%  Similarity=0.012  Sum_probs=55.2

Q ss_pred             HHHHHHHHhcCChhHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcC
Q 003295          222 NFLLNSLVKANEVQKGIEVFETMCRGVSPDVFLFSTAINAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIHGLCRNG  301 (833)
Q Consensus       222 ~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g  301 (833)
                      ..+...+.+.|++++|+..|++++...|.+...|..+..++.+.|++++|+..|++..+..+. +...+..+...|.+.|
T Consensus        21 ~~~g~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~-~~~~~~~la~~~~~~g   99 (121)
T 1hxi_A           21 MEEGLSMLKLANLAEAALAFEAVCQKEPEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPK-DIAVHAALAVSHTNEH   99 (121)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcC
Confidence            334445556666666666666666444455666666666666666666666666666654322 4455556666666666


Q ss_pred             ChhHHHHHHHHHHh
Q 003295          302 RLYEAFHLKEKMVL  315 (833)
Q Consensus       302 ~~~~A~~~~~~m~~  315 (833)
                      ++++|+..+++..+
T Consensus       100 ~~~~A~~~~~~al~  113 (121)
T 1hxi_A          100 NANAALASLRAWLL  113 (121)
T ss_dssp             HHHHHHHHHHHHHC
T ss_pred             CHHHHHHHHHHHHH
Confidence            66666666666554

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=97.98  E-value=4.1e-05  Score=69.46  Aligned_cols=132  Identities=14%  Similarity=0.116  Sum_probs=88.1

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCCC-CCC----hhHHHHHHHHHHhcCChhHHHHHHHHHHhC----CCCC-CHH
Q 003295          674 TYSSLIHGLCNIGLIEDAKCLFDEMRKEGL-LPN----VACYTALIGGYCKLGQMDEAESVLQEMASI----NIHP-NKI  743 (833)
Q Consensus       674 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~-~p~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----g~~p-~~~  743 (833)
                      ++..+...+...|++++|...+++..+..- .++    ..++..+...+...|++++|.+.+++..+.    +-++ ...
T Consensus        11 ~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~   90 (164)
T 3ro3_A           11 AFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERIAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQ   90 (164)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHHHH
Confidence            455566666667777777777766654210 011    135666777777888888888888776642    1111 134


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHc----CCCC-CHHHHHHHHHHHhcCCCHHHHHHHHHHHHH
Q 003295          744 TYTIMIGGYCKLGDMKEAAKLLNVMAEK----GISP-DSITYNVFMDGHCKGGNVEEAFKVCDRMLS  805 (833)
Q Consensus       744 ~~~~li~~~~~~g~~~~A~~~~~~m~~~----g~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  805 (833)
                      ++..+...+...|++++|.+.+++..+.    +..+ ...++..+...+...|++++|.+.+++.++
T Consensus        91 ~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~  157 (164)
T 3ro3_A           91 SCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLE  157 (164)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            6777888888888888888888887652    1111 135677888888889999999998888775

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=97.95  E-value=0.00011  Score=63.86  Aligned_cols=91  Identities=18%  Similarity=0.069  Sum_probs=45.0

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHCCCCCCh---hHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCC---HHHHHHHHHH
Q 003295          678 LIHGLCNIGLIEDAKCLFDEMRKEGLLPNV---ACYTALIGGYCKLGQMDEAESVLQEMASINIHPN---KITYTIMIGG  751 (833)
Q Consensus       678 li~~~~~~g~~~~A~~~~~~m~~~g~~p~~---~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~---~~~~~~li~~  751 (833)
                      +...+...|++++|...|+++.+.. +.+.   ..+..+..++.+.|++++|...++++.+.. +.+   ...+..++.+
T Consensus         8 ~a~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~~~~la~~   85 (129)
T 2xev_A            8 VAFDALKNGKYDDASQLFLSFLELY-PNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRY-PTHDKAAGGLLKLGLS   85 (129)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC-SSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTSTTHHHHHHHHHHH
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHHHC-CCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHC-CCCcccHHHHHHHHHH
Confidence            3444555555555555555555431 1111   244445555555555555555555555432 222   3444555555


Q ss_pred             HHhcCCHHHHHHHHHHHHH
Q 003295          752 YCKLGDMKEAAKLLNVMAE  770 (833)
Q Consensus       752 ~~~~g~~~~A~~~~~~m~~  770 (833)
                      +...|++++|...++++++
T Consensus        86 ~~~~g~~~~A~~~~~~~~~  104 (129)
T 2xev_A           86 QYGEGKNTEAQQTLQQVAT  104 (129)
T ss_dssp             HHHTTCHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHH
Confidence            5555555555555555554

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.95  E-value=0.00023  Score=76.97  Aligned_cols=161  Identities=9%  Similarity=0.014  Sum_probs=73.9

Q ss_pred             HHHHHhcCChhhHHHHHHHHHHCCCCCCH----------------HHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCC-CC
Q 003295          539 ILGCCKDGKPEEGFKLKEDMIKRGIQPDN----------------YTYNLLLHGLCSLGKMEEAIELWEECKRTVFG-PD  601 (833)
Q Consensus       539 i~~~~~~g~~~~A~~~~~~m~~~g~~p~~----------------~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~-~~  601 (833)
                      ...+.+.|++++|.+.|..+++.......                ..+..++..|...|++++|.+.+..+...-.. ++
T Consensus        11 a~~l~~~~~y~eA~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~al~~l~~~y~~~~~~~~a~~~~~~~~~~~~~~~~   90 (434)
T 4b4t_Q           11 ARRLVNEKQYNEAEQVYLSLLDKDSSQSSAAAGASVDDKRRNEQETSILELGQLYVTMGAKDKLREFIPHSTEYMMQFAK   90 (434)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHSCCCSSSBSSSSSBCSHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHTHHHHHTSCH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHhhCcccchhHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccc
Confidence            34456677777777777777765432111                12455566666666666666666554432100 11


Q ss_pred             H----hhHHHHHHHHHccCCHHHHHHHHHHHHHC----CCcc-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhC--CC--
Q 003295          602 I----YTYGVMIDGFCKADKIEEGETLFNEMISK----KMEL-NPVVYNTLIRAYCKIGNTTAAFRLSNDMKSR--GI--  668 (833)
Q Consensus       602 ~----~~~~~li~~~~~~g~~~~A~~~~~~~~~~----~~~~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~--~~--  668 (833)
                      .    .+.+.+...+...|+.++|..++.+....    +..+ -..++..+...|...|++++|..++++....  +.  
T Consensus        91 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~  170 (434)
T 4b4t_Q           91 SKTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHSLSIKLATLHYQKKQYKDSLALINDLLREFKKLDD  170 (434)
T ss_dssp             HHHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSSC
T ss_pred             hHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHHccChHHHHHHHHHHHHHHHhccc
Confidence            1    11122222233345555555555544321    1111 1234444455555555555555555444321  00  


Q ss_pred             CC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 003295          669 LP-TSVTYSSLIHGLCNIGLIEDAKCLFDEMR  699 (833)
Q Consensus       669 ~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~  699 (833)
                      .+ ...++..++..|...|++++|..++++..
T Consensus       171 ~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al  202 (434)
T 4b4t_Q          171 KPSLVDVHLLESKVYHKLRNLAKSKASLTAAR  202 (434)
T ss_dssp             STHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHHHHhCcHHHHHHHHHHHH
Confidence            00 12234444444555555555555554443

>1kt0_A FKBP51, 51 kDa FK506-binding protein; FKBP-like ppiase, TPR repeats, isomerase; 2.70A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 d.26.1.1 PDB: 1kt1_A 3o5d_A

Probab=97.93  E-value=5.1e-05  Score=82.66  Aligned_cols=138  Identities=13%  Similarity=0.045  Sum_probs=63.8

Q ss_pred             CHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhHHHHHHH
Q 003295          636 NPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIG  715 (833)
Q Consensus       636 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~  715 (833)
                      ....|..+...+.+.|++++|+..|++.++.......  +           .-+...    +..    .-....|..+..
T Consensus       267 ~a~~~~~~G~~~~~~g~~~~A~~~y~~Al~~~p~~~~--~-----------~~~~~~----~~~----~~~~~~~~nla~  325 (457)
T 1kt0_A          267 QAAIVKEKGTVYFKGGKYMQAVIQYGKIVSWLEMEYG--L-----------SEKESK----ASE----SFLLAAFLNLAM  325 (457)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCS--C-----------CHHHHH----HHH----HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhccccc--C-----------ChHHHH----HHH----HHHHHHHHHHHH
Confidence            3455666666777777777777777776654211110  0           000000    000    000234444555


Q ss_pred             HHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhcCCCHH
Q 003295          716 GYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISP-DSITYNVFMDGHCKGGNVE  794 (833)
Q Consensus       716 ~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~~~~~l~~~~~~~g~~~  794 (833)
                      +|.+.|++++|+..++++++.. +.+...|..+..+|...|++++|+..|+++++  +.| +..++..+..++.+.|+.+
T Consensus       326 ~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~--l~P~~~~a~~~l~~~~~~~~~~~  402 (457)
T 1kt0_A          326 CYLKLREYTKAVECCDKALGLD-SANEKGLYRRGEAQLLMNEFESAKGDFEKVLE--VNPQNKAARLQISMCQKKAKEHN  402 (457)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHT--TC----CHHHHHHHHHHHHHHHH
T ss_pred             HHHHhcCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHccCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHHHHHH
Confidence            5555555555555555555432 33444555555555555555555555555554  223 2334444555555555544


Q ss_pred             HHH
Q 003295          795 EAF  797 (833)
Q Consensus       795 ~A~  797 (833)
                      +|.
T Consensus       403 ~a~  405 (457)
T 1kt0_A          403 ERD  405 (457)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            443

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=97.93  E-value=7.1e-05  Score=68.30  Aligned_cols=98  Identities=14%  Similarity=0.105  Sum_probs=53.7

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHC-------CC----------CCChhHHHHHHHHHHhcCChhHHHHHHHHHH
Q 003295          672 SVTYSSLIHGLCNIGLIEDAKCLFDEMRKE-------GL----------LPNVACYTALIGGYCKLGQMDEAESVLQEMA  734 (833)
Q Consensus       672 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-------g~----------~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~  734 (833)
                      ...+......+.+.|++++|+..|.+.++.       +-          +.+...|..+..+|.+.|++++|+..+++.+
T Consensus        11 a~~~~~~G~~~~~~~~~~~A~~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~A~~~~~~al   90 (162)
T 3rkv_A           11 VEALRQKGNELFVQKDYKEAIDAYRDALTRLDTLILREKPGEPEWVELDRKNIPLYANMSQCYLNIGDLHEAEETSSEVL   90 (162)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCTTSHHHHHHHHTHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHH
Confidence            345566666777777777777777776653       00          0112344455555555555555555555555


Q ss_pred             hCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 003295          735 SINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAE  770 (833)
Q Consensus       735 ~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  770 (833)
                      +.. +.+...|..++.+|...|++++|+..|+++++
T Consensus        91 ~~~-p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~  125 (162)
T 3rkv_A           91 KRE-ETNEKALFRRAKARIAAWKLDEAEEDLKLLLR  125 (162)
T ss_dssp             HHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             hcC-CcchHHHHHHHHHHHHHhcHHHHHHHHHHHHh
Confidence            432 33444555555555555555555555555555

>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=97.91  E-value=0.00034  Score=77.96  Aligned_cols=174  Identities=9%  Similarity=-0.012  Sum_probs=128.5

Q ss_pred             CCHHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCC----------hHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc
Q 003295          616 DKIEEGETLFNEMISKKMELNPVVYNTLIRAYCKIGN----------TTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNI  685 (833)
Q Consensus       616 g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~----------~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~  685 (833)
                      ...++|++.++++++..+. +..+|+.--.++.+.|+          ++++++.++++.+.. +-+..+|.--...+.+.
T Consensus        43 ~~~eeal~~~~~~l~~nP~-~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~~-pK~y~aW~hR~w~l~~l  120 (567)
T 1dce_A           43 ELDESVLELTSQILGANPD-FATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWHHRCWLLSRL  120 (567)
T ss_dssp             CCSHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTC
T ss_pred             CCCHHHHHHHHHHHHHCch-hHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHc
Confidence            3346778888888877665 67777777777766666          788888888888765 33667777777777777


Q ss_pred             C--CHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcC-ChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc-------
Q 003295          686 G--LIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLG-QMDEAESVLQEMASINIHPNKITYTIMIGGYCKL-------  755 (833)
Q Consensus       686 g--~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g-~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~-------  755 (833)
                      |  +++++++.++++.+.. +-|...|+.-...+.+.| ..+++++.++++++.. +-|...|+.....+.+.       
T Consensus       121 ~~~~~~~el~~~~k~l~~d-~~N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~-p~n~saW~~r~~ll~~l~~~~~~~  198 (567)
T 1dce_A          121 PEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRN-FSNYSSWHYRSCLLPQLHPQPDSG  198 (567)
T ss_dssp             SSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTT-CCCHHHHHHHHHHHHHHSCCCCSS
T ss_pred             ccccHHHHHHHHHHHHhhc-cccccHHHHHHHHHHHcCCChHHHHHHHHHHHHHC-CCCccHHHHHHHHHHhhccccccc
Confidence            7  6688888888888864 346677777777777777 7888888888888764 55777887777776653       


Q ss_pred             -------CCHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhcCCCHHH
Q 003295          756 -------GDMKEAAKLLNVMAEKGISP-DSITYNVFMDGHCKGGNVEE  795 (833)
Q Consensus       756 -------g~~~~A~~~~~~m~~~g~~p-~~~~~~~l~~~~~~~g~~~~  795 (833)
                             +.+++|++++++++..  .| |...|..+...+.+.++.++
T Consensus       199 ~~~~~~~~~~~eel~~~~~ai~~--~P~~~saW~y~~~ll~~~~~~~~  244 (567)
T 1dce_A          199 PQGRLPENVLLKELELVQNAFFT--DPNDQSAWFYHRWLLGRAEPHDV  244 (567)
T ss_dssp             SCCSSCHHHHHHHHHHHHHHHHH--CSSCSHHHHHHHHHHSCCCCCSC
T ss_pred             ccccccHHHHHHHHHHHHHHHhh--CCCCccHHHHHHHHHhcCCCccc
Confidence                   5578888888888884  34 66788888888887777444

>1wao_1 Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, super-helix,; 2.9A {Homo sapiens} SCOP: a.118.8.1 d.159.1.3

Probab=97.90  E-value=7.8e-05  Score=81.56  Aligned_cols=115  Identities=7%  Similarity=-0.063  Sum_probs=90.4

Q ss_pred             hccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHH
Q 003295          195 KNLGFGYAIDVFSIFSSKGIFPSLKTCNFLLNSLVKANEVQKGIEVFETMCRGVSPDVFLFSTAINAFCKRGRIEDAIGL  274 (833)
Q Consensus       195 ~~~~~~~A~~~f~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~  274 (833)
                      +.|++++|++.|++..+..+. +..+|+.+..++.+.|++++|+..|++.++-.+.+..+|..+..+|.+.|++++|.+.
T Consensus        18 ~~g~~~~A~~~~~~Al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~lg~~~~~~g~~~eA~~~   96 (477)
T 1wao_1           18 KAKDYENAIKFYSQAIELNPS-NAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMALGKFRAALRD   96 (477)
T ss_dssp             TTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHTCHHHHHHH
T ss_pred             HhCCHHHHHHHHHHHHHhCCc-cHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHH
Confidence            568889999999988876544 6888999999999999999999999999866667788899999999999999999999


Q ss_pred             HHHHHHcCCCCChhhHHHHHHH--HHhcCChhHHHHHHH
Q 003295          275 FTKMEELGIAPNVVTYNNIIHG--LCRNGRLYEAFHLKE  311 (833)
Q Consensus       275 ~~~m~~~g~~p~~~~~~~li~~--~~~~g~~~~A~~~~~  311 (833)
                      |++..+.... +...+..+..+  +.+.|++++|++.++
T Consensus        97 ~~~al~~~p~-~~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           97 YETVVKVKPH-DKDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             HHHHHHHSTT-CTTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             HHHHHHhCCC-CHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            9998886432 44556666555  778899999999887

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=97.90  E-value=5.6e-05  Score=68.50  Aligned_cols=132  Identities=15%  Similarity=0.087  Sum_probs=83.7

Q ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHhCCCC-CC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHHC----CCCC-Chh
Q 003295          639 VYNTLIRAYCKIGNTTAAFRLSNDMKSRGIL-PT----SVTYSSLIHGLCNIGLIEDAKCLFDEMRKE----GLLP-NVA  708 (833)
Q Consensus       639 ~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~-p~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----g~~p-~~~  708 (833)
                      ++..+...+...|++++|...+++..+.... ++    ..++..+...+...|++++|...+++..+.    +..+ ...
T Consensus        11 ~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~   90 (164)
T 3ro3_A           11 AFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERIAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQ   90 (164)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHHHH
Confidence            4445555555556666666655555432100 11    135666677777778888888877776642    1111 134


Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHHhC----CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 003295          709 CYTALIGGYCKLGQMDEAESVLQEMASI----NIHP-NKITYTIMIGGYCKLGDMKEAAKLLNVMAE  770 (833)
Q Consensus       709 ~~~~li~~~~~~g~~~~A~~~~~~m~~~----g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  770 (833)
                      .+..+...+...|++++|.+.+++..+.    +..+ ...++..+...+...|++++|.+.+++..+
T Consensus        91 ~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~  157 (164)
T 3ro3_A           91 SCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLE  157 (164)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            5667777888888888888888877642    1111 134677788888899999999999888775

>1klx_A Cysteine rich protein B; structural genomics, helix-turn-helix, right handed super helix, modular structure', hydrolase; 1.95A {Helicobacter pylori} SCOP: a.118.18.1

Probab=97.87  E-value=0.00033  Score=61.78  Aligned_cols=110  Identities=12%  Similarity=-0.023  Sum_probs=64.7

Q ss_pred             CHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCCHHHHH
Q 003295          687 LIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCK----LGDMKEAA  762 (833)
Q Consensus       687 ~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~----~g~~~~A~  762 (833)
                      +.++|.++|++..+.| .|+..    |...|...+.+++|.+.|++..+.|   +...+..|...|..    .+++++|+
T Consensus        10 d~~~A~~~~~~aa~~g-~~~a~----lg~~y~~g~~~~~A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~   81 (138)
T 1klx_A           10 DLKKAIQYYVKACELN-EMFGC----LSLVSNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRKAA   81 (138)
T ss_dssp             HHHHHHHHHHHHHHTT-CTTHH----HHHHTCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHH
T ss_pred             CHHHHHHHHHHHHcCC-CHhhh----HHHHHHcCCCHHHHHHHHHHHHcCC---CHHHHHHHHHHHHcCCCCCccHHHHH
Confidence            4556666666666654 22222    4444545555666666666666543   45555666666655    56666666


Q ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHhc----CCCHHHHHHHHHHHHHCC
Q 003295          763 KLLNVMAEKGISPDSITYNVFMDGHCK----GGNVEEAFKVCDRMLSEG  807 (833)
Q Consensus       763 ~~~~~m~~~g~~p~~~~~~~l~~~~~~----~g~~~~A~~~~~~m~~~g  807 (833)
                      ++|++..+.|   +...+..|...|..    .++.++|.++|++..+.|
T Consensus        82 ~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g  127 (138)
T 1klx_A           82 QYYSKACGLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLG  127 (138)
T ss_dssp             HHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHcCC---CHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCC
Confidence            6666666653   45556666666665    566666666666666654

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=97.86  E-value=0.00041  Score=60.05  Aligned_cols=92  Identities=10%  Similarity=0.039  Sum_probs=59.9

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHhCCCCCCH---HHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC---HHHHHHHHH
Q 003295          712 ALIGGYCKLGQMDEAESVLQEMASINIHPNK---ITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISPD---SITYNVFMD  785 (833)
Q Consensus       712 ~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~---~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~---~~~~~~l~~  785 (833)
                      .+...+...|++++|...|+++.+.. +.+.   ..+..++.++...|++++|+..++++++.. +.+   ..++..++.
T Consensus         7 ~~a~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~~~~la~   84 (129)
T 2xev_A            7 NVAFDALKNGKYDDASQLFLSFLELY-PNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRY-PTHDKAAGGLLKLGL   84 (129)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC-SSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTSTTHHHHHHHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHHC-CCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHC-CCCcccHHHHHHHHH
Confidence            44556667777777777777776532 2222   366667777777777777777777776642 112   455666777


Q ss_pred             HHhcCCCHHHHHHHHHHHHH
Q 003295          786 GHCKGGNVEEAFKVCDRMLS  805 (833)
Q Consensus       786 ~~~~~g~~~~A~~~~~~m~~  805 (833)
                      ++...|++++|...|+++++
T Consensus        85 ~~~~~g~~~~A~~~~~~~~~  104 (129)
T 2xev_A           85 SQYGEGKNTEAQQTLQQVAT  104 (129)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHH
Confidence            77777777777777777766

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=97.84  E-value=0.00014  Score=66.37  Aligned_cols=99  Identities=16%  Similarity=0.039  Sum_probs=60.3

Q ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhC--------C---------CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 003295          637 PVVYNTLIRAYCKIGNTTAAFRLSNDMKSR--------G---------ILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMR  699 (833)
Q Consensus       637 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~--------~---------~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~  699 (833)
                      ...+......+.+.|++++|+..|++.+..        .         -+.+...|..+..++.+.|++++|+..+++.+
T Consensus        11 a~~~~~~G~~~~~~~~~~~A~~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~A~~~~~~al   90 (162)
T 3rkv_A           11 VEALRQKGNELFVQKDYKEAIDAYRDALTRLDTLILREKPGEPEWVELDRKNIPLYANMSQCYLNIGDLHEAEETSSEVL   90 (162)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCTTSHHHHHHHHTHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHH
Confidence            445556666666667777777766666553        0         01122455666666666677777777776666


Q ss_pred             HCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHhC
Q 003295          700 KEGLLPNVACYTALIGGYCKLGQMDEAESVLQEMASI  736 (833)
Q Consensus       700 ~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  736 (833)
                      +.. +.+...|..+..+|...|++++|...|++..+.
T Consensus        91 ~~~-p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l  126 (162)
T 3rkv_A           91 KRE-ETNEKALFRRAKARIAAWKLDEAEEDLKLLLRN  126 (162)
T ss_dssp             HHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             hcC-CcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhc
Confidence            642 334556666666666677777777776666653

>2hr2_A Hypothetical protein; alpha-alpha superhelix fold, structural genomics, joint CENT structural genomics, JCSG, protein structure initiative; 2.54A {Chlorobium tepidum} SCOP: a.118.8.8

Probab=97.83  E-value=0.00017  Score=64.03  Aligned_cols=103  Identities=13%  Similarity=0.043  Sum_probs=69.5

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHhCCCCCC-------------HHHHHHHHHHHHhcCCHHHHHHHHHHHHHc-----CC
Q 003295          712 ALIGGYCKLGQMDEAESVLQEMASINIHPN-------------KITYTIMIGGYCKLGDMKEAAKLLNVMAEK-----GI  773 (833)
Q Consensus       712 ~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-------------~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-----g~  773 (833)
                      .....+.+.|++++|+..|++.++.  .|+             ...|..+..++.+.|++++|+..+++.++.     .+
T Consensus        16 ~~G~~l~~~g~~eeAi~~Y~kAL~l--~p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~e~   93 (159)
T 2hr2_A           16 SDAQRQLVAGEYDEAAANCRRAMEI--SHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGEL   93 (159)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHH--HTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCT
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHhh--CCCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccccC
Confidence            3444445555555555555555542  222             237888888888888888888888888873     11


Q ss_pred             CCCH-HHH----HHHHHHHhcCCCHHHHHHHHHHHHH-----CCCCCCHHHHH
Q 003295          774 SPDS-ITY----NVFMDGHCKGGNVEEAFKVCDRMLS-----EGLSLDEITYT  816 (833)
Q Consensus       774 ~p~~-~~~----~~l~~~~~~~g~~~~A~~~~~~m~~-----~g~~p~~~~~~  816 (833)
                      .|+. ..|    ...+.++...|++++|+..|++.++     .|+.+......
T Consensus        94 ~pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAlel~p~d~~~~~~~~~~~  146 (159)
T 2hr2_A           94 NQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEMIEERKGETPGKERMM  146 (159)
T ss_dssp             TSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCCSCCTTHHHHH
T ss_pred             CCchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHH
Confidence            6754 677    8889999999999999999998876     35555544433

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=97.83  E-value=3.6e-05  Score=65.80  Aligned_cols=84  Identities=11%  Similarity=0.072  Sum_probs=38.5

Q ss_pred             CChhHHHHHHHHHHhCC--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCCHHHHHH
Q 003295          721 GQMDEAESVLQEMASIN--IHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISPDSITYNVFMDGHCKGGNVEEAFK  798 (833)
Q Consensus       721 g~~~~A~~~~~~m~~~g--~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~  798 (833)
                      |++++|+..|++..+.+  -+.+...|..++.+|...|++++|++.++++++.. +-+..++..++.++...|++++|+.
T Consensus         4 g~~~~A~~~~~~al~~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~   82 (117)
T 3k9i_A            4 GLEAQAVPYYEKAIASGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQF-PNHQALRVFYAMVLYNLGRYEQGVE   82 (117)
T ss_dssp             ---CCCHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             CcHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCchHHHHHHHHHHHHcCCHHHHHH
Confidence            44555555555554431  01123344455555555555555555555555431 1234445555555555555555555


Q ss_pred             HHHHHHH
Q 003295          799 VCDRMLS  805 (833)
Q Consensus       799 ~~~~m~~  805 (833)
                      .+++.+.
T Consensus        83 ~~~~al~   89 (117)
T 3k9i_A           83 LLLKIIA   89 (117)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            5555544

>1ihg_A Cyclophilin 40; ppiase immunophilin tetratricopeptide, isomerase; 1.80A {Bos taurus} SCOP: a.118.8.1 b.62.1.1 PDB: 1iip_A

Probab=97.81  E-value=0.00016  Score=76.07  Aligned_cols=90  Identities=17%  Similarity=0.121  Sum_probs=71.4

Q ss_pred             ChhHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC-CHHHHHHHH
Q 003295          706 NVACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISP-DSITYNVFM  784 (833)
Q Consensus       706 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~~~~~l~  784 (833)
                      +...|..+..+|.+.|++++|++.++++.+.. +.+...|..+..+|...|++++|++.++++++.  .| +...+..+.
T Consensus       272 ~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l--~P~~~~~~~~l~  348 (370)
T 1ihg_A          272 ALSCVLNIGACKLKMSDWQGAVDSCLEALEID-PSNTKALYRRAQGWQGLKEYDQALADLKKAQEI--APEDKAIQAELL  348 (370)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccCHHHHHHHHHHHHHhC-chhHHHHHHHHHHHHHccCHHHHHHHHHHHHHh--CCCCHHHHHHHH
Confidence            45677888888888899999999999888754 456778888888899999999999999998884  34 567777777


Q ss_pred             HHHhcCCCHHHHHH
Q 003295          785 DGHCKGGNVEEAFK  798 (833)
Q Consensus       785 ~~~~~~g~~~~A~~  798 (833)
                      ..+...++.+++.+
T Consensus       349 ~~~~~~~~~~~a~k  362 (370)
T 1ihg_A          349 KVKQKIKAQKDKEK  362 (370)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHH
Confidence            77777777776654

>1wao_1 Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, super-helix,; 2.9A {Homo sapiens} SCOP: a.118.8.1 d.159.1.3

Probab=97.80  E-value=4.1e-05  Score=83.77  Aligned_cols=118  Identities=14%  Similarity=0.102  Sum_probs=66.3

Q ss_pred             HHHhcCChhHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHH
Q 003295          227 SLVKANEVQKGIEVFETMCRGVSPDVFLFSTAINAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIHGLCRNGRLYEA  306 (833)
Q Consensus       227 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A  306 (833)
                      .+.+.|++++|...|++.++-.+.+..+|..+..+|.+.|++++|.+.|++..+.... +..+|..+..+|.+.|++++|
T Consensus        15 ~~~~~g~~~~A~~~~~~Al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~-~~~~~~~lg~~~~~~g~~~eA   93 (477)
T 1wao_1           15 DYFKAKDYENAIKFYSQAIELNPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKK-YIKGYYRRAASNMALGKFRAA   93 (477)
T ss_dssp             STTTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTT-CHHHHHHHHHHHHHHTCHHHH
T ss_pred             HHHHhCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHH
Confidence            3455666777777776666434455666666666666666666666666666665322 455666666666666666666


Q ss_pred             HHHHHHHHhCCCCCChhhHHHHHHH--HHhcCChhHHHHHHH
Q 003295          307 FHLKEKMVLREVEPSLITYSILING--LIKLEKFDDANFVLK  346 (833)
Q Consensus       307 ~~~~~~m~~~~~~p~~~t~~~li~~--~~~~g~~~~A~~~~~  346 (833)
                      .+.|++..+.. +.+...+..+..+  +.+.|++++|.+.++
T Consensus        94 ~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           94 LRDYETVVKVK-PHDKDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             HHHHHHHHHHS-TTCTTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             HHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            66666666542 1223334444333  555556666655555

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=97.79  E-value=3.6e-05  Score=65.80  Aligned_cols=86  Identities=20%  Similarity=0.245  Sum_probs=59.8

Q ss_pred             cCCHHHHHHHHHHHHHCC--CCCChhHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHH
Q 003295          685 IGLIEDAKCLFDEMRKEG--LLPNVACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAA  762 (833)
Q Consensus       685 ~g~~~~A~~~~~~m~~~g--~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~  762 (833)
                      .|++++|+..|++.++.+  -+.+...+..+..+|...|++++|...|++..+.. +.+...+..++.++...|++++|+
T Consensus         3 ~g~~~~A~~~~~~al~~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~   81 (117)
T 3k9i_A            3 LGLEAQAVPYYEKAIASGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQF-PNHQALRVFYAMVLYNLGRYEQGV   81 (117)
T ss_dssp             ----CCCHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCchHHHHHHHHHHHHcCCHHHHH
Confidence            567777777777777642  12244567777777888888888888888877753 445677777888888888888888


Q ss_pred             HHHHHHHHc
Q 003295          763 KLLNVMAEK  771 (833)
Q Consensus       763 ~~~~~m~~~  771 (833)
                      ..+++.++.
T Consensus        82 ~~~~~al~~   90 (117)
T 3k9i_A           82 ELLLKIIAE   90 (117)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHh
Confidence            888887774

>1kt0_A FKBP51, 51 kDa FK506-binding protein; FKBP-like ppiase, TPR repeats, isomerase; 2.70A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 d.26.1.1 PDB: 1kt1_A 3o5d_A

Probab=97.78  E-value=0.00019  Score=78.17  Aligned_cols=97  Identities=11%  Similarity=-0.035  Sum_probs=47.8

Q ss_pred             HHHHHHHHHHHHhcCChhHHHHHHHHhhcCCCCC---------------HHHHHHHHHHHHhcCChhHHHHHHHHHHHcC
Q 003295          218 LKTCNFLLNSLVKANEVQKGIEVFETMCRGVSPD---------------VFLFSTAINAFCKRGRIEDAIGLFTKMEELG  282 (833)
Q Consensus       218 ~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~---------------~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g  282 (833)
                      ...|..+...+.+.|++++|...|++++.-.+.+               ..+|..+..+|.+.|++++|+..|++..+..
T Consensus       268 a~~~~~~G~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~  347 (457)
T 1kt0_A          268 AAIVKEKGTVYFKGGKYMQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGLD  347 (457)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC
Confidence            3455566666667777777777777666211222               2344444444444444444444444444432


Q ss_pred             CCCChhhHHHHHHHHHhcCChhHHHHHHHHHHh
Q 003295          283 IAPNVVTYNNIIHGLCRNGRLYEAFHLKEKMVL  315 (833)
Q Consensus       283 ~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  315 (833)
                      .. +...|..+..+|...|++++|+..|+++.+
T Consensus       348 p~-~~~a~~~~g~a~~~~g~~~~A~~~~~~al~  379 (457)
T 1kt0_A          348 SA-NEKGLYRRGEAQLLMNEFESAKGDFEKVLE  379 (457)
T ss_dssp             TT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             Cc-cHHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            21 333444444444444444444444444443

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=97.78  E-value=4.7e-05  Score=79.22  Aligned_cols=148  Identities=11%  Similarity=0.022  Sum_probs=85.2

Q ss_pred             CHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhHHHHHHH
Q 003295          636 NPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIG  715 (833)
Q Consensus       636 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~  715 (833)
                      ....+..+...+.+.|++++|...|++....  .|+...       +...|+.+++...+.          ...|..+..
T Consensus       178 ~a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~--~p~~~~-------~~~~~~~~~~~~~l~----------~~~~~nla~  238 (338)
T 2if4_A          178 AADRRKMDGNSLFKEEKLEEAMQQYEMAIAY--MGDDFM-------FQLYGKYQDMALAVK----------NPCHLNIAA  238 (338)
T ss_dssp             HHHHHHHHHHHTCSSSCCHHHHHHHHHHHHH--SCHHHH-------HTCCHHHHHHHHHHH----------THHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH--hccchh-------hhhcccHHHHHHHHH----------HHHHHHHHH
Confidence            3556777777788888888888888887765  233321       122333333332221          136788889


Q ss_pred             HHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHH-hcCCCH
Q 003295          716 GYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISP-DSITYNVFMDGH-CKGGNV  793 (833)
Q Consensus       716 ~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~~~~~l~~~~-~~~g~~  793 (833)
                      +|.+.|++++|+..+++.++.. +.+...|..+..+|...|++++|+..|+++++  +.| +...+..|.... ...+..
T Consensus       239 ~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~--l~p~~~~a~~~L~~l~~~~~~~~  315 (338)
T 2if4_A          239 CLIKLKRYDEAIGHCNIVLTEE-EKNPKALFRRGKAKAELGQMDSARDDFRKAQK--YAPDDKAIRRELRALAEQEKALY  315 (338)
T ss_dssp             HHHTTTCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC-------------------------
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--HCCCCHHHHHHHHHHHHHHHHHH
Confidence            9999999999999999998854 55788999999999999999999999999887  445 445566665553 345677


Q ss_pred             HHHHHHHHHHHH
Q 003295          794 EEAFKVCDRMLS  805 (833)
Q Consensus       794 ~~A~~~~~~m~~  805 (833)
                      +++...|.+|..
T Consensus       316 ~~a~~~~~~~l~  327 (338)
T 2if4_A          316 QKQKEMYKGIFK  327 (338)
T ss_dssp             ------------
T ss_pred             HHHHHHHHHhhC
Confidence            888888888876

>2hr2_A Hypothetical protein; alpha-alpha superhelix fold, structural genomics, joint CENT structural genomics, JCSG, protein structure initiative; 2.54A {Chlorobium tepidum} SCOP: a.118.8.8

Probab=97.74  E-value=0.00027  Score=62.85  Aligned_cols=94  Identities=15%  Similarity=0.055  Sum_probs=70.5

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC-------------hhHHHHHHHHHHhcCChhHHHHHHHHHHhC-----
Q 003295          675 YSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPN-------------VACYTALIGGYCKLGQMDEAESVLQEMASI-----  736 (833)
Q Consensus       675 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-------------~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-----  736 (833)
                      +......+.+.|++++|+..|++.++.  .|+             ...|..+..++.+.|++++|+..+++.++.     
T Consensus        14 ~~~~G~~l~~~g~~eeAi~~Y~kAL~l--~p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~   91 (159)
T 2hr2_A           14 ALSDAQRQLVAGEYDEAAANCRRAMEI--SHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRG   91 (159)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHH--HTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHhh--CCCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccc
Confidence            444555566677777777777776663  233             237888888888899999998888888874     


Q ss_pred             CCCCC-HHHH----HHHHHHHHhcCCHHHHHHHHHHHHH
Q 003295          737 NIHPN-KITY----TIMIGGYCKLGDMKEAAKLLNVMAE  770 (833)
Q Consensus       737 g~~p~-~~~~----~~li~~~~~~g~~~~A~~~~~~m~~  770 (833)
                      .+.|+ ...|    .....++...|++++|+..|++.++
T Consensus        92 e~~pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAle  130 (159)
T 2hr2_A           92 ELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVE  130 (159)
T ss_dssp             CTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             cCCCchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHh
Confidence            11454 5578    8999999999999999999999987

>1ihg_A Cyclophilin 40; ppiase immunophilin tetratricopeptide, isomerase; 1.80A {Bos taurus} SCOP: a.118.8.1 b.62.1.1 PDB: 1iip_A

Probab=97.73  E-value=0.00016  Score=76.07  Aligned_cols=138  Identities=12%  Similarity=0.003  Sum_probs=64.9

Q ss_pred             HHHHHHHHHHHhcCChhHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHH
Q 003295          219 KTCNFLLNSLVKANEVQKGIEVFETMCRGVSPDVFLFSTAINAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIHGLC  298 (833)
Q Consensus       219 ~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~  298 (833)
                      ..|..+...+.+.|++++|+..|++.++-.+...           ..-.       .++..+.. ..+...|+.+...|.
T Consensus       224 ~~~~~~g~~~~~~g~~~~Ai~~y~kAl~~~~~~~-----------~~~~-------~~~~~~~~-~~~~~~~~nla~~~~  284 (370)
T 1ihg_A          224 EDLKNIGNTFFKSQNWEMAIKKYTKVLRYVEGSR-----------AAAE-------DADGAKLQ-PVALSCVLNIGACKL  284 (370)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHH-----------HHSC-------HHHHGGGH-HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhcCc-----------cccC-------hHHHHHHH-HHHHHHHHHHHHHHH
Confidence            3466666777777777777777777663000000           0000       00000000 012344455555555


Q ss_pred             hcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHHcCChHHHH
Q 003295          299 RNGRLYEAFHLKEKMVLREVEPSLITYSILINGLIKLEKFDDANFVLKEMSVRGFVPNYVVYNTLIDGYCKKGNISEAL  377 (833)
Q Consensus       299 ~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~A~  377 (833)
                      +.|++++|++.+++..+.. +.+...|..+..+|.+.|++++|...|++..+.... +...+..+...+.+.++.+++.
T Consensus       285 ~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~P~-~~~~~~~l~~~~~~~~~~~~a~  361 (370)
T 1ihg_A          285 KMSDWQGAVDSCLEALEID-PSNTKALYRRAQGWQGLKEYDQALADLKKAQEIAPE-DKAIQAELLKVKQKIKAQKDKE  361 (370)
T ss_dssp             HTTCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hccCHHHHHHHHHHHHHhC-chhHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHHHHHHHH
Confidence            5555555555555555432 223445555555555555555555555555544211 3344444444555555554443

>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=97.68  E-value=0.0009  Score=74.49  Aligned_cols=170  Identities=8%  Similarity=0.035  Sum_probs=84.5

Q ss_pred             HHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCC----------hhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcC--Ch
Q 003295          236 KGIEVFETMCRGVSPDVFLFSTAINAFCKRGR----------IEDAIGLFTKMEELGIAPNVVTYNNIIHGLCRNG--RL  303 (833)
Q Consensus       236 ~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~----------~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g--~~  303 (833)
                      +|++.+++++.-.|.+..+|+.--.++...|+          ++++++.++++.+..+. +..+|+.-.-.+.+.|  ++
T Consensus        47 eal~~~~~~l~~nP~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~~pK-~y~aW~hR~w~l~~l~~~~~  125 (567)
T 1dce_A           47 SVLELTSQILGANPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPK-SYGTWHHRCWLLSRLPEPNW  125 (567)
T ss_dssp             HHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTCSSCCH
T ss_pred             HHHHHHHHHHHHCchhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcccccH
Confidence            44555555443333344444444444444444          45555555555544322 3344444444444444  33


Q ss_pred             hHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcC-ChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHHc------------
Q 003295          304 YEAFHLKEKMVLREVEPSLITYSILINGLIKLE-KFDDANFVLKEMSVRGFVPNYVVYNTLIDGYCKK------------  370 (833)
Q Consensus       304 ~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g-~~~~A~~~~~~m~~~g~~p~~~~y~~li~~~~~~------------  370 (833)
                      +++++.++++.+.. +.|..+|+--.-.+.+.| .++++.+.++++.+..+. |..+|+-....+.+.            
T Consensus       126 ~~el~~~~k~l~~d-~~N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~p~-n~saW~~r~~ll~~l~~~~~~~~~~~~  203 (567)
T 1dce_A          126 ARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFS-NYSSWHYRSCLLPQLHPQPDSGPQGRL  203 (567)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCC-CHHHHHHHHHHHHHHSCCCCSSSCCSS
T ss_pred             HHHHHHHHHHHhhc-cccccHHHHHHHHHHHcCCChHHHHHHHHHHHHHCCC-CccHHHHHHHHHHhhcccccccccccc
Confidence            55555555555442 234444444444444444 455555555555544322 344444444443332            


Q ss_pred             --CChHHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChh
Q 003295          371 --GNISEALKIRDDMVSKGMSPNSVTFNSLIHGFCKSGQMD  409 (833)
Q Consensus       371 --g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~  409 (833)
                        +.+++|++.+++.....+. |...|+.+...+.+.++.+
T Consensus       204 ~~~~~~eel~~~~~ai~~~P~-~~saW~y~~~ll~~~~~~~  243 (567)
T 1dce_A          204 PENVLLKELELVQNAFFTDPN-DQSAWFYHRWLLGRAEPHD  243 (567)
T ss_dssp             CHHHHHHHHHHHHHHHHHCSS-CSHHHHHHHHHHSCCCCCS
T ss_pred             cHHHHHHHHHHHHHHHhhCCC-CccHHHHHHHHHhcCCCcc
Confidence              4567788888777765433 6667777666666666533

>1klx_A Cysteine rich protein B; structural genomics, helix-turn-helix, right handed super helix, modular structure', hydrolase; 1.95A {Helicobacter pylori} SCOP: a.118.18.1

Probab=97.63  E-value=0.0012  Score=57.98  Aligned_cols=111  Identities=10%  Similarity=-0.066  Sum_probs=84.2

Q ss_pred             CChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHh----cCChhHH
Q 003295          651 GNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCK----LGQMDEA  726 (833)
Q Consensus       651 g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~----~g~~~~A  726 (833)
                      +++++|++.|++..+.| .++..    +...|...+.+++|.++|++..+.|   +...+..|...|..    .++.++|
T Consensus         9 ~d~~~A~~~~~~aa~~g-~~~a~----lg~~y~~g~~~~~A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A   80 (138)
T 1klx_A            9 KDLKKAIQYYVKACELN-EMFGC----LSLVSNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRKA   80 (138)
T ss_dssp             HHHHHHHHHHHHHHHTT-CTTHH----HHHHTCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHH
T ss_pred             cCHHHHHHHHHHHHcCC-CHhhh----HHHHHHcCCCHHHHHHHHHHHHcCC---CHHHHHHHHHHHHcCCCCCccHHHH
Confidence            45677888888887776 23333    5666666677788888888888764   56677777777777    7788888


Q ss_pred             HHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHcC
Q 003295          727 ESVLQEMASINIHPNKITYTIMIGGYCK----LGDMKEAAKLLNVMAEKG  772 (833)
Q Consensus       727 ~~~~~~m~~~g~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~g  772 (833)
                      .+.|++..+.|   +...+..|...|..    .+++++|.+++++..+.|
T Consensus        81 ~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g  127 (138)
T 1klx_A           81 AQYYSKACGLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLG  127 (138)
T ss_dssp             HHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHcCC---CHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCC
Confidence            88888888765   56777788888887    788888888888888876

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=97.61  E-value=3.8e-05  Score=64.65  Aligned_cols=92  Identities=14%  Similarity=0.075  Sum_probs=62.2

Q ss_pred             ChhHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC-------HH
Q 003295          706 NVACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISPD-------SI  778 (833)
Q Consensus       706 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-------~~  778 (833)
                      +...+..+...+.+.|++++|.+.+++..+.. +.+...|..+..++...|++++|++.++++++.  .|+       ..
T Consensus         3 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~   79 (111)
T 2l6j_A            3 QFEKQKEQGNSLFKQGLYREAVHCYDQLITAQ-PQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRY--TSTAEHVAIRSK   79 (111)
T ss_dssp             HHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTS--CSSTTSHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh--CCCccHHHHHHH
Confidence            34556667777777777777777777777653 446677777777777788888888888777763  443       45


Q ss_pred             HHHHHHHHHhcCCCHHHHHHHH
Q 003295          779 TYNVFMDGHCKGGNVEEAFKVC  800 (833)
Q Consensus       779 ~~~~l~~~~~~~g~~~~A~~~~  800 (833)
                      .+..+..++...|+.++|.+.+
T Consensus        80 ~~~~~~~~~~~~~~~~~a~~~~  101 (111)
T 2l6j_A           80 LQYRLELAQGAVGSVQIPVVEV  101 (111)
T ss_dssp             HHHHHHHHHHHHHCCCCCSSSS
T ss_pred             HHHHHHHHHHHHHhHhhhHhHH
Confidence            5666666666666665555444

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=97.55  E-value=0.00017  Score=75.00  Aligned_cols=150  Identities=11%  Similarity=0.027  Sum_probs=86.5

Q ss_pred             CHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 003295          601 DIYTYGVMIDGFCKADKIEEGETLFNEMISKKMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIH  680 (833)
Q Consensus       601 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~  680 (833)
                      ....+..+...+.+.|++++|...|++.++..  |+...       +...|+.+++...+.          ...|..+..
T Consensus       178 ~a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~--p~~~~-------~~~~~~~~~~~~~l~----------~~~~~nla~  238 (338)
T 2if4_A          178 AADRRKMDGNSLFKEEKLEEAMQQYEMAIAYM--GDDFM-------FQLYGKYQDMALAVK----------NPCHLNIAA  238 (338)
T ss_dssp             HHHHHHHHHHHTCSSSCCHHHHHHHHHHHHHS--CHHHH-------HTCCHHHHHHHHHHH----------THHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHh--ccchh-------hhhcccHHHHHHHHH----------HHHHHHHHH
Confidence            35567778888999999999999999988763  23221       222334444433221          136778888


Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHH-HHhcCCHH
Q 003295          681 GLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGG-YCKLGDMK  759 (833)
Q Consensus       681 ~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~-~~~~g~~~  759 (833)
                      ++.+.|++++|+..+++.++.. +.+...|..+..+|...|++++|...|+++.+.. +.+...+..+... ....+..+
T Consensus       239 ~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l~-p~~~~a~~~L~~l~~~~~~~~~  316 (338)
T 2if4_A          239 CLIKLKRYDEAIGHCNIVLTEE-EKNPKALFRRGKAKAELGQMDSARDDFRKAQKYA-PDDKAIRRELRALAEQEKALYQ  316 (338)
T ss_dssp             HHHTTTCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC-------------------------
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHHHHHHH
Confidence            8999999999999999998853 3467788889999999999999999999988743 3345566666555 34456677


Q ss_pred             HHHHHHHHHHHc
Q 003295          760 EAAKLLNVMAEK  771 (833)
Q Consensus       760 ~A~~~~~~m~~~  771 (833)
                      ++...|.+|...
T Consensus       317 ~a~~~~~~~l~~  328 (338)
T 2if4_A          317 KQKEMYKGIFKG  328 (338)
T ss_dssp             ------------
T ss_pred             HHHHHHHHhhCC
Confidence            888888888763

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=97.53  E-value=0.00034  Score=75.96  Aligned_cols=98  Identities=8%  Similarity=-0.037  Sum_probs=48.5

Q ss_pred             hHHHHHHHHHHhcCChhHHHHHHHHHHh-----CC-CCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHH---cCCCCC-
Q 003295          708 ACYTALIGGYCKLGQMDEAESVLQEMAS-----IN-IHPN-KITYTIMIGGYCKLGDMKEAAKLLNVMAE---KGISPD-  776 (833)
Q Consensus       708 ~~~~~li~~~~~~g~~~~A~~~~~~m~~-----~g-~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~---~g~~p~-  776 (833)
                      .+++.|...|...|++++|+.++++..+     .| -.|+ ..+++.|+..|...|++++|..+++++++   .-+.|| 
T Consensus       352 ~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~H  431 (490)
T 3n71_A          352 RLLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGMAVMRAGLTNWHAGHIEVGHGMICKAYAILLVTHGPSH  431 (490)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTS
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCC
Confidence            3445555555555555555555555432     11 0111 23455555566666666666665555543   111122 


Q ss_pred             ---HHHHHHHHHHHhcCCCHHHHHHHHHHHHH
Q 003295          777 ---SITYNVFMDGHCKGGNVEEAFKVCDRMLS  805 (833)
Q Consensus       777 ---~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  805 (833)
                         ..+...+..++...|++++|...+.++++
T Consensus       432 p~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~  463 (490)
T 3n71_A          432 PITKDLEAMRMQTEMELRMFRQNEFMYHKMRE  463 (490)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence               13344555555556666666666666654

>1zu2_A Mitochondrial import receptor subunit TOM20-3; TPR, tetratricopeptide repeat like, TPR-like, transport protein; NMR {Arabidopsis thaliana} SCOP: a.118.8.1

Probab=97.52  E-value=0.00013  Score=64.63  Aligned_cols=91  Identities=18%  Similarity=0.163  Sum_probs=58.8

Q ss_pred             HhcCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCChh----------HHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 003295          683 CNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMD----------EAESVLQEMASINIHPNKITYTIMIGGY  752 (833)
Q Consensus       683 ~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~----------~A~~~~~~m~~~g~~p~~~~~~~li~~~  752 (833)
                      .+.+.+++|.+.+++.++.. +.+...|..+..++...|+++          +|+..|++.++.+ +.+..+|..+..+|
T Consensus        13 ~r~~~feeA~~~~~~Ai~l~-P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ld-P~~~~A~~~LG~ay   90 (158)
T 1zu2_A           13 DRILLFEQIRQDAENTYKSN-PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLID-PKKDEAVWCIGNAY   90 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHhHHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhC-cCcHHHHHHHHHHH
Confidence            45566777777777777753 336677777777777766543          6777777776643 33456677777777


Q ss_pred             HhcC-----------CHHHHHHHHHHHHHcCCCCCH
Q 003295          753 CKLG-----------DMKEAAKLLNVMAEKGISPDS  777 (833)
Q Consensus       753 ~~~g-----------~~~~A~~~~~~m~~~g~~p~~  777 (833)
                      ...|           ++++|++.|+++++  +.|+.
T Consensus        91 ~~lg~l~P~~~~a~g~~~eA~~~~~kAl~--l~P~~  124 (158)
T 1zu2_A           91 TSFAFLTPDETEAKHNFDLATQFFQQAVD--EQPDN  124 (158)
T ss_dssp             HHHHHHCCCHHHHHHHHHHHHHHHHHHHH--HCTTC
T ss_pred             HHhcccCcchhhhhccHHHHHHHHHHHHH--hCCCC
Confidence            6653           66666666666666  44553

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=97.48  E-value=0.00071  Score=57.25  Aligned_cols=79  Identities=15%  Similarity=0.104  Sum_probs=41.5

Q ss_pred             HHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 003295          690 DAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMA  769 (833)
Q Consensus       690 ~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~  769 (833)
                      +|...|++..+.. +.+...+..+...|...|++++|...+++..+.. +.+...|..+..+|...|++++|...+++++
T Consensus         3 ~a~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al   80 (115)
T 2kat_A            3 AITERLEAMLAQG-TDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFD-PTYSVAWKWLGKTLQGQGDRAGARQAWESGL   80 (115)
T ss_dssp             CHHHHHHHHHTTT-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhC-CCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            3445555555432 2244455555555555555555555555555432 3344455555555555555555555555554


Q ss_pred             H
Q 003295          770 E  770 (833)
Q Consensus       770 ~  770 (833)
                      +
T Consensus        81 ~   81 (115)
T 2kat_A           81 A   81 (115)
T ss_dssp             H
T ss_pred             H
Confidence            4

>1zu2_A Mitochondrial import receptor subunit TOM20-3; TPR, tetratricopeptide repeat like, TPR-like, transport protein; NMR {Arabidopsis thaliana} SCOP: a.118.8.1

Probab=97.48  E-value=0.00028  Score=62.51  Aligned_cols=84  Identities=12%  Similarity=0.048  Sum_probs=43.9

Q ss_pred             HcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCH----------HHHHHHHHHHHHCCCCC-ChhHHHHHHHHH
Q 003295          649 KIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIGLI----------EDAKCLFDEMRKEGLLP-NVACYTALIGGY  717 (833)
Q Consensus       649 ~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~----------~~A~~~~~~m~~~g~~p-~~~~~~~li~~~  717 (833)
                      +.+.+++|.+.+++..+.. +.+...|..+..++...+++          ++|+..|++.++.  .| +...|..+..+|
T Consensus        14 r~~~feeA~~~~~~Ai~l~-P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~l--dP~~~~A~~~LG~ay   90 (158)
T 1zu2_A           14 RILLFEQIRQDAENTYKSN-PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLI--DPKKDEAVWCIGNAY   90 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHH
T ss_pred             HHhHHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHh--CcCcHHHHHHHHHHH
Confidence            3445555555555555543 23555555555555555443          3555555555553  23 334555555555


Q ss_pred             HhcC-----------ChhHHHHHHHHHHh
Q 003295          718 CKLG-----------QMDEAESVLQEMAS  735 (833)
Q Consensus       718 ~~~g-----------~~~~A~~~~~~m~~  735 (833)
                      ...|           ++++|++.|+++++
T Consensus        91 ~~lg~l~P~~~~a~g~~~eA~~~~~kAl~  119 (158)
T 1zu2_A           91 TSFAFLTPDETEAKHNFDLATQFFQQAVD  119 (158)
T ss_dssp             HHHHHHCCCHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHhcccCcchhhhhccHHHHHHHHHHHHH
Confidence            5442           55556665555555

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=97.44  E-value=0.00043  Score=75.15  Aligned_cols=98  Identities=12%  Similarity=-0.004  Sum_probs=59.0

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHC-----C-CCC-ChhHHHHHHHHHHhcCChhHHHHHHHHHHh-----CCC-C
Q 003295          673 VTYSSLIHGLCNIGLIEDAKCLFDEMRKE-----G-LLP-NVACYTALIGGYCKLGQMDEAESVLQEMAS-----INI-H  739 (833)
Q Consensus       673 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~-----g-~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~-----~g~-~  739 (833)
                      .+++.|...|...|++++|..++++.++-     | -.| ...+++.|...|...|++++|+.++++..+     .|- .
T Consensus       352 ~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~H  431 (490)
T 3n71_A          352 RLLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGMAVMRAGLTNWHAGHIEVGHGMICKAYAILLVTHGPSH  431 (490)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTS
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCC
Confidence            35666666666677777776666665531     2 112 234566777777777777777777776653     221 1


Q ss_pred             CC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 003295          740 PN-KITYTIMIGGYCKLGDMKEAAKLLNVMAE  770 (833)
Q Consensus       740 p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~  770 (833)
                      |+ ..+...+..++...|.+++|..++.++.+
T Consensus       432 p~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~  463 (490)
T 3n71_A          432 PITKDLEAMRMQTEMELRMFRQNEFMYHKMRE  463 (490)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            11 22445566666677777777777777765

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=97.44  E-value=0.00012  Score=61.38  Aligned_cols=92  Identities=12%  Similarity=0.056  Sum_probs=57.8

Q ss_pred             CHHHHHHHHHHHHhcCChhHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCC-------hhh
Q 003295          217 SLKTCNFLLNSLVKANEVQKGIEVFETMCRGVSPDVFLFSTAINAFCKRGRIEDAIGLFTKMEELGIAPN-------VVT  289 (833)
Q Consensus       217 ~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-------~~~  289 (833)
                      +...|..+...+.+.|++++|...|++.+.-.+.+...|..+..++.+.|++++|.+.|++..+..  |+       ...
T Consensus         3 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~~~~   80 (111)
T 2l6j_A            3 QFEKQKEQGNSLFKQGLYREAVHCYDQLITAQPQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRYT--STAEHVAIRSKL   80 (111)
T ss_dssp             HHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSC--SSTTSHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC--CCccHHHHHHHH
Confidence            345566667777777777777777777764445566677777777777777777777777777643  33       334


Q ss_pred             HHHHHHHHHhcCChhHHHHHH
Q 003295          290 YNNIIHGLCRNGRLYEAFHLK  310 (833)
Q Consensus       290 ~~~li~~~~~~g~~~~A~~~~  310 (833)
                      +..+..++...|+.++|.+.+
T Consensus        81 ~~~~~~~~~~~~~~~~a~~~~  101 (111)
T 2l6j_A           81 QYRLELAQGAVGSVQIPVVEV  101 (111)
T ss_dssp             HHHHHHHHHHHHCCCCCSSSS
T ss_pred             HHHHHHHHHHHHhHhhhHhHH
Confidence            444455555555555554433

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=97.34  E-value=0.0008  Score=56.92  Aligned_cols=80  Identities=5%  Similarity=-0.068  Sum_probs=55.6

Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHH
Q 003295          201 YAIDVFSIFSSKGIFPSLKTCNFLLNSLVKANEVQKGIEVFETMCRGVSPDVFLFSTAINAFCKRGRIEDAIGLFTKMEE  280 (833)
Q Consensus       201 ~A~~~f~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  280 (833)
                      .|++.|+...+..+. +...|..+...+.+.|++++|...|++.+.-.+.+..+|..+..+|.+.|++++|...|++..+
T Consensus         3 ~a~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~   81 (115)
T 2kat_A            3 AITERLEAMLAQGTD-NMLLRFTLGKTYAEHEQFDAALPHLRAALDFDPTYSVAWKWLGKTLQGQGDRAGARQAWESGLA   81 (115)
T ss_dssp             CHHHHHHHHHTTTCC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCC-cHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            355666666665543 5667777777777777777777777777744455666777777777777777777777777665


Q ss_pred             c
Q 003295          281 L  281 (833)
Q Consensus       281 ~  281 (833)
                      .
T Consensus        82 ~   82 (115)
T 2kat_A           82 A   82 (115)
T ss_dssp             H
T ss_pred             h
Confidence            3

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=97.33  E-value=0.0016  Score=52.02  Aligned_cols=80  Identities=21%  Similarity=0.237  Sum_probs=45.0

Q ss_pred             hHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 003295          708 ACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISPDSITYNVFMDGH  787 (833)
Q Consensus       708 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~  787 (833)
                      ..+..+...+...|++++|...+++..+.. +.+...+..+..++...|++++|.+.++++.+.. +.+...+..+...+
T Consensus        10 ~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~l~~~~   87 (91)
T 1na3_A           10 EAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAKQNLGNAK   87 (91)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCHHHHHHHHHHH
Confidence            445555555666666666666666665532 3345556666666666666666666666666532 22445555555554


Q ss_pred             hc
Q 003295          788 CK  789 (833)
Q Consensus       788 ~~  789 (833)
                      .+
T Consensus        88 ~~   89 (91)
T 1na3_A           88 QK   89 (91)
T ss_dssp             HH
T ss_pred             Hh
Confidence            43

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=97.30  E-value=0.0015  Score=52.20  Aligned_cols=79  Identities=20%  Similarity=0.200  Sum_probs=42.8

Q ss_pred             HHHHHHHHHHHhcCChhHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHH
Q 003295          219 KTCNFLLNSLVKANEVQKGIEVFETMCRGVSPDVFLFSTAINAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIHGLC  298 (833)
Q Consensus       219 ~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~  298 (833)
                      ..|..+...+.+.|++++|...|++.....+.+..++..+..++.+.|++++|...|++..+..+. +...+..+...+.
T Consensus        10 ~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~p~-~~~~~~~l~~~~~   88 (91)
T 1na3_A           10 EAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPN-NAEAKQNLGNAKQ   88 (91)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHH
Confidence            345555555566666666666666665333445555555666666666666666666665554321 3344444444443

>3ly7_A Transcriptional activator CADC; alpha/beta domain, alpha domain, DNA-binding, transcription regulation, transmembrane; 1.80A {Escherichia coli} PDB: 3lya_A 3ly8_A 3ly9_A

Probab=97.08  E-value=0.0078  Score=61.35  Aligned_cols=85  Identities=15%  Similarity=0.067  Sum_probs=65.8

Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHHCCCCCCHHHHHHH
Q 003295          739 HPNKITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISPDSITYNVFMDGHCKGGNVEEAFKVCDRMLSEGLSLDEITYTTL  818 (833)
Q Consensus       739 ~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l  818 (833)
                      +.+..+|..+...+...|++++|...++++++.+  |+...|..++..+.-.|++++|.+.+++...  +.|...+|...
T Consensus       274 ~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln--~s~~a~~llG~~~~~~G~~~eA~e~~~~Alr--L~P~~~t~~~~  349 (372)
T 3ly7_A          274 NNLSIIYQIKAVSALVKGKTDESYQAINTGIDLE--MSWLNYVLLGKVYEMKGMNREAADAYLTAFN--LRPGANTLYWI  349 (372)
T ss_dssp             TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HSCSHHHHHHH
T ss_pred             CcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcC--CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHh--cCCCcChHHHH
Confidence            5667788888777777889999999999888854  7877788888888888999999988888888  67777777655


Q ss_pred             HHhhccCCC
Q 003295          819 IDGWQSSTI  827 (833)
Q Consensus       819 ~~~~~~~~~  827 (833)
                      -...-++++
T Consensus       350 ~~l~F~sn~  358 (372)
T 3ly7_A          350 ENGIFQTSV  358 (372)
T ss_dssp             HHSSSCCCH
T ss_pred             hCceeecch
Confidence            554445543

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=97.05  E-value=0.0016  Score=53.37  Aligned_cols=63  Identities=17%  Similarity=0.057  Sum_probs=31.4

Q ss_pred             hhHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 003295          707 VACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAE  770 (833)
Q Consensus       707 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  770 (833)
                      ...+..+...|.+.|++++|+..|++..+.. +.+...|..+..+|...|++++|++.+++.++
T Consensus         7 ~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~   69 (100)
T 3ma5_A            7 PFTRYALAQEHLKHDNASRALALFEELVETD-PDYVGTYYHLGKLYERLDRTDDAIDTYAQGIE   69 (100)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            3444455555555555555555555555432 22344455555555555555555555555443

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=96.89  E-value=0.0044  Score=50.72  Aligned_cols=65  Identities=20%  Similarity=0.137  Sum_probs=37.0

Q ss_pred             CCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHh
Q 003295          250 PDVFLFSTAINAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIHGLCRNGRLYEAFHLKEKMVL  315 (833)
Q Consensus       250 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  315 (833)
                      .+...+..+..+|.+.|++++|...|++..+..+. +...|..+...|.+.|++++|.+.|++..+
T Consensus         5 ~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al~   69 (100)
T 3ma5_A            5 EDPFTRYALAQEHLKHDNASRALALFEELVETDPD-YVGTYYHLGKLYERLDRTDDAIDTYAQGIE   69 (100)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CTHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            34555555666666666666666666666554322 344555566666666666666666655543

>3ly7_A Transcriptional activator CADC; alpha/beta domain, alpha domain, DNA-binding, transcription regulation, transmembrane; 1.80A {Escherichia coli} PDB: 3lya_A 3ly8_A 3ly9_A

Probab=96.78  E-value=0.019  Score=58.59  Aligned_cols=64  Identities=13%  Similarity=-0.028  Sum_probs=33.0

Q ss_pred             ChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHC
Q 003295          286 NVVTYNNIIHGLCRNGRLYEAFHLKEKMVLREVEPSLITYSILINGLIKLEKFDDANFVLKEMSVR  351 (833)
Q Consensus       286 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~  351 (833)
                      +..+|..+...+...|++++|...++++...+  |+...|..+...+.-.|+.++|.+.|++....
T Consensus       276 ~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln--~s~~a~~llG~~~~~~G~~~eA~e~~~~AlrL  339 (372)
T 3ly7_A          276 LSIIYQIKAVSALVKGKTDESYQAINTGIDLE--MSWLNYVLLGKVYEMKGMNREAADAYLTAFNL  339 (372)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcC--CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc
Confidence            44445444444444455555555555555542  44444444455555555555555555555544

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=96.59  E-value=0.011  Score=51.77  Aligned_cols=80  Identities=10%  Similarity=0.074  Sum_probs=37.8

Q ss_pred             HHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcC---ChhHHHHHHHHHHhCCCCC--CHHHHHHHHHHHHhcCCHHHHHH
Q 003295          689 EDAKCLFDEMRKEGLLPNVACYTALIGGYCKLG---QMDEAESVLQEMASINIHP--NKITYTIMIGGYCKLGDMKEAAK  763 (833)
Q Consensus       689 ~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g---~~~~A~~~~~~m~~~g~~p--~~~~~~~li~~~~~~g~~~~A~~  763 (833)
                      ..+.+-|.+..+.| .++..+...+..++++.+   +.++++.++++..+.+ .|  +...+..|.-+|.+.|++++|.+
T Consensus        15 ~~~~~~y~~e~~~~-~~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~-~p~~~rd~lY~LAv~~~kl~~Y~~A~~   92 (152)
T 1pc2_A           15 LKFEKKFQSEKAAG-SVSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYEKALK   92 (152)
T ss_dssp             HHHHHHHHHHHHTT-CCCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHS-CHHHHHHHHHHHHHHHHHTSCHHHHHH
T ss_pred             HHHHHHHHHHHccC-CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CccchHHHHHHHHHHHHHccCHHHHHH
Confidence            34444444444433 244444444555555544   3345555555555432 12  23344444445555555555555


Q ss_pred             HHHHHHH
Q 003295          764 LLNVMAE  770 (833)
Q Consensus       764 ~~~~m~~  770 (833)
                      +++.+++
T Consensus        93 y~~~lL~   99 (152)
T 1pc2_A           93 YVRGLLQ   99 (152)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHh
Confidence            5555555

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=96.46  E-value=4e-06  Score=86.32  Aligned_cols=279  Identities=15%  Similarity=0.147  Sum_probs=169.8

Q ss_pred             CChhHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHH
Q 003295          232 NEVQKGIEVFETMCRGVSPDVFLFSTAINAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIHGLCRNGRLYEAFHLKE  311 (833)
Q Consensus       232 g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~  311 (833)
                      +++++|.++-++.     .....|+.+.++..+.|++.+|.+.|-+.      -|+..|..+|.+..+.|.+++-...+.
T Consensus        39 ~~ldRa~eyA~~~-----n~p~VWs~LgkAqL~~~~v~eAIdsyIkA------~Dps~y~eVi~~A~~~~~~edLv~yL~  107 (624)
T 3lvg_A           39 GNLDRAYEFAERC-----NEPAVWSQLAKAQLQKGMVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVKYLQ  107 (624)
T ss_dssp             CCSTTTTTSSSSC-----CCCCCSSSHHHHTTTSSSCTTTTTSSCCC------SCCCSSSHHHHHTTTSSCCTTHHHHHH
T ss_pred             cccHHHHHHHHHh-----CCccHHHHHHHHHHccCchHHHHHHHHhC------CChHHHHHHHHHHHhCCCHHHHHHHHH
Confidence            4455554443332     23445778999999999999888766433      377788899999999999999988876


Q ss_pred             HHHhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCC
Q 003295          312 KMVLREVEPSLITYSILINGLIKLEKFDDANFVLKEMSVRGFVPNYVVYNTLIDGYCKKGNISEALKIRDDMVSKGMSPN  391 (833)
Q Consensus       312 ~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~  391 (833)
                      -.++.  ..+...=+.|+-+|++.+++.+-.+.+.       .||+.-...+.+-+...|.++.|.-+|..+.       
T Consensus       108 MaRk~--~ke~~IDteLi~ayAk~~rL~elEefl~-------~~N~A~iq~VGDrcf~e~lYeAAKilys~is-------  171 (624)
T 3lvg_A          108 MARKK--ARESYVETELIFALAKTNRLAELEEFIN-------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNVS-------  171 (624)
T ss_dssp             TTSTT--CCSTTTTHHHHHHHHTSCSSSTTTSTTS-------CCSSSCTHHHHHHHHHSCCSTTSSTTGGGSC-------
T ss_pred             HHHHH--hcccccHHHHHHHHHhhCcHHHHHHHHc-------CCCcccHHHHHHHHHHccCHHHHHHHHHhCc-------
Confidence            65554  3455555788889999888766433321       4677777788888888888888877775432       


Q ss_pred             hhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHH
Q 003295          392 SVTFNSLIHGFCKSGQMDNAENALEEMLSRGLSINQGAYTSVIKWLCINSRFNSALHFTKEMLLRNLRPGDGLLTLLVSG  471 (833)
Q Consensus       392 ~~~~~~li~~~~~~g~~~~A~~~l~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~  471 (833)
                        -|.-|...+.+.|++..|.+.-++.      -++.+|-.+-.+|...+++.-|.-.                      
T Consensus       172 --N~akLAstLV~L~~yq~AVdaArKA------ns~ktWKeV~~ACvd~~EfrLAqic----------------------  221 (624)
T 3lvg_A          172 --NFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQMC----------------------  221 (624)
T ss_dssp             --CCTTTSSSSSSCSGGGSSTTTTTTC------CSSCSHHHHTHHHHHSCTTTTTTHH----------------------
T ss_pred             --cHHHHHHHHHHHHHHHHHHHHHHhc------CChhHHHHHHHHHhCchHHHHHHHh----------------------
Confidence              2444555566777777766433321      2445565555555555554443222                      


Q ss_pred             HHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCChhhH
Q 003295          472 LCKNGKQAEATELCFRLFEKGFTVNTVTSNALIHGMCEAGNLKEAGKLLMEMLQRGLILDKVTYNTLILGCCKDGKPEEG  551 (833)
Q Consensus       472 ~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~l~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A  551 (833)
                                   --.++-+     ..-...++..|-..|-+++-+.+++.-.... ......|+.|.-.|++- ++++.
T Consensus       222 -------------GLniIvh-----adeL~elv~~YE~~G~f~ELIsLlEaglglE-rAHmGmFTELaILYsKY-~PeKl  281 (624)
T 3lvg_A          222 -------------GLHIVVH-----ADELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSKF-KPQKM  281 (624)
T ss_dssp             -------------HHHHHCC-----SSCCSGGGSSSSTTCCCTTSTTTHHHHTTST-TCCHHHHHHHHHHHHSS-CTTHH
T ss_pred             -------------cchhccc-----HHHHHHHHHHHHhCCCHHHHHHHHHHHhCCC-chhHHHHHHHHHHHHhc-CHHHH
Confidence                         1111111     0011235666778888888888888876432 23667777777777764 45555


Q ss_pred             HHHHHHHHHC-CCCC------CHHHHHHHHHHHHhcCCHHHHH
Q 003295          552 FKLKEDMIKR-GIQP------DNYTYNLLLHGLCSLGKMEEAI  587 (833)
Q Consensus       552 ~~~~~~m~~~-g~~p------~~~~~~~li~~~~~~g~~~~A~  587 (833)
                      .+.++..-.+ +++-      ....|.-++-.|++-.+++.|.
T Consensus       282 mEHlklf~sriNipKviracE~ahLW~ElvfLY~~ydE~DnA~  324 (624)
T 3lvg_A          282 REHLELFWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAI  324 (624)
T ss_dssp             HHHHTTSSSSSCCTTTHHHHTTTTCHHHHHHHHHHHTCHHHHH
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHhhHHHHHHHHhcchhHHHHH
Confidence            5544432221 1110      1233555555555555555443

>3qww_A SET and MYND domain-containing protein 2; methyltransferase, HSP90, transferase-transferase inhibitor; HET: SFG; 1.80A {Mus musculus} PDB: 3qwv_A* 3s7d_A* 3s7b_A* 3s7f_A* 3s7j_A* 3tg4_A* 3tg5_A* 3rib_A*

Probab=96.40  E-value=0.0072  Score=64.32  Aligned_cols=62  Identities=11%  Similarity=-0.024  Sum_probs=34.1

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHH-----cCC-CCC-HHHHHHHHHHHhcCCCHHHHHHHHHHHHH
Q 003295          744 TYTIMIGGYCKLGDMKEAAKLLNVMAE-----KGI-SPD-SITYNVFMDGHCKGGNVEEAFKVCDRMLS  805 (833)
Q Consensus       744 ~~~~li~~~~~~g~~~~A~~~~~~m~~-----~g~-~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  805 (833)
                      +++.|..+|...|++++|+.+++++++     .|- .|+ ..+++.|+..|..+|++++|..++++.++
T Consensus       342 ~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa~~~~~qg~~~eA~~~~~~Al~  410 (433)
T 3qww_A          342 MMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVYSLNVASMWLKLGRLYMGLENKAAGEKALKKAIA  410 (433)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHhccCHHHHHHHHHHHHH
Confidence            455555555556666666555555543     120 112 24566666666666666666666666554

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=96.36  E-value=0.14  Score=60.00  Aligned_cols=103  Identities=13%  Similarity=0.051  Sum_probs=53.5

Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHHc
Q 003295          291 NNIIHGLCRNGRLYEAFHLKEKMVLREVEPSLITYSILINGLIKLEKFDDANFVLKEMSVRGFVPNYVVYNTLIDGYCKK  370 (833)
Q Consensus       291 ~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~y~~li~~~~~~  370 (833)
                      ..++..+.+.|..++|.++.+...            .-.......|++++|.++.+.+      .+...|..|...+.+.
T Consensus       633 ~~~~~~l~~~~~~~~a~~~~~~~~------------~~f~~~l~~~~~~~A~~~~~~~------~~~~~W~~la~~al~~  694 (814)
T 3mkq_A          633 TKIARFLEGQEYYEEALNISPDQD------------QKFELALKVGQLTLARDLLTDE------SAEMKWRALGDASLQR  694 (814)
T ss_dssp             HHHHHHHHHTTCHHHHHHHCCCHH------------HHHHHHHHHTCHHHHHHHHTTC------CCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHhCCChHHheecCCCcc------------hheehhhhcCCHHHHHHHHHhh------CcHhHHHHHHHHHHHc
Confidence            555555556666666665432110            1122234556666666654332      2455666666666666


Q ss_pred             CChHHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHH
Q 003295          371 GNISEALKIRDDMVSKGMSPNSVTFNSLIHGFCKSGQMDNAENALEEMLS  420 (833)
Q Consensus       371 g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~l~~~~~  420 (833)
                      |+++.|.+.|..+..         |..+...+...|+.+...++.+....
T Consensus       695 ~~~~~A~~~y~~~~d---------~~~l~~l~~~~~~~~~~~~~~~~a~~  735 (814)
T 3mkq_A          695 FNFKLAIEAFTNAHD---------LESLFLLHSSFNNKEGLVTLAKDAET  735 (814)
T ss_dssp             TCHHHHHHHHHHHTC---------HHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHccC---------hhhhHHHHHHcCCHHHHHHHHHHHHH
Confidence            666666666665542         33344444445555554444444443

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=96.27  E-value=0.18  Score=59.06  Aligned_cols=164  Identities=15%  Similarity=0.080  Sum_probs=84.1

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHc
Q 003295          571 NLLLHGLCSLGKMEEAIELWEECKRTVFGPDIYTYGVMIDGFCKADKIEEGETLFNEMISKKMELNPVVYNTLIRAYCKI  650 (833)
Q Consensus       571 ~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~  650 (833)
                      ..++..+.+.|..++|.++.+.         ..   .-.......|++++|.++.+.+      .+...|..+...+.+.
T Consensus       633 ~~~~~~l~~~~~~~~a~~~~~~---------~~---~~f~~~l~~~~~~~A~~~~~~~------~~~~~W~~la~~al~~  694 (814)
T 3mkq_A          633 TKIARFLEGQEYYEEALNISPD---------QD---QKFELALKVGQLTLARDLLTDE------SAEMKWRALGDASLQR  694 (814)
T ss_dssp             HHHHHHHHHTTCHHHHHHHCCC---------HH---HHHHHHHHHTCHHHHHHHHTTC------CCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHhCCChHHheecCCC---------cc---hheehhhhcCCHHHHHHHHHhh------CcHhHHHHHHHHHHHc
Confidence            4455555556666666554321         10   0122234567777776664432      2566777777777777


Q ss_pred             CChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCChhHHHHHH
Q 003295          651 GNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESVL  730 (833)
Q Consensus       651 g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~  730 (833)
                      |+++.|.+.|.++..         |..+...+...|+.+...++-+.....|      -++....+|.+.|++++|+++ 
T Consensus       695 ~~~~~A~~~y~~~~d---------~~~l~~l~~~~~~~~~~~~~~~~a~~~~------~~~~A~~~~~~~g~~~~a~~~-  758 (814)
T 3mkq_A          695 FNFKLAIEAFTNAHD---------LESLFLLHSSFNNKEGLVTLAKDAETTG------KFNLAFNAYWIAGDIQGAKDL-  758 (814)
T ss_dssp             TCHHHHHHHHHHHTC---------HHHHHHHHHHTTCHHHHHHHHHHHHHTT------CHHHHHHHHHHHTCHHHHHHH-
T ss_pred             CCHHHHHHHHHHccC---------hhhhHHHHHHcCCHHHHHHHHHHHHHcC------chHHHHHHHHHcCCHHHHHHH-
Confidence            777777777776532         3344444455565555444444444332      112223334445555555444 


Q ss_pred             HHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCH----HHHHHHHHHHhcCCCHH
Q 003295          731 QEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISPDS----ITYNVFMDGHCKGGNVE  794 (833)
Q Consensus       731 ~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~----~~~~~l~~~~~~~g~~~  794 (833)
                                           |.+.+++++|..+.+.     ..|..    .........+...|+.+
T Consensus       759 ---------------------~~~~~~~~~A~~lA~~-----~~~~~~~i~~~~~~~~~~L~~~~~~~  800 (814)
T 3mkq_A          759 ---------------------LIKSQRFSEAAFLGST-----YGLGDNEVNDIVTKWKENLILNGKNT  800 (814)
T ss_dssp             ---------------------HHHTTCHHHHHHHHHH-----TTCCHHHHHHHHHHHHHHHHTTTCHH
T ss_pred             ---------------------HHHcCChHHHHHHHHH-----hCCChHHHHHHHHHHHHHHHhccchh
Confidence                                 3344566666665444     23444    34444445555556543

>3qww_A SET and MYND domain-containing protein 2; methyltransferase, HSP90, transferase-transferase inhibitor; HET: SFG; 1.80A {Mus musculus} PDB: 3qwv_A* 3s7d_A* 3s7b_A* 3s7f_A* 3s7j_A* 3tg4_A* 3tg5_A* 3rib_A*

Probab=96.24  E-value=0.0099  Score=63.27  Aligned_cols=85  Identities=9%  Similarity=-0.024  Sum_probs=51.8

Q ss_pred             CCHHHHHHHHHHHHHC---CCCC----ChhHHHHHHHHHHhcCChhHHHHHHHHHHh-----CC-CCCC-HHHHHHHHHH
Q 003295          686 GLIEDAKCLFDEMRKE---GLLP----NVACYTALIGGYCKLGQMDEAESVLQEMAS-----IN-IHPN-KITYTIMIGG  751 (833)
Q Consensus       686 g~~~~A~~~~~~m~~~---g~~p----~~~~~~~li~~~~~~g~~~~A~~~~~~m~~-----~g-~~p~-~~~~~~li~~  751 (833)
                      |++++|+.++++.++.   -+.|    ...+++.|..+|...|++++|+.++++..+     .| -.|+ ..+++.|...
T Consensus       312 g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa~~  391 (433)
T 3qww_A          312 KSPSELLEICELSQEKMSSVFEDSNVYMLHMMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVYSLNVASMWLKLGRL  391 (433)
T ss_dssp             SCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHHhhCccChhchHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHH
Confidence            5566666666655431   1112    124566677777777777777777776653     12 1222 2467777777


Q ss_pred             HHhcCCHHHHHHHHHHHHH
Q 003295          752 YCKLGDMKEAAKLLNVMAE  770 (833)
Q Consensus       752 ~~~~g~~~~A~~~~~~m~~  770 (833)
                      |..+|++++|+.+++++++
T Consensus       392 ~~~qg~~~eA~~~~~~Al~  410 (433)
T 3qww_A          392 YMGLENKAAGEKALKKAIA  410 (433)
T ss_dssp             HHHTTCHHHHHHHHHHHHH
T ss_pred             HHhccCHHHHHHHHHHHHH
Confidence            8888888888877777654

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=96.22  E-value=0.0093  Score=48.37  Aligned_cols=56  Identities=27%  Similarity=0.343  Sum_probs=32.5

Q ss_pred             HHHHHhcCChhHHHHHHHHHHhCCCCCCHH-HHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 003295          714 IGGYCKLGQMDEAESVLQEMASINIHPNKI-TYTIMIGGYCKLGDMKEAAKLLNVMAE  770 (833)
Q Consensus       714 i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~-~~~~li~~~~~~g~~~~A~~~~~~m~~  770 (833)
                      ...+.+.|++++|.+.++++.+.. +.+.. .|..+..+|...|++++|++.|+++++
T Consensus         7 a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~   63 (99)
T 2kc7_A            7 IKELINQGDIENALQALEEFLQTE-PVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIE   63 (99)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHC-SSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            344555666666666666665532 33444 556666666666666666666666665

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=96.21  E-value=2e-05  Score=81.29  Aligned_cols=266  Identities=12%  Similarity=0.115  Sum_probs=190.8

Q ss_pred             CHHHHHHHHHHHHhcCChhHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHH
Q 003295          217 SLKTCNFLLNSLVKANEVQKGIEVFETMCRGVSPDVFLFSTAINAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIHG  296 (833)
Q Consensus       217 ~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~  296 (833)
                      .+.+|..|..+..+.+++.+|++-|-+.     .|...|.-+|.+..+.|.+++-...+....+..  -++..=+.|+-+
T Consensus        53 ~p~VWs~LgkAqL~~~~v~eAIdsyIkA-----~Dps~y~eVi~~A~~~~~~edLv~yL~MaRk~~--ke~~IDteLi~a  125 (624)
T 3lvg_A           53 EPAVWSQLAKAQLQKGMVKEAIDSYIKA-----DDPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIFA  125 (624)
T ss_dssp             CCCCSSSHHHHTTTSSSCTTTTTSSCCC-----SCCCSSSHHHHHTTTSSCCTTHHHHHHTTSTTC--CSTTTTHHHHHH
T ss_pred             CccHHHHHHHHHHccCchHHHHHHHHhC-----CChHHHHHHHHHHHhCCCHHHHHHHHHHHHHHh--cccccHHHHHHH
Confidence            3558999999999999999998877332     455668889999999999999999887776653  355666789999


Q ss_pred             HHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHHcCChHHH
Q 003295          297 LCRNGRLYEAFHLKEKMVLREVEPSLITYSILINGLIKLEKFDDANFVLKEMSVRGFVPNYVVYNTLIDGYCKKGNISEA  376 (833)
Q Consensus       297 ~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~A  376 (833)
                      |++.|++.+-.+++    .   .||+.-...+..-|...|.++.|.-+|..+.         -|.-|...+.+.|++.+|
T Consensus       126 yAk~~rL~elEefl----~---~~N~A~iq~VGDrcf~e~lYeAAKilys~is---------N~akLAstLV~L~~yq~A  189 (624)
T 3lvg_A          126 LAKTNRLAELEEFI----N---GPNNAHIQQVGDRCYDEKMYDAAKLLYNNVS---------NFGRLASTLVHLGEYQAA  189 (624)
T ss_dssp             HHTSCSSSTTTSTT----S---CCSSSCTHHHHHHHHHSCCSTTSSTTGGGSC---------CCTTTSSSSSSCSGGGSS
T ss_pred             HHhhCcHHHHHHHH----c---CCCcccHHHHHHHHHHccCHHHHHHHHHhCc---------cHHHHHHHHHHHHHHHHH
Confidence            99999988755543    1   4788778889999999999999888776443         355566778889999988


Q ss_pred             HHHHHHHHhCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHHC
Q 003295          377 LKIRDDMVSKGMSPNSVTFNSLIHGFCKSGQMDNAENALEEMLSRGLSINQGAYTSVIKWLCINSRFNSALHFTKEMLLR  456 (833)
Q Consensus       377 ~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~l~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~  456 (833)
                      .+.-++.      -+..||-.+-.+|...+++.-|.-.--.++     ....-...++..|-..|.+++-+.+++..+..
T Consensus       190 VdaArKA------ns~ktWKeV~~ACvd~~EfrLAqicGLniI-----vhadeL~elv~~YE~~G~f~ELIsLlEaglgl  258 (624)
T 3lvg_A          190 VDGARKA------NSTRTWKEVCFACVDGKEFRLAQMCGLHIV-----VHADELEELINYYQDRGYFEELITMLEAALGL  258 (624)
T ss_dssp             TTTTTTC------CSSCSHHHHTHHHHHSCTTTTTTHHHHHHH-----CCSSCCSGGGSSSSTTCCCTTSTTTHHHHTTS
T ss_pred             HHHHHhc------CChhHHHHHHHHHhCchHHHHHHHhcchhc-----ccHHHHHHHHHHHHhCCCHHHHHHHHHHHhCC
Confidence            7765432      277899999999999999887765443333     23445667788899999999999998877632


Q ss_pred             CCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHC-CCCC------CHHHHHHHHHHHHhcCCHHHHHH
Q 003295          457 NLRPGDGLLTLLVSGLCKNGKQAEATELCFRLFEK-GFTV------NTVTSNALIHGMCEAGNLKEAGK  518 (833)
Q Consensus       457 ~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~-g~~~------~~~~~~~li~~~~~~g~~~~A~~  518 (833)
                       -......++-|.-.|++-. .++-.+-++....+ +++.      ....|.-++-.|++-.+++.|..
T Consensus       259 -ErAHmGmFTELaILYsKY~-PeKlmEHlklf~sriNipKviracE~ahLW~ElvfLY~~ydE~DnA~l  325 (624)
T 3lvg_A          259 -ERAHMGMFTELAILYSKFK-PQKMREHLELFWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAII  325 (624)
T ss_dssp             -TTCCHHHHHHHHHHHHSSC-TTHHHHHHTTSSSSSCCTTTHHHHTTTTCHHHHHHHHHHHTCHHHHHH
T ss_pred             -CchhHHHHHHHHHHHHhcC-HHHHHHHHHHHHHhccHHHHHHHHHHHhhHHHHHHHHhcchhHHHHHH
Confidence             2345667777777777653 33333333332222 2221      23356777777777777776643

>3u64_A Protein TP_0956; tetratrico peptide repeat, protein-prote interaction, syphilis, lipoprotein, transport protein; 2.30A {Treponema pallidum subsp} PDB: 4di3_A 4di4_A*

Probab=96.16  E-value=0.13  Score=50.25  Aligned_cols=87  Identities=16%  Similarity=0.225  Sum_probs=65.1

Q ss_pred             hhHHHHHHHHHHhCCCCCC---HHHHHHHHHHHHhc-----CCHHHHHHHHHHHHHcCCCC--CHHHHHHHHHHHhcC-C
Q 003295          723 MDEAESVLQEMASINIHPN---KITYTIMIGGYCKL-----GDMKEAAKLLNVMAEKGISP--DSITYNVFMDGHCKG-G  791 (833)
Q Consensus       723 ~~~A~~~~~~m~~~g~~p~---~~~~~~li~~~~~~-----g~~~~A~~~~~~m~~~g~~p--~~~~~~~l~~~~~~~-g  791 (833)
                      ..+|..++++.++.  .|+   ...|..++..|.+.     |+.++|.+.|+++++  +.|  +..++..+.+.++.. |
T Consensus       179 l~~A~a~lerAleL--DP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~--LnP~~~id~~v~YA~~l~~~~g  254 (301)
T 3u64_A          179 VHAAVMMLERACDL--WPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTR--YCSAHDPDHHITYADALCIPLN  254 (301)
T ss_dssp             HHHHHHHHHHHHHH--CTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHH--HCCTTCSHHHHHHHHHTTTTTT
T ss_pred             HHHHHHHHHHHHHh--CCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHH--hCCCCCchHHHHHHHHHHHhcC
Confidence            46677777777773  565   55788888888874     888888888888888  456  367777788888774 8


Q ss_pred             CHHHHHHHHHHHHHCCCC--CCHH
Q 003295          792 NVEEAFKVCDRMLSEGLS--LDEI  813 (833)
Q Consensus       792 ~~~~A~~~~~~m~~~g~~--p~~~  813 (833)
                      +.++|.+.+++.+.....  |+..
T Consensus       255 d~~~a~~~L~kAL~a~p~~~P~~~  278 (301)
T 3u64_A          255 NRAGFDEALDRALAIDPESVPHNK  278 (301)
T ss_dssp             CHHHHHHHHHHHHHCCGGGCSSCH
T ss_pred             CHHHHHHHHHHHHcCCCCCCCChh
Confidence            888888888888886665  5543

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=96.13  E-value=0.0095  Score=48.32  Aligned_cols=56  Identities=16%  Similarity=0.260  Sum_probs=32.9

Q ss_pred             HHHHhcCChhHHHHHHHHhhcCCCCCHH-HHHHHHHHHHhcCChhHHHHHHHHHHHc
Q 003295          226 NSLVKANEVQKGIEVFETMCRGVSPDVF-LFSTAINAFCKRGRIEDAIGLFTKMEEL  281 (833)
Q Consensus       226 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~-~~~~li~~~~~~g~~~~A~~~~~~m~~~  281 (833)
                      ..+.+.|++++|...|++++...+.+.. .+..+..+|.+.|++++|.+.|++..+.
T Consensus         8 ~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~   64 (99)
T 2kc7_A            8 KELINQGDIENALQALEEFLQTEPVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIEL   64 (99)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHCSSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            3445556666666666666533344455 5666666666666666666666666654

>3qwp_A SET and MYND domain-containing protein 3; SMYD3,SET and MYND domain, zinc finger MYND domain-containin 1, structural genomics; HET: SAM; 1.53A {Homo sapiens} PDB: 3mek_A* 3oxg_A* 3oxf_A* 3pdn_A* 3oxl_A* 3ru0_A*

Probab=96.13  E-value=0.014  Score=62.18  Aligned_cols=62  Identities=13%  Similarity=-0.010  Sum_probs=33.1

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHH---cCCCC---C-HHHHHHHHHHHhcCCCHHHHHHHHHHHHH
Q 003295          744 TYTIMIGGYCKLGDMKEAAKLLNVMAE---KGISP---D-SITYNVFMDGHCKGGNVEEAFKVCDRMLS  805 (833)
Q Consensus       744 ~~~~li~~~~~~g~~~~A~~~~~~m~~---~g~~p---~-~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  805 (833)
                      +++.++.+|...|++++|+.+++++++   +-+.|   + ..+++.|+..|..+|++++|..++++.++
T Consensus       331 ~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~l~nLa~~~~~~g~~~eA~~~~~~Al~  399 (429)
T 3qwp_A          331 VLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRGVQVMKVGKLQLHQGMFPQAMKNLRLAFD  399 (429)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Confidence            455555555555555555555555543   10112   1 14456666666666666666666665543

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=96.05  E-value=0.024  Score=45.38  Aligned_cols=64  Identities=13%  Similarity=0.108  Sum_probs=32.3

Q ss_pred             ChhHHHHHHHHHHhcCC---hhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 003295          706 NVACYTALIGGYCKLGQ---MDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAE  770 (833)
Q Consensus       706 ~~~~~~~li~~~~~~g~---~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  770 (833)
                      |...+..+..++...++   .++|..++++..+.. +-+......+...+.+.|++++|+..|+++++
T Consensus         5 ~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~d-p~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~   71 (93)
T 3bee_A            5 TATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLE-PYNEAALSLIANDHFISFRFQEAIDTWVLLLD   71 (93)
T ss_dssp             CHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             CHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHC-cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            44444555554443332   455555555555532 33444555555555555555555555555555

>3qwp_A SET and MYND domain-containing protein 3; SMYD3,SET and MYND domain, zinc finger MYND domain-containin 1, structural genomics; HET: SAM; 1.53A {Homo sapiens} PDB: 3mek_A* 3oxg_A* 3oxf_A* 3pdn_A* 3oxl_A* 3ru0_A*

Probab=96.03  E-value=0.034  Score=59.19  Aligned_cols=92  Identities=15%  Similarity=0.071  Sum_probs=64.5

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHC---CCCCC----hhHHHHHHHHHHhcCChhHHHHHHHHHHh-----CC-CCCC-HHH
Q 003295          679 IHGLCNIGLIEDAKCLFDEMRKE---GLLPN----VACYTALIGGYCKLGQMDEAESVLQEMAS-----IN-IHPN-KIT  744 (833)
Q Consensus       679 i~~~~~~g~~~~A~~~~~~m~~~---g~~p~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~-----~g-~~p~-~~~  744 (833)
                      +..+.+.|++++|+.++++.++.   -+.|+    ..+++.+...|...|++++|+.+++++.+     .| -.|+ ..+
T Consensus       294 ie~~~~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~  373 (429)
T 3qwp_A          294 IEELKAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRGVQ  373 (429)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHH
T ss_pred             HHHHHhhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHHHH
Confidence            33455677788888888877653   12222    35677788888888888888888887764     22 1222 346


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHH
Q 003295          745 YTIMIGGYCKLGDMKEAAKLLNVMAE  770 (833)
Q Consensus       745 ~~~li~~~~~~g~~~~A~~~~~~m~~  770 (833)
                      ++.|...|...|++++|+.+++++++
T Consensus       374 l~nLa~~~~~~g~~~eA~~~~~~Al~  399 (429)
T 3qwp_A          374 VMKVGKLQLHQGMFPQAMKNLRLAFD  399 (429)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHH
Confidence            88888889999999999988888764

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=95.84  E-value=0.064  Score=46.87  Aligned_cols=85  Identities=18%  Similarity=0.108  Sum_probs=56.6

Q ss_pred             hhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC---CHHHHHHHHHHHHHcCCCC--CHHHHHHHHHHHhcCCCHHHHH
Q 003295          723 MDEAESVLQEMASINIHPNKITYTIMIGGYCKLG---DMKEAAKLLNVMAEKGISP--DSITYNVFMDGHCKGGNVEEAF  797 (833)
Q Consensus       723 ~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g---~~~~A~~~~~~m~~~g~~p--~~~~~~~l~~~~~~~g~~~~A~  797 (833)
                      +..+.+.|.+..+.| +++..+...+.+++++.+   +.++++.++++..+.. .|  +...+..|.-++.+.|++++|.
T Consensus        14 l~~~~~~y~~e~~~~-~~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~-~p~~~rd~lY~LAv~~~kl~~Y~~A~   91 (152)
T 1pc2_A           14 LLKFEKKFQSEKAAG-SVSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYEKAL   91 (152)
T ss_dssp             HHHHHHHHHHHHHTT-CCCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHS-CHHHHHHHHHHHHHHHHHTSCHHHHH
T ss_pred             HHHHHHHHHHHHccC-CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CccchHHHHHHHHHHHHHccCHHHHH
Confidence            445566666665555 467777777777777776   5557777777777653 24  3455666677777777777777


Q ss_pred             HHHHHHHHCCCCCC
Q 003295          798 KVCDRMLSEGLSLD  811 (833)
Q Consensus       798 ~~~~~m~~~g~~p~  811 (833)
                      ++++.+++  +.|+
T Consensus        92 ~y~~~lL~--ieP~  103 (152)
T 1pc2_A           92 KYVRGLLQ--TEPQ  103 (152)
T ss_dssp             HHHHHHHH--HCTT
T ss_pred             HHHHHHHh--cCCC
Confidence            77777777  5665

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=95.63  E-value=0.13  Score=40.96  Aligned_cols=66  Identities=11%  Similarity=-0.003  Sum_probs=29.7

Q ss_pred             CCHHHHHHHHHHHHhcCC---hhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhC
Q 003295          250 PDVFLFSTAINAFCKRGR---IEDAIGLFTKMEELGIAPNVVTYNNIIHGLCRNGRLYEAFHLKEKMVLR  316 (833)
Q Consensus       250 ~~~~~~~~li~~~~~~g~---~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  316 (833)
                      .|...+..+..++...++   .++|..+|++..+..+. ++.....+...+.+.|++++|+..++++.+.
T Consensus         4 ~~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~dp~-~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~   72 (93)
T 3bee_A            4 VTATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLEPY-NEAALSLIANDHFISFRFQEAIDTWVLLLDS   72 (93)
T ss_dssp             CCHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTC
T ss_pred             CCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHCcC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            344444444444433322   34555555554443221 3334444444444555555555555555443

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=95.30  E-value=0.083  Score=43.28  Aligned_cols=64  Identities=11%  Similarity=-0.038  Sum_probs=41.1

Q ss_pred             hhHHHHHHHHHHhcCChhHHHHHHHHHHhCC------CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 003295          707 VACYTALIGGYCKLGQMDEAESVLQEMASIN------IHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAE  770 (833)
Q Consensus       707 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g------~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  770 (833)
                      ..-+..+...+.+.|+++.|...++++.+.-      -.+....+..|..++.+.|++++|..+++++.+
T Consensus         5 a~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~   74 (104)
T 2v5f_A            5 AEDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLE   74 (104)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHh
Confidence            3444556666777777777777777665420      123455667777777777777777777777766

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=95.18  E-value=1.2  Score=37.36  Aligned_cols=141  Identities=14%  Similarity=0.131  Sum_probs=94.3

Q ss_pred             HHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChhHH
Q 003295          262 FCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIHGLCRNGRLYEAFHLKEKMVLREVEPSLITYSILINGLIKLEKFDDA  341 (833)
Q Consensus       262 ~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A  341 (833)
                      +.-.|.+++..++..+....   .+..-||.+|--....-+-+-..++++..-..   -|..          ..|++...
T Consensus        17 ~ildG~v~qGveii~k~~~s---sni~E~NW~ICNiiD~a~C~y~v~vLd~IGki---FDis----------~C~NlKrV   80 (172)
T 1wy6_A           17 FLLDGYIDEGVKIVLEITKS---STKSEYNWFICNLLESIDCRYMFQVLDKIGSY---FDLD----------KCQNLKSV   80 (172)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH---SCHHHHTHHHHHHHHHCCHHHHHHHHHHHGGG---SCGG----------GCSCTHHH
T ss_pred             HHHhhhHHHHHHHHHHHcCC---CCccccceeeeecchhhchhHHHHHHHHHhhh---cCcH----------hhhcHHHH
Confidence            44568888888888888774   46677888776666666666666666665432   1221          23333333


Q ss_pred             HHHHHHHHHCCCCCChhhHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHHC
Q 003295          342 NFVLKEMSVRGFVPNYVVYNTLIDGYCKKGNISEALKIRDDMVSKGMSPNSVTFNSLIHGFCKSGQMDNAENALEEMLSR  421 (833)
Q Consensus       342 ~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~l~~~~~~  421 (833)
                      ...+-.+-.     +....+.-++.+..+|+-|+-.+++.++.. +.+|+....-.+..+|.+.|+..+|.+++.++.+.
T Consensus        81 i~C~~~~n~-----~se~vd~ALd~lv~~~KkDqLdki~~~~l~-n~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~k  154 (172)
T 1wy6_A           81 VECGVINNT-----LNEHVNKALDILVIQGKRDKLEEIGREILK-NNEVSASILVAIANALRRVGDERDATTLLIEACKK  154 (172)
T ss_dssp             HHHHHHTTC-----CCHHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHhcc-----hHHHHHHHHHHHHHhccHhHHHHHHHHHhc-cCCCChHHHHHHHHHHHHhcchhhHHHHHHHHHHh
Confidence            333332211     333445567778888999988888888654 34667777888888999999999999999998888


Q ss_pred             CCC
Q 003295          422 GLS  424 (833)
Q Consensus       422 g~~  424 (833)
                      |++
T Consensus       155 G~k  157 (172)
T 1wy6_A          155 GEK  157 (172)
T ss_dssp             TCH
T ss_pred             hhH
Confidence            764

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=95.18  E-value=0.1  Score=43.85  Aligned_cols=79  Identities=18%  Similarity=0.082  Sum_probs=36.8

Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHH---HHHHHHHHHHcCCCC--CHHHHHHHHHHHhcCCCHHHHHHH
Q 003295          725 EAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKE---AAKLLNVMAEKGISP--DSITYNVFMDGHCKGGNVEEAFKV  799 (833)
Q Consensus       725 ~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~---A~~~~~~m~~~g~~p--~~~~~~~l~~~~~~~g~~~~A~~~  799 (833)
                      .+.+-+.+....| .++..+-..+.+++.+..+..+   ++.+++++...+ .|  .......|.-++.+.|++++|.++
T Consensus        19 ~~~~~y~~e~~~~-~~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~-~p~~~Rd~lY~LAvg~yklg~Y~~A~~~   96 (126)
T 1nzn_A           19 KFEKKFQSEKAAG-SVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYEKALKY   96 (126)
T ss_dssp             HHHHHHHHHHHHS-CCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTS-CHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHhccC-CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CcchHHHHHHHHHHHHHHhhhHHHHHHH
Confidence            3333344333333 2444444455555555554433   555555544432 12  223344445555555555555555


Q ss_pred             HHHHHH
Q 003295          800 CDRMLS  805 (833)
Q Consensus       800 ~~~m~~  805 (833)
                      ++.+++
T Consensus        97 ~~~lL~  102 (126)
T 1nzn_A           97 VRGLLQ  102 (126)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            555555

>3u64_A Protein TP_0956; tetratrico peptide repeat, protein-prote interaction, syphilis, lipoprotein, transport protein; 2.30A {Treponema pallidum subsp} PDB: 4di3_A 4di4_A*

Probab=95.03  E-value=0.63  Score=45.42  Aligned_cols=84  Identities=15%  Similarity=0.203  Sum_probs=49.1

Q ss_pred             hHHHHHHHHHHHCCCCCC---hhhHHHHHHHHHHc-----CChHHHHHHHHHHHhCCCCCChhHHHHHHHHHHhc-CChh
Q 003295          339 DDANFVLKEMSVRGFVPN---YVVYNTLIDGYCKK-----GNISEALKIRDDMVSKGMSPNSVTFNSLIHGFCKS-GQMD  409 (833)
Q Consensus       339 ~~A~~~~~~m~~~g~~p~---~~~y~~li~~~~~~-----g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~-g~~~  409 (833)
                      .+|...+++..+.  .|+   ...|..|...|.+.     |+.++|.+.|++.++.+..-+..++....+.++.. |+.+
T Consensus       180 ~~A~a~lerAleL--DP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~gd~~  257 (301)
T 3u64_A          180 HAAVMMLERACDL--WPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPLNNRA  257 (301)
T ss_dssp             HHHHHHHHHHHHH--CTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTTCHH
T ss_pred             HHHHHHHHHHHHh--CCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcCCHH
Confidence            4555555655554  333   34566666666663     67777777777666643221345555566666663 6666


Q ss_pred             HHHHHHHHHHHCCCC
Q 003295          410 NAENALEEMLSRGLS  424 (833)
Q Consensus       410 ~A~~~l~~~~~~g~~  424 (833)
                      +|.+.+++.......
T Consensus       258 ~a~~~L~kAL~a~p~  272 (301)
T 3u64_A          258 GFDEALDRALAIDPE  272 (301)
T ss_dssp             HHHHHHHHHHHCCGG
T ss_pred             HHHHHHHHHHcCCCC
Confidence            777777666665443

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=94.47  E-value=0.16  Score=41.57  Aligned_cols=64  Identities=9%  Similarity=0.027  Sum_probs=36.6

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC------CCCChhHHHHHHHHHHhcCChhHHHHHHHHHHh
Q 003295          672 SVTYSSLIHGLCNIGLIEDAKCLFDEMRKEG------LLPNVACYTALIGGYCKLGQMDEAESVLQEMAS  735 (833)
Q Consensus       672 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g------~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  735 (833)
                      ..-+..|...+.+.|+++.|..+|+.+.+.-      -.+...++..|..++.+.|++++|...++++.+
T Consensus         5 a~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~   74 (104)
T 2v5f_A            5 AEDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLE   74 (104)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHh
Confidence            3444555666666666666666666655420      112344556666666666666666666666665

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=94.34  E-value=0.77  Score=41.15  Aligned_cols=128  Identities=16%  Similarity=0.168  Sum_probs=88.8

Q ss_pred             HHHHcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCChhH
Q 003295          646 AYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDE  725 (833)
Q Consensus       646 ~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~  725 (833)
                      ...+.|+++.|.++.+++      .+...|..|.......|+++-|++.|.+...         +..+.-.|.-.|+.+.
T Consensus        14 LAL~lg~l~~A~e~a~~l------~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D---------~~~L~~Ly~~tg~~e~   78 (177)
T 3mkq_B           14 LALEYGNLDAALDEAKKL------NDSITWERLIQEALAQGNASLAEMIYQTQHS---------FDKLSFLYLVTGDVNK   78 (177)
T ss_dssp             HHHHTTCHHHHHHHHHHH------CCHHHHHHHHHHHHHTTCHHHHHHHHHHTTC---------HHHHHHHHHHHTCHHH
T ss_pred             HHHhcCCHHHHHHHHHHh------CCHHHHHHHHHHHHHcCChHHHHHHHHHhCC---------HHHHHHHHHHhCCHHH
Confidence            346789999999988765      3788899999999999999999999887654         3455556667888877


Q ss_pred             HHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHH
Q 003295          726 AESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISPDSITYNVFMDGHCKGGNVEEAFKVCDRM  803 (833)
Q Consensus       726 A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m  803 (833)
                      -.++-+.....| .     ++.....+...|+++++++++.+.   |-.|...   .+.   ...|..+.|.++.+++
T Consensus        79 L~kla~iA~~~g-~-----~n~af~~~l~lGdv~~~i~lL~~~---~r~~eA~---~~A---~t~g~~~~a~~~~~~~  141 (177)
T 3mkq_B           79 LSKMQNIAQTRE-D-----FGSMLLNTFYNNSTKERSSIFAEG---GSLPLAY---AVA---KANGDEAAASAFLEQA  141 (177)
T ss_dssp             HHHHHHHHHHTT-C-----HHHHHHHHHHHTCHHHHHHHHHHT---TCHHHHH---HHH---HHTTCHHHHHHHHHHT
T ss_pred             HHHHHHHHHHCc-c-----HHHHHHHHHHcCCHHHHHHHHHHC---CChHHHH---HHH---HHcCcHHHHHHHHHHh
Confidence            777766666554 1     344555667789999999988653   2112111   111   2246777887777655

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=94.19  E-value=2  Score=36.13  Aligned_cols=139  Identities=8%  Similarity=-0.008  Sum_probs=83.8

Q ss_pred             HcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCChhHHHH
Q 003295          649 KIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAES  728 (833)
Q Consensus       649 ~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~  728 (833)
                      -.|..++..++..+..+..   +..-||.+|--....-+=+-..+.++..-+-   -|.          ..+|++.....
T Consensus        19 ldG~v~qGveii~k~~~ss---ni~E~NW~ICNiiD~a~C~y~v~vLd~IGki---FDi----------s~C~NlKrVi~   82 (172)
T 1wy6_A           19 LDGYIDEGVKIVLEITKSS---TKSEYNWFICNLLESIDCRYMFQVLDKIGSY---FDL----------DKCQNLKSVVE   82 (172)
T ss_dssp             HTTCHHHHHHHHHHHHHHS---CHHHHTHHHHHHHHHCCHHHHHHHHHHHGGG---SCG----------GGCSCTHHHHH
T ss_pred             HhhhHHHHHHHHHHHcCCC---CccccceeeeecchhhchhHHHHHHHHHhhh---cCc----------HhhhcHHHHHH
Confidence            3466677777776666542   4444555554444444444344444433221   111          12344444444


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHHCCC
Q 003295          729 VLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISPDSITYNVFMDGHCKGGNVEEAFKVCDRMLSEGL  808 (833)
Q Consensus       729 ~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~  808 (833)
                      .+-.+     .-+....+..++.+..+|+-++-.+++..+... ..|++.....+..+|.+.|+..+|.+++.++-++|+
T Consensus        83 C~~~~-----n~~se~vd~ALd~lv~~~KkDqLdki~~~~l~n-~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~kG~  156 (172)
T 1wy6_A           83 CGVIN-----NTLNEHVNKALDILVIQGKRDKLEEIGREILKN-NEVSASILVAIANALRRVGDERDATTLLIEACKKGE  156 (172)
T ss_dssp             HHHHT-----TCCCHHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHh-----cchHHHHHHHHHHHHHhccHhHHHHHHHHHhcc-CCCChHHHHHHHHHHHHhcchhhHHHHHHHHHHhhh
Confidence            33332     123445566677778888888888888886442 577888888888888888888888888888888887


Q ss_pred             C
Q 003295          809 S  809 (833)
Q Consensus       809 ~  809 (833)
                      +
T Consensus       157 k  157 (172)
T 1wy6_A          157 K  157 (172)
T ss_dssp             H
T ss_pred             H
Confidence            6

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=94.16  E-value=11  Score=43.62  Aligned_cols=261  Identities=13%  Similarity=0.065  Sum_probs=136.8

Q ss_pred             HHHHhcCChhhHHHHHHHHHHCCCCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCC-------CCCHhhHHHHHH
Q 003295          540 LGCCKDGKPEEGFKLKEDMIKRGIQPD--NYTYNLLLHGLCSLGKMEEAIELWEECKRTVF-------GPDIYTYGVMID  610 (833)
Q Consensus       540 ~~~~~~g~~~~A~~~~~~m~~~g~~p~--~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~-------~~~~~~~~~li~  610 (833)
                      -+....|+.++++.+++..+..+-..+  ...-..+.-+....|..+++..++.......-       .+....-..+.-
T Consensus       382 LGlIh~g~~~~gl~~L~~yL~~~~s~~~~ik~GAllaLGli~ag~~~~~~~lL~~~L~~~~~~~~~~~~~~ir~gAaLGL  461 (963)
T 4ady_A          382 LGVIHKGNLLEGKKVMAPYLPGSRASSRFIKGGSLYGLGLIYAGFGRDTTDYLKNIIVENSGTSGDEDVDVLLHGASLGI  461 (963)
T ss_dssp             HHHHTSSCTTTHHHHHTTTSTTSCCSCHHHHHHHHHHHHHHTTTTTHHHHHHHHHHHHHHSSCCSCHHHHHHHHHHHHHH
T ss_pred             hhhhccCchHHHHHHHHHhccccCCCcHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHcCccccccccccHHHHHHHHHHH
Confidence            356667888888888877665321112  22333344455566666677777776654321       011222233333


Q ss_pred             HHHccCC-HHHHHHHHHHHHHCCCccCHHHHH--HHHHHHHHcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC
Q 003295          611 GFCKADK-IEEGETLFNEMISKKMELNPVVYN--TLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIGL  687 (833)
Q Consensus       611 ~~~~~g~-~~~A~~~~~~~~~~~~~~~~~~~~--~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~  687 (833)
                      ++.-.|. -+++.+.+..++...-. ......  ++...+...|+.+....++..+.+.. ..+..-...+.-++...|+
T Consensus       462 Gla~~GS~~eev~e~L~~~L~dd~~-~~~~~AalALGli~vGTgn~~ai~~LL~~~~e~~-~e~vrR~aalgLGll~~g~  539 (963)
T 4ady_A          462 GLAAMGSANIEVYEALKEVLYNDSA-TSGEAAALGMGLCMLGTGKPEAIHDMFTYSQETQ-HGNITRGLAVGLALINYGR  539 (963)
T ss_dssp             HHHSTTCCCHHHHHHHHHHHHTCCH-HHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHCS-CHHHHHHHHHHHHHHTTTC
T ss_pred             HHHhcCCCCHHHHHHHHHHHhcCCH-HHHHHHHHHHhhhhcccCCHHHHHHHHHHHhccC-cHHHHHHHHHHHHhhhCCC
Confidence            4443443 24566666666654211 111112  22333445677777777777766542 1122222333334446788


Q ss_pred             HHHHHHHHHHHHHCCCCCChhHH--HHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 003295          688 IEDAKCLFDEMRKEGLLPNVACY--TALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLL  765 (833)
Q Consensus       688 ~~~A~~~~~~m~~~g~~p~~~~~--~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~  765 (833)
                      .+.+..+++.+.... .|....-  .++.-+|+..|+.....+++..+.+.. ..+....-.+.-++...|+.+.+.+++
T Consensus       540 ~e~~~~li~~L~~~~-dp~vRygaa~alglAyaGTGn~~aIq~LL~~~~~d~-~d~VRraAViaLGlI~~g~~e~v~rlv  617 (963)
T 4ady_A          540 QELADDLITKMLASD-ESLLRYGGAFTIALAYAGTGNNSAVKRLLHVAVSDS-NDDVRRAAVIALGFVLLRDYTTVPRIV  617 (963)
T ss_dssp             GGGGHHHHHHHHHCS-CHHHHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHCS-CHHHHHHHHHHHHHHTSSSCSSHHHHT
T ss_pred             hHHHHHHHHHHHhCC-CHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHhccCC-cHHHHHHHHHHHHhhccCCHHHHHHHH
Confidence            888888888877631 2222221  133455667788777777888887632 222222233333444566666666666


Q ss_pred             HHHHHcCCCCCHHHHHHHHHHHhcCCCH-HHHHHHHHHHHH
Q 003295          766 NVMAEKGISPDSITYNVFMDGHCKGGNV-EEAFKVCDRMLS  805 (833)
Q Consensus       766 ~~m~~~g~~p~~~~~~~l~~~~~~~g~~-~~A~~~~~~m~~  805 (833)
                      +.+.+.+ .|...--..+.-+....|.. .+|+..+..+..
T Consensus       618 ~~L~~~~-d~~VR~gAalALGli~aGn~~~~aid~L~~L~~  657 (963)
T 4ady_A          618 QLLSKSH-NAHVRCGTAFALGIACAGKGLQSAIDVLDPLTK  657 (963)
T ss_dssp             TTGGGCS-CHHHHHHHHHHHHHHTSSSCCHHHHHHHHHHHT
T ss_pred             HHHHhcC-CHHHHHHHHHHHHHhccCCCcHHHHHHHHHHcc
Confidence            6555543 44444334444444444443 678888888875

>4h7y_A Dual specificity protein kinase TTK; mitotic checkpoint kinase, chromosome instability, cancer, tetratricopeptide repeat (TPR) motif; 1.80A {Homo sapiens} PDB: 4h7x_A

Probab=94.09  E-value=0.56  Score=40.32  Aligned_cols=101  Identities=16%  Similarity=0.062  Sum_probs=58.2

Q ss_pred             CHHHHHHHHHHHHhcCCh------hHHHHHHHHhhcCCCCCHH-HHHHHHH------HHHhcCChhHHHHHHHHHHHcCC
Q 003295          217 SLKTCNFLLNSLVKANEV------QKGIEVFETMCRGVSPDVF-LFSTAIN------AFCKRGRIEDAIGLFTKMEELGI  283 (833)
Q Consensus       217 ~~~~~~~ll~~~~~~g~~------~~A~~~~~~~~~~~~~~~~-~~~~li~------~~~~~g~~~~A~~~~~~m~~~g~  283 (833)
                      |..+|-..+..+-+.|+.      ++.+++|+++...+||+.. .|...|.      .+...+++++|+++|+.+.+.+-
T Consensus        12 ~yd~W~~yl~llE~~g~p~~d~~l~rlrd~YerAia~~Pp~k~~~wrrYI~LWIrYA~~~ei~D~d~aR~vy~~a~~~hK   91 (161)
T 4h7y_A           12 NPEDWLSLLLKLEKNSVPLSDALLNKLIGRYSQAIEALPPDKYGQNESFARIQVRFAELKAIQEPDDARDYFQMARANCK   91 (161)
T ss_dssp             SHHHHHHHHHHHHHHTCSCCHHHHHHHHHHHHHHHHHSCGGGGTTCHHHHHHHHHHHHHHHHHCGGGCHHHHHHHHHHCT
T ss_pred             CHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHHHHcCCccccccHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhH
Confidence            566777777777777777      7778888887765666531 1111111      11233666667777766655421


Q ss_pred             CCChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCC
Q 003295          284 APNVVTYNNIIHGLCRNGRLYEAFHLKEKMVLREV  318 (833)
Q Consensus       284 ~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~  318 (833)
                      .- ...|-.....-.+.|++..|++++.+....+.
T Consensus        92 kF-AKiwi~~AqFEiRqgnl~kARkILg~AiG~~~  125 (161)
T 4h7y_A           92 KF-AFVHISFAQFELSQGNVKKSKQLLQKAVERGA  125 (161)
T ss_dssp             TB-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTC
T ss_pred             HH-HHHHHHHHHHHHHcccHHHHHHHHHHHhccCC
Confidence            11 44455555555566666666666666666543

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=94.05  E-value=0.31  Score=40.89  Aligned_cols=88  Identities=11%  Similarity=0.103  Sum_probs=62.0

Q ss_pred             cCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCChhH---HHHHHHHHHhCCCCC--CHHHHHHHHHHHHhcCCHH
Q 003295          685 IGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDE---AESVLQEMASINIHP--NKITYTIMIGGYCKLGDMK  759 (833)
Q Consensus       685 ~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~---A~~~~~~m~~~g~~p--~~~~~~~li~~~~~~g~~~  759 (833)
                      ...+..+.+-|.+....| .++..+-..+..++.+..+..+   ++.+++.....+ .|  .......|.-++.+.|+++
T Consensus        14 ~~~l~~~~~~y~~e~~~~-~~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~-~p~~~Rd~lY~LAvg~yklg~Y~   91 (126)
T 1nzn_A           14 VEDLLKFEKKFQSEKAAG-SVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYE   91 (126)
T ss_dssp             HHHHHHHHHHHHHHHHHS-CCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTS-CHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHHHHhccC-CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CcchHHHHHHHHHHHHHHhhhHH
Confidence            334555666666666655 3677776777888888776555   888888887653 23  3345666777888999999


Q ss_pred             HHHHHHHHHHHcCCCCC
Q 003295          760 EAAKLLNVMAEKGISPD  776 (833)
Q Consensus       760 ~A~~~~~~m~~~g~~p~  776 (833)
                      +|.++++.+++  +.|+
T Consensus        92 ~A~~~~~~lL~--~eP~  106 (126)
T 1nzn_A           92 KALKYVRGLLQ--TEPQ  106 (126)
T ss_dssp             HHHHHHHHHHH--HCTT
T ss_pred             HHHHHHHHHHH--hCCC
Confidence            99999999888  4564

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=94.04  E-value=2.6  Score=37.68  Aligned_cols=101  Identities=11%  Similarity=0.103  Sum_probs=64.8

Q ss_pred             HHccCCHHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHH
Q 003295          612 FCKADKIEEGETLFNEMISKKMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIGLIEDA  691 (833)
Q Consensus       612 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A  691 (833)
                      ..+.|+++.|.++.+++      .+...|..+.......|+++-|.+.|.+...         +..+.-.|.-.|+.++-
T Consensus        15 AL~lg~l~~A~e~a~~l------~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D---------~~~L~~Ly~~tg~~e~L   79 (177)
T 3mkq_B           15 ALEYGNLDAALDEAKKL------NDSITWERLIQEALAQGNASLAEMIYQTQHS---------FDKLSFLYLVTGDVNKL   79 (177)
T ss_dssp             HHHTTCHHHHHHHHHHH------CCHHHHHHHHHHHHHTTCHHHHHHHHHHTTC---------HHHHHHHHHHHTCHHHH
T ss_pred             HHhcCCHHHHHHHHHHh------CCHHHHHHHHHHHHHcCChHHHHHHHHHhCC---------HHHHHHHHHHhCCHHHH
Confidence            34577777777777665      2677788888888888888888887776532         34444455666776666


Q ss_pred             HHHHHHHHHCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHH
Q 003295          692 KCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESVLQEM  733 (833)
Q Consensus       692 ~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m  733 (833)
                      .++-+.....|      -++.-...+.-.|+++++.+++.+.
T Consensus        80 ~kla~iA~~~g------~~n~af~~~l~lGdv~~~i~lL~~~  115 (177)
T 3mkq_B           80 SKMQNIAQTRE------DFGSMLLNTFYNNSTKERSSIFAEG  115 (177)
T ss_dssp             HHHHHHHHHTT------CHHHHHHHHHHHTCHHHHHHHHHHT
T ss_pred             HHHHHHHHHCc------cHHHHHHHHHHcCCHHHHHHHHHHC
Confidence            65555555443      1334444555677777777776543

>4h7y_A Dual specificity protein kinase TTK; mitotic checkpoint kinase, chromosome instability, cancer, tetratricopeptide repeat (TPR) motif; 1.80A {Homo sapiens} PDB: 4h7x_A

Probab=92.84  E-value=0.99  Score=38.83  Aligned_cols=32  Identities=13%  Similarity=0.097  Sum_probs=19.5

Q ss_pred             CCCHHHHHHHHHHHHhcCCh------hHHHHHHHHHHH
Q 003295          249 SPDVFLFSTAINAFCKRGRI------EDAIGLFTKMEE  280 (833)
Q Consensus       249 ~~~~~~~~~li~~~~~~g~~------~~A~~~~~~m~~  280 (833)
                      +.|..+|-..+..+-+.|+.      ++.+++|++...
T Consensus        10 p~~yd~W~~yl~llE~~g~p~~d~~l~rlrd~YerAia   47 (161)
T 4h7y_A           10 ANNPEDWLSLLLKLEKNSVPLSDALLNKLIGRYSQAIE   47 (161)
T ss_dssp             CCSHHHHHHHHHHHHHHTCSCCHHHHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHHHH
Confidence            34555666666666666666      666666666655

>2wpv_A GET4, UPF0363 protein YOR164C; golgi-ER trafficking, tail-anchored protein, protein binding GET4; 1.99A {Saccharomyces cerevisiae} PDB: 3lku_A

Probab=92.38  E-value=9.4  Score=37.86  Aligned_cols=26  Identities=19%  Similarity=0.225  Sum_probs=19.4

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHH
Q 003295          496 NTVTSNALIHGMCEAGNLKEAGKLLM  521 (833)
Q Consensus       496 ~~~~~~~li~~~~~~g~~~~A~~~l~  521 (833)
                      ++.....+...|.+.|++.+|...|-
T Consensus       133 dp~LH~~~a~~~~~e~~~~~A~~H~i  158 (312)
T 2wpv_A          133 DPYLHNTIGSKLLEGDFVYEAERYFM  158 (312)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             CHHHHHHHHHHHhhcCCHHHHHHHHH
Confidence            66777777778888888877777664

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=90.94  E-value=6.8  Score=33.39  Aligned_cols=71  Identities=15%  Similarity=0.077  Sum_probs=36.3

Q ss_pred             CCCHHHHHHHHHHHHhcCCH---HHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHHCCCCCC
Q 003295          739 HPNKITYTIMIGGYCKLGDM---KEAAKLLNVMAEKGISPDSITYNVFMDGHCKGGNVEEAFKVCDRMLSEGLSLD  811 (833)
Q Consensus       739 ~p~~~~~~~li~~~~~~g~~---~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~p~  811 (833)
                      .|+..+-..+.+++.+..+.   .+++.+++++...+..-.......|.-++.+.|++++|.++.+.+++  +.|+
T Consensus        36 ~vs~~t~F~YAw~Lv~S~~~~di~~GI~LLe~l~~~~~~~~RdcLYyLAvg~ykl~~Y~~Ar~y~d~lL~--~eP~  109 (144)
T 1y8m_A           36 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFE--HERN  109 (144)
T ss_dssp             TSCHHHHHHHHHHHHHSSSHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHTTTCHHHHHHHHHHHHH--TCCC
T ss_pred             CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCccchhHHHHHHHHHHHHhhhHHHHHHHHHHHHh--cCCC
Confidence            34555555555555555443   34555555555532111223444455556666666666666666665  4554

>3o48_A Mitochondria fission 1 protein; tetratricopeptide repeat fold, TPR, scaffold, peroxisome, membrane fission, protein binding; 1.75A {Saccharomyces cerevisiae} PDB: 2pqr_A 2pqn_A 3uux_A

Probab=90.33  E-value=3.2  Score=34.88  Aligned_cols=71  Identities=15%  Similarity=0.077  Sum_probs=36.6

Q ss_pred             CCCHHHHHHHHHHHHhcCCH---HHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHHCCCCCC
Q 003295          739 HPNKITYTIMIGGYCKLGDM---KEAAKLLNVMAEKGISPDSITYNVFMDGHCKGGNVEEAFKVCDRMLSEGLSLD  811 (833)
Q Consensus       739 ~p~~~~~~~li~~~~~~g~~---~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~p~  811 (833)
                      .|+..+--.+.+++.+..+.   .+++.+++++...+..-....+..|.-++.+.|++++|.++.+.+++  +.|+
T Consensus        37 ~vs~qt~F~yAw~Lv~S~~~~d~~~GI~LLe~l~~~~~~~~Rd~LYyLAvg~yklgdY~~Ar~y~d~lL~--~eP~  110 (134)
T 3o48_A           37 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFE--HERN  110 (134)
T ss_dssp             GSCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHT--TCTT
T ss_pred             CCChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcchhHHHHHHHHHHHHHhhhHHHHHHHHHHHHh--hCCC
Confidence            44555555555555555443   34555555555533111234445555556666666666666666655  4554

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=89.94  E-value=22  Score=37.60  Aligned_cols=51  Identities=10%  Similarity=0.051  Sum_probs=34.4

Q ss_pred             cCChhhHHHHHHHHHHC-----CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhh
Q 003295          545 DGKPEEGFKLKEDMIKR-----GIQPDNYTYNLLLHGLCSLGKMEEAIELWEECKR  595 (833)
Q Consensus       545 ~g~~~~A~~~~~~m~~~-----g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~  595 (833)
                      .|++++|++.+-.+.+.     ...........++..|...++++...+.+..+.+
T Consensus        29 ~~~~~~a~e~ll~lEK~~r~~~d~~s~~r~l~~iv~l~~~~~~~~~l~e~i~~Lsk   84 (445)
T 4b4t_P           29 QNDCNSALDQLLVLEKKTRQASDLASSKEVLAKIVDLLASRNKWDDLNEQLTLLSK   84 (445)
T ss_dssp             HHHHHHHHHHHHHHHHHHSSSCSTTTCHHHHHHHHHHHHHHSCHHHHHHHHHHHHT
T ss_pred             cCCHHHHHHHHHHHHHHhhhccchhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            36777888777666543     2334566677788888888888887776665543

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=89.39  E-value=6.6  Score=47.52  Aligned_cols=126  Identities=13%  Similarity=0.136  Sum_probs=54.4

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHHCCCCCC----hhhHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCChhHHHHHHH
Q 003295          325 YSILINGLIKLEKFDDANFVLKEMSVRGFVPN----YVVYNTLIDGYCKKGNISEALKIRDDMVSKGMSPNSVTFNSLIH  400 (833)
Q Consensus       325 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~----~~~y~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~  400 (833)
                      |..++..|-+.+.++.+.+.-....+....-+    ...|..+..++...|++++|...+-.+.....+  ......||.
T Consensus       902 Y~hv~~LFe~~~~~~~vi~fa~lAi~~~~~~~~~~~~~l~~~iFk~~L~l~~ye~Ay~aL~~~pd~~~r--~~cLr~LV~  979 (1139)
T 4fhn_B          902 YLHLSKKLFEESAYIDALEFSLLADASKETDDEDLSIAITHETLKTACAAGKFDAAHVALMVLSTTPLK--KSCLLDFVN  979 (1139)
T ss_dssp             HHHHHHHHHHTSCCHHHHHHHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHCCSGGGGHHHHHHHHSSSC--HHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhccCCChhhHHHHHHHHHHHHHhhCCHHHHHHHHHhCCCHHHH--HHHHHHHHH
Confidence            34444444455555554444443332211101    013444445555555555555555444433222  122333333


Q ss_pred             HHHhc------------CChhHHHHHHHHHHHCC--CCCCcccHHHHHHHHHhcCChhHHHHHHHH
Q 003295          401 GFCKS------------GQMDNAENALEEMLSRG--LSINQGAYTSVIKWLCINSRFNSALHFTKE  452 (833)
Q Consensus       401 ~~~~~------------g~~~~A~~~l~~~~~~g--~~~~~~~~~~li~~~~~~g~~~~A~~~~~~  452 (833)
                      ..|..            |..++..+++....+..  +...+..|..|-..+..+|++..|-.++-+
T Consensus       980 ~lce~~~~~~L~~lpf~gl~~~Vd~IL~~kAr~~~~~~~~p~Yy~iLYs~ri~r~dyR~AA~vmYe 1045 (1139)
T 4fhn_B          980 QLTKQGKINQLLNYSMPTLRQDVDNLLERKAFQMINVESQPCWYNILFSWRYKHQNYRDAAAIIYE 1045 (1139)
T ss_dssp             HHHHHCCHHHHHHHTTTSCHHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHHTTSCHHHHHHH
T ss_pred             HHHhCCChhhhhCCCCccHHHHHHHHHHHHHHhCCccccCCCHHHHhHhhhhccCChHHHHHHHHH
Confidence            33332            33445555554332211  111223456666667777777766554433

>2wpv_A GET4, UPF0363 protein YOR164C; golgi-ER trafficking, tail-anchored protein, protein binding GET4; 1.99A {Saccharomyces cerevisiae} PDB: 3lku_A

Probab=89.30  E-value=18  Score=35.80  Aligned_cols=112  Identities=15%  Similarity=0.017  Sum_probs=67.1

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHH----HHHHhhCCCCCCHHHHHHHHH
Q 003295          465 LTLLVSGLCKNGKQAEATELCFRLFEKGFTVNTVTSNALIHGMCEAGNLKEAGKL----LMEMLQRGLILDKVTYNTLIL  540 (833)
Q Consensus       465 ~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~----l~~m~~~g~~~~~~~~~~li~  540 (833)
                      |.++..-|.+.+++++|.+++..-..               .+.+.|+...|-++    ++-..+.+.+++......++.
T Consensus        36 ~Rtl~~Ry~~~~~~~eAidlL~~ga~---------------~ll~~~Q~~sa~DLa~llvev~~~~~~~~~~~~~~rl~~  100 (312)
T 2wpv_A           36 LRTIANRYVRSKSYEHAIELISQGAL---------------SFLKAKQGGSGTDLIFYLLEVYDLAEVKVDDISVARLVR  100 (312)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHH---------------HHHHTTCHHHHHHHHHHHHHHHHHTTCCCSHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHH---------------HHHHCCCcchHHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Confidence            34455667777888888877655322               24455666555543    444555677777777777777


Q ss_pred             HHHhcCChh-hHHHHHHHHHHC----C--CCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 003295          541 GCCKDGKPE-EGFKLKEDMIKR----G--IQPDNYTYNLLLHGLCSLGKMEEAIELWE  591 (833)
Q Consensus       541 ~~~~~g~~~-~A~~~~~~m~~~----g--~~p~~~~~~~li~~~~~~g~~~~A~~~~~  591 (833)
                      .+..-...+ .=.++.+.+++.    |  ..-|+.....+...|.+.|++.+|...|-
T Consensus       101 l~~~~p~~~~~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~~a~~~~~e~~~~~A~~H~i  158 (312)
T 2wpv_A          101 LIAELDPSEPNLKDVITGMNNWSIKFSEYKFGDPYLHNTIGSKLLEGDFVYEAERYFM  158 (312)
T ss_dssp             HHTTCCTTCTTHHHHHHHHHHHHHHTSSCTTCCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHCCCCCchHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHhhcCCHHHHHHHHH
Confidence            665533211 223344444322    1  22366777778888888888888877663

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=88.80  E-value=3  Score=47.14  Aligned_cols=49  Identities=16%  Similarity=0.034  Sum_probs=23.6

Q ss_pred             HhcCCHHHHHHHHHHHHHCCCCC-ChhHHHHHHHHHHhcCChhHHHHHHHHH
Q 003295          683 CNIGLIEDAKCLFDEMRKEGLLP-NVACYTALIGGYCKLGQMDEAESVLQEM  733 (833)
Q Consensus       683 ~~~g~~~~A~~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m  733 (833)
                      ...|+++-|+++-++....  .| +-.+|..|..+|.+.|+++.|+-.++.+
T Consensus       348 l~K~~~elAL~~Ak~AV~~--aPseF~tW~~La~vYi~l~d~e~ALLtLNSc  397 (754)
T 4gns_B          348 LNRGDYELALGVSNTSTEL--ALDSFESWYNLARCHIKKEEYEKALFAINSM  397 (754)
T ss_dssp             HHTTCHHHHHHHHHHHHHH--CSSCHHHHHHHHHHHHHTTCHHHHHHHHHHS
T ss_pred             hccCcHHHHHHHHHHHHhc--CchhhHHHHHHHHHHHHhccHHHHHHHHhcC
Confidence            3445555555555555442  23 2345555555555555555555444443

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=88.47  E-value=20  Score=37.92  Aligned_cols=197  Identities=14%  Similarity=0.102  Sum_probs=101.0

Q ss_pred             ccCHHHHHHHHHHHHh-----CCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHhh--cCCCCCHHHHHHHHHHHHhcCCh
Q 003295          196 NLGFGYAIDVFSIFSS-----KGIFPSLKTCNFLLNSLVKANEVQKGIEVFETMC--RGVSPDVFLFSTAINAFCKRGRI  268 (833)
Q Consensus       196 ~~~~~~A~~~f~~~~~-----~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~~~li~~~~~~g~~  268 (833)
                      .+++..|++.+..+.+     .+..-.......++..+.+.|+++...+.+..+.  +|..+...+  .+++.+      
T Consensus        29 ~~~~~~a~e~ll~lEK~~r~~~d~~s~~r~l~~iv~l~~~~~~~~~l~e~i~~Lskkr~qlk~ai~--~~V~~~------  100 (445)
T 4b4t_P           29 QNDCNSALDQLLVLEKKTRQASDLASSKEVLAKIVDLLASRNKWDDLNEQLTLLSKKHGQLKLSIQ--YMIQKV------  100 (445)
T ss_dssp             HHHHHHHHHHHHHHHHHHSSSCSTTTCHHHHHHHHHHHHHHSCHHHHHHHHHHHHTTTTTSHHHHH--HHHHHH------
T ss_pred             cCCHHHHHHHHHHHHHHhhhccchhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhhhHHHHH--HHHHHH------
Confidence            3566777776644432     2333457788889999999999998877776655  344333322  233322      


Q ss_pred             hHHHHHHHHHHHcCCCCChhhHHHHHHHHHh--cCCh-hHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChhHHHHHH
Q 003295          269 EDAIGLFTKMEELGIAPNVVTYNNIIHGLCR--NGRL-YEAFHLKEKMVLREVEPSLITYSILINGLIKLEKFDDANFVL  345 (833)
Q Consensus       269 ~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~--~g~~-~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~  345 (833)
                         ...+....    .++..+.-.++..+..  .|+. -|..             .......|...+...|++.+|..++
T Consensus       101 ---~~~l~~~~----~~d~~~~~~~i~~l~~vte~kiflE~e-------------rarl~~~La~i~e~~g~~~eA~~iL  160 (445)
T 4b4t_P          101 ---MEYLKSSK----SLDLNTRISVIETIRVVTENKIFVEVE-------------RARVTKDLVEIKKEEGKIDEAADIL  160 (445)
T ss_dssp             ---HHHHHHHC----TTHHHHHHHHHHCCSSSSSCCCCCCHH-------------HHHHHHHHHHHHHHHTCHHHHHHHH
T ss_pred             ---HHHHhcCC----chhHHHHHHHHHHHHHHhccchHHHHH-------------HHHHHHHHHHHHHHccCHHHHHHHH
Confidence               22222221    1122222222222110  1110 0000             0011233555566666666666666


Q ss_pred             HHHHHC--CCCCC---hhhHHHHHHHHHHcCChHHHHHHHHHHHh----CCCCCC--hhHHHHHHHHHHhcCChhHHHHH
Q 003295          346 KEMSVR--GFVPN---YVVYNTLIDGYCKKGNISEALKIRDDMVS----KGMSPN--SVTFNSLIHGFCKSGQMDNAENA  414 (833)
Q Consensus       346 ~~m~~~--g~~p~---~~~y~~li~~~~~~g~~~~A~~~~~~m~~----~g~~p~--~~~~~~li~~~~~~g~~~~A~~~  414 (833)
                      .++...  |....   +..|...+..|...+++.+|..++.++..    ....|+  ...|...+..+...+++.+|...
T Consensus       161 ~~l~~Et~~~~~~~~kve~~l~q~rl~l~~~d~~~a~~~~~ki~~~~~~~~~~~~lk~~~~~~~~~~~~~e~~y~~a~~~  240 (445)
T 4b4t_P          161 CELQVETYGSMEMSEKIQFILEQMELSILKGDYSQATVLSRKILKKTFKNPKYESLKLEYYNLLVKISLHKREYLEVAQY  240 (445)
T ss_dssp             HHHHHHHCSSSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHHCCHHHHHHH
T ss_pred             HHHHHHHHhcccHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhcccCCcHHHHHHHHHHHHHHHHHhhhHHHHHHH
Confidence            665432  11111   33455566677777777777777766532    222222  23455666666777777777777


Q ss_pred             HHHHHH
Q 003295          415 LEEMLS  420 (833)
Q Consensus       415 l~~~~~  420 (833)
                      |.++.+
T Consensus       241 y~e~~~  246 (445)
T 4b4t_P          241 LQEIYQ  246 (445)
T ss_dssp             HHHHHH
T ss_pred             HHHHHh
Confidence            766654

>3lpz_A GET4 (YOR164C homolog); protein targeting, tail-anchored protein biogenesis, GET PAT GET5 binding, protein transport; 1.98A {Chaetomium thermophilum}

Probab=87.91  E-value=23  Score=35.32  Aligned_cols=166  Identities=17%  Similarity=0.090  Sum_probs=86.5

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHH----HHHhhCCCCCCHHHHHHHHHH
Q 003295          466 TLLVSGLCKNGKQAEATELCFRLFEKGFTVNTVTSNALIHGMCEAGNLKEAGKLL----MEMLQRGLILDKVTYNTLILG  541 (833)
Q Consensus       466 ~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~l----~~m~~~g~~~~~~~~~~li~~  541 (833)
                      .++..-|.+.+++++|.+++..-..               .+.+.|+...|.++-    +-..+.++++|......++..
T Consensus        39 RTi~~Ry~~~k~y~eAidLL~~GA~---------------~ll~~~Q~~sg~DL~~llvevy~~~~~~~~~~~~~rL~~L  103 (336)
T 3lpz_A           39 RLVAARYSKQGNWAAAVDILASVSQ---------------TLLRSGQGGSGGDLAVLLVDTFRQAGQRVDGASRGKLLGC  103 (336)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHH---------------HHHHTTCHHHHHHHHHHHHHHHHHHTCCCCHHHHHHHHHH
T ss_pred             HHHHHHHHhhcCHHHHHHHHHHHHH---------------HHHHCCCcchHHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Confidence            4455556777777777776544222               234445554444433    444455666777666666666


Q ss_pred             HHhcCChh-hHHHHHHHHHH----CC--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHc
Q 003295          542 CCKDGKPE-EGFKLKEDMIK----RG--IQPDNYTYNLLLHGLCSLGKMEEAIELWEECKRTVFGPDIYTYGVMIDGFCK  614 (833)
Q Consensus       542 ~~~~g~~~-~A~~~~~~m~~----~g--~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~  614 (833)
                      +.....-+ .=.++.+.+++    .|  ..-|+.....+...|.+.+++.+|...|-    .|..+.+..+..++--+.+
T Consensus       104 ~~~~~~~~p~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~ig~~~~~e~~~~~Ae~H~i----lg~~~s~~~~a~mL~ew~~  179 (336)
T 3lpz_A          104 LRLFQPGEPVRKRFVKEMIDWSKKFGDYPAGDPELHHVVGTLYVEEGEFEAAEKHLV----LGTKESPEVLARMEYEWYK  179 (336)
T ss_dssp             HTTSCTTCHHHHHHHHHHHHHHHHHSSCTTCCHHHHHHHHHHHHHTTCHHHHHHHHT----TSCTTHHHHHHHHHHHHHH
T ss_pred             HHhCCCCCcHHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCHHHHHHHHH----hcCCchHHHHHHHHHHHHH
Confidence            65544321 11223333322    12  33467777778888888888888887772    2323333455444333333


Q ss_pred             cCCHHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHh
Q 003295          615 ADKIEEGETLFNEMISKKMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMKS  665 (833)
Q Consensus       615 ~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  665 (833)
                      .+...+              ++...-..++ .|.-.++...|..+++...+
T Consensus       180 ~~~~~e--------------~dlfiaRaVL-~yL~l~n~~~A~~~~~~f~~  215 (336)
T 3lpz_A          180 QDESHT--------------APLYCARAVL-PYLLVANVRAANTAYRIFTS  215 (336)
T ss_dssp             TSCGGG--------------HHHHHHHHHH-HHHHTTCHHHHHHHHHHHHH
T ss_pred             hcCCcc--------------HHHHHHHHHH-HHHHhCCHHHHHHHHHHHHH
Confidence            222111              1222222222 34456777777776665543

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=87.88  E-value=3.4  Score=46.71  Aligned_cols=52  Identities=19%  Similarity=0.149  Sum_probs=31.2

Q ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhcCCCHHHHHHHHHHH
Q 003295          750 GGYCKLGDMKEAAKLLNVMAEKGISP-DSITYNVFMDGHCKGGNVEEAFKVCDRM  803 (833)
Q Consensus       750 ~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m  803 (833)
                      .-|...|+++-|+++.++++.  +.| +..+|..|..+|...|+++.|+-.++.+
T Consensus       345 ~FLl~K~~~elAL~~Ak~AV~--~aPseF~tW~~La~vYi~l~d~e~ALLtLNSc  397 (754)
T 4gns_B          345 NFLLNRGDYELALGVSNTSTE--LALDSFESWYNLARCHIKKEEYEKALFAINSM  397 (754)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH--HCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHS
T ss_pred             HHHhccCcHHHHHHHHHHHHh--cCchhhHHHHHHHHHHHHhccHHHHHHHHhcC
Confidence            334455666666666666665  334 3466666666666666666666666555

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=87.34  E-value=48  Score=38.32  Aligned_cols=311  Identities=14%  Similarity=0.048  Sum_probs=166.4

Q ss_pred             HHHHhcCCHHHHHHHHHHHhhCCCCCCH--HHHHHHHHHHHhcCChhhHHHHHHHHHHCCC-------CCCHHHHHHHHH
Q 003295          505 HGMCEAGNLKEAGKLLMEMLQRGLILDK--VTYNTLILGCCKDGKPEEGFKLKEDMIKRGI-------QPDNYTYNLLLH  575 (833)
Q Consensus       505 ~~~~~~g~~~~A~~~l~~m~~~g~~~~~--~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~-------~p~~~~~~~li~  575 (833)
                      -+....|+.++++.+++.....+-..+.  ..-..+.-+....|..+++..++...+...-       .+....-..+.-
T Consensus       382 LGlIh~g~~~~gl~~L~~yL~~~~s~~~~ik~GAllaLGli~ag~~~~~~~lL~~~L~~~~~~~~~~~~~~ir~gAaLGL  461 (963)
T 4ady_A          382 LGVIHKGNLLEGKKVMAPYLPGSRASSRFIKGGSLYGLGLIYAGFGRDTTDYLKNIIVENSGTSGDEDVDVLLHGASLGI  461 (963)
T ss_dssp             HHHHTSSCTTTHHHHHTTTSTTSCCSCHHHHHHHHHHHHHHTTTTTHHHHHHHHHHHHHHSSCCSCHHHHHHHHHHHHHH
T ss_pred             hhhhccCchHHHHHHHHHhccccCCCcHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHcCccccccccccHHHHHHHHHHH
Confidence            3566778888888888776653211132  2333344556666766778887777665421       011222223333


Q ss_pred             HHHhcCC-HHHHHHHHHHHhhCCCCCCHhh--HH--HHHHHHHccCCHHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHc
Q 003295          576 GLCSLGK-MEEAIELWEECKRTVFGPDIYT--YG--VMIDGFCKADKIEEGETLFNEMISKKMELNPVVYNTLIRAYCKI  650 (833)
Q Consensus       576 ~~~~~g~-~~~A~~~~~~~~~~~~~~~~~~--~~--~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~  650 (833)
                      ++.-.|. -+++.+.+..+....   +..+  ..  ++...++-.|+-+....++..+.+.. .-+..-...+.-++...
T Consensus       462 Gla~~GS~~eev~e~L~~~L~dd---~~~~~~~AalALGli~vGTgn~~ai~~LL~~~~e~~-~e~vrR~aalgLGll~~  537 (963)
T 4ady_A          462 GLAAMGSANIEVYEALKEVLYND---SATSGEAAALGMGLCMLGTGKPEAIHDMFTYSQETQ-HGNITRGLAVGLALINY  537 (963)
T ss_dssp             HHHSTTCCCHHHHHHHHHHHHTC---CHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHCS-CHHHHHHHHHHHHHHTT
T ss_pred             HHHhcCCCCHHHHHHHHHHHhcC---CHHHHHHHHHHHhhhhcccCCHHHHHHHHHHHhccC-cHHHHHHHHHHHHhhhC
Confidence            3333332 245666666665532   2221  22  23334556777777777777776642 11222223333344567


Q ss_pred             CChHHHHHHHHHHHhCCCCCCHHHHH---HHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCChhHHH
Q 003295          651 GNTTAAFRLSNDMKSRGILPTSVTYS---SLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAE  727 (833)
Q Consensus       651 g~~~~A~~~~~~m~~~~~~p~~~~~~---~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~  727 (833)
                      |+.+.+..+.+.+.... .|.. -|.   .+.-+|+..|+.....+++..+.... ..++.-...+.-++...|+.+.+.
T Consensus       538 g~~e~~~~li~~L~~~~-dp~v-Rygaa~alglAyaGTGn~~aIq~LL~~~~~d~-~d~VRraAViaLGlI~~g~~e~v~  614 (963)
T 4ady_A          538 GRQELADDLITKMLASD-ESLL-RYGGAFTIALAYAGTGNNSAVKRLLHVAVSDS-NDDVRRAAVIALGFVLLRDYTTVP  614 (963)
T ss_dssp             TCGGGGHHHHHHHHHCS-CHHH-HHHHHHHHHHHTTTSCCHHHHHHHHHHHHHCS-CHHHHHHHHHHHHHHTSSSCSSHH
T ss_pred             CChHHHHHHHHHHHhCC-CHHH-HHHHHHHHHHHhcCCCCHHHHHHHHHHhccCC-cHHHHHHHHHHHHhhccCCHHHHH
Confidence            89998888888887642 2222 232   33445677888877777998888742 233333333444555578877788


Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHhcCCH-HHHHHHHHHHHHcCCCCCHHHHHHH--HHHHhcCC-------CHHHHH
Q 003295          728 SVLQEMASINIHPNKITYTIMIGGYCKLGDM-KEAAKLLNVMAEKGISPDSITYNVF--MDGHCKGG-------NVEEAF  797 (833)
Q Consensus       728 ~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~-~~A~~~~~~m~~~g~~p~~~~~~~l--~~~~~~~g-------~~~~A~  797 (833)
                      ++++.+.+.+ .|....--.+.-+....|+. .+|+..+..+..   .+|..+-..-  .-+..-.|       +....+
T Consensus       615 rlv~~L~~~~-d~~VR~gAalALGli~aGn~~~~aid~L~~L~~---D~d~~Vrq~Ai~ALG~Ig~gtnna~~~rva~~l  690 (963)
T 4ady_A          615 RIVQLLSKSH-NAHVRCGTAFALGIACAGKGLQSAIDVLDPLTK---DPVDFVRQAAMIALSMILIQQTEKLNPQVADIN  690 (963)
T ss_dssp             HHTTTGGGCS-CHHHHHHHHHHHHHHTSSSCCHHHHHHHHHHHT---CSSHHHHHHHHHHHHHHSTTCCTTTCTTHHHHH
T ss_pred             HHHHHHHhcC-CHHHHHHHHHHHHHhccCCCcHHHHHHHHHHcc---CCCHHHHHHHHHHHHHHhcCCccccchHHHHHH
Confidence            8887776654 44444333444444445543 678888888875   3455433222  22333333       233333


Q ss_pred             HHHHHHHHC-CCCCCHHHHHHHHHhhccCC
Q 003295          798 KVCDRMLSE-GLSLDEITYTTLIDGWQSST  826 (833)
Q Consensus       798 ~~~~~m~~~-g~~p~~~~~~~l~~~~~~~~  826 (833)
                      +.+...... .-.++...-..+-.|+.+.|
T Consensus       691 ~~L~~~~~dk~~d~~~~fga~iAqGll~aG  720 (963)
T 4ady_A          691 KNFLSVITNKHQEGLAKFGACVAQGIMNAG  720 (963)
T ss_dssp             HHHHHHHHCSSSCHHHHHHHHHHHHHHTTG
T ss_pred             HHHHHHHhcccccHHHHHHHHHHHHHHhcC
Confidence            333333331 22333555556666666554

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=85.95  E-value=13  Score=31.71  Aligned_cols=71  Identities=13%  Similarity=0.114  Sum_probs=43.2

Q ss_pred             CCChhHHHHHHHHHHhcCC---hhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC
Q 003295          704 LPNVACYTALIGGYCKLGQ---MDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISPD  776 (833)
Q Consensus       704 ~p~~~~~~~li~~~~~~g~---~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~  776 (833)
                      .|+..+--.+..++.+..+   ..+++.+++.+...+-.-.......|.-++.+.|++++|.++.+.+++  +.|+
T Consensus        36 ~vs~~t~F~YAw~Lv~S~~~~di~~GI~LLe~l~~~~~~~~RdcLYyLAvg~ykl~~Y~~Ar~y~d~lL~--~eP~  109 (144)
T 1y8m_A           36 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFE--HERN  109 (144)
T ss_dssp             TSCHHHHHHHHHHHHHSSSHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHTTTCHHHHHHHHHHHHH--TCCC
T ss_pred             CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCccchhHHHHHHHHHHHHhhhHHHHHHHHHHHHh--cCCC
Confidence            4555555556666666654   345666777766532111234555566677777777777777777777  4564

>3lpz_A GET4 (YOR164C homolog); protein targeting, tail-anchored protein biogenesis, GET PAT GET5 binding, protein transport; 1.98A {Chaetomium thermophilum}

Probab=85.50  E-value=31  Score=34.39  Aligned_cols=81  Identities=12%  Similarity=0.076  Sum_probs=43.6

Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHH
Q 003295          495 VNTVTSNALIHGMCEAGNLKEAGKLLMEMLQRGLILDKVTYNTLILGCCKDGKPEEGFKLKEDMIKRGIQPDNYTYNLLL  574 (833)
Q Consensus       495 ~~~~~~~~li~~~~~~g~~~~A~~~l~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li  574 (833)
                      -|+.....+...|.+.+++.+|...|-    .|-.+....+..++.-+...+...++              |.+.-.+++
T Consensus       134 Gdp~LH~~ig~~~~~e~~~~~Ae~H~i----lg~~~s~~~~a~mL~ew~~~~~~~e~--------------dlfiaRaVL  195 (336)
T 3lpz_A          134 GDPELHHVVGTLYVEEGEFEAAEKHLV----LGTKESPEVLARMEYEWYKQDESHTA--------------PLYCARAVL  195 (336)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHT----TSCTTHHHHHHHHHHHHHHTSCGGGH--------------HHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHccCCHHHHHHHHH----hcCCchHHHHHHHHHHHHHhcCCccH--------------HHHHHHHHH
Confidence            366677777778888888888777762    23332335555555444443332211              222222222


Q ss_pred             HHHHhcCCHHHHHHHHHHHh
Q 003295          575 HGLCSLGKMEEAIELWEECK  594 (833)
Q Consensus       575 ~~~~~~g~~~~A~~~~~~~~  594 (833)
                       .|...++...|..+++...
T Consensus       196 -~yL~l~n~~~A~~~~~~f~  214 (336)
T 3lpz_A          196 -PYLLVANVRAANTAYRIFT  214 (336)
T ss_dssp             -HHHHTTCHHHHHHHHHHHH
T ss_pred             -HHHHhCCHHHHHHHHHHHH
Confidence             2444567777777665544

>2ff4_A Probable regulatory protein EMBR; winged-helix, tetratricopeptide repeat, beta-sandwich, trans; HET: DNA TPO; 1.90A {Mycobacterium tuberculosis} SCOP: a.4.6.1 a.118.8.3 b.26.1.2 PDB: 2fez_A*

Probab=84.83  E-value=2.5  Score=43.98  Aligned_cols=67  Identities=12%  Similarity=0.079  Sum_probs=36.5

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHh-----CCCCCChhh
Q 003295          257 TAINAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIHGLCRNGRLYEAFHLKEKMVL-----REVEPSLIT  324 (833)
Q Consensus       257 ~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~-----~~~~p~~~t  324 (833)
                      .++..+...|++++|...+..+....+ -+...|..++.+|.+.|+..+|++.|++...     .|+.|...+
T Consensus       176 ~~~~~~l~~g~~~~a~~~l~~~~~~~P-~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l  247 (388)
T 2ff4_A          176 AKAEAEIACGRASAVIAELEALTFEHP-YREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  247 (388)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHH
Confidence            345555556666666655555554422 2444556666666666666666666555432     355555544

>3o48_A Mitochondria fission 1 protein; tetratricopeptide repeat fold, TPR, scaffold, peroxisome, membrane fission, protein binding; 1.75A {Saccharomyces cerevisiae} PDB: 2pqr_A 2pqn_A 3uux_A

Probab=84.50  E-value=7.1  Score=32.83  Aligned_cols=71  Identities=13%  Similarity=0.114  Sum_probs=40.1

Q ss_pred             CCChhHHHHHHHHHHhcCC---hhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC
Q 003295          704 LPNVACYTALIGGYCKLGQ---MDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISPD  776 (833)
Q Consensus       704 ~p~~~~~~~li~~~~~~g~---~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~  776 (833)
                      .|+..+--.+..++.+..+   ..+++.+++++.+.+-.-....+..|.-++.+.|++++|.++.+.+++  +.|+
T Consensus        37 ~vs~qt~F~yAw~Lv~S~~~~d~~~GI~LLe~l~~~~~~~~Rd~LYyLAvg~yklgdY~~Ar~y~d~lL~--~eP~  110 (134)
T 3o48_A           37 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFE--HERN  110 (134)
T ss_dssp             GSCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHT--TCTT
T ss_pred             CCChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcchhHHHHHHHHHHHHHhhhHHHHHHHHHHHHh--hCCC
Confidence            4455554455556665554   345666666666543111234555566667777777777777777666  4453

>2ff4_A Probable regulatory protein EMBR; winged-helix, tetratricopeptide repeat, beta-sandwich, trans; HET: DNA TPO; 1.90A {Mycobacterium tuberculosis} SCOP: a.4.6.1 a.118.8.3 b.26.1.2 PDB: 2fez_A*

Probab=84.46  E-value=6.4  Score=40.88  Aligned_cols=68  Identities=16%  Similarity=0.138  Sum_probs=36.4

Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH-----cCCCCCHHH
Q 003295          711 TALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAE-----KGISPDSIT  779 (833)
Q Consensus       711 ~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~-----~g~~p~~~~  779 (833)
                      ..++..+...|+.++|...+..+.... +-+...|..++.+|.+.|+..+|.+.|+++.+     .|+.|...+
T Consensus       175 ~~~~~~~l~~g~~~~a~~~l~~~~~~~-P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l  247 (388)
T 2ff4_A          175 TAKAEAEIACGRASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  247 (388)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHH
Confidence            334445555566666665555555432 34555556666666666666666655555432     355555543

>1v54_E Cytochrome C oxidase polypeptide VA; oxidoreductase; HET: FME TPO HEA TGL PGV CHD CDL PEK PSC DMU; 1.80A {Bos taurus} SCOP: a.118.11.1 PDB: 1oco_E* 1occ_E* 1ocz_E* 1ocr_E* 1v55_E* 2dyr_E* 2dys_E* 2eij_E* 2eik_E* 2eil_E* 2eim_E* 2ein_E* 2occ_E* 2ybb_P* 2zxw_E* 3abk_E* 3abl_E* 3abm_E* 3ag1_E* 3ag2_E* ...

Probab=83.13  E-value=6.1  Score=31.21  Aligned_cols=60  Identities=12%  Similarity=0.196  Sum_probs=45.2

Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHhhcCCCCCHHHHHHHHH
Q 003295          201 YAIDVFSIFSSKGIFPSLKTCNFLLNSLVKANEVQKGIEVFETMCRGVSPDVFLFSTAIN  260 (833)
Q Consensus       201 ~A~~~f~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~  260 (833)
                      +..+.++.+-..+..|++....+.+.++-|.+++..|.++|+.+...+.+...+|..++.
T Consensus        28 e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K~~~~~~iY~~~lq   87 (109)
T 1v54_E           28 ELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKAGPHKEIYPYVIQ   87 (109)
T ss_dssp             HHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCTTHHHHHHH
T ss_pred             HHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhcCchhhHHHHHH
Confidence            455666666778889999999999999999999999999999988222233445655553

>1v54_E Cytochrome C oxidase polypeptide VA; oxidoreductase; HET: FME TPO HEA TGL PGV CHD CDL PEK PSC DMU; 1.80A {Bos taurus} SCOP: a.118.11.1 PDB: 1oco_E* 1occ_E* 1ocz_E* 1ocr_E* 1v55_E* 2dyr_E* 2dys_E* 2eij_E* 2eik_E* 2eil_E* 2eim_E* 2ein_E* 2occ_E* 2ybb_P* 2zxw_E* 3abk_E* 3abl_E* 3abm_E* 3ag1_E* 3ag2_E* ...

Probab=82.47  E-value=5.3  Score=31.53  Aligned_cols=47  Identities=17%  Similarity=0.340  Sum_probs=26.3

Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 003295          725 EAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAEK  771 (833)
Q Consensus       725 ~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  771 (833)
                      +..+-++.+...++.|++.+..+.+++|.+.+++.-|+++++-...+
T Consensus        28 e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K   74 (109)
T 1v54_E           28 ELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK   74 (109)
T ss_dssp             HHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH
Confidence            34444445555555566666666666666666666666665555544

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=82.21  E-value=23  Score=42.76  Aligned_cols=143  Identities=10%  Similarity=0.009  Sum_probs=73.3

Q ss_pred             HHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCC------------------
Q 003295          538 LILGCCKDGKPEEGFKLKEDMIKRGIQPDNYTYNLLLHGLCSLGKMEEAIELWEECKRTVFG------------------  599 (833)
Q Consensus       538 li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~------------------  599 (833)
                      ++..+.+.+..+-+.++..-     ++.+...-..+..++...|++++|.+.|++... |+.                  
T Consensus       818 l~~~l~~~~~~~~~~~l~~~-----~~~~~~~~yl~g~~~L~~ge~~~A~~~F~kaa~-~~~~~~~l~~~~~~~~~~~~~  891 (1139)
T 4fhn_B          818 LVEKLFLFKQYNACMQLIGW-----LNSDPIAVYLKALIYLKSKEAVKAVRCFKTTSL-VLYSHTSQFAVLREFQEIAEK  891 (1139)
T ss_dssp             HHHHHHHHSCTTHHHHHHHH-----SCCCHHHHHHHHHHHHHTTCHHHHHHHHHTCCC-SCTTCCCSCSSHHHHHHHHHT
T ss_pred             HHHHHHHhhhHHHHHHHhhh-----ccCCcHHHHHHHHHHHhcCCHHHHHHHHHHHhh-hhcccchhhhhhccccccccc
Confidence            44445555555554443321     122333334455556666666666666654321 110                  


Q ss_pred             -----CCHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCccCH----HHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCC
Q 003295          600 -----PDIYTYGVMIDGFCKADKIEEGETLFNEMISKKMELNP----VVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILP  670 (833)
Q Consensus       600 -----~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~----~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p  670 (833)
                           .-..-|..++..+.+.+.++.+.++-...++....-+.    ..|..+.+++...|++++|...+-.+.....+ 
T Consensus       892 ~~~~~~l~~YY~hv~~LFe~~~~~~~vi~fa~lAi~~~~~~~~~~~~~l~~~iFk~~L~l~~ye~Ay~aL~~~pd~~~r-  970 (1139)
T 4fhn_B          892 YHHQNLLSCYYLHLSKKLFEESAYIDALEFSLLADASKETDDEDLSIAITHETLKTACAAGKFDAAHVALMVLSTTPLK-  970 (1139)
T ss_dssp             TTSCCSSHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHCCSGGGGHHHHHHHHSSSC-
T ss_pred             ccccccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccCCChhhHHHHHHHHHHHHHhhCCHHHHHHHHHhCCCHHHH-
Confidence                 01123455666666667776666666555543221111    24666667777777777777777666554322 


Q ss_pred             CHHHHHHHHHHHHhcCCH
Q 003295          671 TSVTYSSLIHGLCNIGLI  688 (833)
Q Consensus       671 ~~~~~~~li~~~~~~g~~  688 (833)
                       ...+..|+..+|..|..
T Consensus       971 -~~cLr~LV~~lce~~~~  987 (1139)
T 4fhn_B          971 -KSCLLDFVNQLTKQGKI  987 (1139)
T ss_dssp             -HHHHHHHHHHHHHHCCH
T ss_pred             -HHHHHHHHHHHHhCCCh
Confidence             33445555555555443

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=81.44  E-value=4.3  Score=35.71  Aligned_cols=116  Identities=8%  Similarity=-0.006  Sum_probs=56.2

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHC-CCCCCh-------hHHHHHHHHHHhcCChhHHHHHHHHHHhC--CCCCCHHHHH
Q 003295          677 SLIHGLCNIGLIEDAKCLFDEMRKE-GLLPNV-------ACYTALIGGYCKLGQMDEAESVLQEMASI--NIHPNKITYT  746 (833)
Q Consensus       677 ~li~~~~~~g~~~~A~~~~~~m~~~-g~~p~~-------~~~~~li~~~~~~g~~~~A~~~~~~m~~~--g~~p~~~~~~  746 (833)
                      .-+..+...|.++.|+-+.+.+... +..|+.       .++..+.+++...|++..|...|++....  .+.-+..+..
T Consensus        25 dqik~L~d~~LY~sA~~La~lLlSl~~~~~~~~sp~~~~~~l~~ladalf~~~eyrrA~~~y~qALq~~k~l~k~~s~~~  104 (167)
T 3ffl_A           25 DHVRDMAAAGLHSNVRLLSSLLLTLSNNNPELFSPPQKYQLLVYHADSLFHDKEYRNAVSKYTMALQQKKALSKTSKVRP  104 (167)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHSTTSSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHCC--------
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHHhhcCCcccccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHhcCCCccc
Confidence            3345556666666666665554432 112331       13444556666666666666666665421  1111111111


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHH
Q 003295          747 IMIGGYCKLGDMKEAAKLLNVMAEKGISPDSITYNVFMDGHCKGGNVEEAFKVCDRMLS  805 (833)
Q Consensus       747 ~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  805 (833)
                      .+.    .......         ......+...-..+..+|.+.|++++|+.+++.+..
T Consensus       105 ~~~----~~ss~p~---------s~~~~~e~Elkykia~C~~~l~~~~~Ai~~Le~Ip~  150 (167)
T 3ffl_A          105 STG----NSASTPQ---------SQCLPSEIEVKYKLAECYTVLKQDKDAIAILDGIPS  150 (167)
T ss_dssp             -------------------------CCCCHHHHHHHHHHHHHHTTCHHHHHHHHHTSCG
T ss_pred             ccc----ccCCCcc---------cccccchHHHHHHHHHHHHHHCCHHHHHHHHhcCCc
Confidence            010    0000000         001223445556688899999999999999876543

>3txn_A 26S proteasome regulatory complex subunit P42B; PCI domain, alpha solenoid, regulatory PART LID, hydrolase, protein binding; 2.50A {Drosophila melanogaster} PDB: 3txm_A

Probab=80.45  E-value=56  Score=33.61  Aligned_cols=28  Identities=14%  Similarity=-0.135  Sum_probs=16.9

Q ss_pred             HHHHHHHHHHHHhcCChhhHHHHHHHHH
Q 003295          532 KVTYNTLILGCCKDGKPEEGFKLKEDMI  559 (833)
Q Consensus       532 ~~~~~~li~~~~~~g~~~~A~~~~~~m~  559 (833)
                      ......|...|.+.|+.++..+++....
T Consensus        19 e~~~~~l~~~~~~~~~~~~~~~~~~~~~   46 (394)
T 3txn_A           19 EQGILQQGELYKQEGKAKELADLIKVTR   46 (394)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            3445556666666666666666665543

---

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	833
d1w3ba_	388	a.118.8.1 (A:) O-GlcNAc transferase p110 subunit,	4e-10
d1w3ba_	388	a.118.8.1 (A:) O-GlcNAc transferase p110 subunit,	1e-05
d1zbpa1	264	e.61.1.1 (A:2-265) Hypothetical protein VPA1032 {V	0.004

>d1w3ba_ a.118.8.1 (A:) O-GlcNAc transferase p110 subunit, OGT {Human (Homo sapiens) [TaxId: 9606]} Length = 388

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: O-GlcNAc transferase p110 subunit, OGT
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 60.1 bits (144), Expect = 4e-10
 Identities = 53/395 (13%), Positives = 118/395 (29%), Gaps = 19/395 (4%)

Query: 367 YCKKGNISEALKIRDDMVSKGMSPNSV-TFNSLIHGFCKSGQMDNAENALEEMLSRGLSI 425
             + G+   A +    +  +   P++      L     +  ++D + +     + +   +
Sbjct: 9   EYQAGDFEAAERHCMQLWRQ--EPDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN-PL 65

Query: 426 NQGAYTSVIKWLCINSRFNSALHFTKEMLLRNLRPGDGLLTLLVSGLCKNGKQAEATELC 485
              AY+++        +   A+   +  L       DG + L  + +     +       
Sbjct: 66  LAEAYSNLGNVYKERGQLQEAIEHYRHALRLKPDFIDGYINLAAALVAAGDMEGAVQAYV 125

Query: 486 FRLFEKGFTVNTVTSNALIHGMCEAGNLKEAGKLLMEMLQRGLILDKVTYNTLILGCCKD 545
             L          +    +          +A  L     Q       V ++ L       
Sbjct: 126 SALQYNPDLYCVRSDLGNLLKALGRLEEAKACYLKAIETQPN---FAVAWSNLGCVFNAQ 182

Query: 546 GKPEEGFKLKEDMIKRGIQPDNY-TYNLLLHGLCSLGKMEEAIELWEECKRTVFGPDIYT 604
           G+        E  +   + P+    Y  L + L      + A+  +      +       
Sbjct: 183 GEIWLAIHHFEKAVT--LDPNFLDAYINLGNVLKEARIFDRAVAAYLRALS-LSPNHAVV 239

Query: 605 YGVMIDGFCKADKIEEGETLFNEMISKKMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMK 664
           +G +   + +   I+     +   I  +    P  Y  L  A  + G+   A    N   
Sbjct: 240 HGNLACVYYEQGLIDLAIDTYRRAIELQPH-FPDAYCNLANALKEKGSVAEAEDCYNTAL 298

Query: 665 SRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVA-CYTALIGGYCKLGQM 723
                      + L +     G IE+A  L+ +  +  + P  A  ++ L     + G++
Sbjct: 299 RLCPTHADSLNN-LANIKREQGNIEEAVRLYRKALE--VFPEFAAAHSNLASVLQQQGKL 355

Query: 724 DEAESVLQEMASINIHPNKITYTIMIGG-YCKLGD 757
            EA    +E  +I I P        +G    ++ D
Sbjct: 356 QEALMHYKE--AIRISPTFADAYSNMGNTLKEMQD 388

>d1w3ba_ a.118.8.1 (A:) O-GlcNAc transferase p110 subunit, OGT {Human (Homo sapiens) [TaxId: 9606]} Length = 388

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: O-GlcNAc transferase p110 subunit, OGT
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 46.2 bits (108), Expect = 1e-05
 Identities = 50/372 (13%), Positives = 121/372 (32%), Gaps = 13/372 (3%)

Query: 224 LLNSLVKANEVQKGIEVFETMCRGVSPDVFLFSTAINAFCKRGRIEDAIGLFTKMEELGI 283
           L +   +A + +        + R    +  +     +   +  R++ +    T    +  
Sbjct: 5   LAHREYQAGDFEAAERHCMQLWRQEPDNTGVLLLLSSIHFQCRRLDRSAHFSTLA--IKQ 62

Query: 284 APNVV-TYNNIIHGLCRNGRLYEAFHLKEKMVLREVEPSLITYSILINGLIKLEKFDDAN 342
            P +   Y+N+ +     G+L EA       +  + +      ++    +   +      
Sbjct: 63  NPLLAEAYSNLGNVYKERGQLQEAIEHYRHALRLKPDFIDGYINLAAALVAAGDMEGAVQ 122

Query: 343 FVLKEMSVRGFVPNYVVYNTLIDGYCKKGNISEALKIRDDMVSKGMSPNSVTFNSLIHGF 402
             +  +     +         +     +   ++A  ++           +V +++L   F
Sbjct: 123 AYVSALQYNPDLYCVRSDLGNLLKALGRLEEAKACYLKAIETQPN---FAVAWSNLGCVF 179

Query: 403 CKSGQMDNAENALEEMLSRGLSINQGAYTSVIKWLCINSRFNSALHFTKEMLLRNLRPGD 462
              G++  A +  E+ ++   +    AY ++   L     F+ A+      L  +     
Sbjct: 180 NAQGEIWLAIHHFEKAVTLDPN-FLDAYINLGNVLKEARIFDRAVAAYLRALSLSPNHAV 238

Query: 463 GLLTLLVSGLCKNGKQAEATELCFRLFEKGFTVNTVTSNALIHGMCEAGNLKEAGKLLME 522
               L      + G    A +   R  E            L + + E G++ EA      
Sbjct: 239 VHGNLACV-YYEQGLIDLAIDTYRRAIELQPH-FPDAYCNLANALKEKGSVAEAEDCYNT 296

Query: 523 MLQRGLILDKVTYNTLILGCCKDGKPEEGFKLKEDMIKRGIQPDNY-TYNLLLHGLCSLG 581
            L+        + N L     + G  EE  +L    ++  + P+    ++ L   L   G
Sbjct: 297 ALRLCPT-HADSLNNLANIKREQGNIEEAVRLYRKALE--VFPEFAAAHSNLASVLQQQG 353

Query: 582 KMEEAIELWEEC 593
           K++EA+  ++E 
Sbjct: 354 KLQEALMHYKEA 365

>d1zbpa1 e.61.1.1 (A:2-265) Hypothetical protein VPA1032 {Vibrio parahaemolyticus [TaxId: 670]} Length = 264

class: Multi-domain proteins (alpha and beta)
fold: ImpE-like
superfamily: ImpE-like
family: ImpE-like
domain: Hypothetical protein VPA1032
species: Vibrio parahaemolyticus [TaxId: 670]

 Score = 37.7 bits (87), Expect = 0.004
 Identities = 21/142 (14%), Positives = 51/142 (35%), Gaps = 10/142 (7%)

Query: 686 GLIEDAKCLFDEMRKEGLLP-NVACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKIT 744
           G ++ A  L  E  K    P + +  ++ I   C  G  + A+  L +   I + P  + 
Sbjct: 10  GQLQQALELLIEAIK--ASPKDASLRSSFIELLCIDGDFERADEQLMQS--IKLFPEYLP 65

Query: 745 YTIMIGGYCKL-GDMKEAAKLLNVMAEKGISPDSITYNVFMDGHCKGGNVEEAFKVCDRM 803
               +    K     K+ A+        G + +     V  +      + E+  ++  ++
Sbjct: 66  GASQLRHLVKAAQARKDFAQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQI 125

Query: 804 L----SEGLSLDEITYTTLIDG 821
                 +G   ++ +++ + D 
Sbjct: 126 EELRQEKGFLANDTSFSDVRDI 147

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	833
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.91
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.9
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.54
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.52
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.16
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.12
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.1
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.09
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	99.05
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.03
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.0
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	98.96
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	98.91
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	98.91
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	98.54
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.49
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.48
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.44
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	98.4
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.39
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.39
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.35
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.31
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.31
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.23
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.2
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.17
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.14
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.02
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	98.02
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	97.98
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	97.96
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	97.94
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	97.84
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	97.78
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	97.75
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	97.73
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	97.73
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	97.7
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	97.69
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	97.68
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	97.66
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	97.6
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	97.59
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	97.51
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	97.46
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	97.44
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	97.38
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	97.35
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	97.25
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.14
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	96.9
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	96.84
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	96.62
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	96.16
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	96.08
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	94.79
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	94.48
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	92.32
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	89.72
d1qsaa1	450	70 KDa soluble lytic transglycosylase (SLT70), sup	85.48
d1qsaa1	450	70 KDa soluble lytic transglycosylase (SLT70), sup	83.14
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	81.28

>d1w3ba_ a.118.8.1 (A:) O-GlcNAc transferase p110 subunit, OGT {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: O-GlcNAc transferase p110 subunit, OGT
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.91  E-value=2.1e-20  Score=198.97  Aligned_cols=247  Identities=14%  Similarity=0.051  Sum_probs=153.3

Q ss_pred             HHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHccCC
Q 003295          538 LILGCCKDGKPEEGFKLKEDMIKRGIQPDNYTYNLLLHGLCSLGKMEEAIELWEECKRTVFGPDIYTYGVMIDGFCKADK  617 (833)
Q Consensus       538 li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  617 (833)
                      ........+....+...+......... +...+..+...+...|++++|...+++..+.. +.+...+..+...+...|+
T Consensus       141 ~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~  218 (388)
T d1w3ba_         141 LGNLLKALGRLEEAKACYLKAIETQPN-FAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLD-PNFLDAYINLGNVLKEARI  218 (388)
T ss_dssp             HHHHHHTTSCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTC
T ss_pred             ccccccccchhhhhHHHHHHhhccCcc-hhHHHHhhcccccccCcHHHHHHHHHHHHHhC-cccHHHHHHHhhhhhcccc
Confidence            333444445555555555555444222 44455555555666666666666666555432 2234455566666666666


Q ss_pred             HHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 003295          618 IEEGETLFNEMISKKMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDE  697 (833)
Q Consensus       618 ~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~  697 (833)
                      +++|...+++....... +...+..+...+.+.|++++|.+.|++..+.. +.+..++..+...+...|++++|.+.++.
T Consensus       219 ~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~  296 (388)
T d1w3ba_         219 FDRAVAAYLRALSLSPN-HAVVHGNLACVYYEQGLIDLAIDTYRRAIELQ-PHFPDAYCNLANALKEKGSVAEAEDCYNT  296 (388)
T ss_dssp             TTHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC-SSCHHHHHHHHHHHHHHSCHHHHHHHHHH
T ss_pred             HHHHHHHHHHhHHHhhh-HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHh
Confidence            66666666666655433 55566666666667777777777777666653 33455666677777777777777777777


Q ss_pred             HHHCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC-C
Q 003295          698 MRKEGLLPNVACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISP-D  776 (833)
Q Consensus       698 m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~  776 (833)
                      ..... +.+...+..+...+.+.|++++|++.+++..+.. +.+..+|..++.+|.+.|++++|++.|+++++  +.| +
T Consensus       297 ~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~--l~P~~  372 (388)
T d1w3ba_         297 ALRLC-PTHADSLNNLANIKREQGNIEEAVRLYRKALEVF-PEFAAAHSNLASVLQQQGKLQEALMHYKEAIR--ISPTF  372 (388)
T ss_dssp             HHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSC-TTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHT--TCTTC
T ss_pred             hhccC-CccchhhhHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCCC
Confidence            66642 4455666677777777777777777777776642 33456677777777777777777777777776  345 4


Q ss_pred             HHHHHHHHHHHhcCCC
Q 003295          777 SITYNVFMDGHCKGGN  792 (833)
Q Consensus       777 ~~~~~~l~~~~~~~g~  792 (833)
                      ..+|..|+.+|.+.||
T Consensus       373 ~~a~~~lg~~~~~~~D  388 (388)
T d1w3ba_         373 ADAYSNMGNTLKEMQD  388 (388)
T ss_dssp             HHHHHHHHHHHHHTCC
T ss_pred             HHHHHHHHHHHHHcCC
Confidence            5667777777766664

>d1w3ba_ a.118.8.1 (A:) O-GlcNAc transferase p110 subunit, OGT {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: O-GlcNAc transferase p110 subunit, OGT
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.90  E-value=4.4e-20  Score=196.37  Aligned_cols=246  Identities=15%  Similarity=0.055  Sum_probs=151.7

Q ss_pred             HHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHH
Q 003295          505 HGMCEAGNLKEAGKLLMEMLQRGLILDKVTYNTLILGCCKDGKPEEGFKLKEDMIKRGIQPDNYTYNLLLHGLCSLGKME  584 (833)
Q Consensus       505 ~~~~~~g~~~~A~~~l~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~  584 (833)
                      ......+....+...+.+.....+. +...+..+...+...|+.++|...+++.++..+. +...+..+...+...|+++
T Consensus       143 ~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~~~~~  220 (388)
T d1w3ba_         143 NLLKALGRLEEAKACYLKAIETQPN-FAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDPN-FLDAYINLGNVLKEARIFD  220 (388)
T ss_dssp             HHHHTTSCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTTTCTT
T ss_pred             ccccccchhhhhHHHHHHhhccCcc-hhHHHHhhcccccccCcHHHHHHHHHHHHHhCcc-cHHHHHHHhhhhhccccHH
Confidence            3334444444444444444443322 4444455555555555555555555555554322 4445555555556666666


Q ss_pred             HHHHHHHHHhhCCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHH
Q 003295          585 EAIELWEECKRTVFGPDIYTYGVMIDGFCKADKIEEGETLFNEMISKKMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMK  664 (833)
Q Consensus       585 ~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~  664 (833)
                      +|...++...... +.+...+..+...+.+.|++++|+..|++.++..+. +..+|..+...+...|++++|.+.++...
T Consensus       221 ~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~  298 (388)
T d1w3ba_         221 RAVAAYLRALSLS-PNHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQPH-FPDAYCNLANALKEKGSVAEAEDCYNTAL  298 (388)
T ss_dssp             HHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCSS-CHHHHHHHHHHHHHHSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHhHHHh-hhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHhhh
Confidence            6666665555442 234445555666666666666666666666665443 56667777777777777777777777766


Q ss_pred             hCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHH
Q 003295          665 SRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKIT  744 (833)
Q Consensus       665 ~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~  744 (833)
                      ... +.+...+..+...+.+.|++++|++.|++.++.. +-+..++..+..+|.+.|++++|.+.|+++.+.. |-+..+
T Consensus       299 ~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~l~-P~~~~a  375 (388)
T d1w3ba_         299 RLC-PTHADSLNNLANIKREQGNIEEAVRLYRKALEVF-PEFAAAHSNLASVLQQQGKLQEALMHYKEAIRIS-PTFADA  375 (388)
T ss_dssp             HHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSC-TTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTTC-TTCHHH
T ss_pred             ccC-CccchhhhHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHH
Confidence            653 4466667777777777788888888887777642 2245667777788888888888888888877642 334667


Q ss_pred             HHHHHHHHHhcCC
Q 003295          745 YTIMIGGYCKLGD  757 (833)
Q Consensus       745 ~~~li~~~~~~g~  757 (833)
                      |..++.+|.+.||
T Consensus       376 ~~~lg~~~~~~~D  388 (388)
T d1w3ba_         376 YSNMGNTLKEMQD  388 (388)
T ss_dssp             HHHHHHHHHHTCC
T ss_pred             HHHHHHHHHHcCC
Confidence            7777777777664

>d1fcha_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.54  E-value=1.9e-12  Score=132.99  Aligned_cols=269  Identities=9%  Similarity=-0.065  Sum_probs=189.5

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC
Q 003295          502 ALIHGMCEAGNLKEAGKLLMEMLQRGLILDKVTYNTLILGCCKDGKPEEGFKLKEDMIKRGIQPDNYTYNLLLHGLCSLG  581 (833)
Q Consensus       502 ~li~~~~~~g~~~~A~~~l~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g  581 (833)
                      ..+..+.+.|++++|...|+++.+..+. +..+|..+..++...|++++|...+.+.++..+. +...+..++..+...|
T Consensus        24 ~~g~~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~~  101 (323)
T d1fcha_          24 EEGLRRLQEGDLPNAVLLFEAAVQQDPK-HMEAWQYLGTTQAENEQELLAISALRRCLELKPD-NQTALMALAVSFTNES  101 (323)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHSCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCChHHHHHHHHhhhccccc-cccccccccccccccc
Confidence            4566778888888888888888887665 7778888888888888888888888888876443 6677777888888888


Q ss_pred             CHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHH
Q 003295          582 KMEEAIELWEECKRTVFGPDIYTYGVMIDGFCKADKIEEGETLFNEMISKKMELNPVVYNTLIRAYCKIGNTTAAFRLSN  661 (833)
Q Consensus       582 ~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~  661 (833)
                      ++++|.+.++++....  |+..............                   .+.......+..+...+...+|.+.+.
T Consensus       102 ~~~~A~~~~~~~~~~~--~~~~~~~~~~~~~~~~-------------------~~~~~~~~~~~~~~~~~~~~~a~~~~~  160 (323)
T d1fcha_         102 LQRQACEILRDWLRYT--PAYAHLVTPAEEGAGG-------------------AGLGPSKRILGSLLSDSLFLEVKELFL  160 (323)
T ss_dssp             CHHHHHHHHHHHHHTS--TTTGGGCC----------------------------------CTTHHHHHHHHHHHHHHHHH
T ss_pred             cccccccchhhHHHhc--cchHHHHHhhhhhhhh-------------------cccccchhhHHHHHHhhHHHHHHHHHH
Confidence            8888888888877643  2211110000000000                   001111112223344556777888888


Q ss_pred             HHHhCCC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCC
Q 003295          662 DMKSRGI-LPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESVLQEMASINIHP  740 (833)
Q Consensus       662 ~m~~~~~-~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p  740 (833)
                      +...... ..+...+..+...+...|++++|+..+++..... +-+...|..+...|.+.|++++|.+.|+++.+.. +-
T Consensus       161 ~al~~~p~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~  238 (323)
T d1fcha_         161 AAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVR-PNDYLLWNKLGATLANGNQSEEAVAAYRRALELQ-PG  238 (323)
T ss_dssp             HHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TT
T ss_pred             HHHHHhhcccccccchhhHHHHHHHHHHhhhhcccccccccc-cccccchhhhhhcccccccchhHHHHHHHHHHHh-hc
Confidence            7765432 2356677888888899999999999999988753 3357788889999999999999999999988753 44


Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC------------CHHHHHHHHHHHhcCCCHHHHH
Q 003295          741 NKITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISP------------DSITYNVFMDGHCKGGNVEEAF  797 (833)
Q Consensus       741 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p------------~~~~~~~l~~~~~~~g~~~~A~  797 (833)
                      +..+|..++.+|.+.|++++|++.|+++++.  .|            ....|..+..++...|+.+.+.
T Consensus       239 ~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l--~p~~~~~~~~~~~~~~~~~~~l~~al~~~~~~d~~~  305 (323)
T d1fcha_         239 YIRSRYNLGISCINLGAHREAVEHFLEALNM--QRKSRGPRGEGGAMSENIWSTLRLALSMLGQSDAYG  305 (323)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--HHTC------CCCCCHHHHHHHHHHHHHHTCGGGHH
T ss_pred             cHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCcChhhhhhhHHHHHHHHHHHHHHHHHcCCHHHHH
Confidence            6778999999999999999999999998872  22            2235666777777777765543

>d1fcha_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.52  E-value=6.5e-12  Score=128.84  Aligned_cols=92  Identities=11%  Similarity=-0.021  Sum_probs=68.7

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCC
Q 003295          468 LVSGLCKNGKQAEATELCFRLFEKGFTVNTVTSNALIHGMCEAGNLKEAGKLLMEMLQRGLILDKVTYNTLILGCCKDGK  547 (833)
Q Consensus       468 li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~l~~m~~~g~~~~~~~~~~li~~~~~~g~  547 (833)
                      ....+.+.|++++|...|+++++..+ .+..+|..++.++...|++++|...|.+..+..+. +...|..+...+...|+
T Consensus        25 ~g~~~~~~g~~~~A~~~~~~al~~~P-~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~~~  102 (323)
T d1fcha_          25 EGLRRLQEGDLPNAVLLFEAAVQQDP-KHMEAWQYLGTTQAENEQELLAISALRRCLELKPD-NQTALMALAVSFTNESL  102 (323)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHSCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCChHHHHHHHHhhhccccc-ccccccccccccccccc
Confidence            44456677777777777777777633 36777788888888888888888888887776655 67777777788888888


Q ss_pred             hhhHHHHHHHHHHC
Q 003295          548 PEEGFKLKEDMIKR  561 (833)
Q Consensus       548 ~~~A~~~~~~m~~~  561 (833)
                      +++|.+.++++...
T Consensus       103 ~~~A~~~~~~~~~~  116 (323)
T d1fcha_         103 QRQACEILRDWLRY  116 (323)
T ss_dssp             HHHHHHHHHHHHHT
T ss_pred             ccccccchhhHHHh
Confidence            88888888887765

>d2h6fa1 a.118.6.1 (A:55-369) Protein farnesyltransferase alpha-subunit {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Protein farnesyltransferase alpha-subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.16  E-value=5e-09  Score=105.78  Aligned_cols=146  Identities=9%  Similarity=0.068  Sum_probs=70.6

Q ss_pred             HHHHHHHHHHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC-CHHHHHHHHHHHhhCCCCCCHhhHHHHHHHH
Q 003295          534 TYNTLILGCCKDGKPEEGFKLKEDMIKRGIQPDNYTYNLLLHGLCSLG-KMEEAIELWEECKRTVFGPDIYTYGVMIDGF  612 (833)
Q Consensus       534 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g-~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~  612 (833)
                      .|+.+...+.+.+..++|+++++++++..+. +...|+....++...| ++++|+..++.+.+.. +-+..+|..+...+
T Consensus        45 a~~~~~~~~~~~e~~~~Al~~~~~ai~lnP~-~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~-p~~~~a~~~~~~~~  122 (315)
T d2h6fa1          45 VYDYFRAVLQRDERSERAFKLTRDAIELNAA-NYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHHRRVLV  122 (315)
T ss_dssp             HHHHHHHHHHHTCCCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCchHHHHHHHHHHHHHCCC-ChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHH-HhhhhHHHHHhHHH
Confidence            3444444455555555555555555554322 4444555555544443 2555555555554432 22344455555555


Q ss_pred             HccCCHHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 003295          613 CKADKIEEGETLFNEMISKKMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLC  683 (833)
Q Consensus       613 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~  683 (833)
                      .+.|++++|++.++++++..+. +...|..+...+.+.|++++|++.++++++.+ +-+...|+.+...+.
T Consensus       123 ~~l~~~~eAl~~~~kal~~dp~-n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~-p~n~~a~~~r~~~l~  191 (315)
T d2h6fa1         123 EWLRDPSQELEFIADILNQDAK-NYHAWQHRQWVIQEFKLWDNELQYVDQLLKED-VRNNSVWNQRYFVIS  191 (315)
T ss_dssp             HHHTCCTTHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HhhccHHHHHHHHhhhhhhhhc-chHHHHHHHHHHHHHHhhHHHHHHHHHHHHHC-CccHHHHHHHHHHHH
Confidence            5555555555555555544333 44555555555555555555555555555443 223334444433333

>d2h6fa1 a.118.6.1 (A:55-369) Protein farnesyltransferase alpha-subunit {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Protein farnesyltransferase alpha-subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.12  E-value=5.6e-09  Score=105.44  Aligned_cols=233  Identities=11%  Similarity=0.081  Sum_probs=173.8

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHccC-CHHHHHHHHHHHHHCCCccCHHHHHHHHH
Q 003295          567 NYTYNLLLHGLCSLGKMEEAIELWEECKRTVFGPDIYTYGVMIDGFCKAD-KIEEGETLFNEMISKKMELNPVVYNTLIR  645 (833)
Q Consensus       567 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g-~~~~A~~~~~~~~~~~~~~~~~~~~~li~  645 (833)
                      ...++.+...+.+.+.+++|+++++++++.. +-+...|+....++...| ++++|+..+++.++..+. +..+|+.+..
T Consensus        43 ~~a~~~~~~~~~~~e~~~~Al~~~~~ai~ln-P~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~p~-~~~a~~~~~~  120 (315)
T d2h6fa1          43 RDVYDYFRAVLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPK-NYQVWHHRRV  120 (315)
T ss_dssp             HHHHHHHHHHHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTT-CHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHHHHC-CCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHHHh-hhhHHHHHhH
Confidence            3456677777888889999999999988864 335667788888877766 489999999998888766 7888998888


Q ss_pred             HHHHcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCC---
Q 003295          646 AYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQ---  722 (833)
Q Consensus       646 ~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~---  722 (833)
                      .+.+.|++++|++.++++.+.. +.+...|..+...+.+.|++++|++.++++++.+ +-+...|+.+...+.+.+.   
T Consensus       121 ~~~~l~~~~eAl~~~~kal~~d-p~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~-p~n~~a~~~r~~~l~~~~~~~~  198 (315)
T d2h6fa1         121 LVEWLRDPSQELEFIADILNQD-AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKED-VRNNSVWNQRYFVISNTTGYND  198 (315)
T ss_dssp             HHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCSCS
T ss_pred             HHHhhccHHHHHHHHhhhhhhh-hcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHHC-CccHHHHHHHHHHHHHccccch
Confidence            9999999999999999998874 4478888888888999999999999999998853 3366778777777766665   


Q ss_pred             ---hhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhcC--CCHHHH
Q 003295          723 ---MDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISP-DSITYNVFMDGHCKG--GNVEEA  796 (833)
Q Consensus       723 ---~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~~~~~l~~~~~~~--g~~~~A  796 (833)
                         +++|++.+.++++.. +.+...|..+...+.. ...+++.+.+++..+....+ +...+..++..|...  +..+.+
T Consensus       199 ~~~~~~ai~~~~~al~~~-P~~~~~~~~l~~ll~~-~~~~~~~~~~~~~~~l~~~~~~~~~~~~l~~~y~~~~~~~~~~~  276 (315)
T d2h6fa1         199 RAVLEREVQYTLEMIKLV-PHNESAWNYLKGILQD-RGLSKYPNLLNQLLDLQPSHSSPYLIAFLVDIYEDMLENQCDNK  276 (315)
T ss_dssp             HHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHTT-TCGGGCHHHHHHHHHHTTTCCCHHHHHHHHHHHHHHHHTTCSSH
T ss_pred             hhhhHHhHHHHHHHHHhC-CCchHHHHHHHHHHHh-cChHHHHHHHHHHHHhCCCcCCHHHHHHHHHHHHHHHhcCHHHH
Confidence               567888888888754 5567778777666544 44678888888877632222 455666676666442  555666


Q ss_pred             HHHHHHHHH
Q 003295          797 FKVCDRMLS  805 (833)
Q Consensus       797 ~~~~~~m~~  805 (833)
                      ...+++..+
T Consensus       277 ~~~~~ka~~  285 (315)
T d2h6fa1         277 EDILNKALE  285 (315)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            666666554

>d1hz4a_ a.118.8.2 (A:) Transcription factor MalT domain III {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Transcription factor MalT domain III
domain: Transcription factor MalT domain III
species: Escherichia coli [TaxId: 562]

Probab=99.10  E-value=3.7e-08  Score=101.26  Aligned_cols=159  Identities=13%  Similarity=0.094  Sum_probs=74.4

Q ss_pred             HHHHHHhcCChhHHHHHHHHhhcCCCCC-----HHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCC-CC----hhhHHHH
Q 003295          224 LLNSLVKANEVQKGIEVFETMCRGVSPD-----VFLFSTAINAFCKRGRIEDAIGLFTKMEELGIA-PN----VVTYNNI  293 (833)
Q Consensus       224 ll~~~~~~g~~~~A~~~~~~~~~~~~~~-----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~-p~----~~~~~~l  293 (833)
                      ....+...|++++|...|++.+.-.+.+     ..+++.+..+|...|++++|...|++..+.... ++    ..++..+
T Consensus        18 rA~~~~~~g~~~~A~~~~~~aL~~~~~~~~~~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~   97 (366)
T d1hz4a_          18 RAQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQ   97 (366)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHhhCcCCCcHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHHHHHHHHH
Confidence            3445556666666666666665322222     234555566666666666666666665432110 11    1233444


Q ss_pred             HHHHHhcCChhHHHHHHHHHHhC----CCCCC---hhhHHHHHHHHHhcCChhHHHHHHHHHHHCCC----CCChhhHHH
Q 003295          294 IHGLCRNGRLYEAFHLKEKMVLR----EVEPS---LITYSILINGLIKLEKFDDANFVLKEMSVRGF----VPNYVVYNT  362 (833)
Q Consensus       294 i~~~~~~g~~~~A~~~~~~m~~~----~~~p~---~~t~~~li~~~~~~g~~~~A~~~~~~m~~~g~----~p~~~~y~~  362 (833)
                      ...+...|++.+|...+.+....    +....   ...+..+...+...|+++++...+........    .....++..
T Consensus        98 ~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~  177 (366)
T d1hz4a_          98 SEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAM  177 (366)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHHHHH
Confidence            55555566666666665554421    10000   11233344444555555555555554443211    111223333


Q ss_pred             HHHHHHHcCChHHHHHHHHH
Q 003295          363 LIDGYCKKGNISEALKIRDD  382 (833)
Q Consensus       363 li~~~~~~g~~~~A~~~~~~  382 (833)
                      +...+...|+..++...+.+
T Consensus       178 ~~~~~~~~~~~~~a~~~~~~  197 (366)
T d1hz4a_         178 LIQCSLARGDLDNARSQLNR  197 (366)
T ss_dssp             HHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHhhhhHHHHHHHHHH
Confidence            33444445555555544443

>d1hz4a_ a.118.8.2 (A:) Transcription factor MalT domain III {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Transcription factor MalT domain III
domain: Transcription factor MalT domain III
species: Escherichia coli [TaxId: 562]

Probab=99.09  E-value=2.7e-08  Score=102.37  Aligned_cols=271  Identities=14%  Similarity=0.037  Sum_probs=143.3

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCC----HHHHHHHHHHHHhcCChhhHHHHHHHHHHCCCC-CC----HHHH
Q 003295          500 SNALIHGMCEAGNLKEAGKLLMEMLQRGLILD----KVTYNTLILGCCKDGKPEEGFKLKEDMIKRGIQ-PD----NYTY  570 (833)
Q Consensus       500 ~~~li~~~~~~g~~~~A~~~l~~m~~~g~~~~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~-p~----~~~~  570 (833)
                      .......+...|++++|..++++..+..+..+    ...+..+...+...|++++|...+++..+.... ++    ...+
T Consensus        15 ~~lrA~~~~~~g~~~~A~~~~~~aL~~~~~~~~~~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~   94 (366)
T d1hz4a_          15 NALRAQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSL   94 (366)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHhhCcCCCcHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHHHHHH
Confidence            33345566677778888887777776543322    234556666777777777777777776653211 11    2234


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHhhC----CCCCC---HhhHHHHHHHHHccCCHHHHHHHHHHHHHCC----CccCHHH
Q 003295          571 NLLLHGLCSLGKMEEAIELWEECKRT----VFGPD---IYTYGVMIDGFCKADKIEEGETLFNEMISKK----MELNPVV  639 (833)
Q Consensus       571 ~~li~~~~~~g~~~~A~~~~~~~~~~----~~~~~---~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~----~~~~~~~  639 (833)
                      ..+...+...|++..+...+.+....    +....   ...+..+...+...|+++.+...+.......    .......
T Consensus        95 ~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  174 (366)
T d1hz4a_          95 IQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQC  174 (366)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHH
Confidence            44555666677777777776665431    11111   1234445556666666666666666655431    1122344


Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHhC--CCCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC---ChhHH
Q 003295          640 YNTLIRAYCKIGNTTAAFRLSNDMKSR--GILPT----SVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLP---NVACY  710 (833)
Q Consensus       640 ~~~li~~~~~~g~~~~A~~~~~~m~~~--~~~p~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p---~~~~~  710 (833)
                      +......+...|+...+...+.+....  .....    ...+..+...+...|+.++|...+++..+.....   ....+
T Consensus       175 ~~~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  254 (366)
T d1hz4a_         175 LAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQW  254 (366)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHH
T ss_pred             HHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhccccchHHHHHH
Confidence            444555555666666666665554431  11111    1123334445555666666666665554431111   12234


Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHh----CCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 003295          711 TALIGGYCKLGQMDEAESVLQEMAS----INIHPN-KITYTIMIGGYCKLGDMKEAAKLLNVMAE  770 (833)
Q Consensus       711 ~~li~~~~~~g~~~~A~~~~~~m~~----~g~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~  770 (833)
                      ..+...+...|++++|...++++..    .+..|+ ..++..+...|...|++++|.+.++++++
T Consensus       255 ~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~Al~  319 (366)
T d1hz4a_         255 RNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALK  319 (366)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            4455556666666666666665542    222222 23455556666666666666666666555

>d1dcea1 a.118.6.1 (A:1-241,A:351-443) Rab geranylgeranyltransferase alpha-subunit, N-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Rab geranylgeranyltransferase alpha-subunit, N-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=99.05  E-value=9.3e-10  Score=112.89  Aligned_cols=264  Identities=10%  Similarity=-0.020  Sum_probs=170.3

Q ss_pred             CHHHHHHHHHHHhhCCCCCCHHHHHHHHHH----------HHhcCChhhHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC
Q 003295          512 NLKEAGKLLMEMLQRGLILDKVTYNTLILG----------CCKDGKPEEGFKLKEDMIKRGIQPDNYTYNLLLHGLCSLG  581 (833)
Q Consensus       512 ~~~~A~~~l~~m~~~g~~~~~~~~~~li~~----------~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g  581 (833)
                      ..++|++++++..+.++. +...|+..-..          +...|.+++|+..++..++..++ +...|..+..++...+
T Consensus        44 ~~~~al~~~~~~l~~~P~-~~~a~~~r~~~l~~l~~~~~~~~~~~~~~~al~~~~~~l~~~pk-~~~~~~~~~~~~~~~~  121 (334)
T d1dcea1          44 LDESVLELTSQILGANPD-FATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPK-SYGTWHHRCWLLSRLP  121 (334)
T ss_dssp             CSHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTCS
T ss_pred             ccHHHHHHHHHHHHHCCC-cHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHHHHhCCC-cHHHHHHhhHHHHHhc
Confidence            346677777776666544 44444332222          22334467788888888776443 6666666666666654


Q ss_pred             --CHHHHHHHHHHHhhCCCCCCHhhHH-HHHHHHHccCCHHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHH
Q 003295          582 --KMEEAIELWEECKRTVFGPDIYTYG-VMIDGFCKADKIEEGETLFNEMISKKMELNPVVYNTLIRAYCKIGNTTAAFR  658 (833)
Q Consensus       582 --~~~~A~~~~~~~~~~~~~~~~~~~~-~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~  658 (833)
                        ++++|...++++.+.. +++...+. .....+...+..++|+..++.+++..+. +...|+.+...+.+.|++++|..
T Consensus       122 ~~~~~~a~~~~~~al~~~-~~~~~~~~~~~~~~~~~~~~~~~Al~~~~~~i~~~p~-~~~a~~~l~~~~~~~~~~~~A~~  199 (334)
T d1dcea1         122 EPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFS-NYSSWHYRSCLLPQLHPQPDSGP  199 (334)
T ss_dssp             SCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCC-CHHHHHHHHHHHHHHSCCCCSSS
T ss_pred             cccHHHHHHHHHHHHhhC-chhhhhhhhHHHHHHHhccccHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHhcCHHHHHH
Confidence              4778888888877753 23344443 3445666778888888888888877665 77888888888888888877765


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHhCCC
Q 003295          659 LSNDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESVLQEMASINI  738 (833)
Q Consensus       659 ~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~  738 (833)
                      .++...+.  .|+   .......+...+..+++...+....... +++...+..++..+...|+.++|...+.+..... 
T Consensus       200 ~~~~~~~~--~~~---~~~~~~~~~~l~~~~~a~~~~~~~l~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-  272 (334)
T d1dcea1         200 QGRLPENV--LLK---ELELVQNAFFTDPNDQSAWFYHRWLLGR-AEPLFRCELSVEKSTVLQSELESCKELQELEPEN-  272 (334)
T ss_dssp             CCSSCHHH--HHH---HHHHHHHHHHHCSSCSHHHHHHHHHHSC-CCCSSSCCCCHHHHHHHHHHHHHHHHHHHHCTTC-
T ss_pred             HHHHhHHh--HHH---HHHHHHHHHHhcchhHHHHHHHHHHHhC-cchhhHHHHHHHHHHHHhhHHHHHHHHHHHHhhC-
Confidence            55443332  111   1223334455666777777777777653 3445556666777777788888888888777643 


Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHh
Q 003295          739 HPNKITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISPD-SITYNVFMDGHC  788 (833)
Q Consensus       739 ~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~~~~~l~~~~~  788 (833)
                      +.+..+|..++.++...|++++|++.++++++  +.|+ ...|..|...+.
T Consensus       273 p~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~--ldP~~~~y~~~L~~~~~  321 (334)
T d1dcea1         273 KWCLLTIILLMRALDPLLYEKETLQYFSTLKA--VDPMRAAYLDDLRSKFL  321 (334)
T ss_dssp             HHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHH--HCGGGHHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH--HCcccHHHHHHHHHHHh
Confidence            33456777788888888888888888888887  4564 345555655554

>d2onda1 a.118.8.7 (A:242-549) Cleavage stimulation factor 77 kDa subunit CSTF3 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: HAT/Suf repeat
domain: Cleavage stimulation factor 77 kDa subunit CSTF3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.03  E-value=1.9e-08  Score=101.36  Aligned_cols=183  Identities=8%  Similarity=0.019  Sum_probs=73.3

Q ss_pred             hHHHHHHHHhhc-CCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHH
Q 003295          235 QKGIEVFETMCR-GVSPDVFLFSTAINAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIHGLCRNGRLYEAFHLKEKM  313 (833)
Q Consensus       235 ~~A~~~~~~~~~-~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m  313 (833)
                      ++|..+|++.+. ..+.+...|...+..+.+.|++++|..+|+++.+........+|...+..+.+.|++++|+++|+++
T Consensus        81 ~~a~~i~~ral~~~~p~~~~l~~~ya~~~~~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~~~a  160 (308)
T d2onda1          81 DEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKA  160 (308)
T ss_dssp             HHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHHHHH
Confidence            444444444442 2233334444444444444555555555555444322111223444444444444445555555444


Q ss_pred             HhCCCCCChhhHHHHHHH-HHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHHcCChHHHHHHHHHHHhCC-CCCC
Q 003295          314 VLREVEPSLITYSILING-LIKLEKFDDANFVLKEMSVRGFVPNYVVYNTLIDGYCKKGNISEALKIRDDMVSKG-MSPN  391 (833)
Q Consensus       314 ~~~~~~p~~~t~~~li~~-~~~~g~~~~A~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~A~~~~~~m~~~g-~~p~  391 (833)
                      .+.+ +.+...|...+.. +...|+.+.|..+|+.+.+.. ..+...|...++.+.+.|++++|+.+|++..... ..|+
T Consensus       161 l~~~-~~~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~~-p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~~~~  238 (308)
T d2onda1         161 REDA-RTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPE  238 (308)
T ss_dssp             HTST-TCCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGG
T ss_pred             HHhC-CCcHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhh-hhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCChH
Confidence            4332 1122222222221 122344444444444444331 1123344444444444444444444444443322 1111


Q ss_pred             --hhHHHHHHHHHHhcCChhHHHHHHHHHH
Q 003295          392 --SVTFNSLIHGFCKSGQMDNAENALEEML  419 (833)
Q Consensus       392 --~~~~~~li~~~~~~g~~~~A~~~l~~~~  419 (833)
                        ...|...+..-...|+.+.+.++++++.
T Consensus       239 ~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~  268 (308)
T d2onda1         239 KSGEIWARFLAFESNIGDLASILKVEKRRF  268 (308)
T ss_dssp             GCHHHHHHHHHHHHHHSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence              1234444443344444444444444443

>d2onda1 a.118.8.7 (A:242-549) Cleavage stimulation factor 77 kDa subunit CSTF3 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: HAT/Suf repeat
domain: Cleavage stimulation factor 77 kDa subunit CSTF3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.00  E-value=5e-08  Score=98.18  Aligned_cols=185  Identities=12%  Similarity=0.090  Sum_probs=79.1

Q ss_pred             HHHHHHHHHHhhCCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHH
Q 003295          584 EEAIELWEECKRTVFGPDIYTYGVMIDGFCKADKIEEGETLFNEMISKKMELNPVVYNTLIRAYCKIGNTTAAFRLSNDM  663 (833)
Q Consensus       584 ~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m  663 (833)
                      ++|..+|++..+...+.+...|...+..+.+.|++++|..+|+++++..+.....+|...+..+.+.|+.+.|.++|+++
T Consensus        81 ~~a~~i~~ral~~~~p~~~~l~~~ya~~~~~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~~~a  160 (308)
T d2onda1          81 DEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKA  160 (308)
T ss_dssp             HHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHHHHH
Confidence            44455555544432233334444444444555555555555555544433322334444455444555555555555554


Q ss_pred             HhCCCCCCHHHHHHHHHH-HHhcCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHhCC-CCCC
Q 003295          664 KSRGILPTSVTYSSLIHG-LCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESVLQEMASIN-IHPN  741 (833)
Q Consensus       664 ~~~~~~p~~~~~~~li~~-~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g-~~p~  741 (833)
                      .+.+. .+...|...... +...|+.+.|..+|+.+.+. .+.+...|...+..+.+.|+++.|..+|++..+.. ..|+
T Consensus       161 l~~~~-~~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~-~p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~~~~  238 (308)
T d2onda1         161 REDAR-TRHHVYVTAALMEYYCSKDKSVAFKIFELGLKK-YGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPE  238 (308)
T ss_dssp             HTSTT-CCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGG
T ss_pred             HHhCC-CcHHHHHHHHHHHHHhccCHHHHHHHHHHHHHh-hhhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCChH
Confidence            44321 122222222211 12234444455555544443 12233444444444444445545555554444321 1111


Q ss_pred             --HHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 003295          742 --KITYTIMIGGYCKLGDMKEAAKLLNVMAE  770 (833)
Q Consensus       742 --~~~~~~li~~~~~~g~~~~A~~~~~~m~~  770 (833)
                        ...|...+..-...|+.+.+.++.+++.+
T Consensus       239 ~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~~  269 (308)
T d2onda1         239 KSGEIWARFLAFESNIGDLASILKVEKRRFT  269 (308)
T ss_dssp             GCHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence              22344444444444444444444444443

>d1dcea1 a.118.6.1 (A:1-241,A:351-443) Rab geranylgeranyltransferase alpha-subunit, N-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Rab geranylgeranyltransferase alpha-subunit, N-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=98.96  E-value=4.5e-09  Score=107.60  Aligned_cols=248  Identities=9%  Similarity=-0.062  Sum_probs=120.9

Q ss_pred             hhHHHHHHHHhhcCCCCCHHHHHHHHHH----------HHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcC--
Q 003295          234 VQKGIEVFETMCRGVSPDVFLFSTAINA----------FCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIHGLCRNG--  301 (833)
Q Consensus       234 ~~~A~~~~~~~~~~~~~~~~~~~~li~~----------~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g--  301 (833)
                      .++|+.++++.+.-.|.+...|+..-..          +...|++++|+.++++..+..+. +...|..+..++...+  
T Consensus        45 ~~~al~~~~~~l~~~P~~~~a~~~r~~~l~~l~~~~~~~~~~~~~~~al~~~~~~l~~~pk-~~~~~~~~~~~~~~~~~~  123 (334)
T d1dcea1          45 DESVLELTSQILGANPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPK-SYGTWHHRCWLLSRLPEP  123 (334)
T ss_dssp             SHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTCSSC
T ss_pred             cHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHHHHhCCC-cHHHHHHhhHHHHHhccc
Confidence            3555555555553233333334332222          22233456666666666654322 4445555555555544  


Q ss_pred             ChhHHHHHHHHHHhCCCCCChhhHH-HHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHHcCChHHHHHHH
Q 003295          302 RLYEAFHLKEKMVLREVEPSLITYS-ILINGLIKLEKFDDANFVLKEMSVRGFVPNYVVYNTLIDGYCKKGNISEALKIR  380 (833)
Q Consensus       302 ~~~~A~~~~~~m~~~~~~p~~~t~~-~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~A~~~~  380 (833)
                      ++++|...++++.+.. +++...+. .....+...+.+++|...++++.+.... +...|+.+...+.+.|++++|...+
T Consensus       124 ~~~~a~~~~~~al~~~-~~~~~~~~~~~~~~~~~~~~~~~Al~~~~~~i~~~p~-~~~a~~~l~~~~~~~~~~~~A~~~~  201 (334)
T d1dcea1         124 NWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFS-NYSSWHYRSCLLPQLHPQPDSGPQG  201 (334)
T ss_dssp             CHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCC-CHHHHHHHHHHHHHHSCCCCSSSCC
T ss_pred             cHHHHHHHHHHHHhhC-chhhhhhhhHHHHHHHhccccHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHhcCHHHHHHHH
Confidence            3566666666666542 22344333 2334455566666666666666655332 4556666666666666666665444


Q ss_pred             HHHHhCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHHCCCCC
Q 003295          381 DDMVSKGMSPNSVTFNSLIHGFCKSGQMDNAENALEEMLSRGLSINQGAYTSVIKWLCINSRFNSALHFTKEMLLRNLRP  460 (833)
Q Consensus       381 ~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~l~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~  460 (833)
                      ......  .|+   .......+...+..+++...+....... +++...+..++..+...|+.++|...+.+....++. 
T Consensus       202 ~~~~~~--~~~---~~~~~~~~~~l~~~~~a~~~~~~~l~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~-  274 (334)
T d1dcea1         202 RLPENV--LLK---ELELVQNAFFTDPNDQSAWFYHRWLLGR-AEPLFRCELSVEKSTVLQSELESCKELQELEPENKW-  274 (334)
T ss_dssp             SSCHHH--HHH---HHHHHHHHHHHCSSCSHHHHHHHHHHSC-CCCSSSCCCCHHHHHHHHHHHHHHHHHHHHCTTCHH-
T ss_pred             HHhHHh--HHH---HHHHHHHHHHhcchhHHHHHHHHHHHhC-cchhhHHHHHHHHHHHHhhHHHHHHHHHHHHhhCch-
Confidence            333221  011   1122233444566666666666665543 233444444555555555555555555444333211 


Q ss_pred             ChhhHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 003295          461 GDGLLTLLVSGLCKNGKQAEATELCFRLFEK  491 (833)
Q Consensus       461 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~  491 (833)
                      +..++..+...+...|+.++|.+.++++.+.
T Consensus       275 ~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~l  305 (334)
T d1dcea1         275 CLLTIILLMRALDPLLYEKETLQYFSTLKAV  305 (334)
T ss_dssp             HHHHHHHHHHHHCTGGGHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence            1223333444444444444444444444443

>d1xnfa_ a.118.8.1 (A:) Lipoprotein NlpI {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Lipoprotein NlpI
species: Escherichia coli [TaxId: 562]

Probab=98.91  E-value=3.9e-08  Score=96.22  Aligned_cols=95  Identities=13%  Similarity=-0.041  Sum_probs=49.0

Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh
Q 003295          605 YGVMIDGFCKADKIEEGETLFNEMISKKMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCN  684 (833)
Q Consensus       605 ~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~  684 (833)
                      |..+...|.+.|++++|+..|++.++..+. ++.+|+.+..+|.+.|++++|++.|+++.+.. +.+..++..+...+..
T Consensus        40 ~~~~G~~y~~~g~~~~A~~~~~~al~l~p~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~  117 (259)
T d1xnfa_          40 LYERGVLYDSLGLRALARNDFSQALAIRPD-MPEVFNYLGIYLTQAGNFDAAYEAFDSVLELD-PTYNYAHLNRGIALYY  117 (259)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHhhccCCC-CHHHHhhhchHHHHHHHHHHhhhhhhHHHHHH-hhhhhhHHHHHHHHHH
Confidence            334444555555555555555555554333 45555555555555555555555555555542 2233445555555555


Q ss_pred             cCCHHHHHHHHHHHHHC
Q 003295          685 IGLIEDAKCLFDEMRKE  701 (833)
Q Consensus       685 ~g~~~~A~~~~~~m~~~  701 (833)
                      .|++++|.+.|++.++.
T Consensus       118 ~g~~~~A~~~~~~al~~  134 (259)
T d1xnfa_         118 GGRDKLAQDDLLAFYQD  134 (259)
T ss_dssp             TTCHHHHHHHHHHHHHH
T ss_pred             HhhHHHHHHHHHHHHhh
Confidence            55555555555555543

>d1xnfa_ a.118.8.1 (A:) Lipoprotein NlpI {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Lipoprotein NlpI
species: Escherichia coli [TaxId: 562]

Probab=98.91  E-value=1.3e-08  Score=99.64  Aligned_cols=195  Identities=11%  Similarity=-0.038  Sum_probs=108.5

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCccCHHHHHHHHHHH
Q 003295          568 YTYNLLLHGLCSLGKMEEAIELWEECKRTVFGPDIYTYGVMIDGFCKADKIEEGETLFNEMISKKMELNPVVYNTLIRAY  647 (833)
Q Consensus       568 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~  647 (833)
                      .++..+..+|.+.|++++|.+.|++..+.. +.+..+|..+..+|.+.|++++|+..|+++++..+. +..++..+..+|
T Consensus        38 ~~~~~~G~~y~~~g~~~~A~~~~~~al~l~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~  115 (259)
T d1xnfa_          38 QLLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPT-YNYAHLNRGIAL  115 (259)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHhhccC-CCCHHHHhhhchHHHHHHHHHHhhhhhhHHHHHHhh-hhhhHHHHHHHH
Confidence            345556666777777777777777766643 334666777777777777777777777777766544 556667777777


Q ss_pred             HHcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCC----h
Q 003295          648 CKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQ----M  723 (833)
Q Consensus       648 ~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~----~  723 (833)
                      ...|++++|.+.+++..+.. +.+......+..++.+.+..+.+..+.......  .++...++ ++..+.....    .
T Consensus       116 ~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~-~~~~~~~~~~~~~~~  191 (259)
T d1xnfa_         116 YYGGRDKLAQDDLLAFYQDD-PNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKS--DKEQWGWN-IVEFYLGNISEQTLM  191 (259)
T ss_dssp             HHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHS--CCCSTHHH-HHHHHTTSSCHHHHH
T ss_pred             HHHhhHHHHHHHHHHHHhhc-cccHHHHHHHHHHHHHhhhHHHHHHHHHHhhcc--chhhhhhh-HHHHHHHHHHHHHHH
Confidence            77777777777777776653 224444444444445555555555555544442  22222222 1222211111    1


Q ss_pred             hHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 003295          724 DEAESVLQEMASINIHPN-KITYTIMIGGYCKLGDMKEAAKLLNVMAE  770 (833)
Q Consensus       724 ~~A~~~~~~m~~~g~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~  770 (833)
                      +.+...+.....  ..|+ ..+|..++..|...|++++|++.|++++.
T Consensus       192 ~~~~~~~~~~~~--~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~  237 (259)
T d1xnfa_         192 ERLKADATDNTS--LAEHLSETNFYLGKYYLSLGDLDSATALFKLAVA  237 (259)
T ss_dssp             HHHHHHCCSHHH--HHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHhhh--cCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            111111111111  0111 23556667777777777777777777776

>d1ouva_ a.118.18.1 (A:) Cysteine rich protein C (HcpC) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein C (HcpC)
species: Helicobacter pylori [TaxId: 210]

Probab=98.54  E-value=0.00011  Score=71.04  Aligned_cols=224  Identities=11%  Similarity=-0.040  Sum_probs=122.5

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHc----cCCHHHHHHHHHHHHHCCCccCHHHHHHHH
Q 003295          569 TYNLLLHGLCSLGKMEEAIELWEECKRTVFGPDIYTYGVMIDGFCK----ADKIEEGETLFNEMISKKMELNPVVYNTLI  644 (833)
Q Consensus       569 ~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~~~~li  644 (833)
                      .+..|...+.+.+++++|+++|++..+.|   +...+..|...|..    ..+...|...+......+   ++.....+.
T Consensus         4 ~~~~lG~~~~~~~d~~~A~~~~~kAa~~g---~~~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a~~~~---~~~a~~~l~   77 (265)
T d1ouva_           4 ELVGLGAKSYKEKDFTQAKKYFEKACDLK---ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCHLLG   77 (265)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcchhHHHHHHhhccccccc---ccchhhccc
Confidence            33444444444555555555555554443   33333334444433    334555555555554443   223333333


Q ss_pred             HHHHH----cCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH----hcCCHHHHHHHHHHHHHCCCCCChhHHHHHHHH
Q 003295          645 RAYCK----IGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLC----NIGLIEDAKCLFDEMRKEGLLPNVACYTALIGG  716 (833)
Q Consensus       645 ~~~~~----~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~----~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~  716 (833)
                      ..+..    .++.+.|...++...+.|..   .....+...+.    .......|...+......   .+...+..|...
T Consensus        78 ~~~~~~~~~~~~~~~a~~~~~~a~~~g~~---~a~~~l~~~~~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~L~~~  151 (265)
T d1ouva_          78 NLYYSGQGVSQNTNKALQYYSKACDLKYA---EGCASLGGIYHDGKVVTRDFKKAVEYFTKACDL---NDGDGCTILGSL  151 (265)
T ss_dssp             HHHHHTSSSCCCHHHHHHHHHHHHHTTCH---HHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHT---TCHHHHHHHHHH
T ss_pred             cccccccccchhhHHHHHHHhhhhhhhhh---hHHHhhcccccCCCcccchhHHHHHHhhhhhcc---cccchhhhhhhh
Confidence            33222    34555666666666555421   12222222222    233455666666666553   345556666666


Q ss_pred             HHh----cCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHh
Q 003295          717 YCK----LGQMDEAESVLQEMASINIHPNKITYTIMIGGYCK----LGDMKEAAKLLNVMAEKGISPDSITYNVFMDGHC  788 (833)
Q Consensus       717 ~~~----~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~  788 (833)
                      |..    ..+...+...++...+.|   +..+...+...|..    ..++++|+.+|++..+.|   ++..+..|+..|.
T Consensus       152 ~~~~~~~~~~~~~~~~~~~~a~~~g---~~~A~~~lg~~y~~g~~~~~d~~~A~~~~~~aa~~g---~~~a~~~LG~~y~  225 (265)
T d1ouva_         152 YDAGRGTPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE---NGGGCFNLGAMQY  225 (265)
T ss_dssp             HHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHH
T ss_pred             hccCCCcccccccchhhhhcccccc---ccccccchhhhcccCcccccchhhhhhhHhhhhccc---CHHHHHHHHHHHH
Confidence            664    345666777777777644   55666666666654    567888888888888765   5566777777776


Q ss_pred             c----CCCHHHHHHHHHHHHHCCCCC
Q 003295          789 K----GGNVEEAFKVCDRMLSEGLSL  810 (833)
Q Consensus       789 ~----~g~~~~A~~~~~~m~~~g~~p  810 (833)
                      +    ..+.++|.++|++..+.|..+
T Consensus       226 ~G~g~~~n~~~A~~~~~kAa~~g~~~  251 (265)
T d1ouva_         226 NGEGVTRNEKQAIENFKKGCKLGAKG  251 (265)
T ss_dssp             TTSSSSCCSTTHHHHHHHHHHHTCHH
T ss_pred             cCCCCccCHHHHHHHHHHHHHCcCHH
Confidence            4    336788888888887766544

>d1hh8a_ a.118.8.1 (A:) Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Neutrophil cytosolic factor 2 (NCF-2, p67-phox)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.49  E-value=3.9e-06  Score=76.89  Aligned_cols=84  Identities=13%  Similarity=-0.030  Sum_probs=39.0

Q ss_pred             HHHcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCChhHH
Q 003295          647 YCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEA  726 (833)
Q Consensus       647 ~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A  726 (833)
                      +...|++++|++.|+++    .+|+..+|..+..++...|++++|++.|++.++.. +-+...|..+..+|.+.|++++|
T Consensus        15 ~~~~~d~~~Al~~~~~i----~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ld-p~~~~a~~~~g~~~~~~g~~~~A   89 (192)
T d1hh8a_          15 AADKKDWKGALDAFSAV----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYYQTEKYDLA   89 (192)
T ss_dssp             HHHTTCHHHHHHHHHTS----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHCCCHHHHHHHHHhc----CCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHh-hhhhhhHHHHHHHHHhhccHHHH
Confidence            34445555555544432    12344444444555555555555555555554432 22334444444455555555555


Q ss_pred             HHHHHHHHh
Q 003295          727 ESVLQEMAS  735 (833)
Q Consensus       727 ~~~~~~m~~  735 (833)
                      .+.|++...
T Consensus        90 ~~~~~kAl~   98 (192)
T d1hh8a_          90 IKDLKEALI   98 (192)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            555554443

>d1hh8a_ a.118.8.1 (A:) Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Neutrophil cytosolic factor 2 (NCF-2, p67-phox)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.48  E-value=4.2e-06  Score=76.68  Aligned_cols=85  Identities=9%  Similarity=0.043  Sum_probs=56.2

Q ss_pred             HHHhcCChhHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHH
Q 003295          227 SLVKANEVQKGIEVFETMCRGVSPDVFLFSTAINAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIHGLCRNGRLYEA  306 (833)
Q Consensus       227 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A  306 (833)
                      .+...|+++.|++.|.++   .+|+..+|..+..+|...|++++|.+.|++..+.... +...|..+..+|.+.|++++|
T Consensus        14 ~~~~~~d~~~Al~~~~~i---~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ldp~-~~~a~~~~g~~~~~~g~~~~A   89 (192)
T d1hh8a_          14 LAADKKDWKGALDAFSAV---QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRDKH-LAVAYFQRGMLYYQTEKYDLA   89 (192)
T ss_dssp             HHHHTTCHHHHHHHHHTS---SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHCCCHHHHHHHHHhc---CCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHhhh-hhhhHHHHHHHHHhhccHHHH
Confidence            345667777777777654   2455566666777777777777777777777665432 456666677777777777777


Q ss_pred             HHHHHHHHh
Q 003295          307 FHLKEKMVL  315 (833)
Q Consensus       307 ~~~~~~m~~  315 (833)
                      .+.|++...
T Consensus        90 ~~~~~kAl~   98 (192)
T d1hh8a_          90 IKDLKEALI   98 (192)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            777776654

>d1qqea_ a.118.8.1 (A:) Vesicular transport protein sec17 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Vesicular transport protein sec17
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.44  E-value=2.5e-06  Score=84.42  Aligned_cols=89  Identities=11%  Similarity=-0.052  Sum_probs=42.5

Q ss_pred             HHHhcCChhHHHHHHHHHHHC----CCCCC-hhhHHHHHHHHHHcCChHHHHHHHHHHHhC----CC-CCChhHHHHHHH
Q 003295          331 GLIKLEKFDDANFVLKEMSVR----GFVPN-YVVYNTLIDGYCKKGNISEALKIRDDMVSK----GM-SPNSVTFNSLIH  400 (833)
Q Consensus       331 ~~~~~g~~~~A~~~~~~m~~~----g~~p~-~~~y~~li~~~~~~g~~~~A~~~~~~m~~~----g~-~p~~~~~~~li~  400 (833)
                      .|...+++++|...|++..+.    +-.++ ..+|..+..+|.+.|++++|.+.+++..+.    |- .....++..+..
T Consensus        46 ~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~  125 (290)
T d1qqea_          46 IYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELGE  125 (290)
T ss_dssp             HHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHHHHHHHHHH
Confidence            444555555555555554331    11111 235555666666666666666666554431    10 001223334444


Q ss_pred             HHHh-cCChhHHHHHHHHHH
Q 003295          401 GFCK-SGQMDNAENALEEML  419 (833)
Q Consensus       401 ~~~~-~g~~~~A~~~l~~~~  419 (833)
                      .|.. .|++++|.+.+++..
T Consensus       126 ~~~~~~~~~~~A~~~~~~A~  145 (290)
T d1qqea_         126 ILENDLHDYAKAIDCYELAG  145 (290)
T ss_dssp             HHHHTTCCHHHHHHHHHHHH
T ss_pred             hHhhHHHHHHHHHHHHHHHH
Confidence            4433 466666666665554

>d1ouva_ a.118.18.1 (A:) Cysteine rich protein C (HcpC) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein C (HcpC)
species: Helicobacter pylori [TaxId: 210]

Probab=98.40  E-value=0.00034  Score=67.38  Aligned_cols=112  Identities=10%  Similarity=-0.064  Sum_probs=65.1

Q ss_pred             ChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHh----cCCh
Q 003295          652 NTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCN----IGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCK----LGQM  723 (833)
Q Consensus       652 ~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~----~g~~  723 (833)
                      ....|...+......+   +...+..+...+..    ..+...+..+++...+.|   +......+...|..    ..+.
T Consensus       125 ~~~~a~~~~~~~~~~~---~~~~~~~L~~~~~~~~~~~~~~~~~~~~~~~a~~~g---~~~A~~~lg~~y~~g~~~~~d~  198 (265)
T d1ouva_         125 DFKKAVEYFTKACDLN---DGDGCTILGSLYDAGRGTPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNF  198 (265)
T ss_dssp             CHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCH
T ss_pred             hhHHHHHHhhhhhccc---ccchhhhhhhhhccCCCcccccccchhhhhcccccc---ccccccchhhhcccCcccccch
Confidence            3444455554444432   34444455555543    344556666666666543   44444445544443    4567


Q ss_pred             hHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHcC
Q 003295          724 DEAESVLQEMASINIHPNKITYTIMIGGYCK----LGDMKEAAKLLNVMAEKG  772 (833)
Q Consensus       724 ~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~g  772 (833)
                      ++|...|++..+.|   ++..+..|...|.+    ..+.++|.++|+++.+.|
T Consensus       199 ~~A~~~~~~aa~~g---~~~a~~~LG~~y~~G~g~~~n~~~A~~~~~kAa~~g  248 (265)
T d1ouva_         199 KEALARYSKACELE---NGGGCFNLGAMQYNGEGVTRNEKQAIENFKKGCKLG  248 (265)
T ss_dssp             HHHHHHHHHHHHTT---CHHHHHHHHHHHHTTSSSSCCSTTHHHHHHHHHHHT
T ss_pred             hhhhhhHhhhhccc---CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHCc
Confidence            77888888777765   45566666666654    336777888888877766

>d1elwa_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.39  E-value=4.4e-06  Score=69.44  Aligned_cols=89  Identities=18%  Similarity=0.134  Sum_probs=42.8

Q ss_pred             HHHHhcCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHH
Q 003295          680 HGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMK  759 (833)
Q Consensus       680 ~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~  759 (833)
                      ..+.+.|++++|+..|++.++.. +-+...|..+..+|.+.|++++|+..+++.++.+ +.+...|..++.++...|+++
T Consensus        11 ~~~~~~g~~~eAi~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~g~~~~~~~~~~   88 (117)
T d1elwa_          11 NKALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAAALEFLNRFE   88 (117)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHhcC-CcchhhhhcccccccccccccccchhhhhHHHhc-cchhhHHHHHHHHHHHccCHH
Confidence            33444455555555555554432 2234444444555555555555555555554432 334444555555555555555


Q ss_pred             HHHHHHHHHHH
Q 003295          760 EAAKLLNVMAE  770 (833)
Q Consensus       760 ~A~~~~~~m~~  770 (833)
                      +|+..+++.++
T Consensus        89 ~A~~~~~~a~~   99 (117)
T d1elwa_          89 EAKRTYEEGLK   99 (117)
T ss_dssp             HHHHHHHHHHT
T ss_pred             HHHHHHHHHHH
Confidence            55555555544

>d1elwa_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.39  E-value=2.8e-06  Score=70.67  Aligned_cols=99  Identities=16%  Similarity=0.095  Sum_probs=87.5

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCC
Q 003295          712 ALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISPDSITYNVFMDGHCKGG  791 (833)
Q Consensus       712 ~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g  791 (833)
                      .-...+.+.|++++|+..|++.++.. +.+...|..+..+|...|++++|+..++++++.+ +.+...|..++.++...|
T Consensus         8 ~~g~~~~~~g~~~eAi~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~g~~~~~~~   85 (117)
T d1elwa_           8 EKGNKALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAAALEFLN   85 (117)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhcC-CcchhhhhcccccccccccccccchhhhhHHHhc-cchhhHHHHHHHHHHHcc
Confidence            34677889999999999999999864 6678899999999999999999999999999963 447889999999999999


Q ss_pred             CHHHHHHHHHHHHHCCCCCCHHH
Q 003295          792 NVEEAFKVCDRMLSEGLSLDEIT  814 (833)
Q Consensus       792 ~~~~A~~~~~~m~~~g~~p~~~~  814 (833)
                      ++++|+..|++.++  +.|+...
T Consensus        86 ~~~~A~~~~~~a~~--~~p~~~~  106 (117)
T d1elwa_          86 RFEEAKRTYEEGLK--HEANNPQ  106 (117)
T ss_dssp             CHHHHHHHHHHHHT--TCTTCHH
T ss_pred             CHHHHHHHHHHHHH--hCCCCHH
Confidence            99999999999998  6677433

>d1qqea_ a.118.8.1 (A:) Vesicular transport protein sec17 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Vesicular transport protein sec17
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.35  E-value=4.9e-06  Score=82.26  Aligned_cols=195  Identities=13%  Similarity=0.034  Sum_probs=127.1

Q ss_pred             HHHHHccCCHHHHHHHHHHHHHC----CCc-cCHHHHHHHHHHHHHcCChHHHHHHHHHHHhC----CC-CCCHHHHHHH
Q 003295          609 IDGFCKADKIEEGETLFNEMISK----KME-LNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSR----GI-LPTSVTYSSL  678 (833)
Q Consensus       609 i~~~~~~g~~~~A~~~~~~~~~~----~~~-~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----~~-~p~~~~~~~l  678 (833)
                      ...|...+++++|.+.|.+..+.    +-. .-..+|..+..+|.+.|++++|.+.+++..+.    +. .....++..+
T Consensus        44 a~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l  123 (290)
T d1qqea_          44 ATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFEL  123 (290)
T ss_dssp             HHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHHHHHHHH
Confidence            44566777777777777776542    111 12356777788888888888888888876542    11 1113345556


Q ss_pred             HHHHHh-cCCHHHHHHHHHHHHHC----CCCC-ChhHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCC-----H-HHHH
Q 003295          679 IHGLCN-IGLIEDAKCLFDEMRKE----GLLP-NVACYTALIGGYCKLGQMDEAESVLQEMASINIHPN-----K-ITYT  746 (833)
Q Consensus       679 i~~~~~-~g~~~~A~~~~~~m~~~----g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-----~-~~~~  746 (833)
                      ...|.. .|++++|++.+++..+.    +..+ ...++..+...+...|++++|...++++........     . ..+.
T Consensus       124 ~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~~~~~~~~~~~~~~~~~~~~~~~~~  203 (290)
T d1qqea_         124 GEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFL  203 (290)
T ss_dssp             HHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHH
T ss_pred             HHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHHHHHHHHHHHHHhCccchhhhhhHHHHHH
Confidence            666644 58999999999887642    2111 134577788899999999999999999886421111     1 2344


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHcCCCCC------HHHHHHHHHHHhc--CCCHHHHHHHHHHHHH
Q 003295          747 IMIGGYCKLGDMKEAAKLLNVMAEKGISPD------SITYNVFMDGHCK--GGNVEEAFKVCDRMLS  805 (833)
Q Consensus       747 ~li~~~~~~g~~~~A~~~~~~m~~~g~~p~------~~~~~~l~~~~~~--~g~~~~A~~~~~~m~~  805 (833)
                      ..+..+...|+++.|.+.++++.+.  .|+      ......++.++..  .+.+++|+..|+++.+
T Consensus       204 ~~~~~~l~~~d~~~A~~~~~~~~~~--~~~~~~sre~~~l~~l~~a~~~~d~e~~~eai~~y~~~~~  268 (290)
T d1qqea_         204 KKGLCQLAATDAVAAARTLQEGQSE--DPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNFMR  268 (290)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHGGGCC-----------HHHHHHHHHHHHTTCTTTHHHHHHHHTTSSC
T ss_pred             HHHHHHHHhccHHHHHHHHHHHHHh--CCCccchHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhh
Confidence            5566677889999999999988763  332      2345666776654  3458888888865543

>d1a17a_ a.118.8.1 (A:) Protein phosphatase 5 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Protein phosphatase 5
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.31  E-value=6.9e-06  Score=72.70  Aligned_cols=118  Identities=13%  Similarity=0.087  Sum_probs=88.3

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC
Q 003295          677 SLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLG  756 (833)
Q Consensus       677 ~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g  756 (833)
                      .....|.+.|++++|+..|+++++.. +-+...|..+..+|...|++++|...|+++++.. +-+..+|..++.+|...|
T Consensus        15 ~~gn~~~~~~~y~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~-p~~~~a~~~~g~~~~~~g   92 (159)
T d1a17a_          15 TQANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMALG   92 (159)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHcCCHHHHHHHhhhccccc-hhhhhhhhhhHHHHHhccccchHHHHHHHHHHHc-ccchHHHHHHHHHHHHcC
Confidence            34566778899999999999988864 4467788888889999999999999999988864 556678888999999999


Q ss_pred             CHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHH--hcCCCHHHHHH
Q 003295          757 DMKEAAKLLNVMAEKGISP-DSITYNVFMDGH--CKGGNVEEAFK  798 (833)
Q Consensus       757 ~~~~A~~~~~~m~~~g~~p-~~~~~~~l~~~~--~~~g~~~~A~~  798 (833)
                      ++++|.+.++++...  .| +...+..+..+.  ...+.+++|..
T Consensus        93 ~~~eA~~~~~~a~~~--~p~~~~~~~~l~~~~~~~~~~~~~~a~~  135 (159)
T d1a17a_          93 KFRAALRDYETVVKV--KPHDKDAKMKYQECNKIVKQKAFERAIA  135 (159)
T ss_dssp             CHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            999999999999884  45 455555544332  23334445543

>d2c2la1 a.118.8.1 (A:24-224) STIP1 homology and U box-containing protein 1, STUB1 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: STIP1 homology and U box-containing protein 1, STUB1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.31  E-value=2.8e-06  Score=78.80  Aligned_cols=99  Identities=12%  Similarity=0.016  Sum_probs=86.7

Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHH
Q 003295          670 PTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMI  749 (833)
Q Consensus       670 p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li  749 (833)
                      |+...+......+.+.|++++|+..|.++++.. +.+...|..+..+|.+.|++++|+..|+++++.. +-+..+|..++
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~-p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~-p~~~~a~~~lg   79 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLG   79 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSC-TTCHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHhC-CCcHHHHHHHH
Confidence            677778888899999999999999999998863 4577889999999999999999999999998753 44677899999


Q ss_pred             HHHHhcCCHHHHHHHHHHHHH
Q 003295          750 GGYCKLGDMKEAAKLLNVMAE  770 (833)
Q Consensus       750 ~~~~~~g~~~~A~~~~~~m~~  770 (833)
                      .+|...|++++|+..|+++++
T Consensus        80 ~~~~~l~~~~~A~~~~~~al~  100 (201)
T d2c2la1          80 QCQLEMESYDEAIANLQRAYS  100 (201)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHH
Confidence            999999999999999999887

>d1a17a_ a.118.8.1 (A:) Protein phosphatase 5 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Protein phosphatase 5
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.23  E-value=1.1e-05  Score=71.40  Aligned_cols=91  Identities=16%  Similarity=0.158  Sum_probs=57.4

Q ss_pred             HHHHHhcCChhHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChh
Q 003295          225 LNSLVKANEVQKGIEVFETMCRGVSPDVFLFSTAINAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIHGLCRNGRLY  304 (833)
Q Consensus       225 l~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~  304 (833)
                      ...+.+.|++++|...|++++.-.|.+...|..+..+|...|++++|...|++..+..+. +..+|..++.+|...|+++
T Consensus        17 gn~~~~~~~y~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~p~-~~~a~~~~g~~~~~~g~~~   95 (159)
T d1a17a_          17 ANDYFKAKDYENAIKFYSQAIELNPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKK-YIKGYYRRAASNMALGKFR   95 (159)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHcCCHHHHHHHhhhccccchhhhhhhhhhHHHHHhccccchHHHHHHHHHHHccc-chHHHHHHHHHHHHcCCHH
Confidence            345556666666666666666434556666666666666666666666666666665322 4456666666666666666


Q ss_pred             HHHHHHHHHHhC
Q 003295          305 EAFHLKEKMVLR  316 (833)
Q Consensus       305 ~A~~~~~~m~~~  316 (833)
                      +|...+++....
T Consensus        96 eA~~~~~~a~~~  107 (159)
T d1a17a_          96 AALRDYETVVKV  107 (159)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHc
Confidence            666666666654

>d1nzna_ a.118.8.1 (A:) Mitochondria fission protein Fis1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.20  E-value=2.4e-06  Score=71.28  Aligned_cols=92  Identities=14%  Similarity=0.101  Sum_probs=40.4

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC---HHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHh
Q 003295          713 LIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGD---MKEAAKLLNVMAEKGISPD-SITYNVFMDGHC  788 (833)
Q Consensus       713 li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~---~~~A~~~~~~m~~~g~~p~-~~~~~~l~~~~~  788 (833)
                      +++.+...+++++|++.|++....+ +.+..++..++.++.+.++   +++|+++++++++.+..|+ ..++..|+.+|.
T Consensus         5 l~n~~~~~~~l~~Ae~~Y~~aL~~~-p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~~y~   83 (122)
T d1nzna_           5 VLNELVSVEDLLKFEKKFQSEKAAG-SVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNY   83 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHS-CCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHH
T ss_pred             HHHHhcCHHHHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHHHHH
Confidence            3344444444555555555444433 3344444444444443322   2234444444444221111 123444455555


Q ss_pred             cCCCHHHHHHHHHHHHH
Q 003295          789 KGGNVEEAFKVCDRMLS  805 (833)
Q Consensus       789 ~~g~~~~A~~~~~~m~~  805 (833)
                      +.|++++|++.|+++++
T Consensus        84 ~~g~~~~A~~~~~~aL~  100 (122)
T d1nzna_          84 RLKEYEKALKYVRGLLQ  100 (122)
T ss_dssp             HTTCHHHHHHHHHHHHH
T ss_pred             HHhhhHHHHHHHHHHHH
Confidence            55555555555555544

>d2c2la1 a.118.8.1 (A:24-224) STIP1 homology and U box-containing protein 1, STUB1 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: STIP1 homology and U box-containing protein 1, STUB1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.17  E-value=1.1e-05  Score=74.56  Aligned_cols=98  Identities=14%  Similarity=-0.077  Sum_probs=87.9

Q ss_pred             cCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC-ChhHHHHH
Q 003295          635 LNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLP-NVACYTAL  713 (833)
Q Consensus       635 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~~~~~l  713 (833)
                      |+...+......|.+.|++++|+..|++.++.. +.+...|..+..+|.+.|++++|+..|+++++.  .| +...|..+
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~-p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l--~p~~~~a~~~l   78 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALEL--DGQSVKAHFFL   78 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS--CTTCHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHh--CCCcHHHHHHH
Confidence            677778888999999999999999999998875 457888999999999999999999999999984  45 57789999


Q ss_pred             HHHHHhcCChhHHHHHHHHHHh
Q 003295          714 IGGYCKLGQMDEAESVLQEMAS  735 (833)
Q Consensus       714 i~~~~~~g~~~~A~~~~~~m~~  735 (833)
                      ..+|.+.|++++|...|+++.+
T Consensus        79 g~~~~~l~~~~~A~~~~~~al~  100 (201)
T d2c2la1          79 GQCQLEMESYDEAIANLQRAYS  100 (201)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHH
Confidence            9999999999999999999876

>d1hxia_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Trypanosoma brucei [TaxId: 5691]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
species: Trypanosoma brucei [TaxId: 5691]

Probab=98.14  E-value=6.7e-06  Score=67.61  Aligned_cols=89  Identities=15%  Similarity=0.029  Sum_probs=61.4

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhcCC
Q 003295          713 LIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISP-DSITYNVFMDGHCKGG  791 (833)
Q Consensus       713 li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~~~~~l~~~~~~~g  791 (833)
                      +...+.+.|++++|+..|++.++.. +-+..+|..++.++.+.|++++|+..++++++.  .| +..+|..++..|...|
T Consensus        22 ~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~--~p~~~~a~~~la~~y~~~g   98 (112)
T d1hxia_          22 EGLSMLKLANLAEAALAFEAVCQKE-PEREEAWRSLGLTQAENEKDGLAIIALNHARML--DPKDIAVHAALAVSHTNEH   98 (112)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhhHHHHHHHhhhcccc-cccchhhhhhhhhhhhhhhHHHhhccccccccc--ccccccchHHHHHHHHHCC
Confidence            4555667777777777777777643 345667777777777777777777777777773  34 4667777777777777


Q ss_pred             CHHHHHHHHHHHH
Q 003295          792 NVEEAFKVCDRML  804 (833)
Q Consensus       792 ~~~~A~~~~~~m~  804 (833)
                      ++++|++.+++.+
T Consensus        99 ~~~~A~~~l~~~l  111 (112)
T d1hxia_          99 NANAALASLRAWL  111 (112)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHh
Confidence            7777777776643

>d1nzna_ a.118.8.1 (A:) Mitochondria fission protein Fis1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.02  E-value=1.3e-05  Score=66.79  Aligned_cols=99  Identities=10%  Similarity=0.124  Sum_probs=76.7

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCC---hhHHHHHHHHHHhCCCCCC-HHHHHHHHHH
Q 003295          676 SSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQ---MDEAESVLQEMASINIHPN-KITYTIMIGG  751 (833)
Q Consensus       676 ~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~---~~~A~~~~~~m~~~g~~p~-~~~~~~li~~  751 (833)
                      ..+++.+...+++++|++.|++.+..+ +.+..++..+..++.+.++   .++|+.+++++.+.+..|+ ..+|..++.+
T Consensus         3 ~~l~n~~~~~~~l~~Ae~~Y~~aL~~~-p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~~   81 (122)
T d1nzna_           3 EAVLNELVSVEDLLKFEKKFQSEKAAG-SVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVG   81 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHS-CCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHHH
Confidence            456777888889999999999998864 5577888888888887554   4568999999887542233 2377888999


Q ss_pred             HHhcCCHHHHHHHHHHHHHcCCCCCH
Q 003295          752 YCKLGDMKEAAKLLNVMAEKGISPDS  777 (833)
Q Consensus       752 ~~~~g~~~~A~~~~~~m~~~g~~p~~  777 (833)
                      |.+.|++++|++.|+++++  +.|+.
T Consensus        82 y~~~g~~~~A~~~~~~aL~--~~P~~  105 (122)
T d1nzna_          82 NYRLKEYEKALKYVRGLLQ--TEPQN  105 (122)
T ss_dssp             HHHTTCHHHHHHHHHHHHH--HCTTC
T ss_pred             HHHHhhhHHHHHHHHHHHH--hCcCC
Confidence            9999999999999999998  45754

>d1b89a_ a.118.1.3 (A:) Clathrin heavy chain proximal leg segment {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: Clathrin heavy chain proximal leg segment
domain: Clathrin heavy chain proximal leg segment
species: Cow (Bos taurus) [TaxId: 9913]

Probab=98.02  E-value=0.005  Score=60.30  Aligned_cols=134  Identities=15%  Similarity=0.127  Sum_probs=56.8

Q ss_pred             CHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHH
Q 003295          251 DVFLFSTAINAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIHGLCRNGRLYEAFHLKEKMVLREVEPSLITYSILIN  330 (833)
Q Consensus       251 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~  330 (833)
                      |..--..++.-|.+.|.++.|..+|..+..         |..++..+.+.+++.+|.+++.+.      -+..+|..+..
T Consensus        13 n~~d~~~i~~~c~~~~lye~A~~lY~~~~d---------~~rl~~~~v~l~~~~~avd~~~k~------~~~~~~k~~~~   77 (336)
T d1b89a_          13 NNAHIQQVGDRCYDEKMYDAAKLLYNNVSN---------FGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCF   77 (336)
T ss_dssp             ----------------CTTTHHHHHHHTTC---------HHHHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHHHH
T ss_pred             CcCCHHHHHHHHHHCCCHHHHHHHHHhCCC---------HHHHHHHHHhhccHHHHHHHHHHc------CCHHHHHHHHH
Confidence            333333344444455555555555554432         444555555555555555554432      13445555555


Q ss_pred             HHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCChhHHHHHHHHHHhc
Q 003295          331 GLIKLEKFDDANFVLKEMSVRGFVPNYVVYNTLIDGYCKKGNISEALKIRDDMVSKGMSPNSVTFNSLIHGFCKS  405 (833)
Q Consensus       331 ~~~~~g~~~~A~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~  405 (833)
                      .+.+.....-|     .+.......+......++..|-..|.+++...+++..... -..+...++.++..|++.
T Consensus        78 ~l~~~~e~~la-----~i~~~~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~-~~~~~~~~~~L~~lyak~  146 (336)
T d1b89a_          78 ACVDGKEFRLA-----QMCGLHIVVHADELEELINYYQDRGYFEELITMLEAALGL-ERAHMGMFTELAILYSKF  146 (336)
T ss_dssp             HHHHTTCHHHH-----HHTTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS-TTCCHHHHHHHHHHHHTT
T ss_pred             HHHhCcHHHHH-----HHHHHHhhcCHHHHHHHHHHHHHcCChHHHHHHHHHHHcC-CccchHHHHHHHHHHHHh
Confidence            55444433221     1111112223333445556666666666666666655432 123444555666666654

>d1hxia_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Trypanosoma brucei [TaxId: 5691]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
species: Trypanosoma brucei [TaxId: 5691]

Probab=97.98  E-value=2e-05  Score=64.62  Aligned_cols=82  Identities=10%  Similarity=0.041  Sum_probs=32.5

Q ss_pred             HhcCChhHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHH
Q 003295          229 VKANEVQKGIEVFETMCRGVSPDVFLFSTAINAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIHGLCRNGRLYEAFH  308 (833)
Q Consensus       229 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~  308 (833)
                      .+.|++++|...|++.+.-.|.+..+|..+..++.+.|++++|...|++..+..+. +..+|..+...|...|++++|.+
T Consensus        27 ~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~a~~~la~~y~~~g~~~~A~~  105 (112)
T d1hxia_          27 LKLANLAEAALAFEAVCQKEPEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPK-DIAVHAALAVSHTNEHNANAALA  105 (112)
T ss_dssp             HHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHhhhHHHHHHHhhhcccccccchhhhhhhhhhhhhhhHHHhhcccccccccccc-cccchHHHHHHHHHCCCHHHHHH
Confidence            33444444444444443222233344444444444444444444444444333211 23333444444444444444444


Q ss_pred             HHH
Q 003295          309 LKE  311 (833)
Q Consensus       309 ~~~  311 (833)
                      .++
T Consensus       106 ~l~  108 (112)
T d1hxia_         106 SLR  108 (112)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            443

>d1elra_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.96  E-value=3.7e-05  Score=64.75  Aligned_cols=93  Identities=17%  Similarity=0.183  Sum_probs=45.5

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCC-CCC-----HHHHHHHHH
Q 003295          712 ALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAEKGI-SPD-----SITYNVFMD  785 (833)
Q Consensus       712 ~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~-~p~-----~~~~~~l~~  785 (833)
                      .+...+.+.|++++|+..|++.++.+ +.+...|..+..+|.+.|++++|++.++++++... .++     ..+|..++.
T Consensus         9 ~~G~~~~~~~~y~~Ai~~y~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~~lg~   87 (128)
T d1elra_           9 ELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARIGN   87 (128)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHHH
Confidence            34444555555555555555555432 33444555555555555555555555555544110 000     134445555


Q ss_pred             HHhcCCCHHHHHHHHHHHHH
Q 003295          786 GHCKGGNVEEAFKVCDRMLS  805 (833)
Q Consensus       786 ~~~~~g~~~~A~~~~~~m~~  805 (833)
                      .+...+++++|++.|++.+.
T Consensus        88 ~~~~~~~~~~A~~~~~kal~  107 (128)
T d1elra_          88 SYFKEEKYKDAIHFYNKSLA  107 (128)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHhCCHHHHHHHHHHHHh
Confidence            55555555555555555544

>d1p5qa1 a.118.8.1 (A:258-427) FKBP52 (FKBP4), C-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP52 (FKBP4), C-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.94  E-value=0.00012  Score=65.20  Aligned_cols=82  Identities=11%  Similarity=-0.017  Sum_probs=63.6

Q ss_pred             hHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC-CHHHHHHHHHH
Q 003295          708 ACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISP-DSITYNVFMDG  786 (833)
Q Consensus       708 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~~~~~l~~~  786 (833)
                      .+|+.+..+|.+.|++++|+..+++.++.+ |.+..+|..++.+|...|++++|+..|+++++.  .| |..+...+...
T Consensus        63 ~~~~nla~~y~k~~~~~~A~~~~~~al~~~-p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l--~P~n~~~~~~l~~~  139 (170)
T d1p5qa1          63 ASHLNLAMCHLKLQAFSAAIESCNKALELD-SNNEKGLSRRGEAHLAVNDFELARADFQKVLQL--YPNNKAAKTQLAVC  139 (170)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSSCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhhcccccchhhhhhhcc-ccchhhhHHHHHHHHHhhhHHHHHHHHHHHHHh--CCCCHHHHHHHHHH
Confidence            356778888889999999999999998864 557888999999999999999999999999884  45 55555555555


Q ss_pred             HhcCCC
Q 003295          787 HCKGGN  792 (833)
Q Consensus       787 ~~~~g~  792 (833)
                      ..+.+.
T Consensus       140 ~~~~~~  145 (170)
T d1p5qa1         140 QQRIRR  145 (170)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            444333

>d1b89a_ a.118.1.3 (A:) Clathrin heavy chain proximal leg segment {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: Clathrin heavy chain proximal leg segment
domain: Clathrin heavy chain proximal leg segment
species: Cow (Bos taurus) [TaxId: 9913]

Probab=97.84  E-value=0.017  Score=56.42  Aligned_cols=136  Identities=12%  Similarity=0.064  Sum_probs=68.3

Q ss_pred             CCHHHHHHHHHHHHhcCChhHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHH
Q 003295          216 PSLKTCNFLLNSLVKANEVQKGIEVFETMCRGVSPDVFLFSTAINAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIH  295 (833)
Q Consensus       216 p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~  295 (833)
                      |+..--..+.+.|.+.|.++.|..+|..+.        -|..++..+.+.++++.|.+++.+..      +..+|..+..
T Consensus        12 ~n~~d~~~i~~~c~~~~lye~A~~lY~~~~--------d~~rl~~~~v~l~~~~~avd~~~k~~------~~~~~k~~~~   77 (336)
T d1b89a_          12 PNNAHIQQVGDRCYDEKMYDAAKLLYNNVS--------NFGRLASTLVHLGEYQAAVDGARKAN------STRTWKEVCF   77 (336)
T ss_dssp             C----------------CTTTHHHHHHHTT--------CHHHHHHHHHTTTCHHHHHHHHHHHT------CHHHHHHHHH
T ss_pred             CCcCCHHHHHHHHHHCCCHHHHHHHHHhCC--------CHHHHHHHHHhhccHHHHHHHHHHcC------CHHHHHHHHH
Confidence            344344445566667777777777776552        14556666667777777766665442      4456666666


Q ss_pred             HHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHHcC
Q 003295          296 GLCRNGRLYEAFHLKEKMVLREVEPSLITYSILINGLIKLEKFDDANFVLKEMSVRGFVPNYVVYNTLIDGYCKKG  371 (833)
Q Consensus       296 ~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~y~~li~~~~~~g  371 (833)
                      ++.+.....-|     .+.......+......++..|-..|.+++...+++...... ..+...++.++..|++.+
T Consensus        78 ~l~~~~e~~la-----~i~~~~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~~-~~~~~~~~~L~~lyak~~  147 (336)
T d1b89a_          78 ACVDGKEFRLA-----QMCGLHIVVHADELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSKFK  147 (336)
T ss_dssp             HHHHTTCHHHH-----HHTTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTST-TCCHHHHHHHHHHHHTTC
T ss_pred             HHHhCcHHHHH-----HHHHHHhhcCHHHHHHHHHHHHHcCChHHHHHHHHHHHcCC-ccchHHHHHHHHHHHHhC
Confidence            66655444332     11222222344444566667777777777777777654321 234556666777776653

>d1elra_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.78  E-value=0.00012  Score=61.45  Aligned_cols=102  Identities=13%  Similarity=0.132  Sum_probs=66.0

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHhCC--CCCC----HHHHHHH
Q 003295          675 YSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESVLQEMASIN--IHPN----KITYTIM  748 (833)
Q Consensus       675 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g--~~p~----~~~~~~l  748 (833)
                      +..+...+.+.|++++|+..|.+.++.+ +.+...|..+..+|.+.|++++|+..++++++..  ....    ..+|..+
T Consensus         7 ~k~~G~~~~~~~~y~~Ai~~y~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~~l   85 (128)
T d1elra_           7 EKELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARI   85 (128)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHHHH
Confidence            3445666777777777777777777653 3356667777777777777777777777766421  0001    1356667


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHcCCCCCHHH
Q 003295          749 IGGYCKLGDMKEAAKLLNVMAEKGISPDSIT  779 (833)
Q Consensus       749 i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~  779 (833)
                      ...+...+++++|++.+++.+..  .++...
T Consensus        86 g~~~~~~~~~~~A~~~~~kal~~--~~~~~~  114 (128)
T d1elra_          86 GNSYFKEEKYKDAIHFYNKSLAE--HRTPDV  114 (128)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH--CCCHHH
T ss_pred             HHHHHHhCCHHHHHHHHHHHHhc--CCCHHH
Confidence            77777777888888888777663  345443

>d1p5qa1 a.118.8.1 (A:258-427) FKBP52 (FKBP4), C-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP52 (FKBP4), C-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.75  E-value=0.0004  Score=61.52  Aligned_cols=82  Identities=10%  Similarity=-0.036  Sum_probs=62.8

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 003295          673 VTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGY  752 (833)
Q Consensus       673 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~  752 (833)
                      .+|+.+..+|.+.|++++|+..+++.++.. +.++..|..+..+|...|++++|...|++..+.. |.|......+..+.
T Consensus        63 ~~~~nla~~y~k~~~~~~A~~~~~~al~~~-p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~-P~n~~~~~~l~~~~  140 (170)
T d1p5qa1          63 ASHLNLAMCHLKLQAFSAAIESCNKALELD-SNNEKGLSRRGEAHLAVNDFELARADFQKVLQLY-PNNKAAKTQLAVCQ  140 (170)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhhcccccchhhhhhhcc-ccchhhhHHHHHHHHHhhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHH
Confidence            356677888899999999999999999863 3377888889999999999999999999998853 33555555555544


Q ss_pred             HhcC
Q 003295          753 CKLG  756 (833)
Q Consensus       753 ~~~g  756 (833)
                      .+.+
T Consensus       141 ~~~~  144 (170)
T d1p5qa1         141 QRIR  144 (170)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            4333

>d1kt1a1 a.118.8.1 (A:254-421) FKBP51, C-terminal domain {Monkey (Saimiri boliviensis) [TaxId: 27679]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP51, C-terminal domain
species: Monkey (Saimiri boliviensis) [TaxId: 27679]

Probab=97.73  E-value=0.00055  Score=60.49  Aligned_cols=95  Identities=14%  Similarity=0.125  Sum_probs=68.9

Q ss_pred             hHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC-CHHHHHHHHHH
Q 003295          708 ACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISP-DSITYNVFMDG  786 (833)
Q Consensus       708 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~~~~~l~~~  786 (833)
                      .+|+.+..+|.+.|++++|+..+++..+.. +.+..+|..++.+|...|++++|++.|+++++  +.| +..+...+...
T Consensus        65 ~~~~Nla~~~~~l~~~~~Ai~~~~~al~l~-p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~--l~P~n~~~~~~l~~~  141 (168)
T d1kt1a1          65 AAFLNLAMCYLKLREYTKAVECCDKALGLD-SANEKGLYRRGEAQLLMNEFESAKGDFEKVLE--VNPQNKAARLQIFMC  141 (168)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--SCTTCHHHHHHHHHH
T ss_pred             HHHHhHHHHHHHhhhcccchhhhhhhhhcc-cchHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHH
Confidence            356667788889999999999999998864 66788899999999999999999999999988  445 45555555555


Q ss_pred             HhcCCCH-HHHHHHHHHHHH
Q 003295          787 HCKGGNV-EEAFKVCDRMLS  805 (833)
Q Consensus       787 ~~~~g~~-~~A~~~~~~m~~  805 (833)
                      ....+.. +...+.+..|.+
T Consensus       142 ~~~~~~~~e~~kk~~~~~f~  161 (168)
T d1kt1a1         142 QKKAKEHNERDRRTYANMFK  161 (168)
T ss_dssp             HHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHhHHHHHHHHHHHHHh
Confidence            4444433 234445544443

>d2fbna1 a.118.8.1 (A:22-174) Putative 70 kda peptidylprolyl isomerase PFL2275c {Plasmodium falciparum [TaxId: 5833]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Putative 70 kda peptidylprolyl isomerase PFL2275c
species: Plasmodium falciparum [TaxId: 5833]

Probab=97.73  E-value=0.00032  Score=60.93  Aligned_cols=115  Identities=12%  Similarity=-0.035  Sum_probs=66.3

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 003295          674 TYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYC  753 (833)
Q Consensus       674 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~  753 (833)
                      .+..-+..+.+.|++++|+..|.++++.  .+...            ...+........      .....+|..++.+|.
T Consensus        19 ~~~~~G~~~f~~~~y~~A~~~Y~~al~~--~~~~~------------~~~~~~~~~~~~------~~~~~~~~Nla~~~~   78 (153)
T d2fbna1          19 DIKEEGNEFFKKNEINEAIVKYKEALDF--FIHTE------------EWDDQILLDKKK------NIEISCNLNLATCYN   78 (153)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHT--TTTCT------------TCCCHHHHHHHH------HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhh--Ccchh------------hhhhHHHHHhhh------hHHHHHHhhHHHHHH
Confidence            4455566777788888888888877763  11000            000000000000      001235566677777


Q ss_pred             hcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHHCCCCCC
Q 003295          754 KLGDMKEAAKLLNVMAEKGISPDSITYNVFMDGHCKGGNVEEAFKVCDRMLSEGLSLD  811 (833)
Q Consensus       754 ~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~p~  811 (833)
                      +.|++++|++.++++++.. +.+..+|..++.++...|++++|+..|++.++  +.|+
T Consensus        79 ~l~~~~~Al~~~~~al~~~-p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~--l~P~  133 (153)
T d2fbna1          79 KNKDYPKAIDHASKVLKID-KNNVKALYKLGVANMYFGFLEEAKENLYKAAS--LNPN  133 (153)
T ss_dssp             HTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH--HSTT
T ss_pred             Hhcccchhhhhhhcccccc-chhhhhhHHhHHHHHHcCCHHHHHHHHHHHHH--hCCC
Confidence            7777777777777777642 22566777777777777777777777777776  4555

>d1ya0a1 a.118.8.1 (A:1-497) SMG-7 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: SMG-7
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.70  E-value=2.2e-05  Score=83.89  Aligned_cols=112  Identities=13%  Similarity=-0.105  Sum_probs=45.5

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 003295          672 SVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGG  751 (833)
Q Consensus       672 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~  751 (833)
                      ...+..+...+.+.|+.++|...+.+.....  | ..++..+...+...|++++|...|++..+.. +.+...|+.|+..
T Consensus       120 ~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~--~-~~~~~~LG~l~~~~~~~~~A~~~y~~A~~l~-P~~~~~~~~Lg~~  195 (497)
T d1ya0a1         120 RVKSSQLGIISNKQTHTSAIVKPQSSSCSYI--C-QHCLVHLGDIARYRNQTSQAESYYRHAAQLV-PSNGQPYNQLAIL  195 (497)
T ss_dssp             -----------------------CCHHHHHH--H-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTBSHHHHHHHHH
T ss_pred             HHHHHHhHHHHHhCCCHHHHHHHHHHHhCCC--H-HHHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCchHHHHHHHHH
Confidence            3344444555555555555555555444311  1 2344445555555555666666555555532 3334555555555


Q ss_pred             HHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHh
Q 003295          752 YCKLGDMKEAAKLLNVMAEKGISPDSITYNVFMDGHC  788 (833)
Q Consensus       752 ~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~  788 (833)
                      +...|+..+|+..|.+.+... +|-..++..|...+.
T Consensus       196 ~~~~~~~~~A~~~y~ral~~~-~~~~~a~~nL~~~~~  231 (497)
T d1ya0a1         196 ASSKGDHLTTIFYYCRSIAVK-FPFPAASTNLQKALS  231 (497)
T ss_dssp             HHHTTCHHHHHHHHHHHHSSS-BCCHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHhCC-CCCHHHHHHHHHHHH
Confidence            555566666665555555532 344455555555443

>d2fbna1 a.118.8.1 (A:22-174) Putative 70 kda peptidylprolyl isomerase PFL2275c {Plasmodium falciparum [TaxId: 5833]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Putative 70 kda peptidylprolyl isomerase PFL2275c
species: Plasmodium falciparum [TaxId: 5833]

Probab=97.69  E-value=0.00044  Score=59.97  Aligned_cols=124  Identities=15%  Similarity=0.074  Sum_probs=87.6

Q ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhHHHHHHHH
Q 003295          637 PVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGG  716 (833)
Q Consensus       637 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~  716 (833)
                      ...+..-...+.+.|++.+|+..|.+.+..-.....             . .+....  .....    ....+|+.+..+
T Consensus        17 a~~~~~~G~~~f~~~~y~~A~~~Y~~al~~~~~~~~-------------~-~~~~~~--~~~~~----~~~~~~~Nla~~   76 (153)
T d2fbna1          17 AFDIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEE-------------W-DDQILL--DKKKN----IEISCNLNLATC   76 (153)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTT-------------C-CCHHHH--HHHHH----HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcchhh-------------h-hhHHHH--Hhhhh----HHHHHHhhHHHH
Confidence            456677788899999999999999998864111000             0 000000  00000    123467778889


Q ss_pred             HHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC-HHHHHHH
Q 003295          717 YCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISPD-SITYNVF  783 (833)
Q Consensus       717 ~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~~~~~l  783 (833)
                      |.+.|++++|++.++++++.+ +.+..+|..++.++...|++++|+..|++.++  +.|+ ..+...+
T Consensus        77 ~~~l~~~~~Al~~~~~al~~~-p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~--l~P~n~~~~~~l  141 (153)
T d2fbna1          77 YNKNKDYPKAIDHASKVLKID-KNNVKALYKLGVANMYFGFLEEAKENLYKAAS--LNPNNLDIRNSY  141 (153)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH--HSTTCHHHHHHH
T ss_pred             HHHhcccchhhhhhhcccccc-chhhhhhHHhHHHHHHcCCHHHHHHHHHHHHH--hCCCCHHHHHHH
Confidence            999999999999999998864 56788999999999999999999999999998  4564 4444443

>d1ihga1 a.118.8.1 (A:197-365) Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Cyclophilin 40
species: Cow (Bos taurus) [TaxId: 9913]

Probab=97.68  E-value=0.00022  Score=63.33  Aligned_cols=78  Identities=17%  Similarity=0.157  Sum_probs=51.1

Q ss_pred             hhHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC-CHHHHHHHHH
Q 003295          707 VACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISP-DSITYNVFMD  785 (833)
Q Consensus       707 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~~~~~l~~  785 (833)
                      ...|..+..++.+.|++++|+..++++++.. +.+...|..++.+|...|++++|+..|+++++.  .| +..+...+..
T Consensus        77 ~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~-p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l--~p~n~~~~~~l~~  153 (169)
T d1ihga1          77 LSCVLNIGACKLKMSDWQGAVDSCLEALEID-PSNTKALYRRAQGWQGLKEYDQALADLKKAQEI--APEDKAIQAELLK  153 (169)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhcccchhhhhhhhhhhhh-hhhhhHHHhHHHHHHHccCHHHHHHHHHHHHHh--CCCCHHHHHHHHH
Confidence            3455666677777777777777777777654 455667777777777777777777777777773  34 4444444444


Q ss_pred             HH
Q 003295          786 GH  787 (833)
Q Consensus       786 ~~  787 (833)
                      +.
T Consensus       154 ~~  155 (169)
T d1ihga1         154 VK  155 (169)
T ss_dssp             HH
T ss_pred             HH
Confidence            33

>d1ya0a1 a.118.8.1 (A:1-497) SMG-7 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: SMG-7
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.66  E-value=1.5e-05  Score=85.29  Aligned_cols=43  Identities=9%  Similarity=-0.093  Sum_probs=24.9

Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhC
Q 003295          480 EATELCFRLFEKGFTVNTVTSNALIHGMCEAGNLKEAGKLLMEMLQR  526 (833)
Q Consensus       480 ~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~l~~m~~~  526 (833)
                      +|.+.+++..+... .....+..+..++...|++++|   +++++..
T Consensus         4 eA~q~~~qA~~l~p-~~a~a~~~la~~~~~~~~l~ea---ye~~i~~   46 (497)
T d1ya0a1           4 QSAQYLRQAEVLKA-DMTDSKLGPAEVWTSRQALQDL---YQKMLVT   46 (497)
T ss_dssp             HHHHHHHHHHHHHG-GGTCSSSCSSSSHHHHHHHHHH---HHHHHHH
T ss_pred             HHHHHHHHHHHcCC-CCHHHHhhHHHHHHHHchHHHH---HHHHHHc
Confidence            56777777665311 1234555666667777777665   5555544

>d1zu2a1 a.118.8.1 (A:1-145) Mitochondrial import receptor subunit tom20-3 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondrial import receptor subunit tom20-3
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=97.60  E-value=0.00013  Score=62.73  Aligned_cols=115  Identities=17%  Similarity=0.171  Sum_probs=67.3

Q ss_pred             hcCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhc----------CChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 003295          684 NIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKL----------GQMDEAESVLQEMASINIHPNKITYTIMIGGYC  753 (833)
Q Consensus       684 ~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~----------g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~  753 (833)
                      +.+.+++|+..|+..++.. +.+..++..+..+|...          +.+++|+..|+++++.+ +.+..+|..++.+|.
T Consensus         9 r~~~fe~A~~~~e~al~~~-P~~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~l~-P~~~~a~~~lG~~y~   86 (145)
T d1zu2a1           9 RILLFEQIRQDAENTYKSN-PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLID-PKKDEAVWCIGNAYT   86 (145)
T ss_dssp             HHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHccHHHHHHHHHHHHhhC-CcchHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHhc-chhhHHHhhHHHHHH
Confidence            3344555555555555532 22444455555444422          33456677777766643 445566666766666


Q ss_pred             hcC-----------CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHHCCC
Q 003295          754 KLG-----------DMKEAAKLLNVMAEKGISPDSITYNVFMDGHCKGGNVEEAFKVCDRMLSEGL  808 (833)
Q Consensus       754 ~~g-----------~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~  808 (833)
                      ..|           ++++|.+.|+++++  +.|+...|..-+..+      .+|.+++.+..+.|+
T Consensus        87 ~~g~~~~~~~~~~~~~~~A~~~~~kal~--l~P~~~~~~~~L~~~------~ka~~~~~e~~k~~~  144 (145)
T d1zu2a1          87 SFAFLTPDETEAKHNFDLATQFFQQAVD--EQPDNTHYLKSLEMT------AKAPQLHAEAYKQGL  144 (145)
T ss_dssp             HHHHHCCCHHHHHHHHHHHHHHHHHHHH--HCTTCHHHHHHHHHH------HTHHHHHHHHHHSSS
T ss_pred             HcccchhhHHHHHHhHHHhhhhhhcccc--cCCCHHHHHHHHHHH------HHHHHHHHHHHHHhc
Confidence            544           36788888888888  567665555444333      456777777776664

>d2ff4a2 a.118.8.3 (A:105-283) Probable regulatory protein EmbR, middle domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: BTAD-like
domain: Probable regulatory protein EmbR, middle domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=97.59  E-value=0.00078  Score=59.92  Aligned_cols=125  Identities=10%  Similarity=0.070  Sum_probs=84.7

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc
Q 003295          676 SSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKL  755 (833)
Q Consensus       676 ~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~  755 (833)
                      ..........|++++|.+.|.+.+..  .+....        ......+.+...-..+..    -....+..++..+...
T Consensus        15 ~~~g~~~~~~g~~e~A~~~~~~AL~l--~rG~~l--------~~~~~~~w~~~~r~~l~~----~~~~a~~~la~~~~~~   80 (179)
T d2ff4a2          15 KTAGVHAAAAGRFEQASRHLSAALRE--WRGPVL--------DDLRDFQFVEPFATALVE----DKVLAHTAKAEAEIAC   80 (179)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHTT--CCSSTT--------GGGTTSTTHHHHHHHHHH----HHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHhh--Cccccc--------ccCcchHHHHHHHHHHHH----HHHHHHHHHHHHHHHC
Confidence            33445677889999999999998874  222110        001111111111112211    1235677888889999


Q ss_pred             CCHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhcCCCHHHHHHHHHHHHH-----CCCCCCHHHHH
Q 003295          756 GDMKEAAKLLNVMAEKGISP-DSITYNVFMDGHCKGGNVEEAFKVCDRMLS-----EGLSLDEITYT  816 (833)
Q Consensus       756 g~~~~A~~~~~~m~~~g~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~-----~g~~p~~~~~~  816 (833)
                      |++++|+..++++++.  .| +...|..++.+|.+.|+.++|++.|+++..     .|+.|...+-.
T Consensus        81 g~~~~Al~~~~~al~~--~P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l~~  145 (179)
T d2ff4a2          81 GRASAVIAELEALTFE--HPYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLRA  145 (179)
T ss_dssp             TCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHHH
T ss_pred             CCchHHHHHHHHHHHh--CCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHHHH
Confidence            9999999999999884  45 778899999999999999999999988744     58999865543

>d2ff4a2 a.118.8.3 (A:105-283) Probable regulatory protein EmbR, middle domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: BTAD-like
domain: Probable regulatory protein EmbR, middle domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=97.51  E-value=0.00074  Score=60.07  Aligned_cols=128  Identities=11%  Similarity=-0.008  Sum_probs=75.2

Q ss_pred             hhHHHHHHHHHHhhhccCHHHHHHHHHHHHhC--CCCCCHHHHHHHHHHHHhcCChhHHHHHHHHhhcCCCCCHHHHHHH
Q 003295          181 QIADLLVHVYCTQFKNLGFGYAIDVFSIFSSK--GIFPSLKTCNFLLNSLVKANEVQKGIEVFETMCRGVSPDVFLFSTA  258 (833)
Q Consensus       181 ~~~~~l~~~~~~~~~~~~~~~A~~~f~~~~~~--~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l  258 (833)
                      ..|..+.+........|++++|.+.|+..+..  |....            .....+-+...-..+.   +.....+..+
T Consensus         9 ~~f~~~~~~g~~~~~~g~~e~A~~~~~~AL~l~rG~~l~------------~~~~~~w~~~~r~~l~---~~~~~a~~~l   73 (179)
T d2ff4a2           9 GRFVAEKTAGVHAAAAGRFEQASRHLSAALREWRGPVLD------------DLRDFQFVEPFATALV---EDKVLAHTAK   73 (179)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCSSTTG------------GGTTSTTHHHHHHHHH---HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCcccccc------------cCcchHHHHHHHHHHH---HHHHHHHHHH
Confidence            34555555555556789999999999988764  22100            0000000111111110   0123456667


Q ss_pred             HHHHHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHh-----CCCCCChhh
Q 003295          259 INAFCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIHGLCRNGRLYEAFHLKEKMVL-----REVEPSLIT  324 (833)
Q Consensus       259 i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~-----~~~~p~~~t  324 (833)
                      +.++.+.|++++|...++++.+..+. +...|..++.+|.+.|+.++|++.|+++..     .|+.|...+
T Consensus        74 a~~~~~~g~~~~Al~~~~~al~~~P~-~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l  143 (179)
T d2ff4a2          74 AEAEIACGRASAVIAELEALTFEHPY-REPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  143 (179)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             HHHHHHCCCchHHHHHHHHHHHhCCc-cHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHH
Confidence            77777777777777777777766432 566777777777777777777777777632     467776654

>d1kt1a1 a.118.8.1 (A:254-421) FKBP51, C-terminal domain {Monkey (Saimiri boliviensis) [TaxId: 27679]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP51, C-terminal domain
species: Monkey (Saimiri boliviensis) [TaxId: 27679]

Probab=97.46  E-value=0.0021  Score=56.58  Aligned_cols=92  Identities=11%  Similarity=-0.068  Sum_probs=42.4

Q ss_pred             HHHHHHHhcCChhHHHHHHHHhhc---CCC-CC-----------HHHHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCh
Q 003295          223 FLLNSLVKANEVQKGIEVFETMCR---GVS-PD-----------VFLFSTAINAFCKRGRIEDAIGLFTKMEELGIAPNV  287 (833)
Q Consensus       223 ~ll~~~~~~g~~~~A~~~~~~~~~---~~~-~~-----------~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~  287 (833)
                      -....+.+.|++.+|...|++.+.   ... .+           ...|+-+..+|.+.|++++|+..+++..+..+ .+.
T Consensus        20 e~G~~~~~~~~~~~A~~~Y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~Nla~~~~~l~~~~~Ai~~~~~al~l~p-~~~   98 (168)
T d1kt1a1          20 EKGTVYFKGGKYVQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGLDS-ANE   98 (168)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHHhhccchhhhhhcchhHHHHHHhHHHHHHHhhhcccchhhhhhhhhccc-chH
Confidence            334455566666666666655541   100 00           11233344444455555555555555444332 234


Q ss_pred             hhHHHHHHHHHhcCChhHHHHHHHHHHh
Q 003295          288 VTYNNIIHGLCRNGRLYEAFHLKEKMVL  315 (833)
Q Consensus       288 ~~~~~li~~~~~~g~~~~A~~~~~~m~~  315 (833)
                      .+|..+..+|...|++++|...|+++..
T Consensus        99 ~a~~~~~~~~~~l~~~~~A~~~~~~al~  126 (168)
T d1kt1a1          99 KGLYRRGEAQLLMNEFESAKGDFEKVLE  126 (168)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            4444444455555555555555555444

>d1ihga1 a.118.8.1 (A:197-365) Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Cyclophilin 40
species: Cow (Bos taurus) [TaxId: 9913]

Probab=97.44  E-value=0.00073  Score=59.75  Aligned_cols=82  Identities=13%  Similarity=-0.015  Sum_probs=63.7

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 003295          671 TSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIG  750 (833)
Q Consensus       671 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~  750 (833)
                      ....|..+..++.+.|++++|+..++++++.. +.+...|..+..+|...|++++|+..|+++.+.. +.|...+..+..
T Consensus        76 ~~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~-p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l~-p~n~~~~~~l~~  153 (169)
T d1ihga1          76 ALSCVLNIGACKLKMSDWQGAVDSCLEALEID-PSNTKALYRRAQGWQGLKEYDQALADLKKAQEIA-PEDKAIQAELLK  153 (169)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhhcccchhhhhhhhhhhhh-hhhhhHHHhHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHH
Confidence            34456777888899999999999999999853 4467788889999999999999999999999853 445666666555


Q ss_pred             HHHh
Q 003295          751 GYCK  754 (833)
Q Consensus       751 ~~~~  754 (833)
                      +..+
T Consensus       154 ~~~~  157 (169)
T d1ihga1         154 VKQK  157 (169)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            4433

>d1zbpa1 e.61.1.1 (A:2-265) Hypothetical protein VPA1032 {Vibrio parahaemolyticus [TaxId: 670]}

class: Multi-domain proteins (alpha and beta)
fold: ImpE-like
superfamily: ImpE-like
family: ImpE-like
domain: Hypothetical protein VPA1032
species: Vibrio parahaemolyticus [TaxId: 670]

Probab=97.38  E-value=8.3e-05  Score=71.18  Aligned_cols=53  Identities=21%  Similarity=0.303  Sum_probs=37.0

Q ss_pred             HhcCChhHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHHc
Q 003295          229 VKANEVQKGIEVFETMCRGVSPDVFLFSTAINAFCKRGRIEDAIGLFTKMEEL  281 (833)
Q Consensus       229 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  281 (833)
                      .+.|++++|+..|++.++..|.|...+..++..||..|++++|.+.|+...+.
T Consensus         7 L~~G~l~eAl~~l~~al~~~P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l   59 (264)
T d1zbpa1           7 LSEGQLQQALELLIEAIKASPKDASLRSSFIELLCIDGDFERADEQLMQSIKL   59 (264)
T ss_dssp             TTTTCHHHHHHHHHHHHHTCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            35577777777777777556666777777777777777777777777777664

>d1zu2a1 a.118.8.1 (A:1-145) Mitochondrial import receptor subunit tom20-3 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondrial import receptor subunit tom20-3
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=97.35  E-value=0.00031  Score=60.26  Aligned_cols=68  Identities=10%  Similarity=-0.097  Sum_probs=31.2

Q ss_pred             CChhHHHHHHHHhhcCCCCCHHHHHHHHHHHHhc----------CChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhc
Q 003295          232 NEVQKGIEVFETMCRGVSPDVFLFSTAINAFCKR----------GRIEDAIGLFTKMEELGIAPNVVTYNNIIHGLCRN  300 (833)
Q Consensus       232 g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~----------g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~  300 (833)
                      +.+++|+..|+..+.-.|.+..++..+..+|...          +.+++|...|++..+..+. +..+|+.+..+|...
T Consensus        11 ~~fe~A~~~~e~al~~~P~~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~l~P~-~~~a~~~lG~~y~~~   88 (145)
T d1zu2a1          11 LLFEQIRQDAENTYKSNPLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPK-KDEAVWCIGNAYTSF   88 (145)
T ss_dssp             HHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHhhCCcchHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHhcch-hhHHHhhHHHHHHHc
Confidence            3344555555554433344444444444444432          2334555555555554322 344555555555443

>d1zbpa1 e.61.1.1 (A:2-265) Hypothetical protein VPA1032 {Vibrio parahaemolyticus [TaxId: 670]}

class: Multi-domain proteins (alpha and beta)
fold: ImpE-like
superfamily: ImpE-like
family: ImpE-like
domain: Hypothetical protein VPA1032
species: Vibrio parahaemolyticus [TaxId: 670]

Probab=97.25  E-value=0.00017  Score=69.00  Aligned_cols=122  Identities=7%  Similarity=-0.113  Sum_probs=86.2

Q ss_pred             hhccCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHhhcCCCCCHHHHHHHHHHHHhcCChhHHHH
Q 003295          194 FKNLGFGYAIDVFSIFSSKGIFPSLKTCNFLLNSLVKANEVQKGIEVFETMCRGVSPDVFLFSTAINAFCKRGRIEDAIG  273 (833)
Q Consensus       194 ~~~~~~~~A~~~f~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~  273 (833)
                      ++.|++++|+..|+..++..+. +...+..+...|+..|++++|...|+...+-.|.+...+..+...+...+..+++..
T Consensus         7 L~~G~l~eAl~~l~~al~~~P~-d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l~P~~~~~~~~l~~ll~a~~~~~~a~~   85 (264)
T d1zbpa1           7 LSEGQLQQALELLIEAIKASPK-DASLRSSFIELLCIDGDFERADEQLMQSIKLFPEYLPGASQLRHLVKAAQARKDFAQ   85 (264)
T ss_dssp             TTTTCHHHHHHHHHHHHHTCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHHHHHHTT
T ss_pred             HHCCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhccccHHHHH
Confidence            4689999999999999998876 899999999999999999999999999985445556666666666554444443322


Q ss_pred             HHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhC
Q 003295          274 LFTKMEELGIAPNVVTYNNIIHGLCRNGRLYEAFHLKEKMVLR  316 (833)
Q Consensus       274 ~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  316 (833)
                      -.......+..++...+......+.+.|+.++|.++++++.+.
T Consensus        86 ~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~  128 (264)
T d1zbpa1          86 GAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEEL  128 (264)
T ss_dssp             SCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhc
Confidence            2211111111122333444556677788999999888887764

>d2hr2a1 a.118.8.8 (A:2-157) Hypothetical protein CT2138 {Chlorobium tepidum [TaxId: 1097]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: CT2138-like
domain: Hypothetical protein CT2138
species: Chlorobium tepidum [TaxId: 1097]

Probab=97.14  E-value=0.00092  Score=58.11  Aligned_cols=92  Identities=14%  Similarity=0.078  Sum_probs=63.4

Q ss_pred             HHHHHhcCChhHHHHHHHHHHhC--CCCC---------CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc-----CCCCC-
Q 003295          714 IGGYCKLGQMDEAESVLQEMASI--NIHP---------NKITYTIMIGGYCKLGDMKEAAKLLNVMAEK-----GISPD-  776 (833)
Q Consensus       714 i~~~~~~g~~~~A~~~~~~m~~~--g~~p---------~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-----g~~p~-  776 (833)
                      ...+...|++++|++.|++.++.  ..+.         ...+|+.+..+|.+.|++++|.+.+++.++.     ...++ 
T Consensus        16 g~~~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~~~~~~~~   95 (156)
T d2hr2a1          16 AQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDE   95 (156)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhhhcccccccccccc
Confidence            33445567777777777766641  1110         1356778888888888888888888887652     11222 


Q ss_pred             ----HHHHHHHHHHHhcCCCHHHHHHHHHHHHH
Q 003295          777 ----SITYNVFMDGHCKGGNVEEAFKVCDRMLS  805 (833)
Q Consensus       777 ----~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  805 (833)
                          ..++..++.+|...|++++|+..|++.++
T Consensus        96 ~~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~  128 (156)
T d2hr2a1          96 GKLWISAVYSRALALDGLGRGAEAMPEFKKVVE  128 (156)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             cchhHHHHhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence                23577889999999999999999998775

>d2hr2a1 a.118.8.8 (A:2-157) Hypothetical protein CT2138 {Chlorobium tepidum [TaxId: 1097]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: CT2138-like
domain: Hypothetical protein CT2138
species: Chlorobium tepidum [TaxId: 1097]

Probab=96.90  E-value=0.0069  Score=52.25  Aligned_cols=91  Identities=15%  Similarity=0.089  Sum_probs=50.7

Q ss_pred             HHHHHhcCChhHHHHHHHHhh--cCCCCC----------HHHHHHHHHHHHhcCChhHHHHHHHHHHHc-----CCCCC-
Q 003295          225 LNSLVKANEVQKGIEVFETMC--RGVSPD----------VFLFSTAINAFCKRGRIEDAIGLFTKMEEL-----GIAPN-  286 (833)
Q Consensus       225 l~~~~~~g~~~~A~~~~~~~~--~~~~~~----------~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-----g~~p~-  286 (833)
                      ...+.+.|++++|+..|++.+  ...-|+          ...|+.+..+|.+.|++++|...+++..+.     ...++ 
T Consensus        16 g~~~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~~~~~~~~   95 (156)
T d2hr2a1          16 AQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDE   95 (156)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhhhcccccccccccc
Confidence            334455677777777777766  111121          245666667777777777777666665532     01111 


Q ss_pred             ----hhhHHHHHHHHHhcCChhHHHHHHHHHHh
Q 003295          287 ----VVTYNNIIHGLCRNGRLYEAFHLKEKMVL  315 (833)
Q Consensus       287 ----~~~~~~li~~~~~~g~~~~A~~~~~~m~~  315 (833)
                          ...|+.+..+|.+.|++++|++.|++..+
T Consensus        96 ~~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~  128 (156)
T d2hr2a1          96 GKLWISAVYSRALALDGLGRGAEAMPEFKKVVE  128 (156)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             cchhHHHHhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence                11345556666666666666666666543

>d1tjca_ a.118.8.1 (A:) Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Prolyl 4-hydroxylase alpha-1 subunit, P4HA1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.84  E-value=0.0022  Score=50.00  Aligned_cols=64  Identities=9%  Similarity=0.065  Sum_probs=33.4

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHcC-----CCCC-HHHHHHHHHHHhcCCCHHHHHHHHHHHHHCCCCCC
Q 003295          746 TIMIGGYCKLGDMKEAAKLLNVMAEKG-----ISPD-SITYNVFMDGHCKGGNVEEAFKVCDRMLSEGLSLD  811 (833)
Q Consensus       746 ~~li~~~~~~g~~~~A~~~~~~m~~~g-----~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~p~  811 (833)
                      ..++..+.+.|++++|+..|+++++..     ..++ ..++..|+.++.+.|++++|++.++++++  +.|+
T Consensus         9 ~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~--l~P~   78 (95)
T d1tjca_           9 FELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLE--LDPE   78 (95)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTT
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHH--hCcC
Confidence            345555555556666655555554320     0111 24555566666666666666666666555  3444

>d1klxa_ a.118.18.1 (A:) Cysteine rich protein B (HcpB) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein B (HcpB)
species: Helicobacter pylori [TaxId: 210]

Probab=96.62  E-value=0.024  Score=46.99  Aligned_cols=111  Identities=12%  Similarity=0.041  Sum_probs=59.2

Q ss_pred             CHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCCHHHHH
Q 003295          687 LIEDAKCLFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCK----LGDMKEAA  762 (833)
Q Consensus       687 ~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~----~g~~~~A~  762 (833)
                      ++++|.++|++..+.|   +......|..  ....+.++|.+++++..+.|   +......|...|..    ..+.++|.
T Consensus         8 d~~~A~~~~~kaa~~g---~~~a~~~l~~--~~~~~~~~a~~~~~~aa~~g---~~~a~~~Lg~~y~~g~~~~~d~~~A~   79 (133)
T d1klxa_           8 DLKKAIQYYVKACELN---EMFGCLSLVS--NSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRKAA   79 (133)
T ss_dssp             HHHHHHHHHHHHHHTT---CTTHHHHHHT--CTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHH
T ss_pred             CHHHHHHHHHHHHHCC---Chhhhhhhcc--ccccCHHHHHHHHhhhhccc---chhhhhhHHHhhhhccccchhhHHHH
Confidence            3455566666555544   1111222221  22345566666666666654   34444445554443    34566777


Q ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHhc----CCCHHHHHHHHHHHHHCCC
Q 003295          763 KLLNVMAEKGISPDSITYNVFMDGHCK----GGNVEEAFKVCDRMLSEGL  808 (833)
Q Consensus       763 ~~~~~m~~~g~~p~~~~~~~l~~~~~~----~g~~~~A~~~~~~m~~~g~  808 (833)
                      ++|++..+.|   ++..+..|...|..    ..+.++|.++|++..+.|.
T Consensus        80 ~~~~~aa~~g---~~~a~~~Lg~~y~~G~gv~~d~~~A~~~~~~Aa~~G~  126 (133)
T d1klxa_          80 QYYSKACGLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLGS  126 (133)
T ss_dssp             HHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC
T ss_pred             HHHhhhhccC---cchHHHHHHHHHHcCCccCCCHHHHHHHHHHHHHCCC
Confidence            7777776654   34445555555544    3466677777777666553

>d1tjca_ a.118.8.1 (A:) Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Prolyl 4-hydroxylase alpha-1 subunit, P4HA1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.16  E-value=0.0096  Score=46.10  Aligned_cols=63  Identities=19%  Similarity=0.115  Sum_probs=32.4

Q ss_pred             HHHHHHHHHHHhcCChhHHHHHHHHhhc---C---CCCC-HHHHHHHHHHHHhcCChhHHHHHHHHHHHc
Q 003295          219 KTCNFLLNSLVKANEVQKGIEVFETMCR---G---VSPD-VFLFSTAINAFCKRGRIEDAIGLFTKMEEL  281 (833)
Q Consensus       219 ~~~~~ll~~~~~~g~~~~A~~~~~~~~~---~---~~~~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  281 (833)
                      ..|-.+...+.+.|++++|+..|++.++   .   ..++ ..+++.+..++.+.|++++|++.++++.+.
T Consensus         6 ddc~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l   75 (95)
T d1tjca_           6 EDSFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLEL   75 (95)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHh
Confidence            3344455555566666666666655541   1   0111 334555555555555555555555555554

>d1klxa_ a.118.18.1 (A:) Cysteine rich protein B (HcpB) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein B (HcpB)
species: Helicobacter pylori [TaxId: 210]

Probab=96.08  E-value=0.064  Score=44.23  Aligned_cols=110  Identities=11%  Similarity=-0.028  Sum_probs=69.5

Q ss_pred             ChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHh----cCChhHHH
Q 003295          652 NTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIGGYCK----LGQMDEAE  727 (833)
Q Consensus       652 ~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~----~g~~~~A~  727 (833)
                      ++++|++.|++..+.|.   ......|.  .....+.++|.+++++..+.|   +......|...|..    ..+.++|.
T Consensus         8 d~~~A~~~~~kaa~~g~---~~a~~~l~--~~~~~~~~~a~~~~~~aa~~g---~~~a~~~Lg~~y~~g~~~~~d~~~A~   79 (133)
T d1klxa_           8 DLKKAIQYYVKACELNE---MFGCLSLV--SNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRKAA   79 (133)
T ss_dssp             HHHHHHHHHHHHHHTTC---TTHHHHHH--TCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHH
T ss_pred             CHHHHHHHHHHHHHCCC---hhhhhhhc--cccccCHHHHHHHHhhhhccc---chhhhhhHHHhhhhccccchhhHHHH
Confidence            45566666666665552   12222222  123456778888888887765   34445555555543    34678888


Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHcC
Q 003295          728 SVLQEMASINIHPNKITYTIMIGGYCK----LGDMKEAAKLLNVMAEKG  772 (833)
Q Consensus       728 ~~~~~m~~~g~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~g  772 (833)
                      ++|++..+.|   ++.....|...|..    ..+.++|.+++++..+.|
T Consensus        80 ~~~~~aa~~g---~~~a~~~Lg~~y~~G~gv~~d~~~A~~~~~~Aa~~G  125 (133)
T d1klxa_          80 QYYSKACGLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLG  125 (133)
T ss_dssp             HHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             HHHhhhhccC---cchHHHHHHHHHHcCCccCCCHHHHHHHHHHHHHCC
Confidence            8888888765   45555566666654    457888888888888876

>d1wy6a1 a.118.20.1 (A:7-167) Hypothetical protein ST1625 {Archaeon Sulfolobus tokodaii [TaxId: 111955]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Hypothetical protein ST1625
family: Hypothetical protein ST1625
domain: Hypothetical protein ST1625
species: Archaeon Sulfolobus tokodaii [TaxId: 111955]

Probab=94.79  E-value=0.67  Score=36.25  Aligned_cols=138  Identities=14%  Similarity=0.149  Sum_probs=93.4

Q ss_pred             HHhcCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhh---HHHHHHHHHhcCCh
Q 003295          262 FCKRGRIEDAIGLFTKMEELGIAPNVVTYNNIIHGLCRNGRLYEAFHLKEKMVLREVEPSLIT---YSILINGLIKLEKF  338 (833)
Q Consensus       262 ~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t---~~~li~~~~~~g~~  338 (833)
                      +.-.|.+++..++..+....   .+..-||.+|--....-+-+-..++++..-..   -|...   ...++..+.+.+. 
T Consensus        12 ~ildG~ve~Gveii~k~~~s---s~~~E~NW~ICNiidt~dC~~v~~~Ld~IG~~---FDls~C~Nlk~vv~C~~~~n~-   84 (161)
T d1wy6a1          12 FLLDGYIDEGVKIVLEITKS---STKSEYNWFICNLLESIDCRYMFQVLDKIGSY---FDLDKCQNLKSVVECGVINNT-   84 (161)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH---SCHHHHTHHHHHHHHHCCHHHHHHHHHHHGGG---SCGGGCSCTHHHHHHHHHTTC-
T ss_pred             HHHhhhHHhHHHHHHHHccc---CCccccceeeeecccccchHHHHHHHHHHhhh---cCchhhhcHHHHHHHHHHhcc-
Confidence            45568888888888888774   46677888777666666666666666665432   12111   1233344433332 


Q ss_pred             hHHHHHHHHHHHCCCCCChhhHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHH
Q 003295          339 DDANFVLKEMSVRGFVPNYVVYNTLIDGYCKKGNISEALKIRDDMVSKGMSPNSVTFNSLIHGFCKSGQMDNAENALEEM  418 (833)
Q Consensus       339 ~~A~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~l~~~  418 (833)
                                       +....+.-++.+.++|+-++-.++++.+.+. -+|+....-.+..+|-+-|...++-+++.++
T Consensus        85 -----------------~se~vdlALd~lv~~~kkd~Ld~i~~~l~kn-~~i~~~~llkia~A~kkig~~re~nell~~A  146 (161)
T d1wy6a1          85 -----------------LNEHVNKALDILVIQGKRDKLEEIGREILKN-NEVSASILVAIANALRRVGDERDATTLLIEA  146 (161)
T ss_dssp             -----------------CCHHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             -----------------hHHHHHHHHHHHHHhccHHHHHHHHHHHHhc-CCCCHHHHHHHHHHHHHhcchhhHHHHHHHH
Confidence                             2334455667788888888888888887764 4667777788888999999999999999998


Q ss_pred             HHCCCC
Q 003295          419 LSRGLS  424 (833)
Q Consensus       419 ~~~g~~  424 (833)
                      .+.|+.
T Consensus       147 Ce~G~K  152 (161)
T d1wy6a1         147 CKKGEK  152 (161)
T ss_dssp             HHTTCH
T ss_pred             HHHhHH
Confidence            888753

>d1wy6a1 a.118.20.1 (A:7-167) Hypothetical protein ST1625 {Archaeon Sulfolobus tokodaii [TaxId: 111955]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Hypothetical protein ST1625
family: Hypothetical protein ST1625
domain: Hypothetical protein ST1625
species: Archaeon Sulfolobus tokodaii [TaxId: 111955]

Probab=94.48  E-value=0.81  Score=35.79  Aligned_cols=138  Identities=15%  Similarity=0.084  Sum_probs=70.0

Q ss_pred             ccCCHHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 003295          614 KADKIEEGETLFNEMISKKMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKC  693 (833)
Q Consensus       614 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~  693 (833)
                      -.|.+++..++..+....   .+..-||.+|--....-+-+..++.++..-+.   .|.          ...+++.....
T Consensus        14 ldG~ve~Gveii~k~~~s---s~~~E~NW~ICNiidt~dC~~v~~~Ld~IG~~---FDl----------s~C~Nlk~vv~   77 (161)
T d1wy6a1          14 LDGYIDEGVKIVLEITKS---STKSEYNWFICNLLESIDCRYMFQVLDKIGSY---FDL----------DKCQNLKSVVE   77 (161)
T ss_dssp             HTTCHHHHHHHHHHHHHH---SCHHHHTHHHHHHHHHCCHHHHHHHHHHHGGG---SCG----------GGCSCTHHHHH
T ss_pred             HhhhHHhHHHHHHHHccc---CCccccceeeeecccccchHHHHHHHHHHhhh---cCc----------hhhhcHHHHHH
Confidence            355666666666665543   14445555554444444444444444443221   111          11222222222


Q ss_pred             HHHHHHHCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCC
Q 003295          694 LFDEMRKEGLLPNVACYTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAEKGI  773 (833)
Q Consensus       694 ~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~  773 (833)
                      .+-.+     .-+....+.-++.+.++|+-++-.++++.+.+.+ .|++...-.+..+|.+.|...++-+++.++.++|+
T Consensus        78 C~~~~-----n~~se~vdlALd~lv~~~kkd~Ld~i~~~l~kn~-~i~~~~llkia~A~kkig~~re~nell~~ACe~G~  151 (161)
T d1wy6a1          78 CGVIN-----NTLNEHVNKALDILVIQGKRDKLEEIGREILKNN-EVSASILVAIANALRRVGDERDATTLLIEACKKGE  151 (161)
T ss_dssp             HHHHT-----TCCCHHHHHHHHHHHHTTCHHHHHHHHHHHC--C-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHh-----cchHHHHHHHHHHHHHhccHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHHhH
Confidence            22111     1223344455566666666666666666655543 56666666666677777777777777776666664

>d2pqrb1 a.118.8.1 (B:5-128) Mitochondria fission protein Fis1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=92.32  E-value=0.53  Score=37.26  Aligned_cols=69  Identities=14%  Similarity=0.073  Sum_probs=33.3

Q ss_pred             CCHHHHHHHHHHHHhcCC---HHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHhcCCCHHHHHHHHHHHHHCCCCCC
Q 003295          740 PNKITYTIMIGGYCKLGD---MKEAAKLLNVMAEKGISPDS-ITYNVFMDGHCKGGNVEEAFKVCDRMLSEGLSLD  811 (833)
Q Consensus       740 p~~~~~~~li~~~~~~g~---~~~A~~~~~~m~~~g~~p~~-~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~p~  811 (833)
                      |...+--...+++.+..+   .++|+.+++++...+ +.+. ..+..|+-+|.+.|++++|.++++.+++  +.|+
T Consensus        33 ~s~qt~F~YAw~Lv~S~~~~d~~~gI~lLe~~~~~~-p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~--ieP~  105 (124)
T d2pqrb1          33 ATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEA-ESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFE--HERN  105 (124)
T ss_dssp             SCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHC-GGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH--HCTT
T ss_pred             CCcchHHHHHHHHHcCCcHHHHHHHHHHHHHHHhcC-chhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHc--cCCC
Confidence            334444444555554432   344555555555421 1122 3444555555555555555555555555  4444

>d2pqrb1 a.118.8.1 (B:5-128) Mitochondria fission protein Fis1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=89.72  E-value=1.4  Score=34.79  Aligned_cols=70  Identities=13%  Similarity=0.148  Sum_probs=44.1

Q ss_pred             CChhHHHHHHHHHHhcC---ChhHHHHHHHHHHhCCCCCCH-HHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCH
Q 003295          705 PNVACYTALIGGYCKLG---QMDEAESVLQEMASINIHPNK-ITYTIMIGGYCKLGDMKEAAKLLNVMAEKGISPDS  777 (833)
Q Consensus       705 p~~~~~~~li~~~~~~g---~~~~A~~~~~~m~~~g~~p~~-~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~  777 (833)
                      |...+--....++.+..   +.++|+.+++++.+.+ +.+. ..+..|.-+|.+.|++++|.++++.+++  +.|+.
T Consensus        33 ~s~qt~F~YAw~Lv~S~~~~d~~~gI~lLe~~~~~~-p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~--ieP~n  106 (124)
T d2pqrb1          33 ATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEA-ESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFE--HERNN  106 (124)
T ss_dssp             SCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHC-GGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH--HCTTC
T ss_pred             CCcchHHHHHHHHHcCCcHHHHHHHHHHHHHHHhcC-chhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHc--cCCCc
Confidence            34444444556666543   3567777777777532 2232 4666777777788888888888888777  45643

>d1qsaa1 a.118.5.1 (A:1-450) 70 KDa soluble lytic transglycosylase (SLT70), superhelical domain {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Bacterial muramidases
family: Bacterial muramidases
domain: 70 KDa soluble lytic transglycosylase (SLT70), superhelical domain
species: Escherichia coli [TaxId: 562]

Probab=85.48  E-value=19  Score=35.60  Aligned_cols=411  Identities=9%  Similarity=-0.013  Sum_probs=221.3

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHH--cCChHHHHHHHHHHHhCCCCCChh----HHHHHHHH
Q 003295          328 LINGLIKLEKFDDANFVLKEMSVRGFVPNYVVYNTLIDGYCK--KGNISEALKIRDDMVSKGMSPNSV----TFNSLIHG  401 (833)
Q Consensus       328 li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~y~~li~~~~~--~g~~~~A~~~~~~m~~~g~~p~~~----~~~~li~~  401 (833)
                      .+.-..+.|+.+++..+...+.+-   | ...|-..-..-..  ....++...++++   .   |+.-    .....+..
T Consensus        12 ~a~~a~~~~~~~~~~~~~~~L~dy---p-L~pYl~~~~l~~~~~~~~~~~i~~Fl~~---~---p~~P~~~~lr~~~l~~   81 (450)
T d1qsaa1          12 QIKQAWDNRQMDVVEQMMPGLKDY---P-LYPYLEYRQITDDLMNQPAVTVTNFVRA---N---PTLPPARTLQSRFVNE   81 (450)
T ss_dssp             HHHHHHHTTCHHHHHHHSGGGTTS---T-THHHHHHHHHHHTGGGCCHHHHHHHHHH---C---TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHhhhcCC---C-CHHHHHHHHHHhccccCCHHHHHHHHHH---C---CCChhHHHHHHHHHHH
Confidence            334456778888877777776421   2 3333333222222  2234444333333   2   3321    22333556


Q ss_pred             HHhcCChhHHHHHHHHHHHCCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHH
Q 003295          402 FCKSGQMDNAENALEEMLSRGLSINQGAYTSVIKWLCINSRFNSALHFTKEMLLRNLRPGDGLLTLLVSGLCKNGKQAEA  481 (833)
Q Consensus       402 ~~~~g~~~~A~~~l~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A  481 (833)
                      +.+.+++....+.+.     ..+.+...-...+.+....|+.++|...+..+-..|...                 .+.+
T Consensus        82 L~~~~~w~~~~~~~~-----~~p~~~~~~c~~~~A~~~~g~~~~a~~~~~~lW~~~~~~-----------------p~~c  139 (450)
T d1qsaa1          82 LARREDWRGLLAFSP-----EKPGTTEAQCNYYYAKWNTGQSEEAWQGAKELWLTGKSQ-----------------PNAC  139 (450)
T ss_dssp             HHHTTCHHHHHHHCC-----SCCSSHHHHHHHHHHHHHTTCHHHHHHHHHHHHSCSSCC-----------------CTHH
T ss_pred             HHhccCHHHHHHhcc-----CCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCC-----------------chHH
Confidence            677777765444331     233344445566667777788877777776665544321                 1222


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHHC
Q 003295          482 TELCFRLFEKGFTVNTVTSNALIHGMCEAGNLKEAGKLLMEMLQRGLILDKVTYNTLILGCCKDGKPEEGFKLKEDMIKR  561 (833)
Q Consensus       482 ~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~l~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  561 (833)
                      ..++..+...|.. +...+-.-+......|+...|..+...+...    ........+....   +...+.....   ..
T Consensus       140 ~~l~~~~~~~~~l-t~~~~~~R~~~~l~~~~~~~a~~l~~~l~~~----~~~~~~a~~~l~~---~p~~~~~~~~---~~  208 (450)
T d1qsaa1         140 DKLFSVWRASGKQ-DPLAYLERIRLAMKAGNTGLVTVLAGQMPAD----YQTIASAIISLAN---NPNTVLTFAR---TT  208 (450)
T ss_dssp             HHHHHHHHHTTCS-CHHHHHHHHHHHHHTTCHHHHHHHHHTCCGG----GHHHHHHHHHHHH---CGGGHHHHHH---HS
T ss_pred             HHHHHHHHhcCCC-CHHHHHHHHHHHHHcCChhhHHHHHhhCChh----HHHHHHHHHHHHh---ChHhHHHHHh---cC
Confidence            2333333333322 3344444555566677788777776654322    2333333443332   2222222221   11


Q ss_pred             CCCCCHHHHHHHHHHHHh--cCCHHHHHHHHHHHhhCCCCCCHhhHHH----HHHHHHccCCHHHHHHHHHHHHHCCCcc
Q 003295          562 GIQPDNYTYNLLLHGLCS--LGKMEEAIELWEECKRTVFGPDIYTYGV----MIDGFCKADKIEEGETLFNEMISKKMEL  635 (833)
Q Consensus       562 g~~p~~~~~~~li~~~~~--~g~~~~A~~~~~~~~~~~~~~~~~~~~~----li~~~~~~g~~~~A~~~~~~~~~~~~~~  635 (833)
                        ..+......+..++.+  ..+.+.|..++......... +...+..    +...+...+..+.+...+......+.  
T Consensus       209 --~~~~~~~~~~~~~l~rla~~d~~~a~~~l~~~~~~~~~-~~~~~~~~~~~~a~~~~~~~~~~~a~~~~~~~~~~~~--  283 (450)
T d1qsaa1         209 --GATDFTRQMAAVAFASVARQDAENARLMIPSLAQAQQL-NEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIMRSQ--  283 (450)
T ss_dssp             --CCCHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHTTC-CHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHHTCC--
T ss_pred             --CCChhhhHHHHHHHHHHhccChhHHHHHHHhhhhcccc-cHHHHHHHHHHHHHHHHHcCchHHHHHHHHhhccccc--
Confidence              2233333333333333  35788888888887654322 2222222    22333445677888888887776643  


Q ss_pred             CHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhHHHHHHH
Q 003295          636 NPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYSSLIHGLCNIGLIEDAKCLFDEMRKEGLLPNVACYTALIG  715 (833)
Q Consensus       636 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~  715 (833)
                      +.......+......+++..+...++.|.... .....-.--+..++...|+.++|...|..+..   .++   |...+.
T Consensus       284 ~~~~~~w~~~~al~~~~~~~~~~~~~~l~~~~-~~~~r~~YW~gRa~~~~G~~~~A~~~~~~~a~---~~~---fYG~LA  356 (450)
T d1qsaa1         284 STSLIERRVRMALGTGDRRGLNTWLARLPMEA-KEKDEWRYWQADLLLERGREAEAKEILHQLMQ---QRG---FYPMVA  356 (450)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHSCTTG-GGSHHHHHHHHHHHHHTTCHHHHHHHHHHHHT---SCS---HHHHHH
T ss_pred             chHHHHHHHHHHHHcCChHHHHHHHHhcCccc-ccHHHHHHHHHHHHHHcCChhhHHHHHHHHhc---CCC---hHHHHH
Confidence            44444445555667789999999988875432 22334445567888899999999999998875   233   333332


Q ss_pred             HHHhcCCh-hHHHHHHHHHHhCCCCCC-HH---HHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcC
Q 003295          716 GYCKLGQM-DEAESVLQEMASINIHPN-KI---TYTIMIGGYCKLGDMKEAAKLLNVMAEKGISPDSITYNVFMDGHCKG  790 (833)
Q Consensus       716 ~~~~~g~~-~~A~~~~~~m~~~g~~p~-~~---~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~  790 (833)
                      + .+.|.. .-..      ......+. ..   .-..-+..+...|...+|...+..+.+.   .+......++....+.
T Consensus       357 a-~~Lg~~~~~~~------~~~~~~~~~~~~~~~~~~ra~~L~~~g~~~~A~~e~~~l~~~---~~~~~~~~la~lA~~~  426 (450)
T d1qsaa1         357 A-QRIGEEYELKI------DKAPQNVDSALTQGPEMARVRELMYWNLDNTARSEWANLVKS---KSKTEQAQLARYAFNN  426 (450)
T ss_dssp             H-HHTTCCCCCCC------CCCCSCCCCHHHHSHHHHHHHHHHHTTCHHHHHHHHHHHHTT---CCHHHHHHHHHHHHHT
T ss_pred             H-HHcCCCCCCCc------CCCCccHHHhhhcChHHHHHHHHHHcCCchHHHHHHHHHHhC---CCHHHHHHHHHHHHHC
Confidence            2 123321 0000      00000001 00   1113456678899999999999988764   2455667778888899


Q ss_pred             CCHHHHHHHHHHH
Q 003295          791 GNVEEAFKVCDRM  803 (833)
Q Consensus       791 g~~~~A~~~~~~m  803 (833)
                      |.++.|+....+.
T Consensus       427 g~~~~aI~a~~~~  439 (450)
T d1qsaa1         427 QWWDLSVQATIAG  439 (450)
T ss_dssp             TCHHHHHHHHHHT
T ss_pred             CChhHHHHHHHHH
Confidence            9999999776654

>d1qsaa1 a.118.5.1 (A:1-450) 70 KDa soluble lytic transglycosylase (SLT70), superhelical domain {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Bacterial muramidases
family: Bacterial muramidases
domain: 70 KDa soluble lytic transglycosylase (SLT70), superhelical domain
species: Escherichia coli [TaxId: 562]

Probab=83.14  E-value=23  Score=34.84  Aligned_cols=413  Identities=9%  Similarity=-0.020  Sum_probs=234.9

Q ss_pred             hHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHHhcC--ChhHHHHHHHHHHHCCCCCChhh----HHH
Q 003295          289 TYNNIIHGLCRNGRLYEAFHLKEKMVLREVEPSLITYSILINGLIKLE--KFDDANFVLKEMSVRGFVPNYVV----YNT  362 (833)
Q Consensus       289 ~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g--~~~~A~~~~~~m~~~g~~p~~~~----y~~  362 (833)
                      .|..... ..+.|+.+++.++...+..   -| ...|-..-..-...+  ..++....++   +   -|+...    ...
T Consensus         9 ~y~~a~~-a~~~~~~~~~~~~~~~L~d---yp-L~pYl~~~~l~~~~~~~~~~~i~~Fl~---~---~p~~P~~~~lr~~   77 (450)
T d1qsaa1           9 RYAQIKQ-AWDNRQMDVVEQMMPGLKD---YP-LYPYLEYRQITDDLMNQPAVTVTNFVR---A---NPTLPPARTLQSR   77 (450)
T ss_dssp             HHHHHHH-HHHTTCHHHHHHHSGGGTT---ST-THHHHHHHHHHHTGGGCCHHHHHHHHH---H---CTTCHHHHHHHHH
T ss_pred             HHHHHHH-HHHCCCHHHHHHHHhhhcC---CC-CHHHHHHHHHHhccccCCHHHHHHHHH---H---CCCChhHHHHHHH
Confidence            3544444 4578999998888877642   23 344443333222322  3344333332   2   234322    233


Q ss_pred             HHHHHHHcCChHHHHHHHHHHHhCCCCCChhHHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCcccHHHHHHHHHhcCC
Q 003295          363 LIDGYCKKGNISEALKIRDDMVSKGMSPNSVTFNSLIHGFCKSGQMDNAENALEEMLSRGLSINQGAYTSVIKWLCINSR  442 (833)
Q Consensus       363 li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~l~~~~~~g~~~~~~~~~~li~~~~~~g~  442 (833)
                      .+..+.+.+++.+..+.+.    . .+.+...-.....+..+.|+.++|.+.+..+-..|.. .......+.        
T Consensus        78 ~l~~L~~~~~w~~~~~~~~----~-~p~~~~~~c~~~~A~~~~g~~~~a~~~~~~lW~~~~~-~p~~c~~l~--------  143 (450)
T d1qsaa1          78 FVNELARREDWRGLLAFSP----E-KPGTTEAQCNYYYAKWNTGQSEEAWQGAKELWLTGKS-QPNACDKLF--------  143 (450)
T ss_dssp             HHHHHHHTTCHHHHHHHCC----S-CCSSHHHHHHHHHHHHHTTCHHHHHHHHHHHHSCSSC-CCTHHHHHH--------
T ss_pred             HHHHHHhccCHHHHHHhcc----C-CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCC-CchHHHHHH--------
Confidence            4567778888876554442    1 2335555567778888999999999888877665432 222333333        


Q ss_pred             hhHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 003295          443 FNSALHFTKEMLLRNLRPGDGLLTLLVSGLCKNGKQAEATELCFRLFEKGFTVNTVTSNALIHGMCEAGNLKEAGKLLME  522 (833)
Q Consensus       443 ~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~l~~  522 (833)
                              +.+...|. .+...+-.-+......|+...|..+...+-..    ........+........+...      
T Consensus       144 --------~~~~~~~~-lt~~~~~~R~~~~l~~~~~~~a~~l~~~l~~~----~~~~~~a~~~l~~~p~~~~~~------  204 (450)
T d1qsaa1         144 --------SVWRASGK-QDPLAYLERIRLAMKAGNTGLVTVLAGQMPAD----YQTIASAIISLANNPNTVLTF------  204 (450)
T ss_dssp             --------HHHHHTTC-SCHHHHHHHHHHHHHTTCHHHHHHHHHTCCGG----GHHHHHHHHHHHHCGGGHHHH------
T ss_pred             --------HHHHhcCC-CCHHHHHHHHHHHHHcCChhhHHHHHhhCChh----HHHHHHHHHHHHhChHhHHHH------
Confidence                    33333322 22333334455666778888888876543222    333444444444332222221      


Q ss_pred             HhhCCCCCCHHHHHHHHHHHHh--cCChhhHHHHHHHHHHCCCCCCHHHHHHHH----HHHHhcCCHHHHHHHHHHHhhC
Q 003295          523 MLQRGLILDKVTYNTLILGCCK--DGKPEEGFKLKEDMIKRGIQPDNYTYNLLL----HGLCSLGKMEEAIELWEECKRT  596 (833)
Q Consensus       523 m~~~g~~~~~~~~~~li~~~~~--~g~~~~A~~~~~~m~~~g~~p~~~~~~~li----~~~~~~g~~~~A~~~~~~~~~~  596 (833)
                      ....  ..+......+..++.+  ..+.+.|..++......... +......+-    ......+..+.+...+......
T Consensus       205 ~~~~--~~~~~~~~~~~~~l~rla~~d~~~a~~~l~~~~~~~~~-~~~~~~~~~~~~a~~~~~~~~~~~a~~~~~~~~~~  281 (450)
T d1qsaa1         205 ARTT--GATDFTRQMAAVAFASVARQDAENARLMIPSLAQAQQL-NEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIMR  281 (450)
T ss_dssp             HHHS--CCCHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHTTC-CHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHHT
T ss_pred             HhcC--CCChhhhHHHHHHHHHHhccChhHHHHHHHhhhhcccc-cHHHHHHHHHHHHHHHHHcCchHHHHHHHHhhccc
Confidence            1112  1244444444444443  35788899988887765333 222222222    2233456678888888777665


Q ss_pred             CCCCCHhhHHHHHHHHHccCCHHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCCCCHHHHH
Q 003295          597 VFGPDIYTYGVMIDGFCKADKIEEGETLFNEMISKKMELNPVVYNTLIRAYCKIGNTTAAFRLSNDMKSRGILPTSVTYS  676 (833)
Q Consensus       597 ~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~  676 (833)
                      +  .+.....-.+......+++..+...+..|... ......-.--+..++...|+.++|...|......   ++  -|.
T Consensus       282 ~--~~~~~~~w~~~~al~~~~~~~~~~~~~~l~~~-~~~~~r~~YW~gRa~~~~G~~~~A~~~~~~~a~~---~~--fYG  353 (450)
T d1qsaa1         282 S--QSTSLIERRVRMALGTGDRRGLNTWLARLPME-AKEKDEWRYWQADLLLERGREAEAKEILHQLMQQ---RG--FYP  353 (450)
T ss_dssp             C--CCHHHHHHHHHHHHHHTCHHHHHHHHHHSCTT-GGGSHHHHHHHHHHHHHTTCHHHHHHHHHHHHTS---CS--HHH
T ss_pred             c--cchHHHHHHHHHHHHcCChHHHHHHHHhcCcc-cccHHHHHHHHHHHHHHcCChhhHHHHHHHHhcC---CC--hHH
Confidence            4  34444444555566788999999999887543 2224455556778899999999999999998653   34  233


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHCCCC--CCh-hH---HHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 003295          677 SLIHGLCNIGLIEDAKCLFDEMRKEGLL--PNV-AC---YTALIGGYCKLGQMDEAESVLQEMASINIHPNKITYTIMIG  750 (833)
Q Consensus       677 ~li~~~~~~g~~~~A~~~~~~m~~~g~~--p~~-~~---~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~  750 (833)
                      .|...  +.|..-.       +.....+  +.. ..   --..+..+...|...+|...|..+...   .+......+..
T Consensus       354 ~LAa~--~Lg~~~~-------~~~~~~~~~~~~~~~~~~~~~ra~~L~~~g~~~~A~~e~~~l~~~---~~~~~~~~la~  421 (450)
T d1qsaa1         354 MVAAQ--RIGEEYE-------LKIDKAPQNVDSALTQGPEMARVRELMYWNLDNTARSEWANLVKS---KSKTEQAQLAR  421 (450)
T ss_dssp             HHHHH--HTTCCCC-------CCCCCCCSCCCCHHHHSHHHHHHHHHHHTTCHHHHHHHHHHHHTT---CCHHHHHHHHH
T ss_pred             HHHHH--HcCCCCC-------CCcCCCCccHHHhhhcChHHHHHHHHHHcCCchHHHHHHHHHHhC---CCHHHHHHHHH
Confidence            33221  2221100       0000000  010 00   112356677899999999999988753   35666778888


Q ss_pred             HHHhcCCHHHHHHHHHHH
Q 003295          751 GYCKLGDMKEAAKLLNVM  768 (833)
Q Consensus       751 ~~~~~g~~~~A~~~~~~m  768 (833)
                      ...+.|.++.|+....+.
T Consensus       422 lA~~~g~~~~aI~a~~~~  439 (450)
T d1qsaa1         422 YAFNNQWWDLSVQATIAG  439 (450)
T ss_dssp             HHHHTTCHHHHHHHHHHT
T ss_pred             HHHHCCChhHHHHHHHHH
Confidence            899999999999877665

>d1v54e_ a.118.11.1 (E:) Cytochrome c oxidase subunit E {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Cytochrome c oxidase subunit E
family: Cytochrome c oxidase subunit E
domain: Cytochrome c oxidase subunit E
species: Cow (Bos taurus) [TaxId: 9913]

Probab=81.28  E-value=3  Score=30.78  Aligned_cols=46  Identities=15%  Similarity=0.322  Sum_probs=23.6

Q ss_pred             HHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 003295          726 AESVLQEMASINIHPNKITYTIMIGGYCKLGDMKEAAKLLNVMAEK  771 (833)
Q Consensus       726 A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  771 (833)
                      +.+-++.+...++.|++.+..+.+++|.+.+++.-|+++++-...+
T Consensus        25 ~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~K   70 (105)
T d1v54e_          25 LRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK   70 (105)
T ss_dssp             HHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH
Confidence            3344444444445555555555555555555555555555554443