Psyllid ID: psy6893

---

Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------450-------460-------470-------480-------490-------500-------510-------520-------530-------540-------550-------560-------570-------580-------590-------600-------610-------620-------630-------640-------650-------660-------670-------680-------690-------700-------710-------720-------730-------740-------750-------760-------770-------780-------790-------800-------810-------820-------830-------840-------850-------860-------870-------880-------890-------900-------910-------920-------930-------940-------950-------960-------970-------980-------99
Protein Sequence
MDVFEAAIKQMTPPRSFTTRSRWPCPPFSRVHSALKSCVPWCLAMSSIQSRSFRAQILRTLVRLYHSLSVPDYVNMAQCWIYLDDPRSVANLLGKLVAGSADDDLMAAQIGFDLYESATQAFLASVLQELKTCAPIPDATHVVVKVPVEGAPTPATPDTEAPTPAPGTESGPSSTTPGPETKTLESLNEKEKQLQARITKLSKILSGEVSIDLHLQFLIRSNKTDMLILKNTKESIRVSICHTATIIANAFMHSGTTSDQFLRDNLEWLARATNWAKLTATASLGVIHRGHETEALAHMQSYLPRETGPTSGYYEGGGLYALGLIHANHGAVINDYLLGQVKDATNEDDAVTGEAAGIAMGLVLLGSKSESAIQDMVAYAKETQHEKILRGLAVGISFIMYGQLENADDLVRDLCEEKDAILRRSGMYTIAMAYCVSYLYFDLFSDLTYRIVKNRSGMYTIAMAYCGSGSNVATKRLLHVAVSDVNDDVRREAVTALGFILFRTLFYVAPACTRSPWPGVISLLDDPMIELKEFSLKKLNDIVDDFWPENEKEKQLQARITKLSKILSGEVSIDLHLQFLIRSNKTDMLILKNTKESIRVSICHTATIIANAFMHSGTTSDQFLRDNLEWLARATNWAKLTATASLGVIHRGHETEALAHMQSYLPRETGPTSGYYEGGGLYALGLIHANHGAVINDYLLGQVKDATNEMVRHGGCLGLGLAAMGSARDDIYEQLKFNLYQDDAVTGEAAGIAMGLVLLGSKSESAIQDMVAYAKETQHEKILRGLAVGISFIMYGQLENADDLVRDLCEEKDAILRRSGMYTIAMAYCGSGSNVATKRLLHDAILRRSGMYTIAMAYCGSGSNVATKRLLHVAVSDVNDDVRREAVTALGFILFRKKRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKKKKKKKKKKKKKKKKKKEAEKMKKKTEEAEK
Secondary Structure (PSIPRED)
ccHHHHHHHHccccccccccccccccccccHHHHHHHHHcccHHHcccccHHHHHHHHHHHHHHHHccccccHHHHHHHHHHcccHHHHHHHHHHHHcccccHHHHHHHHHHccccccHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHcccccccHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccHHccccHHHHHHcccccHHHHHHHHHHHHcccHHHHHHHHHcccccccccccccccccHHHHHccccccccccHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHcccccHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcHHHHHHHHHHcccccHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHccccccccccccccccccccccccHHHHHHHHHHHHHccccccccccHHHHHHHHHHHHHccccccccHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccHHHHHHcccccccHHHHHHcEEccccHHHHHHHHHcccccccccccccccHHHHHHHHHHcccccccHHHHHHHHHHHccccHHHHHHHHHHHHHHHccccHHHHHHHHHHHccccHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHccHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHccccccHHcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Secondary Structure Prediction (SSPRO)
ccHHHHHHHHccccHHHHHcccccccccccHHHHHHHHHHHHHHHHHHHcHHHHHHHHHHHHHHHHccccccHHEHEHEEEEcccHHHHHHHHHHHHHcccccHHHHHHHHHHHHcccHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccHccHccccccHHHHHHHHHHHHHHHcccccHHEHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHccccccccccccHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHccHHHHHHHHHHHHHHHHHHcHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHcccccccccccccHHHHHHHHccccHHHccHHHccccccHHHHHcccccccccHHHHHHHHHHHHccccHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHccccccccccccccHHHHHHHHHHHccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHcccccHHHHHHHHHHHHHHccccHHHHHHHHHHHHHcHHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHcccHccHHHHHHHHHHHHHHHcccHHHHHHHcHHHHHHHcHHHHHHHHHccHHHHcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc
Coil and Loop (DISEMBL)
MDVFEAAIkqmtpprsfttrsrwpcppfsrvhsalKSCVPWCLAMSSIQSRSFRAQILRTLVRLYhslsvpdyvnmaqcwiylddprSVANLLGKLvagsadddLMAAQIGFDLYESATQAFLASVLQELktcapipdathvvvkvpvegaptpatpdteaptpapgtesgpssttpgpetktleSLNEKEKQLQARITKLSKILSGEVSIDLHLQFLIRSNKTDMLILKNTKESIRVSICHTATIIANafmhsgttsdQFLRDNLEWLARATNWAKLTATASLGVIHRGHETEALAHMQsylpretgptsgyyeggglYALGLIHAnhgavindyllgqvkdatneddavtGEAAGIAMGLVLLGSKSESAIQDMVAYAKETQHEKILRGLAVGISFImygqlenaDDLVRDLCEEKDAILRRSGMYTIAMAYCVSYLYFDLFSDLTYRIVKNRSGMYTIAMAYcgsgsnvaTKRLLHVAVSDVNDDVRREAVTALGFILFRTLFyvapactrspwpgvisllddpmieLKEFSLKKLNDIVddfwpenekEKQLQARITKLSKILSGEVSIDLHLQFLIRSNKTDMLILKNTKESIRVSICHTATIIANafmhsgttsdQFLRDNLEWLARATNWAKLTATASLGVIHRGHETEALAHMQsylpretgptsgyyeggglYALGLIHANHGAVINDYLLGQVKDATNEMVRHGGCLGLGLAAMGSARDDIYEQLKFNlyqddavtgeAAGIAMGLVLLGSKSESAIQDMVAYAKETQHEKILRGLAVGISFImygqlenaDDLVRDLCEEKDAILRRSGMYTIAMAYcgsgsnvatKRLLHDAILRRSGMYTIAMAYcgsgsnvaTKRLLHVAVSDVNDDVRREAVTALGFILFRKKRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKKKKKKKKKKKKKKKKKKEAEKMKKKTEEAEK
Flexible Loop (DISEMBL)
MDVFEAAikqmtpprsfttrsrwPCPPFSRVHSALKSCVPWCLAMSSIQSRSFRAQILRTLVRLYHSLSVPDYVNMAQCWIYLDDPRSVANLLGKLVAGSADDDLMAAQIGFDLYESATQAFLASVLQELKTCAPIPDATHVVVKVPVEGAPTpatpdteaptpapgtesgpssttpgpETKTLESLNEKEKQLQARITKLSKILSGEVSIDLHLQFLIRSNKTDMLILKNTKESIRVSICHTATIIANAFMHSGTTSDQFLRDNLEWLARATNWAKLTATASLGVIHRGHETEALAHMQSYLPRETGPTSGYYEGGGLYALGLIHANHGAVINDYLLGQVKDATNEDDAVTGEAAGIAMGLVLLGSKSESAIQDMVAYAKETQHEKILRGLAVGISFIMYGQLENADDLVRDLCEEKDAILRRSGMYTIAMAYCVSYLYFDLFSDLTYRIVKNRSGMYTIAMAYCGSGSNVATKRLLHVAVSDVNDDVRREAVTALGFILFRTLFYVAPACTRSPWPGVISLLDDPMIELKEFSLKKLNDIVDDFWPENEKEKQLQARITKLSKILSGEVSIDLHLQFLIRSNKTDMLILKNTKESIRVSICHTATIIANAFMHSGTTSDQFLRDNLEWLARATNWAKLTATASLGVIHRGHETEALAHMQSYLPRETGPTSGYYEGGGLYALGLIHANHGAVINDYLLGQVKDATNEMVRHGGCLGLGLAAMGSARDDIYEQLKFNLYQDDAVTGEAAGIAMGLVLLGSKSESAIQDMVAYAKETQHEKILRGLAVGISFIMYGQLENADDLVRDLCEEKDAILRRSGMYTIAMAYCGSGSNVATKRLLHDAILRRSGMYTIAMAYCGSGSNVATKRLLHVAvsdvnddvrREAVTalgfilfrkkrtrrkkkkgaekirkkkkkkkeaekmrkkkgaekmkkkkkdaekmkkkgaekigkkkkkkkkkkkkkkkkkkkkkkeaekmkkkteeaek
Low Complexity Region (SEG)
MDVFEAAIKQMTPPRSFTTRSRWPCPPFSRVHSALKSCVPWCLAMSSIQSRSFRAQILRTLVRLYHSLSVPDYVNMAQCWIYLDDPRSVANLLGKLVAGSADDDLMAAQIGFDLYESATQAFLASVLQELKTCAPIPDATHVVVKVPVegaptpatpdteaptpapgteSGPSSTTPGPETKTLESLNEKEKQLQARITKLSKILSGEVSIDLHLQFLIRSNKTDMLILKNTKESIRVSICHTATIIANAFMHSGTTSDQFLRDNLEWLARATNWAKLTATASLGVIHRGHETEALAHMQSYLPRETGPTSgyyeggglyalglIHANHGAVINDYLLGQVKDATNEDDAVTGEAAGIAMGLVLLGSKSESAIQDMVAYAKETQHEKILRGLAVGISFIMYGQLENADDLVRDLCEEKDAILRRSGMYTIAMAYCVSYLYFDLFSDLTYRIVKNRSGMYTIAMAYCGSGSNVATKRLLHVAVSDVNDDVRREAVTALGFILFRTLFYVAPACTRSPWPGVISLLDDPMIELKEFSLKKLNDIVDDFWPENEKEKQLQARITKLSKILSGEVSIDLHLQFLIRSNKTDMLILKNTKESIRVSICHTATIIANAFMHSGTTSDQFLRDNLEWLARATNWAKLTATASLGVIHRGHETEALAHMQSYLPRETGPTSgyyeggglyalglIHANHGAVINDYLLGQVKDATNEMVRHggclglglaamgsaRDDIYEQLKFNLYQDDAVTGEAAGIAMGLVLLGSKSESAIQDMVAYAKETQHEKILRGLAVGISFIMYGQLENADDLVRDLCEEKDAILRRSGMYTIAMAYCGSGSNVATKRLLHDAILRRSGMYTIAMAYCGSGSNVATKRLLHVAVSDVNDDVRREAVTALGFILFrkkrtrrkkkkgaekirkkkkkkkeaekmrkkkgaekmkkkkkdaekmkkkgaekigkkkkkkkkkkkkkkkkkkkkkkeaekmkkkteeaek
Disordered region (IsUnstruct)
*********************RWPCPPFSRVHSALKSCVPWCLAMSSIQSRSFRAQILRTLVRLYHSLSVPDYVNMAQCWIYLDDPRSVANLLGKLVAGSADDDLMAAQIGFDLYESATQAFLASVLQELKTCAPIPDATHVVVKVPV*************************************************ITKLSKILSGEVSIDLHLQFLIRSNKTDMLILKNTKESIRVSICHTATIIANAFMHSGTTSDQFLRDNLEWLARATNWAKLTATASLGVIHRGHETEALAHMQSYLPRETGPTSGYYEGGGLYALGLIHANHGAVINDYLLGQVKDATNEDDAVTGEAAGIAMGLVLLGSKSESAIQDMVAYAKETQHEKILRGLAVGISFIMYGQLENADDLVRDLCEEKDAILRRSGMYTIAMAYCVSYLYFDLFSDLTYRIVKNRSGMYTIAMAYCGSGSNVATKRLLHVAVSDVNDDVRREAVTALGFILFRTLFYVAPACTRSPWPGVISLLDDPMIELKEFSLKKLNDIVDDFWPENEKEKQLQARITKLSKILSGEVSIDLHLQFLIRSNKTDMLILKNTKESIRVSICHTATIIANAFMHSGTTSDQFLRDNLEWLARATNWAKLTATASLGVIHRGHETEALAHMQSYLPRETGPTSGYYEGGGLYALGLIHANHGAVINDYLLGQVKDATNEMVRHGGCLGLGLAAMGSARDDIYEQLKFNLYQDDAVTGEAAGIAMGLVLLGSKSESAIQDMVAYAKETQHEKILRGLAVGISFIMYGQLENADDLVRDLCEEKDAILRRSGMYTIAMAYCGSGSNVATKRLLHDAILRRSGMYTIAMAYCGSGSNVATKRLLHVAVSDVNDDVRREAVTALGFILFR********************************************************************************************
Disordered Region (DISOPRED)
MDVFEAAIKQ******************SRVHSALKSCVPWCLAMSSIQSRSFRAQILRTLVRLYHSLSVPDYVNMAQCWIYLDDPRSVANLLGKLVAGSADDDLMAAQIGFDLYESATQAFLASVLQELKT**************************************************************QARITKLSKILSGEVSIDLHLQFLIRSN***************VSICHTATIIANAFMHSGTTSDQFLRDNLEWLARATNWAKLTATASLGVIHRGHETEALAHMQSYLPRETGPTSGYYEGGGLYALGLIHANHGAVINDYLLGQVKDATNEDDAVTGEAAGIAMGLVLLGSKSESAIQDMVAYAKETQHEKILRGLAVGISFIMYGQLENADDLVRDLCEEKDAILRRSGMYTIAMAYCVSYLYFDLFSDLTYRIVKNRSGMYTIAMAYCGSGSNVATKRLLHVAVSDVNDDVRREAVTALGFILFRTLFY********PWPGVISLLDDPMIELKEFSLK********************ARITKLSKILSGEVSIDLHLQFLIRSNKTDMLI*K**KESIRVSICHTATIIANAFMHSGTTSDQFLRDNLEWLARATNWAKLTATASLGVIHRGHETEALAHMQSYLPRETGPTSGYYEGGGLYALGLIHANHGAVINDYLLGQVKDATNEMVRHGGCLGLGLAAMGSARDDIYEQLKFNLYQDDAVTGEAAGIAMGLVLLGSKSESAIQDMVAYAKETQHEKILRGLAVGISFIMYGQLENADDLVRDLCEEKDAILRRSGMYTIAMAYCGSGSNVATKRLLHDAILRRSGMYTIAMAYCGSGSNVATKRLLHVAVSDVNDDVRREAVTALGFILFRK*******************************************************************************************
Disordered Region (DISEMBL)
MDVFEAAIKQMTPPRSFTTRSRWPCPPFSRVHSALKSCVPWCLAMSSIQSRSFRAQILRTLVRLYHSLSVPDYVNMAQCWIYLDDPRSVANLLGKLVAGSADDDLMAAQIGFDLYESATQAFLASVLQELKTCAPIPDATHVVVKVPVEGAPT************************************KEKQLQARITKLSKILSGEVSIDLHLQFLIRSNKTDMLILKNTKESIRVSICHTATIIANAFMHSGTTSDQFLRDNLEWLARATNWAKLTATASLGVIHRGHETEALAHMQSYLPRETGPTSGYYEGGGLYALGLIHANHGAVINDYLLGQVKDATNEDDAVTGEAAGIAMGLVLLGSKSESAIQDMVAYAKETQHEKILRGLAVGISFIMYGQLENADDLVRDLCEEKDAILRRSGMYTIAMAYCVSYLYFDLFSDLTYRIVKNRSGMYTIAMAYCGSGSNVATKRLLHVAVSDVNDDVRREAVTALGFILFRTLFYVAPACTRSPWPGVISLLDDPMIELKEFSLKKLNDIVDDFWPENEKEKQLQARITKLSKILSGEVSIDLHLQFLIRSNKTDMLILKNTKESIRVSICHTATIIANAFMHSGTTSDQFLRDNLEWLARATNWAKLTATASLGVIHRGHETEALAHMQSYLPRETGPTSGYYEGGGLYALGLIHANHGAVINDYLLGQVKDATNEMVRHGGCLGLGLAAMGSARDDIYEQLKFNLYQDDAVTGEAAGIAMGLVLLGSKSESAIQDMVAYAKETQHEKILRGLAVGISFIMYGQLENADDLVRDLCEEKDAILRRSGMYTIAMAYCGSGSNVATKRLLHDAILRRSGMYTIAMAYCGSGSNVATKRLLHVAVSDVNDDVRREAVTALGFILFRKK******************************************************************************************
Disordered Region (DISPRO)
MDVFEAAIKQMTPPRSFTTRSRWPCPPFSRVHSALKSCVPWCLAMSSIQSRSFRAQILRTLVRLYHSLSVPDYVNMAQCWIYLDDPRSVANLLGKLVAGSADDDLMAAQIGFDLYESATQAFLASVLQELKTC*******************************************************EKEKQLQARITKLSKILSGEVSIDLHLQFLIRSNKTDMLILKNTKESIRVSICHTATIIANAFMHSGTTSDQFLRDNLEWLARATNWAKLTATASLGVIHRGHETEALAHMQSYLPRETGPTSGYYEGGGLYALGLIHANHGAVINDYLLGQVKDATNEDDAVTGEAAGIAMGLVLLGSKSESAIQDMVAYAKETQHEKILRGLAVGISFIMYGQLENADDLVRDLCEEKDAILRRSGMYTIAMAYCVSYLYFDLFSDLTYRIVKNRSGMYTIAMAYCGSGSNVATKRLLHVAVSDVNDDVRREAVTALGFILFRTLFYVAPACTRSPWPGVISLLDDPMIELKEFSLKKLNDIVDDFWPENEKEKQLQARITKLSKILSGEVSIDLHLQFLIRSNKTDMLILKNTKESIRVSICHTATIIANAFMHSGTTSDQFLRDNLEWLARATNWAKLTATASLGVIHRGHETEALAHMQSYLPRETGPTSGYYEGGGLYALGLIHANHGAVINDYLLGQVKDATNEMVRHGGCLGLGLAAMGSARDDIYEQLKFNLYQDDAVTGEAAGIAMGLVLLGSKSESAIQDMVAYAKETQHEKILRGLAVGISFIMYGQLENADDLVRDLCEEKDAILRRSGMYTIAMAYCGSGSNVATKRLLHDAILRRSGMYTIAMAYCGSGSNVATKRLLHVAVSDVNDDVRREAVTALGFILFRKKRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKKKKKKKKKKKKKKKKKKE*************
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHooooooooooooooHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHooooooooooooooooooooHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MDVFEAAIKQMTPPRSFTTRSRWPCPPFSRVHSALKSCVPWCLAMSSIQSRSFRAQILRTLVRLYHSLSVPDYVNMAQCWIYLDDPRSVANLLGKLVAGSADDDLMAAQIGFDLYESATQAFLASVLQELKTCAPIPDATHVVVKVPVEGAPTPATPDTEAPTPAPGTESGPSSTTPGPETKTxxxxxxxxxxxxxxxxxxxxxLSGEVSIDLHLQFLIRSNKTDMLILKNTKESIRVSICHTATIIANAFMHSGTTSDQFLRDNLEWLARATNWAKLTATASLGVIHRGHETEALAHMQSYLPRETGPTSGYYEGGGLYALGLIHANHGAVINDYLLGQVKDATNEDDAVTGEAAGIAMGLVLLGSKSESAIQDMVAYAKETQHEKILRGLAVGISFIMYGQxxxxxxxxxxxxxxxxxxxxxSGMYTIAMAYCVSYLYFDLFSDLTYRIVKNRSGMYTIAMAYCGSGSNVATKRLLHVAVSDVNDDVRREAVTALGFILFRTLFYVAPACTRSPWPGVISLLDDPMIELKEFSLKKLNDIVDDFWPENEKEKQLQARITKLSKILSGEVSIDLHLQFLIRSNKTDMLILKNTKESIRVSICHTATIIANAFMHSGTTSDQFLRDNLEWLARATNWAKLTATASLGVIHRGHETEALAHMQSYLPRETGPTSGYYEGGGLYALGLIHANHGAVINDYLLGQVKDATNEMVRHGGCLGLGLAAMGSARDDIYEQLKFNLYQDDAVTGEAAGIAMGLVLLGSKSESAIQDMVAYAKETQHEKILRGLAVGISFIMYGQxxxxxxxxxxxxxxxxxxxxxSGMYTIAMAYCGSGSNVATKRLLHDAILRRSGMYTIAMAYCGSGSNVATKRLLHVAVSDVNDDVRREAVTALGFILFRKKRTRRKxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxIGxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxK
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	988	2.2.26 [Sep-21-2011]
Q9V3P6	1020	26S proteasome non-ATPase	yes	N/A	0.443	0.429	0.566	1e-153
Q5F418	955	26S proteasome non-ATPase	yes	N/A	0.429	0.443	0.528	1e-145
Q99460	953	26S proteasome non-ATPase	yes	N/A	0.429	0.444	0.530	1e-144
Q5R5S4	953	26S proteasome non-ATPase	yes	N/A	0.427	0.442	0.522	1e-143
Q3TXS7	953	26S proteasome non-ATPase	yes	N/A	0.431	0.447	0.519	1e-143
O88761	953	26S proteasome non-ATPase	yes	N/A	0.419	0.434	0.516	1e-142
Q54JM5	975	26S proteasome non-ATPase	yes	N/A	0.419	0.424	0.383	5e-88
O74762	965	26S proteasome regulatory	yes	N/A	0.305	0.312	0.471	3e-82
P32565	945	26S proteasome regulatory	yes	N/A	0.392	0.410	0.394	1e-75
Q6FIP2	941	26S proteasome regulatory	yes	N/A	0.310	0.326	0.412	6e-70

>sp|Q9V3P6|PSMD1_DROME 26S proteasome non-ATPase regulatory subunit 1 OS=Drosophila melanogaster GN=Rpn2 PE=1 SV=1

 Score =  543 bits (1399), Expect = e-153,   Method: Compositional matrix adjust.
 Identities = 295/521 (56%), Positives = 344/521 (66%), Gaps = 83/521 (15%)

Query: 41  WCLAMSSIQSRSFRAQILRTLVRLYHSLSVPDYVNMAQCWIYLDDPRSVANLLGKLVAGS 100
           + + MS IQ+R FR ++LR LV LY  L VPDYVNM QC I+L+DP +VA +L  L   S
Sbjct: 181 YNVTMSLIQNRGFRNEVLRCLVSLYRDLGVPDYVNMCQCLIFLEDPFAVAEMLDNLTRSS 240

Query: 101 AD-DDLMAAQIGFDLYESATQAFLASVLQELKTCAPIPDATHVVVKVPVEGAPTPATPDT 159
            + ++LMA QI FDLYESATQ FL +VLQ LK  APIP A      +P    P   T + 
Sbjct: 241 VETNNLMAYQIAFDLYESATQEFLGNVLQHLKNTAPIPTA------LPSTFKPQGTTSED 294

Query: 160 EAPTPAPGTESGPSSTTPGPE----TKTLESLNEKEKQLQARITKLSKILSGEVSIDLHL 215
            A +    ++S    T   P      +T++SLNE EK  Q  I KL  ILSGEVSIDL L
Sbjct: 295 GAKSEGDKSKSDEDITEETPADDKVERTIDSLNEVEKLHQKNIEKLISILSGEVSIDLQL 354

Query: 216 QFLIRSNKTDMLILKNTKESIRVSICHTATIIANAFMHSGTTSDQFLRDNLEWLARATNW 275
           QFLIRSN  D+ +L+ TKE++RVSICHTAT+IANAFMHSGTTSDQFLRDNL+WLARATNW
Sbjct: 355 QFLIRSNHADLQVLRGTKEAVRVSICHTATVIANAFMHSGTTSDQFLRDNLDWLARATNW 414

Query: 276 AKLTATASLGVIHRGHETEALAHMQSYLPRETGPTSGYYEGGGLYALGLIHANHGAVIND 335
           AKLTATASLGVIHRGHE ++LA MQSYLP+E GP+SGY EGG LYALGLIHANHGA I D
Sbjct: 415 AKLTATASLGVIHRGHEKDSLALMQSYLPKEAGPSSGYSEGGALYALGLIHANHGANIID 474

Query: 336 YLLGQVKDATNE--------------------------------DDAVTGEAAGIAMGLV 363
           YLL Q+KDA NE                                DDAVTGEAAGIAMG+V
Sbjct: 475 YLLQQLKDAQNENVRHGGCLGLGLAGMGTHRQDLYEQLKFNLYQDDAVTGEAAGIAMGMV 534

Query: 364 LLGSKSESAIQDMVAYAKETQHEKILRGLAVGISFIMYGQLENADDLVRDLCEEKDAILR 423
           +LGSK+  AI+DMV+YA+ETQHEKILRGLAVGIS  M+ +LE AD LV  L  +KD +LR
Sbjct: 535 MLGSKNAQAIEDMVSYAQETQHEKILRGLAVGISLTMFSRLEEADPLVTSLSSDKDPVLR 594

Query: 424 RSGMYTIAMAYCVSYLYFDLFSDLTYRIVKNRSGMYTIAMAYCGSGSNVATKRLLHVAVS 483
           RSG                               MYTIAMAY G+GSN A ++LLHVAVS
Sbjct: 595 RSG-------------------------------MYTIAMAYNGTGSNKAIRKLLHVAVS 623

Query: 484 DVNDDVRREAVTALGFILFRTLFYVAPACTRSPWPGVISLL 524
           DVNDDVRR AVTA+GFILFR+       C     P V+SLL
Sbjct: 624 DVNDDVRRAAVTAIGFILFRS----PEQC-----PSVVSLL 655

Acts as a regulatory subunit of the 26S proteasome which is involved in the ATP-dependent degradation of ubiquitinated proteins.
Drosophila melanogaster (taxid: 7227)

>sp|Q5F418|PSMD1_CHICK 26S proteasome non-ATPase regulatory subunit 1 OS=Gallus gallus GN=PSMD1 PE=2 SV=1

 Score =  517 bits (1331), Expect = e-145,   Method: Compositional matrix adjust.
 Identities = 275/520 (52%), Positives = 344/520 (66%), Gaps = 96/520 (18%)

Query: 43  LAMSSIQSRSFRAQILRTLVRLYHSLSVPDYVNMAQCWIYLDDPRSVANLLGKLVAGSAD 102
           L MS +Q++ FR ++LR LV++Y +L  PD++N+ QC I+LDDP++V+++L KLV    D
Sbjct: 183 LCMSLMQNKQFRNKVLRVLVKIYMNLEKPDFINVCQCLIFLDDPQAVSDILEKLV--KED 240

Query: 103 DDLMAAQIGFDLYESATQAFLASVLQELKTCAPIPDATHVVVKVPVEGAP----TPATPD 158
           + LMA QI FDLYESA+Q FL+SV+Q L+T           V  P+   P    T   P 
Sbjct: 241 NLLMAYQICFDLYESASQQFLSSVIQNLRT-----------VGTPIASVPGSTNTGTVPG 289

Query: 159 TEAPTPAPGTESGPSSTTPGPETKTLESLNEKEKQLQARITKLSKILSGEVSIDLHLQFL 218
           +E  + A   E  P ST  G   +    +N + K    +I+K+ KILSGE++I+LHLQFL
Sbjct: 290 SEKDSDAMEAEEKPGSTCVGKSAE----INPEPKD---QISKMIKILSGEMAIELHLQFL 342

Query: 219 IRSNKTDMLILKNTKESIRVSICHTATIIANAFMHSGTTSDQFLRDNLEWLARATNWAKL 278
           IR+N TD++ILKNTK+++R S+CHTAT+IAN+FMH GTTSDQFLRDNLEWLARATNWAK 
Sbjct: 343 IRNNNTDLMILKNTKDAVRNSVCHTATVIANSFMHCGTTSDQFLRDNLEWLARATNWAKF 402

Query: 279 TATASLGVIHRGHETEALAHMQSYLPRETGPTSGYYEGGGLYALGLIHANHGAVINDYLL 338
           TATASLGVIH+GHE EAL  M +YLP++T P S Y EGGGLYALGLIHANHG  I DYLL
Sbjct: 403 TATASLGVIHKGHEKEALQLMATYLPKDTSPGSAYQEGGGLYALGLIHANHGGDIIDYLL 462

Query: 339 GQVKDATN--------------------------------EDDAVTGEAAGIAMGLVLLG 366
            Q+K+A+N                                +DDAVTGEAAG+A+GLV+LG
Sbjct: 463 NQLKNASNDIVRHGGSLGLGLAAMGTARQDVYDLLKTNLYQDDAVTGEAAGLALGLVMLG 522

Query: 367 SKSESAIQDMVAYAKETQHEKILRGLAVGISFIMYGQLENADDLVRDLCEEKDAILRRSG 426
           SK+  AI+DMV YA+ETQHEKILRGLAVGI+ +MYG++E AD L+  LC +KD ILRRSG
Sbjct: 523 SKNAQAIEDMVGYAQETQHEKILRGLAVGIALVMYGRMEEADALIESLCRDKDPILRRSG 582

Query: 427 MYTIAMAYCVSYLYFDLFSDLTYRIVKNRSGMYTIAMAYCGSGSNVATKRLLHVAVSDVN 486
           M                               YT+AMAYCGSG+N A +RLLHVAVSDVN
Sbjct: 583 M-------------------------------YTVAMAYCGSGNNKAIRRLLHVAVSDVN 611

Query: 487 DDVRREAVTALGFILFRTLFYVAPACTRSPWPGVISLLDD 526
           DDVRR AV +LGFILFRT       C     P V+SLL +
Sbjct: 612 DDVRRAAVESLGFILFRT----PEQC-----PSVVSLLSE 642

Acts as a regulatory subunit of the 26 proteasome which is involved in the ATP-dependent degradation of ubiquitinated proteins.

Gallus gallus (taxid: 9031)

>sp|Q99460|PSMD1_HUMAN 26S proteasome non-ATPase regulatory subunit 1 OS=Homo sapiens GN=PSMD1 PE=1 SV=2

 Score =  513 bits (1320), Expect = e-144,   Method: Compositional matrix adjust.
 Identities = 276/520 (53%), Positives = 343/520 (65%), Gaps = 96/520 (18%)

Query: 43  LAMSSIQSRSFRAQILRTLVRLYHSLSVPDYVNMAQCWIYLDDPRSVANLLGKLVAGSAD 102
           L MS +Q++ FR ++LR LV++Y +L  PD++N+ QC I+LDDP++V+++L KLV    D
Sbjct: 183 LCMSLMQNKQFRNKVLRVLVKIYMNLEKPDFINVCQCLIFLDDPQAVSDILEKLV--KED 240

Query: 103 DDLMAAQIGFDLYESATQAFLASVLQELKTCAPIPDATHVVVKVPVEGAP----TPATPD 158
           + LMA QI FDLYESA+Q FL+SV+Q L+T           V  P+   P    T   P 
Sbjct: 241 NLLMAYQICFDLYESASQQFLSSVIQNLRT-----------VGTPIASVPGSTNTGTVPG 289

Query: 159 TEAPTPAPGTESGPSSTTPGPETKTLESLNEKEKQLQARITKLSKILSGEVSIDLHLQFL 218
           +E  + +  TE   SS   G   KT E+  E + Q      K+ KILSGE++I+LHLQFL
Sbjct: 290 SEKDSDSMETEEKTSSAFVG---KTPEASPEPKDQ----TLKMIKILSGEMAIELHLQFL 342

Query: 219 IRSNKTDMLILKNTKESIRVSICHTATIIANAFMHSGTTSDQFLRDNLEWLARATNWAKL 278
           IR+N TD++ILKNTK+++R S+CHTAT+IAN+FMH GTTSDQFLRDNLEWLARATNWAK 
Sbjct: 343 IRNNNTDLMILKNTKDAVRNSVCHTATVIANSFMHCGTTSDQFLRDNLEWLARATNWAKF 402

Query: 279 TATASLGVIHRGHETEALAHMQSYLPRETGPTSGYYEGGGLYALGLIHANHGAVINDYLL 338
           TATASLGVIH+GHE EAL  M +YLP++T P S Y EGGGLYALGLIHANHG  I DYLL
Sbjct: 403 TATASLGVIHKGHEKEALQLMATYLPKDTSPGSAYQEGGGLYALGLIHANHGGDIIDYLL 462

Query: 339 GQVKDATN--------------------------------EDDAVTGEAAGIAMGLVLLG 366
            Q+K+A+N                                +DDAVTGEAAG+A+GLV+LG
Sbjct: 463 NQLKNASNDIVRHGGSLGLGLAAMGTARQDVYDLLKTNLYQDDAVTGEAAGLALGLVMLG 522

Query: 367 SKSESAIQDMVAYAKETQHEKILRGLAVGISFIMYGQLENADDLVRDLCEEKDAILRRSG 426
           SK+  AI+DMV YA+ETQHEKILRGLAVGI+ +MYG++E AD L+  LC +KD ILRRSG
Sbjct: 523 SKNAQAIEDMVGYAQETQHEKILRGLAVGIALVMYGRMEEADALIESLCRDKDPILRRSG 582

Query: 427 MYTIAMAYCVSYLYFDLFSDLTYRIVKNRSGMYTIAMAYCGSGSNVATKRLLHVAVSDVN 486
           M                               YT+AMAYCGSG+N A +RLLHVAVSDVN
Sbjct: 583 M-------------------------------YTVAMAYCGSGNNKAIRRLLHVAVSDVN 611

Query: 487 DDVRREAVTALGFILFRTLFYVAPACTRSPWPGVISLLDD 526
           DDVRR AV +LGFILFRT       C     P V+SLL +
Sbjct: 612 DDVRRAAVESLGFILFRT----PEQC-----PSVVSLLSE 642

Acts as a regulatory subunit of the 26 proteasome which is involved in the ATP-dependent degradation of ubiquitinated proteins.

Homo sapiens (taxid: 9606)

>sp|Q5R5S4|PSMD1_PONAB 26S proteasome non-ATPase regulatory subunit 1 OS=Pongo abelii GN=PSMD1 PE=2 SV=1

 Score =  511 bits (1316), Expect = e-143,   Method: Compositional matrix adjust.
 Identities = 273/522 (52%), Positives = 340/522 (65%), Gaps = 100/522 (19%)

Query: 43  LAMSSIQSRSFRAQILRTLVRLYHSLSVPDYVNMAQCWIYLDDPRSVANLLGKLVAGSAD 102
           L MS +Q++ FR ++LR LV++Y +L  PD++N+ QC I+LDDP++V+++L KLV    D
Sbjct: 183 LCMSLMQNKQFRNKVLRVLVKIYMNLEKPDFINVCQCLIFLDDPQAVSDILEKLV--KED 240

Query: 103 DDLMAAQIGFDLYESATQAFLASVLQELKTCAPIPDATHVVVKVPVEGAPTPATPDTEAP 162
           + LMA QI FDLYESA+Q FL+SV+Q L+T                 G P  + P +   
Sbjct: 241 NLLMAYQICFDLYESASQQFLSSVIQNLRTV----------------GTPIASVPGSTNT 284

Query: 163 TPAPGTESGPSSTTPGPET------KTLESLNEKEKQLQARITKLSKILSGEVSIDLHLQ 216
              PG+E    S     +T      KT E+  E + Q      K+ KILSGE++I+LHLQ
Sbjct: 285 GTVPGSEKDSDSMETEEKTGSAFVGKTPEASPEPKDQ----TLKMIKILSGEMAIELHLQ 340

Query: 217 FLIRSNKTDMLILKNTKESIRVSICHTATIIANAFMHSGTTSDQFLRDNLEWLARATNWA 276
           FLIR+N TD++ILKNTK+++R S+CHTAT+IAN+FMH GTTSDQFLRDNLEWLARATNWA
Sbjct: 341 FLIRNNNTDLMILKNTKDAVRNSVCHTATVIANSFMHCGTTSDQFLRDNLEWLARATNWA 400

Query: 277 KLTATASLGVIHRGHETEALAHMQSYLPRETGPTSGYYEGGGLYALGLIHANHGAVINDY 336
           K TATASLGVIH+GHE EAL  M +YLP++T P S Y EGGGLYALGLIHANHG  I DY
Sbjct: 401 KFTATASLGVIHKGHEKEALQLMATYLPKDTSPGSAYQEGGGLYALGLIHANHGGDIIDY 460

Query: 337 LLGQVKDATN--------------------------------EDDAVTGEAAGIAMGLVL 364
           LL Q+K+A+N                                +DDAVTGEAAG+A+GLV+
Sbjct: 461 LLNQLKNASNDIVRHGGSLGLGLAAMGTARQDVYDLLKTNLYQDDAVTGEAAGLALGLVM 520

Query: 365 LGSKSESAIQDMVAYAKETQHEKILRGLAVGISFIMYGQLENADDLVRDLCEEKDAILRR 424
           LGSK+  AI+DMV YA+ETQHEKILRGLAVGI+ +MYG++E AD L+  LC +KD ILRR
Sbjct: 521 LGSKNAQAIEDMVGYAQETQHEKILRGLAVGIALVMYGRMEEADALIESLCRDKDPILRR 580

Query: 425 SGMYTIAMAYCVSYLYFDLFSDLTYRIVKNRSGMYTIAMAYCGSGSNVATKRLLHVAVSD 484
           SGM                               YT+AMAYCGSG+N A +RLLHVAVSD
Sbjct: 581 SGM-------------------------------YTVAMAYCGSGNNKAIRRLLHVAVSD 609

Query: 485 VNDDVRREAVTALGFILFRTLFYVAPACTRSPWPGVISLLDD 526
           VNDDVRR AV +LGFILFRT       C     P V+SLL +
Sbjct: 610 VNDDVRRAAVESLGFILFRT----PEQC-----PSVVSLLSE 642

Acts as a regulatory subunit of the 26 proteasome which is involved in the ATP-dependent degradation of ubiquitinated proteins.

Pongo abelii (taxid: 9601)

>sp|Q3TXS7|PSMD1_MOUSE 26S proteasome non-ATPase regulatory subunit 1 OS=Mus musculus GN=Psmd1 PE=1 SV=1

 Score =  511 bits (1316), Expect = e-143,   Method: Compositional matrix adjust.
 Identities = 269/518 (51%), Positives = 338/518 (65%), Gaps = 92/518 (17%)

Query: 43  LAMSSIQSRSFRAQILRTLVRLYHSLSVPDYVNMAQCWIYLDDPRSVANLLGKLVAGSAD 102
           L MS +Q++ FR ++LR LV++Y +L  PD++N+ QC I+LDDP++V+++L KLV    D
Sbjct: 183 LCMSLMQNKQFRNKVLRVLVKIYMNLEKPDFINVCQCLIFLDDPQAVSDILEKLV--KED 240

Query: 103 DDLMAAQIGFDLYESATQAFLASVLQELKTCAPIPDATHVVVKVPVEGAPTPATPDTEAP 162
           + LMA QI FDLYESA+Q FL+SV+Q L+T                 G P  + P +   
Sbjct: 241 NLLMAYQICFDLYESASQQFLSSVIQNLRTV----------------GTPIASVPGSTNT 284

Query: 163 TPAPGTE--SGPSSTTPGPETKTLESLNEKEKQLQARITKLSKILSGEVSIDLHLQFLIR 220
              PG+E  S P  T     +       +   + + +  K+ KILSGE++I+LHLQFLIR
Sbjct: 285 GTVPGSEKDSDPMETEEKTASAVAGKTPDASPEPKDQTLKMIKILSGEMAIELHLQFLIR 344

Query: 221 SNKTDMLILKNTKESIRVSICHTATIIANAFMHSGTTSDQFLRDNLEWLARATNWAKLTA 280
           +N TD++ILKNTK+++R S+CHTAT+IAN+FMH GTTSDQFLRDNLEWLARATNWAK TA
Sbjct: 345 NNNTDLMILKNTKDAVRNSVCHTATVIANSFMHCGTTSDQFLRDNLEWLARATNWAKFTA 404

Query: 281 TASLGVIHRGHETEALAHMQSYLPRETGPTSGYYEGGGLYALGLIHANHGAVINDYLLGQ 340
           TASLGVIH+GHE EAL  M +YLP++T P S Y EGGGLYALGLIHANHG  I DYLL Q
Sbjct: 405 TASLGVIHKGHEKEALQLMATYLPKDTSPGSAYQEGGGLYALGLIHANHGGDIIDYLLNQ 464

Query: 341 VKDATN--------------------------------EDDAVTGEAAGIAMGLVLLGSK 368
           +K+A+N                                +DDAVTGEAAG+A+GLV+LGSK
Sbjct: 465 LKNASNDIVRHGGSLGLGLAAMGTARQDVYDLLKTNLYQDDAVTGEAAGLALGLVMLGSK 524

Query: 369 SESAIQDMVAYAKETQHEKILRGLAVGISFIMYGQLENADDLVRDLCEEKDAILRRSGMY 428
           +  AI+DMV YA+ETQHEKILRGLAVGI+ +MYG++E AD L+  LC +KD ILRRSGM 
Sbjct: 525 NAQAIEDMVGYAQETQHEKILRGLAVGIALVMYGRMEEADALIESLCRDKDPILRRSGM- 583

Query: 429 TIAMAYCVSYLYFDLFSDLTYRIVKNRSGMYTIAMAYCGSGSNVATKRLLHVAVSDVNDD 488
                                         YT+AMAYCGSG+N A +RLLHVAVSDVNDD
Sbjct: 584 ------------------------------YTVAMAYCGSGNNKAIRRLLHVAVSDVNDD 613

Query: 489 VRREAVTALGFILFRTLFYVAPACTRSPWPGVISLLDD 526
           VRR AV +LGFILFRT       C     P V+SLL +
Sbjct: 614 VRRAAVESLGFILFRT----PEQC-----PSVVSLLSE 642

Acts as a regulatory subunit of the 26 proteasome which is involved in the ATP-dependent degradation of ubiquitinated proteins.

Mus musculus (taxid: 10090)

>sp|O88761|PSMD1_RAT 26S proteasome non-ATPase regulatory subunit 1 OS=Rattus norvegicus GN=Psmd1 PE=2 SV=1

 Score =  505 bits (1301), Expect = e-142,   Method: Compositional matrix adjust.
 Identities = 274/530 (51%), Positives = 342/530 (64%), Gaps = 116/530 (21%)

Query: 43  LAMSSIQSRSFRAQILRTLVRLYHSLSVPDYVNMAQCWIYLDDPRSVANLLGKLVAGSAD 102
           L MS +Q++ FR ++LR LV++Y +L  PD++N+ QC I+LDD ++V+++L KLV    D
Sbjct: 183 LCMSLMQNKQFRNKVLRVLVKIYMNLEKPDFINVCQCLIFLDDTQAVSDILEKLV--KED 240

Query: 103 DDLMAAQIGFDLYESATQAFLASVLQELKTCAPIPDATHVVVKVPVEGAPTPATPDTEAP 162
           + LMA QI FDLYESA+Q FL+SV+Q L+T                 G P  + P +   
Sbjct: 241 NLLMAYQICFDLYESASQQFLSSVIQNLRTV----------------GTPIASVPGS--- 281

Query: 163 TPAPGTESGPSSTTPGPETKTLESLNEKEKQLQA--------------RITKLSKILSGE 208
                T +G   T PGPE K  +S+  +EK   A              +  K+ KILSGE
Sbjct: 282 -----TNTG---TVPGPE-KDSDSMETEEKTAGAVAGKTPDASPEPKDQTLKMIKILSGE 332

Query: 209 VSIDLHLQFLIRSNKTDMLILKNTKESIRVSICHTATIIANAFMHSGTTSDQFLRDNLEW 268
           ++I+LHLQFLIR+N TD++ILKNTK+++R S+CHTAT+IAN+FMH GTTSDQFLRDNLEW
Sbjct: 333 MAIELHLQFLIRNNNTDLMILKNTKDAVRNSVCHTATVIANSFMHCGTTSDQFLRDNLEW 392

Query: 269 LARATNWAKLTATASLGVIHRGHETEALAHMQSYLPRETGPTSGYYEGGGLYALGLIHAN 328
           LARATNWAK TATASLGVIH+GHE EAL  M +YLP++T P S Y EGGGLYALGLIHAN
Sbjct: 393 LARATNWAKFTATASLGVIHKGHEKEALQLMATYLPKDTSPGSAYQEGGGLYALGLIHAN 452

Query: 329 HGAVINDYLLGQVKDATN--------------------------------EDDAVTGEAA 356
           HG  I DYLL Q+K+A+N                                +DDAVTGEAA
Sbjct: 453 HGGDIIDYLLNQLKNASNDIVRHGGSLGLGLAAMGTARQDVYDLLKTNLYQDDAVTGEAA 512

Query: 357 GIAMGLVLLGSKSESAIQDMVAYAKETQHEKILRGLAVGISFIMYGQLENADDLVRDLCE 416
           G+A+GLV+LGSK+  AI+DMV YA+ETQHEKILRGLAVGI+ +MYG++E AD L+  LC 
Sbjct: 513 GLALGLVMLGSKNTQAIEDMVGYAQETQHEKILRGLAVGIALVMYGRMEEADALIESLCR 572

Query: 417 EKDAILRRSGMYTIAMAYCVSYLYFDLFSDLTYRIVKNRSGMYTIAMAYCGSGSNVATKR 476
           +KD ILRRSGM                               YT+AMAYCGSG+N A +R
Sbjct: 573 DKDPILRRSGM-------------------------------YTVAMAYCGSGNNKAIRR 601

Query: 477 LLHVAVSDVNDDVRREAVTALGFILFRTLFYVAPACTRSPWPGVISLLDD 526
           LLHVAVSDVNDDVRR AV +LGFILFRT       C     P V+SLL +
Sbjct: 602 LLHVAVSDVNDDVRRAAVESLGFILFRT----PEQC-----PSVVSLLSE 642

Acts as a regulatory subunit of the 26 proteasome which is involved in the ATP-dependent degradation of ubiquitinated proteins.

Rattus norvegicus (taxid: 10116)

>sp|Q54JM5|PSMD1_DICDI 26S proteasome non-ATPase regulatory subunit 1 OS=Dictyostelium discoideum GN=psmD1 PE=1 SV=1

 Score =  326 bits (836), Expect = 5e-88,   Method: Compositional matrix adjust.
 Identities = 195/508 (38%), Positives = 279/508 (54%), Gaps = 94/508 (18%)

Query: 30  RVHSALKSCVPWCLAMSSIQSRSFRAQILRTLVRLYHSLSVPDYVNMAQCWIYLDDPRSV 89
            V+S L  C+  C    S+ +R FR  +L  LV L+ +   PDY+++ QC I+LD+   V
Sbjct: 170 NVNSMLSYCLHICNV--SVNNRHFRHSVLGILVNLHLAQEKPDYLSVVQCLIFLDNHIEV 227

Query: 90  ANLLGKLVAGSADDDLMAAQIGFDLYESATQAFLASVLQELKTCAPIPDATHVVVKVPVE 149
           A +L  L+    +  L+A QIGFDL++++TQ FL +V   L           V  K    
Sbjct: 228 ATILLSLIKKDEESLLLAYQIGFDLFQNSTQQFLLNVRNRLPP---------VEKKSTTT 278

Query: 150 GAPTPATPDTEAPTPAPGTESGPSSTTPGPETKTLESLNEKEKQLQARITKLSKILSGEV 209
              TPA+   E    +   +SG SS+                   + R+ +L  IL G+V
Sbjct: 279 TTTTPASDSMEIDIDSGNEKSGGSSS------------------FEQRLERLHSILIGDV 320

Query: 210 SIDLHLQFLIRSNKTDMLIL---KNTKESIRVSICHTATIIANAFMHSGTTSDQFLRDNL 266
           SI ++L+FL R+  TDM IL   K T E  + +I ++ T+ ANA MH+GTT D FLR N+
Sbjct: 321 SIGMNLEFLYRNCSTDMHILQSMKTTSELHKGAIFYSGTLFANALMHAGTTRDTFLRSNI 380

Query: 267 EWLARATNWAKLTATASLGVIHRGHETEALAHMQSYLPRETGPTSGYYEGGGLYALGLIH 326
           EWL ++T+W K +A +SLGVI++GH  E+ + +++YLP  +   + Y E G LYALGLIH
Sbjct: 381 EWLYKSTHWTKFSAISSLGVINKGHIKESKSLLKTYLPGASVNQTPYSESGSLYALGLIH 440

Query: 327 ANHGAVINDYLLGQV-------------------------------KDATNEDDAVTGEA 355
           A+HG  I DYL+ ++                               K     DDAV+GEA
Sbjct: 441 ASHGEEIIDYLVEKLHINNAILHHGASLGLGLAAMATGRDDLYEDLKSVLYNDDAVSGEA 500

Query: 356 AGIAMGLVLLGSKSESAIQDMVAYAKETQHEKILRGLAVGISFIMYGQLENADDLVRDLC 415
           AG+AMGLV+LGS ++ AI++M+AYA ETQHEK +R L++G++F+MYG+ E+AD L+  + 
Sbjct: 501 AGLAMGLVMLGSGAKKAIEEMLAYAHETQHEKTIRSLSMGLAFLMYGKEESADTLIEQMI 560

Query: 416 EEKDAILRRSGMYTIAMAYCVSYLYFDLFSDLTYRIVKNRSGMYTIAMAYCGSGSNVATK 475
            +KD ++R  GMY IA                                AYCG+G N A +
Sbjct: 561 GDKDPLIRYGGMYAIA-------------------------------FAYCGTGHNDALR 589

Query: 476 RLLHVAVSDVNDDVRREAVTALGFILFR 503
           +LLHVAVSD  D VRR AVT +GF+L R
Sbjct: 590 KLLHVAVSDGTDSVRRAAVTCIGFVLSR 617

Acts as a regulatory subunit of the 26 proteasome which is involved in the ATP-dependent degradation of ubiquitinated proteins.

Dictyostelium discoideum (taxid: 44689)

>sp|O74762|RPN2_SCHPO 26S proteasome regulatory subunit rpn2 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=rpn2 PE=1 SV=1

 Score =  307 bits (786), Expect = 3e-82,   Method: Compositional matrix adjust.
 Identities = 158/335 (47%), Positives = 222/335 (66%), Gaps = 33/335 (9%)

Query: 565 KILSGEVSIDLHLQFLIRSNKTDMLILKNTKESI--RVSICHTATIIANAFMHSGTTSDQ 622
           +ILSGE ++    +FL   N TDMLIL  TK+S+  R S+ H A   ANAFM+ GT+SD 
Sbjct: 307 RILSGEQTVKYDREFLYAHNNTDMLILNRTKDSLEARNSVFHNAVTFANAFMNFGTSSDS 366

Query: 623 FLRDNLEWLARATNWAKLTATASLGVIHRGHETEALAHMQSYLPRETGPTSGYY-EGGGL 681
           F RDNL WL++A NW+K TATA+LGVIHRG+  +A+  ++ YLP E  P+S  Y EGG  
Sbjct: 367 FFRDNLSWLSKANNWSKFTATAALGVIHRGYYNQAMNILRPYLPEEDAPSSSTYSEGGAF 426

Query: 682 YALGLIHANHGAVINDYLLGQVKDATNEMVRHGGCLGLGLAAMGSARDDIYEQLKFNLYQ 741
           YA+GLIHANHG  + +YL  Q+K   +E+V++G  LG+GL  M S  + +YE +K  L+ 
Sbjct: 427 YAMGLIHANHGRGVTEYLREQLKHTEDEIVQYGLLLGIGLTGMASRDETLYESVKTILFN 486

Query: 742 DDAVTGEAAGIAMGLVLLGSKSESAIQDMVAYAKETQHEKILRGLAVGISFIMYGQLENA 801
           D+AV G AAGI+MGL++LG+ S +AI +M+ YA ETQHEKI+RGL +GI+ I+YG+ + A
Sbjct: 487 DNAVAGSAAGISMGLIMLGTASSAAIDEMLQYAHETQHEKIIRGLGIGIALIVYGRQQEA 546

Query: 802 DDLVRDLCEEKDAILRRSGMYTIAMAYCGSGSNVATKRLLHDAILRRSGMYTIAMAYCGS 861
           D ++++L  + D  LR +GM+  A+AYCG+ ++    +++ D                  
Sbjct: 547 DGIIKELNNDLDPTLRYAGMFATALAYCGTSNS----KIVRD------------------ 584

Query: 862 GSNVATKRLLHVAVSDVNDDVRREAVTALGFILFR 896
                   +LH++VSDVNDDVRR AV ALGFI F+
Sbjct: 585 --------VLHISVSDVNDDVRRAAVCALGFICFK 611

Acts as a regulatory subunit of the 26S proteasome which is involved in the ATP-dependent degradation of ubiquitinated proteins.

Schizosaccharomyces pombe (strain 972 / ATCC 24843) (taxid: 284812)

>sp|P32565|RPN2_YEAST 26S proteasome regulatory subunit RPN2 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=RPN2 PE=1 SV=4

 Score =  285 bits (729), Expect = 1e-75,   Method: Compositional matrix adjust.
 Identities = 177/449 (39%), Positives = 243/449 (54%), Gaps = 61/449 (13%)

Query: 477 LLHVAVSDVNDDVRREAVTALGFILFRTLFYVAPACTRSPWPGVISLLDDPMIELKEFS- 535
           LL +A++ V +   R ++    F     +    P C       V+  L+D  + L+ F  
Sbjct: 189 LLTLAITTVTNSKFRSSILRKSFDFLMNM----PNCDYLTLNKVVVNLNDAGLALQLFKK 244

Query: 536 LKKLND------IVDDFWPENEKEKQLQARITKLS---------KILSGEVSIDLHLQFL 580
           LK+ ND      I  D    +  ++ L+  +T+L+          ILSG  + D +  FL
Sbjct: 245 LKEENDEGLSAQIAFDLV-SSASQQLLEILVTELTAQGYDPALLNILSGLPTCDYYNTFL 303

Query: 581 IRSNKTDMLILKNTKESI--RVSICHTATIIANAFMHSGTTSDQFLRDNLEWLARATNWA 638
           + +   D+ +L  +K S+  + S+ HTA  +AN FMH+GTT + F++ NL WL +A NWA
Sbjct: 304 LNNKNIDIGLLNKSKSSLDGKFSLFHTAVSVANGFMHAGTTDNSFIKANLPWLGKAQNWA 363

Query: 639 KLTATASLGVIHRGHETEALAHMQSYLPRETGPTSGYYEGGGLYALGLIHANHGAVINDY 698
           K TATASLGVIH+G+  E    M  YLP     +S + +GG LY LGLI+A  G    DY
Sbjct: 364 KFTATASLGVIHKGNLLEGKKVMAPYLPGSRA-SSRFIKGGSLYGLGLIYAGFGRDTTDY 422

Query: 699 L-------LGQVKDATNEMVRHGGCLGLGLAAMGSARDDIYEQLKFNLYQDDAVTGEAAG 751
           L        G   D   +++ HG  LG+GLAAMGSA  ++YE LK  LY D A +GEAA 
Sbjct: 423 LKNIIVENSGTSGDEDVDVLLHGASLGIGLAAMGSANIEVYEALKEVLYNDSATSGEAAA 482

Query: 752 IAMGLVLLGSKSESAIQDMVAYAKETQHEKILRGLAVGISFIMYGQLENADDLVRDLCEE 811
           + MGL +LG+    AI DM  Y++ETQH  I RGLAVG++ I YG+ E ADDL+  +   
Sbjct: 483 LGMGLCMLGTGKPEAIHDMFTYSQETQHGNITRGLAVGLALINYGRQELADDLITKMLAS 542

Query: 812 KDAILRRSGMYTIAMAYCGSGSNVATKRLLHDAILRRSGMYTIAMAYCGSGSNVATKRLL 871
            +++LR  G +TIA+AY G+G+N A KR                              LL
Sbjct: 543 DESLLRYGGAFTIALAYAGTGNNSAVKR------------------------------LL 572

Query: 872 HVAVSDVNDDVRREAVTALGFILFRKKRT 900
           HVAVSD NDDVRR AV ALGF+L R   T
Sbjct: 573 HVAVSDSNDDVRRAAVIALGFVLLRDYTT 601

Acts as a regulatory subunit of the 26S proteasome which is involved in the ATP-dependent degradation of ubiquitinated proteins.

Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (taxid: 559292)

>sp|Q6FIP2|RPN2_CANGA 26S proteasome regulatory subunit RPN2 OS=Candida glabrata (strain ATCC 2001 / CBS 138 / JCM 3761 / NBRC 0622 / NRRL Y-65) GN=RPN2 PE=3 SV=1

 Score =  266 bits (680), Expect = 6e-70,   Method: Compositional matrix adjust.
 Identities = 143/347 (41%), Positives = 206/347 (59%), Gaps = 40/347 (11%)

Query: 563 LSKILSGEVSIDLHLQFLIRSNKTDMLILKNTKESI--RVSICHTATIIANAFMHSGTTS 620
           L +IL+G  + D +  FL+     D+ +L  +K S+  + S+ HTA  ++N +MH+GTT 
Sbjct: 283 LLEILTGIPTCDYYNTFLLNKKNIDISLLNKSKSSLDGKFSLFHTAVSVSNGYMHAGTTD 342

Query: 621 DQFLRDNLEWLARATNWAKLTATASLGVIHRGHETEALAHMQSYLPRETGPTSGYYEGGG 680
           + F++ NL WL +A NWAK +ATASLGVIH+G+  +    M  YLP  +  +S + +GG 
Sbjct: 343 NSFIKANLSWLGKAQNWAKFSATASLGVIHKGNLIDGKKVMAPYLPG-SRSSSRFIKGGS 401

Query: 681 LYALGLIHANHGAVINDYL-------LGQVKDATNEMVRHGGCLGLGLAAMGSARDDIYE 733
           LY LGLI+A  G  I DYL        G   D   +++ HG  LG+GLAAMG+A +++YE
Sbjct: 402 LYGLGLIYAGFGRDIVDYLKTHLIENSGTTGDEDVDVLLHGASLGVGLAAMGTANNEVYE 461

Query: 734 QLKFNLYQDDAVTGEAAGIAMGLVLLGSKSESAIQDMVAYAKETQHEKILRGLAVGISFI 793
            LK  LY D A +GEAA   +GL LLG+  E+AI D+  YA+ET H  I RGL++ ++ I
Sbjct: 462 ALKDVLYNDVATSGEAAAFGIGLTLLGTGDETAINDLFTYAQETSHGNITRGLSMALALI 521

Query: 794 MYGQLENADDLVRDLCEEKDAILRRSGMYTIAMAYCGSGSNVATKRLLHDAILRRSGMYT 853
            YG+ E AD+L+  +   +++++R  G ++IA+AY G+G+N   K               
Sbjct: 522 NYGRQEQADELIDKMLASENSLIRYGGAFSIALAYVGTGNNKVVK--------------- 566

Query: 854 IAMAYCGSGSNVATKRLLHVAVSDVNDDVRREAVTALGFILFRKKRT 900
                          +LLH+AVSD NDDVRR AVTALGF+L R   T
Sbjct: 567 ---------------KLLHLAVSDSNDDVRRAAVTALGFVLLRDYTT 598

Acts as a regulatory subunit of the 26S proteasome which is involved in the ATP-dependent degradation of ubiquitinated proteins.

Candida glabrata (strain ATCC 2001 / CBS 138 / JCM 3761 / NBRC 0622 / NRRL Y-65) (taxid: 284593)

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	988
340719996	1011	PREDICTED: 26S proteasome non-ATPase reg	0.468	0.457	0.577	1e-166
350408109	1014	PREDICTED: 26S proteasome non-ATPase reg	0.466	0.454	0.579	1e-166
350408115	938	PREDICTED: 26S proteasome non-ATPase reg	0.466	0.491	0.579	1e-166
307200649	648	26S proteasome non-ATPase regulatory sub	0.453	0.691	0.592	1e-165
383862447	643	PREDICTED: 26S proteasome non-ATPase reg	0.452	0.695	0.581	1e-164
383862449	570	PREDICTED: 26S proteasome non-ATPase reg	0.452	0.784	0.581	1e-164
380029242	1000	PREDICTED: 26S proteasome non-ATPase reg	0.464	0.459	0.579	1e-164
380029240	932	PREDICTED: 26S proteasome non-ATPase reg	0.464	0.492	0.579	1e-164
380029238	1015	PREDICTED: 26S proteasome non-ATPase reg	0.464	0.452	0.579	1e-164
156538116	1008	PREDICTED: 26S proteasome non-ATPase reg	0.470	0.461	0.564	1e-163

>gi|340719996|ref|XP_003398430.1| PREDICTED: 26S proteasome non-ATPase regulatory subunit 1-like [Bombus terrestris]

 Score =  593 bits (1530), Expect = e-166,   Method: Compositional matrix adjust.
 Identities = 323/559 (57%), Positives = 369/559 (66%), Gaps = 96/559 (17%)

Query: 1   MDVFEAAIKQMTPPRSFTTRSRWPCPPFSRVHSALKSCVPWCLAMSSIQSRSFRAQILRT 60
           MD+FE AI Q        + +                   + + MS IQ+R FR  +LR 
Sbjct: 162 MDIFETAIMQSDDVSGMLSYA-------------------FQVVMSLIQNRGFRNTVLRC 202

Query: 61  LVRLYHSLSVPDYVNMAQCWIYLDDPRSVANLLGKLVAGSADDDLMAAQIGFDLYESATQ 120
           LV LY +L  PDYVNM QC I+LDDP +VA LL +L  GS D  LMA QI FDLYESATQ
Sbjct: 203 LVSLYRNLGTPDYVNMCQCLIFLDDPLAVAELLDRLSKGSQDCVLMAYQIAFDLYESATQ 262

Query: 121 AFLASVLQELKTCAPIPDATHVVVKVPVEGAPTPATPDTEAPTPAPGTESGPSSTTPGPE 180
            FL  VLQ L+  APIP A  ++VK  V+ A    T  +  P  A   E+  SS+TP PE
Sbjct: 263 QFLGRVLQALRATAPIPGA--LMVKPIVKPAVKATTEVSTEPAAATTAETENSSSTPAPE 320

Query: 181 TKT---LESLNEKEKQLQARITKLSKILSGEVSIDLHLQFLIRSNKTDMLILKNTKESIR 237
            K+   +ESLN +E++ Q R+  LS IL GE+SIDLHLQFLIRSN TDMLILKNTK++IR
Sbjct: 321 EKSQRSVESLNAEEREQQERVDALSSILGGEISIDLHLQFLIRSNHTDMLILKNTKDTIR 380

Query: 238 VSICHTATIIANAFMHSGTTSDQFLRDNLEWLARATNWAKLTATASLGVIHRGHETEALA 297
           VSICHTAT+IANA+MHSGTTSDQFLRDNLEWLARATNWAKLTATASLGVIHRGHE EALA
Sbjct: 381 VSICHTATVIANAYMHSGTTSDQFLRDNLEWLARATNWAKLTATASLGVIHRGHEQEALA 440

Query: 298 HMQSYLPRETGPTSGYYEGGGLYALGLIHANHGAVINDYLLGQVKDATNE---------- 347
            MQSYLPR+TG  +GY EGGGLYALGLIHANHGA I DYLLGQ+KDA NE          
Sbjct: 441 LMQSYLPRDTGAGAGYSEGGGLYALGLIHANHGAAITDYLLGQLKDAQNEMVRHGGCLGL 500

Query: 348 ----------------------DDAVTGEAAGIAMGLVLLGSKSESAIQDMVAYAKETQH 385
                                 DDAVTGEAAGIAMG+V+LGSKS  AI+DMVAYA+ETQH
Sbjct: 501 GLAAMGSHRQDVYEQLKFNLYQDDAVTGEAAGIAMGMVMLGSKSTQAIEDMVAYAQETQH 560

Query: 386 EKILRGLAVGISFIMYGQLENADDLVRDLCEEKDAILRRSGMYTIAMAYCVSYLYFDLFS 445
           EKILRGLAVGI+F MYG+LE AD LV  LC +KD ILRRSGM                  
Sbjct: 561 EKILRGLAVGIAFTMYGRLEEADPLVASLCADKDPILRRSGM------------------ 602

Query: 446 DLTYRIVKNRSGMYTIAMAYCGSGSNVATKRLLHVAVSDVNDDVRREAVTALGFILFRTL 505
                        YT+AMAYCG+G+N A ++LLHVAVSDVNDDVRR AVT LGF+LFRT 
Sbjct: 603 -------------YTLAMAYCGTGNNQAIRKLLHVAVSDVNDDVRRAAVTGLGFLLFRT- 648

Query: 506 FYVAPACTRSPWPGVISLL 524
                 C     P V+SLL
Sbjct: 649 ---PEQC-----PSVVSLL 659

Source: Bombus terrestris

Species: Bombus terrestris

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|350408109|ref|XP_003488307.1| PREDICTED: 26S proteasome non-ATPase regulatory subunit 1-like isoform 1 [Bombus impatiens]

 Score =  592 bits (1525), Expect = e-166,   Method: Compositional matrix adjust.
 Identities = 325/561 (57%), Positives = 371/561 (66%), Gaps = 100/561 (17%)

Query: 1   MDVFEAAIKQMTPPRSFTTRSRWPCPPFSRVHSALKSCVPWCLAMSSIQSRSFRAQILRT 60
           MD+FE AI Q        + +                   + + MS IQ+R FR  +LR 
Sbjct: 162 MDIFETAIMQSDDVSGMLSYA-------------------FQVVMSLIQNRGFRNTVLRC 202

Query: 61  LVRLYHSLSVPDYVNMAQCWIYLDDPRSVANLLGKLVAGSADDDLMAAQIGFDLYESATQ 120
           LV LY +L  PDYVNM QC I+LDDP +VA LL +L  GS D  LMA QI FDLYESATQ
Sbjct: 203 LVSLYRNLGTPDYVNMCQCLIFLDDPLAVAELLDRLSKGSQDCVLMAYQIAFDLYESATQ 262

Query: 121 AFLASVLQELKTCAPIPDATHV--VVKVPVEGAPTPATPDTEAPTPAPGTESGPSSTTPG 178
            FL  VLQ L+  APIP A  V  +VK P   A T  + ++ A T A   E+  SS+TP 
Sbjct: 263 QFLGRVLQALRATAPIPGALMVKPIVK-PAVKATTEVSTESAAATTA---ETENSSSTPA 318

Query: 179 PETKT---LESLNEKEKQLQARITKLSKILSGEVSIDLHLQFLIRSNKTDMLILKNTKES 235
           PE K+   +ESLN +E++ Q R+  LS IL GE+SIDLHLQFLIRSN TDMLILKNTK++
Sbjct: 319 PEEKSQRSVESLNAEEREQQERVDALSSILGGEISIDLHLQFLIRSNHTDMLILKNTKDT 378

Query: 236 IRVSICHTATIIANAFMHSGTTSDQFLRDNLEWLARATNWAKLTATASLGVIHRGHETEA 295
           IRVSICHTAT+IANA+MHSGTTSDQFLRDNLEWLARATNWAKLTATASLGVIHRGHE EA
Sbjct: 379 IRVSICHTATVIANAYMHSGTTSDQFLRDNLEWLARATNWAKLTATASLGVIHRGHEQEA 438

Query: 296 LAHMQSYLPRETGPTSGYYEGGGLYALGLIHANHGAVINDYLLGQVKDATNE-------- 347
           LA MQSYLPR+TG  +GY EGGGLYALGLIHANHGA I DYLLGQ+KDA NE        
Sbjct: 439 LALMQSYLPRDTGAGAGYSEGGGLYALGLIHANHGAAITDYLLGQLKDAQNEMVRHGGCL 498

Query: 348 ------------------------DDAVTGEAAGIAMGLVLLGSKSESAIQDMVAYAKET 383
                                   DDAVTGEAAGIAMG+V+LGSKS  AI+DMVAYA+ET
Sbjct: 499 GLGLAAMGSHRQDVYEQLKFNLYQDDAVTGEAAGIAMGMVMLGSKSTQAIEDMVAYAQET 558

Query: 384 QHEKILRGLAVGISFIMYGQLENADDLVRDLCEEKDAILRRSGMYTIAMAYCVSYLYFDL 443
           QHEKILRGLAVGI+F MYG+LE AD LV  LC +KD ILRRSGM                
Sbjct: 559 QHEKILRGLAVGIAFTMYGRLEEADPLVASLCADKDPILRRSGM---------------- 602

Query: 444 FSDLTYRIVKNRSGMYTIAMAYCGSGSNVATKRLLHVAVSDVNDDVRREAVTALGFILFR 503
                          YT+AMAYCG+G+N A ++LLHVAVSDVNDDVRR AVT LGF+LFR
Sbjct: 603 ---------------YTLAMAYCGTGNNQAIRKLLHVAVSDVNDDVRRAAVTGLGFLLFR 647

Query: 504 TLFYVAPACTRSPWPGVISLL 524
           T       C     P V+SLL
Sbjct: 648 T----PEQC-----PSVVSLL 659

Source: Bombus impatiens

Species: Bombus impatiens

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|350408115|ref|XP_003488308.1| PREDICTED: 26S proteasome non-ATPase regulatory subunit 1-like isoform 2 [Bombus impatiens]

 Score =  592 bits (1525), Expect = e-166,   Method: Compositional matrix adjust.
 Identities = 325/561 (57%), Positives = 371/561 (66%), Gaps = 100/561 (17%)

Query: 1   MDVFEAAIKQMTPPRSFTTRSRWPCPPFSRVHSALKSCVPWCLAMSSIQSRSFRAQILRT 60
           MD+FE AI Q        + +                   + + MS IQ+R FR  +LR 
Sbjct: 86  MDIFETAIMQSDDVSGMLSYA-------------------FQVVMSLIQNRGFRNTVLRC 126

Query: 61  LVRLYHSLSVPDYVNMAQCWIYLDDPRSVANLLGKLVAGSADDDLMAAQIGFDLYESATQ 120
           LV LY +L  PDYVNM QC I+LDDP +VA LL +L  GS D  LMA QI FDLYESATQ
Sbjct: 127 LVSLYRNLGTPDYVNMCQCLIFLDDPLAVAELLDRLSKGSQDCVLMAYQIAFDLYESATQ 186

Query: 121 AFLASVLQELKTCAPIPDATHV--VVKVPVEGAPTPATPDTEAPTPAPGTESGPSSTTPG 178
            FL  VLQ L+  APIP A  V  +VK P   A T  + ++ A T A   E+  SS+TP 
Sbjct: 187 QFLGRVLQALRATAPIPGALMVKPIVK-PAVKATTEVSTESAAATTA---ETENSSSTPA 242

Query: 179 PETKT---LESLNEKEKQLQARITKLSKILSGEVSIDLHLQFLIRSNKTDMLILKNTKES 235
           PE K+   +ESLN +E++ Q R+  LS IL GE+SIDLHLQFLIRSN TDMLILKNTK++
Sbjct: 243 PEEKSQRSVESLNAEEREQQERVDALSSILGGEISIDLHLQFLIRSNHTDMLILKNTKDT 302

Query: 236 IRVSICHTATIIANAFMHSGTTSDQFLRDNLEWLARATNWAKLTATASLGVIHRGHETEA 295
           IRVSICHTAT+IANA+MHSGTTSDQFLRDNLEWLARATNWAKLTATASLGVIHRGHE EA
Sbjct: 303 IRVSICHTATVIANAYMHSGTTSDQFLRDNLEWLARATNWAKLTATASLGVIHRGHEQEA 362

Query: 296 LAHMQSYLPRETGPTSGYYEGGGLYALGLIHANHGAVINDYLLGQVKDATNE-------- 347
           LA MQSYLPR+TG  +GY EGGGLYALGLIHANHGA I DYLLGQ+KDA NE        
Sbjct: 363 LALMQSYLPRDTGAGAGYSEGGGLYALGLIHANHGAAITDYLLGQLKDAQNEMVRHGGCL 422

Query: 348 ------------------------DDAVTGEAAGIAMGLVLLGSKSESAIQDMVAYAKET 383
                                   DDAVTGEAAGIAMG+V+LGSKS  AI+DMVAYA+ET
Sbjct: 423 GLGLAAMGSHRQDVYEQLKFNLYQDDAVTGEAAGIAMGMVMLGSKSTQAIEDMVAYAQET 482

Query: 384 QHEKILRGLAVGISFIMYGQLENADDLVRDLCEEKDAILRRSGMYTIAMAYCVSYLYFDL 443
           QHEKILRGLAVGI+F MYG+LE AD LV  LC +KD ILRRSGM                
Sbjct: 483 QHEKILRGLAVGIAFTMYGRLEEADPLVASLCADKDPILRRSGM---------------- 526

Query: 444 FSDLTYRIVKNRSGMYTIAMAYCGSGSNVATKRLLHVAVSDVNDDVRREAVTALGFILFR 503
                          YT+AMAYCG+G+N A ++LLHVAVSDVNDDVRR AVT LGF+LFR
Sbjct: 527 ---------------YTLAMAYCGTGNNQAIRKLLHVAVSDVNDDVRRAAVTGLGFLLFR 571

Query: 504 TLFYVAPACTRSPWPGVISLL 524
           T       C     P V+SLL
Sbjct: 572 T----PEQC-----PSVVSLL 583

Source: Bombus impatiens

Species: Bombus impatiens

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307200649|gb|EFN80757.1| 26S proteasome non-ATPase regulatory subunit 1 [Harpegnathos saltator]

 Score =  588 bits (1517), Expect = e-165,   Method: Compositional matrix adjust.
 Identities = 321/542 (59%), Positives = 365/542 (67%), Gaps = 94/542 (17%)

Query: 1   MDVFEAAIKQMTPPRSFTTRSRWPCPPFSRVHSALKSCVPWCLAMSSIQSRSFRAQILRT 60
           MDVFEAAI Q        + +                   + +AMS IQ+R FR  +LR 
Sbjct: 162 MDVFEAAIMQSDDVSGMLSYA-------------------FQVAMSLIQNRGFRNTVLRC 202

Query: 61  LVRLYHSLSVPDYVNMAQCWIYLDDPRSVANLLGKLVAGSADDDLMAAQIGFDLYESATQ 120
           LV LY +L  PDYVNM QC I+LDDP +VA LL +L  GS D  LMA QI FDLYESATQ
Sbjct: 203 LVSLYRNLGTPDYVNMCQCLIFLDDPLAVAELLDRLSKGSQDCVLMAYQIAFDLYESATQ 262

Query: 121 AFLASVLQELKTCAPIPDATHVVVKVPVEGAPTPATPDTEAPTPAPGTESGP----SSTT 176
            FL  VLQ L+  APIP A  ++VK  V+ A T  T +T+   P   TES      SSTT
Sbjct: 263 QFLGRVLQALRATAPIPGA--LMVKPVVKPAATTVTANTK---PVEATESASIETDSSTT 317

Query: 177 PGPE--TKTLESLNEKEKQLQARITKLSKILSGEVSIDLHLQFLIRSNKTDMLILKNTKE 234
           P  +   +++ESLN +E++ Q R+  LS IL GEVSIDLHLQFLIRSN TDMLILKNTK+
Sbjct: 318 PAEDKTERSVESLNAEEREQQERVDALSSILGGEVSIDLHLQFLIRSNHTDMLILKNTKD 377

Query: 235 SIRVSICHTATIIANAFMHSGTTSDQFLRDNLEWLARATNWAKLTATASLGVIHRGHETE 294
           +IRVSICHTAT+IANAFMHSGTTSDQFLRDNLEWLARATNWAKLTATASLGVIHRGHE E
Sbjct: 378 AIRVSICHTATVIANAFMHSGTTSDQFLRDNLEWLARATNWAKLTATASLGVIHRGHEQE 437

Query: 295 ALAHMQSYLPRETGPT-SGYYEGGGLYALGLIHANHGAVINDYLLGQVKDATNE------ 347
           ALA MQSYLPR++G   +GY EGGGLYALGLIHANHGA I DYLLGQ+KDA NE      
Sbjct: 438 ALALMQSYLPRDSGAAGAGYSEGGGLYALGLIHANHGAAITDYLLGQLKDAQNEMVRHGG 497

Query: 348 --------------------------DDAVTGEAAGIAMGLVLLGSKSESAIQDMVAYAK 381
                                     DDAVTGEAAGIAMG+V+LGSKS  AI+DMVAYA+
Sbjct: 498 CLGLGLAAMGSHRQDVYEQLKFNLYQDDAVTGEAAGIAMGMVMLGSKSTQAIEDMVAYAQ 557

Query: 382 ETQHEKILRGLAVGISFIMYGQLENADDLVRDLCEEKDAILRRSGMYTIAMAYCVSYLYF 441
           ETQHEKILRGLAVGI+F MYG+LE AD LV  LC +KD ILRRSGM              
Sbjct: 558 ETQHEKILRGLAVGIAFTMYGRLEEADPLVTSLCADKDPILRRSGM-------------- 603

Query: 442 DLFSDLTYRIVKNRSGMYTIAMAYCGSGSNVATKRLLHVAVSDVNDDVRREAVTALGFIL 501
                            YT+AMAYCG+G+N A ++LLHVAVSDVNDDVRR AVT LGF+L
Sbjct: 604 -----------------YTLAMAYCGTGNNQAIRKLLHVAVSDVNDDVRRAAVTGLGFLL 646

Query: 502 FR 503
           FR
Sbjct: 647 FR 648

Source: Harpegnathos saltator

Species: Harpegnathos saltator

Genus: Harpegnathos

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|383862447|ref|XP_003706695.1| PREDICTED: 26S proteasome non-ATPase regulatory subunit 1-like isoform 1 [Megachile rotundata]

 Score =  587 bits (1513), Expect = e-164,   Method: Compositional matrix adjust.
 Identities = 313/538 (58%), Positives = 360/538 (66%), Gaps = 91/538 (16%)

Query: 1   MDVFEAAIKQMTPPRSFTTRSRWPCPPFSRVHSALKSCVPWCLAMSSIQSRSFRAQILRT 60
           MD+FEAAI Q     S  + +                   + + MS IQ+R FR  +LR 
Sbjct: 162 MDIFEAAIMQSEDVSSMLSYA-------------------FQVVMSLIQNRGFRNTVLRC 202

Query: 61  LVRLYHSLSVPDYVNMAQCWIYLDDPRSVANLLGKLVAGSADDDLMAAQIGFDLYESATQ 120
           LV LY +L  PDYVNM QC I+LDDP +VA LL +L  GS D  LMA QI FDLYESATQ
Sbjct: 203 LVSLYRNLGTPDYVNMCQCLIFLDDPLAVAELLDRLSKGSQDCVLMAYQIAFDLYESATQ 262

Query: 121 AFLASVLQELKTCAPIPDATHVVVKVPVEGAPTPATPDTEAPTPAPGTESGPSSTTPGPE 180
            FL  VLQ L+  APIP A  ++VK  V+    PA   +          + P ++TP PE
Sbjct: 263 QFLGRVLQALRATAPIPGA--LIVKPIVK----PAVKASTNENSESSKTAEPENSTPAPE 316

Query: 181 TKT---LESLNEKEKQLQARITKLSKILSGEVSIDLHLQFLIRSNKTDMLILKNTKESIR 237
            K+   +ESLN +E++ Q R+  LS IL GE+SIDLHLQFLIRSN TDMLILKNTK++IR
Sbjct: 317 EKSQRSVESLNAEEREQQERVDALSSILGGEISIDLHLQFLIRSNHTDMLILKNTKDAIR 376

Query: 238 VSICHTATIIANAFMHSGTTSDQFLRDNLEWLARATNWAKLTATASLGVIHRGHETEALA 297
           VSICHTAT+IANA+MHSGTTSDQFLRDNLEWLARATNWAKLTATASLGVIHRGHE EALA
Sbjct: 377 VSICHTATVIANAYMHSGTTSDQFLRDNLEWLARATNWAKLTATASLGVIHRGHEQEALA 436

Query: 298 HMQSYLPRETGPTSGYYEGGGLYALGLIHANHGAVINDYLLGQVKDATNE---------- 347
            MQSYLPR+TG  +GY EGGGLYALGLIHANHGA I DYLLGQ+KDA NE          
Sbjct: 437 LMQSYLPRDTGAGAGYSEGGGLYALGLIHANHGAAITDYLLGQLKDAQNEMVRHGGCLGL 496

Query: 348 ----------------------DDAVTGEAAGIAMGLVLLGSKSESAIQDMVAYAKETQH 385
                                 DDA+TGEAAGIAMG+V+LGSKS  AI+DMVAYA+ETQH
Sbjct: 497 GLAAMGSHRQDVYEQLKFNLYQDDAITGEAAGIAMGMVMLGSKSTQAIEDMVAYAQETQH 556

Query: 386 EKILRGLAVGISFIMYGQLENADDLVRDLCEEKDAILRRSGMYTIAMAYCVSYLYFDLFS 445
           EKILRGLAVGI+F MYG+LE AD LV  LC +KD ILRRSGM                  
Sbjct: 557 EKILRGLAVGIAFTMYGRLEEADPLVTSLCADKDPILRRSGM------------------ 598

Query: 446 DLTYRIVKNRSGMYTIAMAYCGSGSNVATKRLLHVAVSDVNDDVRREAVTALGFILFR 503
                        YT+AMAYCG+G+N A ++LLHVAVSDVNDDVRR AVT LGF+LFR
Sbjct: 599 -------------YTLAMAYCGTGNNQAIRKLLHVAVSDVNDDVRRAAVTGLGFLLFR 643

Source: Megachile rotundata

Species: Megachile rotundata

Genus: Megachile

Family: Megachilidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|383862449|ref|XP_003706696.1| PREDICTED: 26S proteasome non-ATPase regulatory subunit 1-like isoform 2 [Megachile rotundata]

 Score =  587 bits (1513), Expect = e-164,   Method: Compositional matrix adjust.
 Identities = 313/538 (58%), Positives = 360/538 (66%), Gaps = 91/538 (16%)

Query: 1   MDVFEAAIKQMTPPRSFTTRSRWPCPPFSRVHSALKSCVPWCLAMSSIQSRSFRAQILRT 60
           MD+FEAAI Q     S  + +                   + + MS IQ+R FR  +LR 
Sbjct: 89  MDIFEAAIMQSEDVSSMLSYA-------------------FQVVMSLIQNRGFRNTVLRC 129

Query: 61  LVRLYHSLSVPDYVNMAQCWIYLDDPRSVANLLGKLVAGSADDDLMAAQIGFDLYESATQ 120
           LV LY +L  PDYVNM QC I+LDDP +VA LL +L  GS D  LMA QI FDLYESATQ
Sbjct: 130 LVSLYRNLGTPDYVNMCQCLIFLDDPLAVAELLDRLSKGSQDCVLMAYQIAFDLYESATQ 189

Query: 121 AFLASVLQELKTCAPIPDATHVVVKVPVEGAPTPATPDTEAPTPAPGTESGPSSTTPGPE 180
            FL  VLQ L+  APIP A  ++VK  V+    PA   +          + P ++TP PE
Sbjct: 190 QFLGRVLQALRATAPIPGA--LIVKPIVK----PAVKASTNENSESSKTAEPENSTPAPE 243

Query: 181 TKT---LESLNEKEKQLQARITKLSKILSGEVSIDLHLQFLIRSNKTDMLILKNTKESIR 237
            K+   +ESLN +E++ Q R+  LS IL GE+SIDLHLQFLIRSN TDMLILKNTK++IR
Sbjct: 244 EKSQRSVESLNAEEREQQERVDALSSILGGEISIDLHLQFLIRSNHTDMLILKNTKDAIR 303

Query: 238 VSICHTATIIANAFMHSGTTSDQFLRDNLEWLARATNWAKLTATASLGVIHRGHETEALA 297
           VSICHTAT+IANA+MHSGTTSDQFLRDNLEWLARATNWAKLTATASLGVIHRGHE EALA
Sbjct: 304 VSICHTATVIANAYMHSGTTSDQFLRDNLEWLARATNWAKLTATASLGVIHRGHEQEALA 363

Query: 298 HMQSYLPRETGPTSGYYEGGGLYALGLIHANHGAVINDYLLGQVKDATNE---------- 347
            MQSYLPR+TG  +GY EGGGLYALGLIHANHGA I DYLLGQ+KDA NE          
Sbjct: 364 LMQSYLPRDTGAGAGYSEGGGLYALGLIHANHGAAITDYLLGQLKDAQNEMVRHGGCLGL 423

Query: 348 ----------------------DDAVTGEAAGIAMGLVLLGSKSESAIQDMVAYAKETQH 385
                                 DDA+TGEAAGIAMG+V+LGSKS  AI+DMVAYA+ETQH
Sbjct: 424 GLAAMGSHRQDVYEQLKFNLYQDDAITGEAAGIAMGMVMLGSKSTQAIEDMVAYAQETQH 483

Query: 386 EKILRGLAVGISFIMYGQLENADDLVRDLCEEKDAILRRSGMYTIAMAYCVSYLYFDLFS 445
           EKILRGLAVGI+F MYG+LE AD LV  LC +KD ILRRSGM                  
Sbjct: 484 EKILRGLAVGIAFTMYGRLEEADPLVTSLCADKDPILRRSGM------------------ 525

Query: 446 DLTYRIVKNRSGMYTIAMAYCGSGSNVATKRLLHVAVSDVNDDVRREAVTALGFILFR 503
                        YT+AMAYCG+G+N A ++LLHVAVSDVNDDVRR AVT LGF+LFR
Sbjct: 526 -------------YTLAMAYCGTGNNQAIRKLLHVAVSDVNDDVRRAAVTGLGFLLFR 570

Source: Megachile rotundata

Species: Megachile rotundata

Genus: Megachile

Family: Megachilidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|380029242|ref|XP_003698288.1| PREDICTED: 26S proteasome non-ATPase regulatory subunit 1-like isoform 3 [Apis florea]

 Score =  585 bits (1509), Expect = e-164,   Method: Compositional matrix adjust.
 Identities = 325/561 (57%), Positives = 369/561 (65%), Gaps = 102/561 (18%)

Query: 1   MDVFEAAIKQMTPPRSFTTRSRWPCPPFSRVHSALKSCVPWCLAMSSIQSRSFRAQILRT 60
           MD+FEAAI Q        + +                   + + MS IQ+R FR  +LR 
Sbjct: 166 MDIFEAAIMQSDDVSGMLSYA-------------------FQVVMSLIQNRGFRNTVLRC 206

Query: 61  LVRLYHSLSVPDYVNMAQCWIYLDDPRSVANLLGKLVAGSADDDLMAAQIGFDLYESATQ 120
           LV LY +L  PDYVNM QC I+LDDP +VA LL +L  GS D  LMA QI FDLYESATQ
Sbjct: 207 LVSLYRNLGTPDYVNMCQCLIFLDDPLAVAELLDRLSKGSQDCVLMAYQIAFDLYESATQ 266

Query: 121 AFLASVLQELKTCAPIPDATHV--VVKVPVEGAPTPATPDTEAPTPAPGTESGPSSTTPG 178
            FL  VLQ L+  APIP A  V  +VK PV    T     +E+ TP   TES    TT  
Sbjct: 267 QFLGRVLQALRATAPIPGALMVKPIVK-PVAKVSTETAVTSES-TPVMETES----TTTV 320

Query: 179 PETKT---LESLNEKEKQLQARITKLSKILSGEVSIDLHLQFLIRSNKTDMLILKNTKES 235
           PE K+   +ESLN +E++ Q R+  LS IL GE+SIDLHLQFLIRSN TDMLILKNTK++
Sbjct: 321 PEEKSQRSVESLNAEEREQQERVDALSSILGGEISIDLHLQFLIRSNHTDMLILKNTKDT 380

Query: 236 IRVSICHTATIIANAFMHSGTTSDQFLRDNLEWLARATNWAKLTATASLGVIHRGHETEA 295
           IRVSICHTAT+IANA+MHSGTTSDQFLRDNLEWLARATNWAKLTATASLGVIHRGHE EA
Sbjct: 381 IRVSICHTATVIANAYMHSGTTSDQFLRDNLEWLARATNWAKLTATASLGVIHRGHEQEA 440

Query: 296 LAHMQSYLPRETGPTSGYYEGGGLYALGLIHANHGAVINDYLLGQVKDATNE-------- 347
           LA MQSYLPR++G  +GY EGGGLYALGLIHANHGA I DYLLGQ+KDA NE        
Sbjct: 441 LALMQSYLPRDSGAGAGYSEGGGLYALGLIHANHGAAITDYLLGQLKDAQNEMVRHGGCL 500

Query: 348 ------------------------DDAVTGEAAGIAMGLVLLGSKSESAIQDMVAYAKET 383
                                   DDAVTGEAAGIAMG+V+LGSKS  AI+DMVAYA+ET
Sbjct: 501 GLGLAAMGSHRQDVYEQLKFNLYQDDAVTGEAAGIAMGMVMLGSKSTQAIEDMVAYAQET 560

Query: 384 QHEKILRGLAVGISFIMYGQLENADDLVRDLCEEKDAILRRSGMYTIAMAYCVSYLYFDL 443
           QHEKILRGLAVGI+F MYG+LE AD LV  LC +KD ILRRSGM                
Sbjct: 561 QHEKILRGLAVGIAFTMYGRLEEADPLVASLCADKDPILRRSGM---------------- 604

Query: 444 FSDLTYRIVKNRSGMYTIAMAYCGSGSNVATKRLLHVAVSDVNDDVRREAVTALGFILFR 503
                          YT+AMAYCG+G+N A ++LLHVAVSDVNDDVRR AVT LGF+LFR
Sbjct: 605 ---------------YTLAMAYCGTGNNQAIRKLLHVAVSDVNDDVRRAAVTGLGFLLFR 649

Query: 504 TLFYVAPACTRSPWPGVISLL 524
           T       C     P V+SLL
Sbjct: 650 T----PEQC-----PSVVSLL 661

Source: Apis florea

Species: Apis florea

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|380029240|ref|XP_003698287.1| PREDICTED: 26S proteasome non-ATPase regulatory subunit 1-like isoform 2 [Apis florea]

 Score =  585 bits (1508), Expect = e-164,   Method: Compositional matrix adjust.
 Identities = 325/561 (57%), Positives = 369/561 (65%), Gaps = 102/561 (18%)

Query: 1   MDVFEAAIKQMTPPRSFTTRSRWPCPPFSRVHSALKSCVPWCLAMSSIQSRSFRAQILRT 60
           MD+FEAAI Q        + +                   + + MS IQ+R FR  +LR 
Sbjct: 83  MDIFEAAIMQSDDVSGMLSYA-------------------FQVVMSLIQNRGFRNTVLRC 123

Query: 61  LVRLYHSLSVPDYVNMAQCWIYLDDPRSVANLLGKLVAGSADDDLMAAQIGFDLYESATQ 120
           LV LY +L  PDYVNM QC I+LDDP +VA LL +L  GS D  LMA QI FDLYESATQ
Sbjct: 124 LVSLYRNLGTPDYVNMCQCLIFLDDPLAVAELLDRLSKGSQDCVLMAYQIAFDLYESATQ 183

Query: 121 AFLASVLQELKTCAPIPDATHV--VVKVPVEGAPTPATPDTEAPTPAPGTESGPSSTTPG 178
            FL  VLQ L+  APIP A  V  +VK PV    T     +E+ TP   TES    TT  
Sbjct: 184 QFLGRVLQALRATAPIPGALMVKPIVK-PVAKVSTETAVTSES-TPVMETES----TTTV 237

Query: 179 PETKT---LESLNEKEKQLQARITKLSKILSGEVSIDLHLQFLIRSNKTDMLILKNTKES 235
           PE K+   +ESLN +E++ Q R+  LS IL GE+SIDLHLQFLIRSN TDMLILKNTK++
Sbjct: 238 PEEKSQRSVESLNAEEREQQERVDALSSILGGEISIDLHLQFLIRSNHTDMLILKNTKDT 297

Query: 236 IRVSICHTATIIANAFMHSGTTSDQFLRDNLEWLARATNWAKLTATASLGVIHRGHETEA 295
           IRVSICHTAT+IANA+MHSGTTSDQFLRDNLEWLARATNWAKLTATASLGVIHRGHE EA
Sbjct: 298 IRVSICHTATVIANAYMHSGTTSDQFLRDNLEWLARATNWAKLTATASLGVIHRGHEQEA 357

Query: 296 LAHMQSYLPRETGPTSGYYEGGGLYALGLIHANHGAVINDYLLGQVKDATNE-------- 347
           LA MQSYLPR++G  +GY EGGGLYALGLIHANHGA I DYLLGQ+KDA NE        
Sbjct: 358 LALMQSYLPRDSGAGAGYSEGGGLYALGLIHANHGAAITDYLLGQLKDAQNEMVRHGGCL 417

Query: 348 ------------------------DDAVTGEAAGIAMGLVLLGSKSESAIQDMVAYAKET 383
                                   DDAVTGEAAGIAMG+V+LGSKS  AI+DMVAYA+ET
Sbjct: 418 GLGLAAMGSHRQDVYEQLKFNLYQDDAVTGEAAGIAMGMVMLGSKSTQAIEDMVAYAQET 477

Query: 384 QHEKILRGLAVGISFIMYGQLENADDLVRDLCEEKDAILRRSGMYTIAMAYCVSYLYFDL 443
           QHEKILRGLAVGI+F MYG+LE AD LV  LC +KD ILRRSGM                
Sbjct: 478 QHEKILRGLAVGIAFTMYGRLEEADPLVASLCADKDPILRRSGM---------------- 521

Query: 444 FSDLTYRIVKNRSGMYTIAMAYCGSGSNVATKRLLHVAVSDVNDDVRREAVTALGFILFR 503
                          YT+AMAYCG+G+N A ++LLHVAVSDVNDDVRR AVT LGF+LFR
Sbjct: 522 ---------------YTLAMAYCGTGNNQAIRKLLHVAVSDVNDDVRRAAVTGLGFLLFR 566

Query: 504 TLFYVAPACTRSPWPGVISLL 524
           T       C     P V+SLL
Sbjct: 567 T----PEQC-----PSVVSLL 578

Source: Apis florea

Species: Apis florea

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|380029238|ref|XP_003698286.1| PREDICTED: 26S proteasome non-ATPase regulatory subunit 1-like isoform 1 [Apis florea]

 Score =  585 bits (1507), Expect = e-164,   Method: Compositional matrix adjust.
 Identities = 325/561 (57%), Positives = 369/561 (65%), Gaps = 102/561 (18%)

Query: 1   MDVFEAAIKQMTPPRSFTTRSRWPCPPFSRVHSALKSCVPWCLAMSSIQSRSFRAQILRT 60
           MD+FEAAI Q        + +                   + + MS IQ+R FR  +LR 
Sbjct: 166 MDIFEAAIMQSDDVSGMLSYA-------------------FQVVMSLIQNRGFRNTVLRC 206

Query: 61  LVRLYHSLSVPDYVNMAQCWIYLDDPRSVANLLGKLVAGSADDDLMAAQIGFDLYESATQ 120
           LV LY +L  PDYVNM QC I+LDDP +VA LL +L  GS D  LMA QI FDLYESATQ
Sbjct: 207 LVSLYRNLGTPDYVNMCQCLIFLDDPLAVAELLDRLSKGSQDCVLMAYQIAFDLYESATQ 266

Query: 121 AFLASVLQELKTCAPIPDATHV--VVKVPVEGAPTPATPDTEAPTPAPGTESGPSSTTPG 178
            FL  VLQ L+  APIP A  V  +VK PV    T     +E+ TP   TES    TT  
Sbjct: 267 QFLGRVLQALRATAPIPGALMVKPIVK-PVAKVSTETAVTSES-TPVMETES----TTTV 320

Query: 179 PETKT---LESLNEKEKQLQARITKLSKILSGEVSIDLHLQFLIRSNKTDMLILKNTKES 235
           PE K+   +ESLN +E++ Q R+  LS IL GE+SIDLHLQFLIRSN TDMLILKNTK++
Sbjct: 321 PEEKSQRSVESLNAEEREQQERVDALSSILGGEISIDLHLQFLIRSNHTDMLILKNTKDT 380

Query: 236 IRVSICHTATIIANAFMHSGTTSDQFLRDNLEWLARATNWAKLTATASLGVIHRGHETEA 295
           IRVSICHTAT+IANA+MHSGTTSDQFLRDNLEWLARATNWAKLTATASLGVIHRGHE EA
Sbjct: 381 IRVSICHTATVIANAYMHSGTTSDQFLRDNLEWLARATNWAKLTATASLGVIHRGHEQEA 440

Query: 296 LAHMQSYLPRETGPTSGYYEGGGLYALGLIHANHGAVINDYLLGQVKDATNE-------- 347
           LA MQSYLPR++G  +GY EGGGLYALGLIHANHGA I DYLLGQ+KDA NE        
Sbjct: 441 LALMQSYLPRDSGAGAGYSEGGGLYALGLIHANHGAAITDYLLGQLKDAQNEMVRHGGCL 500

Query: 348 ------------------------DDAVTGEAAGIAMGLVLLGSKSESAIQDMVAYAKET 383
                                   DDAVTGEAAGIAMG+V+LGSKS  AI+DMVAYA+ET
Sbjct: 501 GLGLAAMGSHRQDVYEQLKFNLYQDDAVTGEAAGIAMGMVMLGSKSTQAIEDMVAYAQET 560

Query: 384 QHEKILRGLAVGISFIMYGQLENADDLVRDLCEEKDAILRRSGMYTIAMAYCVSYLYFDL 443
           QHEKILRGLAVGI+F MYG+LE AD LV  LC +KD ILRRSGM                
Sbjct: 561 QHEKILRGLAVGIAFTMYGRLEEADPLVASLCADKDPILRRSGM---------------- 604

Query: 444 FSDLTYRIVKNRSGMYTIAMAYCGSGSNVATKRLLHVAVSDVNDDVRREAVTALGFILFR 503
                          YT+AMAYCG+G+N A ++LLHVAVSDVNDDVRR AVT LGF+LFR
Sbjct: 605 ---------------YTLAMAYCGTGNNQAIRKLLHVAVSDVNDDVRRAAVTGLGFLLFR 649

Query: 504 TLFYVAPACTRSPWPGVISLL 524
           T       C     P V+SLL
Sbjct: 650 T----PEQC-----PSVVSLL 661

Source: Apis florea

Species: Apis florea

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|156538116|ref|XP_001608229.1| PREDICTED: 26S proteasome non-ATPase regulatory subunit 1-like isoform 1 [Nasonia vitripennis] gi|345491856|ref|XP_003426721.1| PREDICTED: 26S proteasome non-ATPase regulatory subunit 1-like [Nasonia vitripennis] gi|345491858|ref|XP_003426722.1| PREDICTED: 26S proteasome non-ATPase regulatory subunit 1-like [Nasonia vitripennis]

 Score =  581 bits (1498), Expect = e-163,   Method: Compositional matrix adjust.
 Identities = 314/556 (56%), Positives = 360/556 (64%), Gaps = 91/556 (16%)

Query: 1   MDVFEAAIKQMTPPRSFTTRSRWPCPPFSRVHSALKSCVPWCLAMSSIQSRSFRAQILRT 60
           MD+FEAAI Q        + +                   + + MS IQ+R FR  +LR 
Sbjct: 162 MDIFEAAIMQSDDVSGMLSYA-------------------FQVVMSLIQNRGFRNTVLRC 202

Query: 61  LVRLYHSLSVPDYVNMAQCWIYLDDPRSVANLLGKLVAGSADDDLMAAQIGFDLYESATQ 120
           LV LY +L+ PDYV+M QC I+LDD  +VA LL +L  GS D  LMA QI FDLYESATQ
Sbjct: 203 LVGLYKNLTTPDYVSMCQCLIFLDDALAVAELLDRLSKGSQDCTLMAYQIAFDLYESATQ 262

Query: 121 AFLASVLQELKTCAPIPDATHVVVKVPVEGAPTPATPDTEAPTPAPGTESGPSSTTPGPE 180
            FL  VLQ L+  APIP A  V   V     P  +  + E P  A    +  S      E
Sbjct: 263 QFLGRVLQALRATAPIPGALMVKAIVKPTSTPITSQENVEVPVEAADNSTTDSKKVEKKE 322

Query: 181 TKTLESLNEKEKQLQARITKLSKILSGEVSIDLHLQFLIRSNKTDMLILKNTKESIRVSI 240
            +++ESLN +E++ Q R+  LSKIL GE+SIDLHLQFLIRSN TDMLILKNTK++IRVSI
Sbjct: 323 ERSVESLNAEEREQQNRVDALSKILGGEISIDLHLQFLIRSNHTDMLILKNTKDAIRVSI 382

Query: 241 CHTATIIANAFMHSGTTSDQFLRDNLEWLARATNWAKLTATASLGVIHRGHETEALAHMQ 300
           CHTAT+IANAFMHSGTTSDQFLRDNLEWLARATNWAKLTATASLGVIHRGHE EALA MQ
Sbjct: 383 CHTATVIANAFMHSGTTSDQFLRDNLEWLARATNWAKLTATASLGVIHRGHEQEALALMQ 442

Query: 301 SYLPRETGPTSGYYEGGGLYALGLIHANHGAVINDYLLGQVKDATNE------------- 347
           SYLPR+TG  +GY EGGGLYALGLIHANHGA I DYLLGQ+KDA NE             
Sbjct: 443 SYLPRDTGAGAGYSEGGGLYALGLIHANHGAAITDYLLGQLKDAQNEMVRHGGCLGLGLA 502

Query: 348 -------------------DDAVTGEAAGIAMGLVLLGSKSESAIQDMVAYAKETQHEKI 388
                              DDAVTGEAAGIAMG+V+LGSK   AI+DMVAYA+ETQHEKI
Sbjct: 503 AMGSHRQDVYEQLKFNLYQDDAVTGEAAGIAMGMVMLGSKQSQAIEDMVAYAQETQHEKI 562

Query: 389 LRGLAVGISFIMYGQLENADDLVRDLCEEKDAILRRSGMYTIAMAYCVSYLYFDLFSDLT 448
           LRGLAVGI+F MYG+LE AD LV  L  +KD ILRRSGM                     
Sbjct: 563 LRGLAVGIAFTMYGRLEEADPLVSSLSADKDPILRRSGM--------------------- 601

Query: 449 YRIVKNRSGMYTIAMAYCGSGSNVATKRLLHVAVSDVNDDVRREAVTALGFILFRTLFYV 508
                     YT+AMAYCG+G+N A ++LLHVAVSDVNDDVRR AVT LGF+LFR+    
Sbjct: 602 ----------YTLAMAYCGTGNNQAIRKLLHVAVSDVNDDVRRAAVTGLGFLLFRS---- 647

Query: 509 APACTRSPWPGVISLL 524
              C     P V+SLL
Sbjct: 648 PEQC-----PSVVSLL 658

Source: Nasonia vitripennis

Species: Nasonia vitripennis

Genus: Nasonia

Family: Pteromalidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

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	988
FB|FBgn0028692	1020	Rpn2 "Regulatory particle non-	0.455	0.441	0.523	1.6e-104
UNIPROTKB|E1C5P3	958	PSMD1 "26S proteasome non-ATPa	0.297	0.306	0.639	5.6e-109
UNIPROTKB|F1NUT6	955	PSMD1 "26S proteasome non-ATPa	0.290	0.300	0.651	9.1e-109
UNIPROTKB|Q5F418	955	PSMD1 "26S proteasome non-ATPa	0.290	0.300	0.651	9.1e-109
MGI|MGI:1917497	953	Psmd1 "proteasome (prosome, ma	0.316	0.328	0.612	9.1e-109
ZFIN|ZDB-GENE-040426-810	959	psmd1 "proteasome (prosome, ma	0.332	0.343	0.581	9.1e-109
UNIPROTKB|Q99460	953	PSMD1 "26S proteasome non-ATPa	0.299	0.310	0.637	1.9e-108
UNIPROTKB|Q5R5S4	953	PSMD1 "26S proteasome non-ATPa	0.299	0.310	0.637	1.9e-108
UNIPROTKB|F1PX57	953	PSMD1 "Uncharacterized protein	0.299	0.310	0.637	2.4e-108
UNIPROTKB|J9P4R4	701	PSMD1 "Uncharacterized protein	0.299	0.422	0.637	2.4e-108

FB|FBgn0028692 Rpn2 "Regulatory particle non-ATPase 2" [Drosophila melanogaster (taxid:7227)]

 Score = 1035 (369.4 bits), Expect = 1.6e-104, P = 1.6e-104
 Identities = 248/474 (52%), Positives = 299/474 (63%)

Query:    43 LAMSSIQSRSFRAQILRTLVRLYHSLSVPDYVNMAQCWIYLDDPRSVANLLGKLVAGSAD 102
             + MS IQ+R FR ++LR LV LY  L VPDYVNM QC I+L+DP +VA +L  L   S +
Sbjct:   183 VTMSLIQNRGFRNEVLRCLVSLYRDLGVPDYVNMCQCLIFLEDPFAVAEMLDNLTRSSVE 242

Query:   103 -DDLMAAQIGFDLYESATQAFLASVLQELKTCAPIPDATHVVVKVPVXXXXXXXXXXXXX 161
              ++LMA QI FDLYESATQ FL +VLQ LK  APIP A     K P              
Sbjct:   243 TNNLMAYQIAFDLYESATQEFLGNVLQHLKNTAPIPTALPSTFK-PQGTTSEDGAKSEGD 301

Query:   162 XXXXXXXXSGPSSTTPGPETKTLESLNEKEKQLQARITKLSKILSGEVSIDLHLQFLIRS 221
                     +  +      E +T++SLNE EK  Q  I KL  ILSGEVSIDL LQFLIRS
Sbjct:   302 KSKSDEDITEETPADDKVE-RTIDSLNEVEKLHQKNIEKLISILSGEVSIDLQLQFLIRS 360

Query:   222 NKTDMLILKNTKESIRVSICHTATIIANAFMHSGTTSDQFLRDNLEWLARATNWAKLTAT 281
             N  D+ +L+ TKE++RVSICHTAT+IANAFMHSGTTSDQFLRDNL+WLARATNWAKLTAT
Sbjct:   361 NHADLQVLRGTKEAVRVSICHTATVIANAFMHSGTTSDQFLRDNLDWLARATNWAKLTAT 420

Query:   282 ASLGVIHRGHETEALAHMQSYLPRETGPTSXXXXXXXXXXXXXIHANHGAVINDYLLGQV 341
             ASLGVIHRGHE ++LA MQSYLP+E GP+S             IHANHGA I DYLL Q+
Sbjct:   421 ASLGVIHRGHEKDSLALMQSYLPKEAGPSSGYSEGGALYALGLIHANHGANIIDYLLQQL 480

Query:   342 KDATNEDDAVTGEAAGIAMGLVLLGSKSESAIQDMVAYAK-ETQHEKILRGLAVGISF-- 398
             KDA NE+    G      +GL L G  +    QD+    K     +  + G A GI+   
Sbjct:   481 KDAQNENVRHGG-----CLGLGLAGMGTHR--QDLYEQLKFNLYQDDAVTGEAAGIAMGM 533

Query:   399 IMYGQLENA---DDLVRDLCE-EKDAILRRSGM-YTIAMAYCVSY---LYFDLFSDLTYR 450
             +M G  +NA   +D+V    E + + ILR   +  ++ M   +     L   L SD    
Sbjct:   534 VMLGS-KNAQAIEDMVSYAQETQHEKILRGLAVGISLTMFSRLEEADPLVTSLSSDKDP- 591

Query:   451 IVKNRSGMYTIAMAYCGSGSNVATKRLLHVAVSDVNDDVRREAVTALGFILFRT 504
              V  RSGMYTIAMAY G+GSN A ++LLHVAVSDVNDDVRR AVTA+GFILFR+
Sbjct:   592 -VLRRSGMYTIAMAYNGTGSNKAIRKLLHVAVSDVNDDVRRAAVTAIGFILFRS 644

GO:0008540 "proteasome regulatory particle, base subcomplex" evidence=ISS;NAS

GO:0006508 "proteolysis" evidence=ISS;IDA

GO:0005838 "proteasome regulatory particle" evidence=ISS;IDA

GO:0004175 "endopeptidase activity" evidence=IDA

GO:0042176 "regulation of protein catabolic process" evidence=IEA

GO:0030234 "enzyme regulator activity" evidence=IEA

GO:0006974 "response to DNA damage stimulus" evidence=IMP

UNIPROTKB|E1C5P3 PSMD1 "26S proteasome non-ATPase regulatory subunit 1" [Gallus gallus (taxid:9031)]

 Score = 996 (355.7 bits), Expect = 5.6e-109, Sum P(2) = 5.6e-109
 Identities = 188/294 (63%), Positives = 232/294 (78%)

Query:   552 KEKQLQARITKLSKILSGEVSIDLHLQFLIRSNKTDMLILKNTKESIRVSICHTATIIAN 611
             K  + + +I+K+ KILSGE++I+LHLQFLIR+N TD++ILKNTK+++R S+CHTAT+IAN
Sbjct:   317 KNPEPKDQISKMIKILSGEMAIELHLQFLIRNNNTDLMILKNTKDAVRNSVCHTATVIAN 376

Query:   612 AFMHSGTTSDQFLRDNLEWLARATNWAKLTATASLGVIHRGHETEALAHMQSYLPRETGP 671
             +FMH GTTSDQFLRDNLEWLARATNWAK TATASLGVIH+GHE EAL  M +YLP++T P
Sbjct:   377 SFMHCGTTSDQFLRDNLEWLARATNWAKFTATASLGVIHKGHEKEALQLMATYLPKDTSP 436

Query:   672 TSXXXXXXXXXXXXXIHANHGAVINDYLLGQVKDATNEMVRHXXXXXXXXXXXXXXRDDI 731
              S             IHANHG  I DYLL Q+K+A+N++VRH              R D+
Sbjct:   437 GSAYQEGGGLYALGLIHANHGGDIIDYLLNQLKNASNDIVRHGGSLGLGLAAMGTARQDV 496

Query:   732 YEQLKFNLYQDDAVTGEAAGIAMGLVLLGSKSESAIQDMVAYAKETQHEKILRGLAVGIS 791
             Y+ LK NLYQDDAVTGEAAG+A+GLV+LGSK+  AI+DMV YA+ETQHEKILRGLAVGI+
Sbjct:   497 YDLLKTNLYQDDAVTGEAAGLALGLVMLGSKNAQAIEDMVGYAQETQHEKILRGLAVGIA 556

Query:   792 FIMYGQLENADDLVRDLCEEKDAILRRSGMYTIAMAYCGSGSNVATKRLLHDAI 845
              +MYG++E AD L+  LC +KD ILRRSGMYT+AMAYCGSG+N A +RLLH A+
Sbjct:   557 LVMYGRMEEADALIESLCRDKDPILRRSGMYTVAMAYCGSGNNKAIRRLLHVAV 610

GO:0000502 "proteasome complex" evidence=IEA

GO:0030234 "enzyme regulator activity" evidence=IEA

GO:0042176 "regulation of protein catabolic process" evidence=IEA

UNIPROTKB|F1NUT6 PSMD1 "26S proteasome non-ATPase regulatory subunit 1" [Gallus gallus (taxid:9031)]

 Score = 994 (355.0 bits), Expect = 9.1e-109, Sum P(2) = 9.1e-109
 Identities = 187/287 (65%), Positives = 229/287 (79%)

Query:   559 RITKLSKILSGEVSIDLHLQFLIRSNKTDMLILKNTKESIRVSICHTATIIANAFMHSGT 618
             +I+K+ KILSGE++I+LHLQFLIR+N TD++ILKNTK+++R S+CHTAT+IAN+FMH GT
Sbjct:   321 QISKMIKILSGEMAIELHLQFLIRNNNTDLMILKNTKDAVRNSVCHTATVIANSFMHCGT 380

Query:   619 TSDQFLRDNLEWLARATNWAKLTATASLGVIHRGHETEALAHMQSYLPRETGPTSXXXXX 678
             TSDQFLRDNLEWLARATNWAK TATASLGVIH+GHE EAL  M +YLP++T P S     
Sbjct:   381 TSDQFLRDNLEWLARATNWAKFTATASLGVIHKGHEKEALQLMATYLPKDTSPGSAYQEG 440

Query:   679 XXXXXXXXIHANHGAVINDYLLGQVKDATNEMVRHXXXXXXXXXXXXXXRDDIYEQLKFN 738
                     IHANHG  I DYLL Q+K+A+N++VRH              R D+Y+ LK N
Sbjct:   441 GGLYALGLIHANHGGDIIDYLLNQLKNASNDIVRHGGSLGLGLAAMGTARQDVYDLLKTN 500

Query:   739 LYQDDAVTGEAAGIAMGLVLLGSKSESAIQDMVAYAKETQHEKILRGLAVGISFIMYGQL 798
             LYQDDAVTGEAAG+A+GLV+LGSK+  AI+DMV YA+ETQHEKILRGLAVGI+ +MYG++
Sbjct:   501 LYQDDAVTGEAAGLALGLVMLGSKNAQAIEDMVGYAQETQHEKILRGLAVGIALVMYGRM 560

Query:   799 ENADDLVRDLCEEKDAILRRSGMYTIAMAYCGSGSNVATKRLLHDAI 845
             E AD L+  LC +KD ILRRSGMYT+AMAYCGSG+N A +RLLH A+
Sbjct:   561 EEADALIESLCRDKDPILRRSGMYTVAMAYCGSGNNKAIRRLLHVAV 607

GO:0000502 "proteasome complex" evidence=IEA

GO:0030234 "enzyme regulator activity" evidence=IEA

GO:0042176 "regulation of protein catabolic process" evidence=IEA

UNIPROTKB|Q5F418 PSMD1 "26S proteasome non-ATPase regulatory subunit 1" [Gallus gallus (taxid:9031)]

 Score = 994 (355.0 bits), Expect = 9.1e-109, Sum P(2) = 9.1e-109
 Identities = 187/287 (65%), Positives = 229/287 (79%)

Query:   559 RITKLSKILSGEVSIDLHLQFLIRSNKTDMLILKNTKESIRVSICHTATIIANAFMHSGT 618
             +I+K+ KILSGE++I+LHLQFLIR+N TD++ILKNTK+++R S+CHTAT+IAN+FMH GT
Sbjct:   321 QISKMIKILSGEMAIELHLQFLIRNNNTDLMILKNTKDAVRNSVCHTATVIANSFMHCGT 380

Query:   619 TSDQFLRDNLEWLARATNWAKLTATASLGVIHRGHETEALAHMQSYLPRETGPTSXXXXX 678
             TSDQFLRDNLEWLARATNWAK TATASLGVIH+GHE EAL  M +YLP++T P S     
Sbjct:   381 TSDQFLRDNLEWLARATNWAKFTATASLGVIHKGHEKEALQLMATYLPKDTSPGSAYQEG 440

Query:   679 XXXXXXXXIHANHGAVINDYLLGQVKDATNEMVRHXXXXXXXXXXXXXXRDDIYEQLKFN 738
                     IHANHG  I DYLL Q+K+A+N++VRH              R D+Y+ LK N
Sbjct:   441 GGLYALGLIHANHGGDIIDYLLNQLKNASNDIVRHGGSLGLGLAAMGTARQDVYDLLKTN 500

Query:   739 LYQDDAVTGEAAGIAMGLVLLGSKSESAIQDMVAYAKETQHEKILRGLAVGISFIMYGQL 798
             LYQDDAVTGEAAG+A+GLV+LGSK+  AI+DMV YA+ETQHEKILRGLAVGI+ +MYG++
Sbjct:   501 LYQDDAVTGEAAGLALGLVMLGSKNAQAIEDMVGYAQETQHEKILRGLAVGIALVMYGRM 560

Query:   799 ENADDLVRDLCEEKDAILRRSGMYTIAMAYCGSGSNVATKRLLHDAI 845
             E AD L+  LC +KD ILRRSGMYT+AMAYCGSG+N A +RLLH A+
Sbjct:   561 EEADALIESLCRDKDPILRRSGMYTVAMAYCGSGNNKAIRRLLHVAV 607

GO:0030234 "enzyme regulator activity" evidence=IEA

GO:0042176 "regulation of protein catabolic process" evidence=IEA

GO:0022624 "proteasome accessory complex" evidence=ISS

MGI|MGI:1917497 Psmd1 "proteasome (prosome, macropain) 26S subunit, non-ATPase, 1" [Mus musculus (taxid:10090)]

 Score = 994 (355.0 bits), Expect = 9.1e-109, Sum P(2) = 9.1e-109
 Identities = 196/320 (61%), Positives = 241/320 (75%)

Query:   526 DPMIELKEFSLKKLNDIVDDFWPENEKEKQLQARITKLSKILSGEVSIDLHLQFLIRSNK 585
             DPM E +E +   +     D  PE  K++ L     K+ KILSGE++I+LHLQFLIR+N 
Sbjct:   295 DPM-ETEEKTASAVAGKTPDASPE-PKDQTL-----KMIKILSGEMAIELHLQFLIRNNN 347

Query:   586 TDMLILKNTKESIRVSICHTATIIANAFMHSGTTSDQFLRDNLEWLARATNWAKLTATAS 645
             TD++ILKNTK+++R S+CHTAT+IAN+FMH GTTSDQFLRDNLEWLARATNWAK TATAS
Sbjct:   348 TDLMILKNTKDAVRNSVCHTATVIANSFMHCGTTSDQFLRDNLEWLARATNWAKFTATAS 407

Query:   646 LGVIHRGHETEALAHMQSYLPRETGPTSXXXXXXXXXXXXXIHANHGAVINDYLLGQVKD 705
             LGVIH+GHE EAL  M +YLP++T P S             IHANHG  I DYLL Q+K+
Sbjct:   408 LGVIHKGHEKEALQLMATYLPKDTSPGSAYQEGGGLYALGLIHANHGGDIIDYLLNQLKN 467

Query:   706 ATNEMVRHXXXXXXXXXXXXXXRDDIYEQLKFNLYQDDAVTGEAAGIAMGLVLLGSKSES 765
             A+N++VRH              R D+Y+ LK NLYQDDAVTGEAAG+A+GLV+LGSK+  
Sbjct:   468 ASNDIVRHGGSLGLGLAAMGTARQDVYDLLKTNLYQDDAVTGEAAGLALGLVMLGSKNAQ 527

Query:   766 AIQDMVAYAKETQHEKILRGLAVGISFIMYGQLENADDLVRDLCEEKDAILRRSGMYTIA 825
             AI+DMV YA+ETQHEKILRGLAVGI+ +MYG++E AD L+  LC +KD ILRRSGMYT+A
Sbjct:   528 AIEDMVGYAQETQHEKILRGLAVGIALVMYGRMEEADALIESLCRDKDPILRRSGMYTVA 587

Query:   826 MAYCGSGSNVATKRLLHDAI 845
             MAYCGSG+N A +RLLH A+
Sbjct:   588 MAYCGSGNNKAIRRLLHVAV 607

GO:0000502 "proteasome complex" evidence=IEA

GO:0022624 "proteasome accessory complex" evidence=IDA

GO:0030234 "enzyme regulator activity" evidence=IEA

GO:0042176 "regulation of protein catabolic process" evidence=IEA

ZFIN|ZDB-GENE-040426-810 psmd1 "proteasome (prosome, macropain) 26S subunit, non-ATPase, 1" [Danio rerio (taxid:7955)]

 Score = 992 (354.3 bits), Expect = 9.1e-109, Sum P(2) = 9.1e-109
 Identities = 196/337 (58%), Positives = 247/337 (73%)

Query:   561 TKLSKILSGEVSIDLHLQFLIRSNKTDMLILKNTKESIRVSICHTATIIANAFMHSGTTS 620
             +K+ KILSGE++I+LHLQFLIR+N TD++ILKNTK+++R S+CHTAT+IAN+FMH+GTTS
Sbjct:   319 SKMIKILSGEMAIELHLQFLIRNNNTDLMILKNTKDAVRNSVCHTATVIANSFMHTGTTS 378

Query:   621 DQFLRDNLEWLARATNWAKLTATASLGVIHRGHETEALAHMQSYLPRETGPTSXXXXXXX 680
             DQFLR+NLEWLARATNWAK TATASLGVIH+GHE EAL  M +YLP++T P S       
Sbjct:   379 DQFLRENLEWLARATNWAKFTATASLGVIHKGHEKEALQLMATYLPKDTSPGSAYQEGGG 438

Query:   681 XXXXXXIHANHGAVINDYLLGQVKDATNEMVRHXXXXXXXXXXXXXXRDDIYEQLKFNLY 740
                   IHANHG  I DYLL Q+K+A+N++VRH              R D+Y+ LK NLY
Sbjct:   439 LYALGLIHANHGGDIIDYLLSQLKNASNDIVRHGGALGLGLAALGTARQDVYDLLKSNLY 498

Query:   741 QDDAVTGEAAGIAMGLVLLGSKSESAIQDMVAYAKETQHEKILRGLAVGISFIMYGQLEN 800
             QDDAVTGEAAG+A+GLV+LGSKS  AI+DMV YA+ETQHEKILRGLAVGI+ +MYG++E 
Sbjct:   499 QDDAVTGEAAGLALGLVMLGSKSAQAIEDMVGYAQETQHEKILRGLAVGIAMVMYGRMEE 558

Query:   801 ADDLVRDLCEEKDAILRRSGMYTIAMAYCGSGSNVATKRLLHDAI------LRRSGMYTI 854
             AD L+  LC +KD ILRRSGMYT+AMAYCGSG+N A +RLLH A+      +RR+ + +I
Sbjct:   559 ADALIESLCRDKDPILRRSGMYTVAMAYCGSGNNKAIRRLLHVAVSDVNDDVRRAAVESI 618

Query:   855 AMAYCGSGSNVATKRLLHVAVSDVNDDVRREAVTALG 891
                   +     +  ++ +     N  VR  A  ALG
Sbjct:   619 GFIMFRTPEQCPS--VVSLLSESYNPHVRYGAAMALG 653

GO:0000502 "proteasome complex" evidence=IEA

GO:0030234 "enzyme regulator activity" evidence=IEA

GO:0042176 "regulation of protein catabolic process" evidence=IEA

UNIPROTKB|Q99460 PSMD1 "26S proteasome non-ATPase regulatory subunit 1" [Homo sapiens (taxid:9606)]

 Score = 991 (353.9 bits), Expect = 1.9e-108, Sum P(2) = 1.9e-108
 Identities = 190/298 (63%), Positives = 231/298 (77%)

Query:   548 PENEKEKQLQARITKLSKILSGEVSIDLHLQFLIRSNKTDMLILKNTKESIRVSICHTAT 607
             PE   E + Q    K+ KILSGE++I+LHLQFLIR+N TD++ILKNTK+++R S+CHTAT
Sbjct:   312 PEASPEPKDQT--LKMIKILSGEMAIELHLQFLIRNNNTDLMILKNTKDAVRNSVCHTAT 369

Query:   608 IIANAFMHSGTTSDQFLRDNLEWLARATNWAKLTATASLGVIHRGHETEALAHMQSYLPR 667
             +IAN+FMH GTTSDQFLRDNLEWLARATNWAK TATASLGVIH+GHE EAL  M +YLP+
Sbjct:   370 VIANSFMHCGTTSDQFLRDNLEWLARATNWAKFTATASLGVIHKGHEKEALQLMATYLPK 429

Query:   668 ETGPTSXXXXXXXXXXXXXIHANHGAVINDYLLGQVKDATNEMVRHXXXXXXXXXXXXXX 727
             +T P S             IHANHG  I DYLL Q+K+A+N++VRH              
Sbjct:   430 DTSPGSAYQEGGGLYALGLIHANHGGDIIDYLLNQLKNASNDIVRHGGSLGLGLAAMGTA 489

Query:   728 RDDIYEQLKFNLYQDDAVTGEAAGIAMGLVLLGSKSESAIQDMVAYAKETQHEKILRGLA 787
             R D+Y+ LK NLYQDDAVTGEAAG+A+GLV+LGSK+  AI+DMV YA+ETQHEKILRGLA
Sbjct:   490 RQDVYDLLKTNLYQDDAVTGEAAGLALGLVMLGSKNAQAIEDMVGYAQETQHEKILRGLA 549

Query:   788 VGISFIMYGQLENADDLVRDLCEEKDAILRRSGMYTIAMAYCGSGSNVATKRLLHDAI 845
             VGI+ +MYG++E AD L+  LC +KD ILRRSGMYT+AMAYCGSG+N A +RLLH A+
Sbjct:   550 VGIALVMYGRMEEADALIESLCRDKDPILRRSGMYTVAMAYCGSGNNKAIRRLLHVAV 607

GO:0030234 "enzyme regulator activity" evidence=IEA

GO:0042176 "regulation of protein catabolic process" evidence=IEA

GO:0022624 "proteasome accessory complex" evidence=ISS

GO:0000502 "proteasome complex" evidence=TAS

GO:0005838 "proteasome regulatory particle" evidence=TAS

GO:0000075 "cell cycle checkpoint" evidence=TAS

GO:0000082 "G1/S transition of mitotic cell cycle" evidence=TAS

GO:0000084 "S phase of mitotic cell cycle" evidence=TAS

GO:0000209 "protein polyubiquitination" evidence=TAS

GO:0000216 "M/G1 transition of mitotic cell cycle" evidence=TAS

GO:0000278 "mitotic cell cycle" evidence=TAS

GO:0002474 "antigen processing and presentation of peptide antigen via MHC class I" evidence=TAS

GO:0002479 "antigen processing and presentation of exogenous peptide antigen via MHC class I, TAP-dependent" evidence=TAS

GO:0005654 "nucleoplasm" evidence=TAS

GO:0005829 "cytosol" evidence=TAS

GO:0006521 "regulation of cellular amino acid metabolic process" evidence=TAS

GO:0006915 "apoptotic process" evidence=TAS

GO:0006977 "DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest" evidence=TAS

GO:0010467 "gene expression" evidence=TAS

GO:0016032 "viral reproduction" evidence=TAS

GO:0016070 "RNA metabolic process" evidence=TAS

GO:0016071 "mRNA metabolic process" evidence=TAS

GO:0031145 "anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process" evidence=TAS

GO:0034641 "cellular nitrogen compound metabolic process" evidence=TAS

GO:0042590 "antigen processing and presentation of exogenous peptide antigen via MHC class I" evidence=TAS

GO:0042981 "regulation of apoptotic process" evidence=TAS

GO:0044281 "small molecule metabolic process" evidence=TAS

GO:0051436 "negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle" evidence=TAS

GO:0051437 "positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle" evidence=TAS

GO:0051439 "regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle" evidence=TAS

UNIPROTKB|Q5R5S4 PSMD1 "26S proteasome non-ATPase regulatory subunit 1" [Pongo abelii (taxid:9601)]

 Score = 991 (353.9 bits), Expect = 1.9e-108, Sum P(2) = 1.9e-108
 Identities = 190/298 (63%), Positives = 231/298 (77%)

Query:   548 PENEKEKQLQARITKLSKILSGEVSIDLHLQFLIRSNKTDMLILKNTKESIRVSICHTAT 607
             PE   E + Q    K+ KILSGE++I+LHLQFLIR+N TD++ILKNTK+++R S+CHTAT
Sbjct:   312 PEASPEPKDQT--LKMIKILSGEMAIELHLQFLIRNNNTDLMILKNTKDAVRNSVCHTAT 369

Query:   608 IIANAFMHSGTTSDQFLRDNLEWLARATNWAKLTATASLGVIHRGHETEALAHMQSYLPR 667
             +IAN+FMH GTTSDQFLRDNLEWLARATNWAK TATASLGVIH+GHE EAL  M +YLP+
Sbjct:   370 VIANSFMHCGTTSDQFLRDNLEWLARATNWAKFTATASLGVIHKGHEKEALQLMATYLPK 429

Query:   668 ETGPTSXXXXXXXXXXXXXIHANHGAVINDYLLGQVKDATNEMVRHXXXXXXXXXXXXXX 727
             +T P S             IHANHG  I DYLL Q+K+A+N++VRH              
Sbjct:   430 DTSPGSAYQEGGGLYALGLIHANHGGDIIDYLLNQLKNASNDIVRHGGSLGLGLAAMGTA 489

Query:   728 RDDIYEQLKFNLYQDDAVTGEAAGIAMGLVLLGSKSESAIQDMVAYAKETQHEKILRGLA 787
             R D+Y+ LK NLYQDDAVTGEAAG+A+GLV+LGSK+  AI+DMV YA+ETQHEKILRGLA
Sbjct:   490 RQDVYDLLKTNLYQDDAVTGEAAGLALGLVMLGSKNAQAIEDMVGYAQETQHEKILRGLA 549

Query:   788 VGISFIMYGQLENADDLVRDLCEEKDAILRRSGMYTIAMAYCGSGSNVATKRLLHDAI 845
             VGI+ +MYG++E AD L+  LC +KD ILRRSGMYT+AMAYCGSG+N A +RLLH A+
Sbjct:   550 VGIALVMYGRMEEADALIESLCRDKDPILRRSGMYTVAMAYCGSGNNKAIRRLLHVAV 607

GO:0022624 "proteasome accessory complex" evidence=ISS

UNIPROTKB|F1PX57 PSMD1 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 990 (353.6 bits), Expect = 2.4e-108, Sum P(2) = 2.4e-108
 Identities = 190/298 (63%), Positives = 231/298 (77%)

Query:   548 PENEKEKQLQARITKLSKILSGEVSIDLHLQFLIRSNKTDMLILKNTKESIRVSICHTAT 607
             PE   E + Q    K+ KILSGE++I+LHLQFLIR+N TD++ILKNTK+++R S+CHTAT
Sbjct:   312 PEVSPEPKDQT--LKMIKILSGEMAIELHLQFLIRNNNTDLMILKNTKDAVRNSVCHTAT 369

Query:   608 IIANAFMHSGTTSDQFLRDNLEWLARATNWAKLTATASLGVIHRGHETEALAHMQSYLPR 667
             +IAN+FMH GTTSDQFLRDNLEWLARATNWAK TATASLGVIH+GHE EAL  M +YLP+
Sbjct:   370 VIANSFMHCGTTSDQFLRDNLEWLARATNWAKFTATASLGVIHKGHEKEALQLMATYLPK 429

Query:   668 ETGPTSXXXXXXXXXXXXXIHANHGAVINDYLLGQVKDATNEMVRHXXXXXXXXXXXXXX 727
             +T P S             IHANHG  I DYLL Q+K+A+N++VRH              
Sbjct:   430 DTSPGSAYQEGGGLYALGLIHANHGGDIIDYLLNQLKNASNDIVRHGGSLGLGLAAMGTA 489

Query:   728 RDDIYEQLKFNLYQDDAVTGEAAGIAMGLVLLGSKSESAIQDMVAYAKETQHEKILRGLA 787
             R D+Y+ LK NLYQDDAVTGEAAG+A+GLV+LGSK+  AI+DMV YA+ETQHEKILRGLA
Sbjct:   490 RQDVYDLLKTNLYQDDAVTGEAAGLALGLVMLGSKNAQAIEDMVGYAQETQHEKILRGLA 549

Query:   788 VGISFIMYGQLENADDLVRDLCEEKDAILRRSGMYTIAMAYCGSGSNVATKRLLHDAI 845
             VGI+ +MYG++E AD L+  LC +KD ILRRSGMYT+AMAYCGSG+N A +RLLH A+
Sbjct:   550 VGIALVMYGRMEEADALIESLCRDKDPILRRSGMYTVAMAYCGSGNNKAIRRLLHVAV 607

GO:0042176 "regulation of protein catabolic process" evidence=IEA

GO:0030234 "enzyme regulator activity" evidence=IEA

GO:0000502 "proteasome complex" evidence=IEA

UNIPROTKB|J9P4R4 PSMD1 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 990 (353.6 bits), Expect = 2.4e-108, Sum P(2) = 2.4e-108
 Identities = 190/298 (63%), Positives = 231/298 (77%)

Query:   548 PENEKEKQLQARITKLSKILSGEVSIDLHLQFLIRSNKTDMLILKNTKESIRVSICHTAT 607
             PE   E + Q    K+ KILSGE++I+LHLQFLIR+N TD++ILKNTK+++R S+CHTAT
Sbjct:   312 PEVSPEPKDQT--LKMIKILSGEMAIELHLQFLIRNNNTDLMILKNTKDAVRNSVCHTAT 369

Query:   608 IIANAFMHSGTTSDQFLRDNLEWLARATNWAKLTATASLGVIHRGHETEALAHMQSYLPR 667
             +IAN+FMH GTTSDQFLRDNLEWLARATNWAK TATASLGVIH+GHE EAL  M +YLP+
Sbjct:   370 VIANSFMHCGTTSDQFLRDNLEWLARATNWAKFTATASLGVIHKGHEKEALQLMATYLPK 429

Query:   668 ETGPTSXXXXXXXXXXXXXIHANHGAVINDYLLGQVKDATNEMVRHXXXXXXXXXXXXXX 727
             +T P S             IHANHG  I DYLL Q+K+A+N++VRH              
Sbjct:   430 DTSPGSAYQEGGGLYALGLIHANHGGDIIDYLLNQLKNASNDIVRHGGSLGLGLAAMGTA 489

Query:   728 RDDIYEQLKFNLYQDDAVTGEAAGIAMGLVLLGSKSESAIQDMVAYAKETQHEKILRGLA 787
             R D+Y+ LK NLYQDDAVTGEAAG+A+GLV+LGSK+  AI+DMV YA+ETQHEKILRGLA
Sbjct:   490 RQDVYDLLKTNLYQDDAVTGEAAGLALGLVMLGSKNAQAIEDMVGYAQETQHEKILRGLA 549

Query:   788 VGISFIMYGQLENADDLVRDLCEEKDAILRRSGMYTIAMAYCGSGSNVATKRLLHDAI 845
             VGI+ +MYG++E AD L+  LC +KD ILRRSGMYT+AMAYCGSG+N A +RLLH A+
Sbjct:   550 VGIALVMYGRMEEADALIESLCRDKDPILRRSGMYTVAMAYCGSGNNKAIRRLLHVAV 607

GO:0042176 "regulation of protein catabolic process" evidence=IEA

GO:0030234 "enzyme regulator activity" evidence=IEA

GO:0000502 "proteasome complex" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q9V3P6	PSMD1_DROME	No assigned EC number	0.5662	0.4433	0.4294	yes	N/A
Q99460	PSMD1_HUMAN	No assigned EC number	0.5307	0.4291	0.4449	yes	N/A
Q5F418	PSMD1_CHICK	No assigned EC number	0.5288	0.4291	0.4439	yes	N/A
O88761	PSMD1_RAT	No assigned EC number	0.5169	0.4190	0.4344	yes	N/A
Q3TXS7	PSMD1_MOUSE	No assigned EC number	0.5193	0.4311	0.4470	yes	N/A
Q5R5S4	PSMD1_PONAB	No assigned EC number	0.5229	0.4271	0.4428	yes	N/A

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Length	Definition	E-value
Query	988
COG5116	926	COG5116, RPN2, 26S proteasome regulatory complex c	1e-98
COG5116	926	COG5116, RPN2, 26S proteasome regulatory complex c	9e-92
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	3e-14
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	3e-13
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	8e-13
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	1e-12
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	2e-12
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	2e-12
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	3e-12
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	5e-12
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	6e-12
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	6e-12
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	8e-12
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	1e-11
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	2e-11
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	3e-11
COG5110	881	COG5110, RPN1, 26S proteasome regulatory complex c	4e-11
TIGR02794	346	TIGR02794, tolA_full, TolA protein	1e-10
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	4e-10
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	7e-10
pfam06658	142	pfam06658, DUF1168, Protein of unknown function (D	9e-10
pfam10243	506	pfam10243, MIP-T3, Microtubule-binding protein MIP	1e-09
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	3e-09
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	3e-09
TIGR02794	346	TIGR02794, tolA_full, TolA protein	3e-09
PRK13808	333	PRK13808, PRK13808, adenylate kinase; Provisional	3e-09
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	5e-09
pfam08432	182	pfam08432, DUF1742, Fungal protein of unknown func	6e-09
pfam10243	506	pfam10243, MIP-T3, Microtubule-binding protein MIP	1e-08
pfam10243	506	pfam10243, MIP-T3, Microtubule-binding protein MIP	1e-08
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	2e-08
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	2e-08
TIGR02794	346	TIGR02794, tolA_full, TolA protein	2e-08
pfam08208	193	pfam08208, RNA_polI_A34, DNA-directed RNA polymera	2e-08
pfam04935	206	pfam04935, SURF6, Surfeit locus protein 6	2e-08
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	3e-08
TIGR02794	346	TIGR02794, tolA_full, TolA protein	3e-08
PRK11192	434	PRK11192, PRK11192, ATP-dependent RNA helicase Srm	3e-08
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	4e-08
TIGR02794	346	TIGR02794, tolA_full, TolA protein	5e-08
PRK13808	333	PRK13808, PRK13808, adenylate kinase; Provisional	5e-08
PRK13808	333	PRK13808, PRK13808, adenylate kinase; Provisional	5e-08
pfam10243	506	pfam10243, MIP-T3, Microtubule-binding protein MIP	6e-08
pfam08432	182	pfam08432, DUF1742, Fungal protein of unknown func	6e-08
pfam08432	182	pfam08432, DUF1742, Fungal protein of unknown func	6e-08
PRK04195	482	PRK04195, PRK04195, replication factor C large sub	6e-08
PRK12280	158	PRK12280, rplW, 50S ribosomal protein L23; Reviewe	7e-08
pfam09428	130	pfam09428, DUF2011, Fungal protein of unknown func	7e-08
pfam08432	182	pfam08432, DUF1742, Fungal protein of unknown func	9e-08
PRK04195	482	PRK04195, PRK04195, replication factor C large sub	9e-08
PRK04195	482	PRK04195, PRK04195, replication factor C large sub	1e-07
PRK09510	387	PRK09510, tolA, cell envelope integrity inner memb	1e-07
PRK05901	509	PRK05901, PRK05901, RNA polymerase sigma factor; P	1e-07
pfam08208	193	pfam08208, RNA_polI_A34, DNA-directed RNA polymera	2e-07
PRK04195	482	PRK04195, PRK04195, replication factor C large sub	2e-07
PRK04195	482	PRK04195, PRK04195, replication factor C large sub	2e-07
pfam04935	206	pfam04935, SURF6, Surfeit locus protein 6	3e-07
PRK11642	813	PRK11642, PRK11642, exoribonuclease R; Provisional	3e-07
COG3064	387	COG3064, TolA, Membrane protein involved in colici	3e-07
pfam07780	212	pfam07780, Spb1_C, Spb1 C-terminal domain	3e-07
pfam13904	261	pfam13904, DUF4207, Domain of unknown function (DU	4e-07
pfam04935	206	pfam04935, SURF6, Surfeit locus protein 6	5e-07
PRK12280	158	PRK12280, rplW, 50S ribosomal protein L23; Reviewe	5e-07
PRK05901	509	PRK05901, PRK05901, RNA polymerase sigma factor; P	5e-07
PRK13808	333	PRK13808, PRK13808, adenylate kinase; Provisional	6e-07
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	8e-07
pfam10243	506	pfam10243, MIP-T3, Microtubule-binding protein MIP	8e-07
PRK09510	387	PRK09510, tolA, cell envelope integrity inner memb	8e-07
COG3064	387	COG3064, TolA, Membrane protein involved in colici	8e-07
pfam07767	387	pfam07767, Nop53, Nop53 (60S ribosomal biogenesis)	8e-07
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	9e-07
pfam04935	206	pfam04935, SURF6, Surfeit locus protein 6	9e-07
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	1e-06
TIGR02794	346	TIGR02794, tolA_full, TolA protein	1e-06
pfam08208	193	pfam08208, RNA_polI_A34, DNA-directed RNA polymera	1e-06
PRK04195	482	PRK04195, PRK04195, replication factor C large sub	1e-06
PRK04195	482	PRK04195, PRK04195, replication factor C large sub	1e-06
COG3064	387	COG3064, TolA, Membrane protein involved in colici	1e-06
pfam09468	287	pfam09468, RNase_H2-Ydr279, Ydr279p protein family	1e-06
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	2e-06
pfam06658	142	pfam06658, DUF1168, Protein of unknown function (D	2e-06
PRK13808	333	PRK13808, PRK13808, adenylate kinase; Provisional	2e-06
pfam08208	193	pfam08208, RNA_polI_A34, DNA-directed RNA polymera	2e-06
PRK04195	482	PRK04195, PRK04195, replication factor C large sub	2e-06
PTZ00372	413	PTZ00372, PTZ00372, endonuclease 4-like protein; P	2e-06
pfam05764	238	pfam05764, YL1, YL1 nuclear protein	2e-06
PRK14552	414	PRK14552, PRK14552, C/D box methylation guide ribo	2e-06
pfam08524	150	pfam08524, rRNA_processing, rRNA processing	2e-06
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	3e-06
PRK09510	387	PRK09510, tolA, cell envelope integrity inner memb	3e-06
PRK05901	509	PRK05901, PRK05901, RNA polymerase sigma factor; P	3e-06
PTZ00372	413	PTZ00372, PTZ00372, endonuclease 4-like protein; P	3e-06
pfam05764	238	pfam05764, YL1, YL1 nuclear protein	3e-06
pfam03839	217	pfam03839, Sec62, Translocation protein Sec62	3e-06
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	4e-06
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	4e-06
PRK13808	333	PRK13808, PRK13808, adenylate kinase; Provisional	4e-06
pfam05262	489	pfam05262, Borrelia_P83, Borrelia P83/100 protein	4e-06
pfam06102	168	pfam06102, DUF947, Domain of unknown function (DUF	4e-06
pfam06102	168	pfam06102, DUF947, Domain of unknown function (DUF	4e-06
pfam07946	322	pfam07946, DUF1682, Protein of unknown function (D	5e-06
pfam03763	112	pfam03763, Remorin_C, Remorin, C-terminal region	5e-06
pfam10243	506	pfam10243, MIP-T3, Microtubule-binding protein MIP	6e-06
PRK09510	387	PRK09510, tolA, cell envelope integrity inner memb	6e-06
PRK13808	333	PRK13808, PRK13808, adenylate kinase; Provisional	7e-06
pfam08208	193	pfam08208, RNA_polI_A34, DNA-directed RNA polymera	7e-06
pfam04641	254	pfam04641, Rtf2, Replication termination factor 2	7e-06
PRK09510	387	PRK09510, tolA, cell envelope integrity inner memb	8e-06
pfam09756	189	pfam09756, DDRGK, DDRGK domain	8e-06
COG3064	387	COG3064, TolA, Membrane protein involved in colici	9e-06
pfam06102	168	pfam06102, DUF947, Domain of unknown function (DUF	9e-06
pfam08432	182	pfam08432, DUF1742, Fungal protein of unknown func	1e-05
COG3064	387	COG3064, TolA, Membrane protein involved in colici	1e-05
pfam13904	261	pfam13904, DUF4207, Domain of unknown function (DU	1e-05
pfam09468	287	pfam09468, RNase_H2-Ydr279, Ydr279p protein family	1e-05
pfam06102	168	pfam06102, DUF947, Domain of unknown function (DUF	1e-05
pfam10243	506	pfam10243, MIP-T3, Microtubule-binding protein MIP	2e-05
PRK09510	387	PRK09510, tolA, cell envelope integrity inner memb	2e-05
PRK09510	387	PRK09510, tolA, cell envelope integrity inner memb	2e-05
PRK14907	295	PRK14907, rplD, 50S ribosomal protein L4; Provisio	2e-05
pfam02463	1162	pfam02463, SMC_N, RecF/RecN/SMC N terminal domain	2e-05
pfam11861	154	pfam11861, DUF3381, Domain of unknown function (DU	2e-05
pfam08555	90	pfam08555, DUF1754, Eukaryotic family of unknown f	2e-05
pfam10169	124	pfam10169, Laps, Learning-associated protein	2e-05
pfam09507	427	pfam09507, CDC27, DNA polymerase subunit Cdc27	2e-05
pfam10595	349	pfam10595, UPF0564, Uncharacterized protein family	2e-05
pfam14265	125	pfam14265, DUF4355, Domain of unknown function (DU	2e-05
PRK03918	880	PRK03918, PRK03918, chromosome segregation protein	2e-05
pfam06658	142	pfam06658, DUF1168, Protein of unknown function (D	3e-05
pfam08432	182	pfam08432, DUF1742, Fungal protein of unknown func	3e-05
PRK05901	509	PRK05901, PRK05901, RNA polymerase sigma factor; P	3e-05
PRK05901	509	PRK05901, PRK05901, RNA polymerase sigma factor; P	3e-05
pfam05764	238	pfam05764, YL1, YL1 nuclear protein	3e-05
pfam06102	168	pfam06102, DUF947, Domain of unknown function (DUF	3e-05
pfam07946	322	pfam07946, DUF1682, Protein of unknown function (D	3e-05
PRK14907	295	PRK14907, rplD, 50S ribosomal protein L4; Provisio	3e-05
smart00435	391	smart00435, TOPEUc, DNA Topoisomerase I (eukaryota	3e-05
pfam09135	112	pfam09135, Alb1, Alb1	3e-05
PRK13808	333	PRK13808, PRK13808, adenylate kinase; Provisional	4e-05
PRK12280	158	PRK12280, rplW, 50S ribosomal protein L23; Reviewe	4e-05
pfam09428	130	pfam09428, DUF2011, Fungal protein of unknown func	4e-05
COG3064	387	COG3064, TolA, Membrane protein involved in colici	4e-05
cd12951	129	cd12951, RRP7_Rrp7A, RRP7 domain ribosomal RNA-pro	4e-05
PTZ00399	651	PTZ00399, PTZ00399, cysteinyl-tRNA-synthetase; Pro	4e-05
PRK13808	333	PRK13808, PRK13808, adenylate kinase; Provisional	5e-05
pfam04641	254	pfam04641, Rtf2, Replication termination factor 2	5e-05
COG1293	564	COG1293, COG1293, Predicted RNA-binding protein ho	5e-05
PRK14552	414	PRK14552, PRK14552, C/D box methylation guide ribo	6e-05
pfam02463	1162	pfam02463, SMC_N, RecF/RecN/SMC N terminal domain	6e-05
smart00435	391	smart00435, TOPEUc, DNA Topoisomerase I (eukaryota	6e-05
pfam04615	728	pfam04615, Utp14, Utp14 protein	6e-05
pfam04935	206	pfam04935, SURF6, Surfeit locus protein 6	7e-05
pfam09428	130	pfam09428, DUF2011, Fungal protein of unknown func	7e-05
pfam08555	90	pfam08555, DUF1754, Eukaryotic family of unknown f	7e-05
PRK14900	1052	PRK14900, valS, valyl-tRNA synthetase; Provisional	7e-05
pfam05890	270	pfam05890, Ebp2, Eukaryotic rRNA processing protei	7e-05
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	8e-05
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	8e-05
pfam10278	178	pfam10278, Med19, Mediator of RNA pol II transcrip	8e-05
PRK12704	520	PRK12704, PRK12704, phosphodiesterase; Provisional	8e-05
pfam12569	516	pfam12569, NARP1, NMDA receptor-regulated protein	8e-05
pfam08555	90	pfam08555, DUF1754, Eukaryotic family of unknown f	9e-05
pfam09507	427	pfam09507, CDC27, DNA polymerase subunit Cdc27	9e-05
pfam03998	239	pfam03998, Utp11, Utp11 protein	9e-05
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	1e-04
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	1e-04
pfam08208	193	pfam08208, RNA_polI_A34, DNA-directed RNA polymera	1e-04
PRK12280	158	PRK12280, rplW, 50S ribosomal protein L23; Reviewe	1e-04
COG3064	387	COG3064, TolA, Membrane protein involved in colici	1e-04
pfam07767	387	pfam07767, Nop53, Nop53 (60S ribosomal biogenesis)	1e-04
pfam09468	287	pfam09468, RNase_H2-Ydr279, Ydr279p protein family	1e-04
pfam04641	254	pfam04641, Rtf2, Replication termination factor 2	1e-04
PRK14907	295	PRK14907, rplD, 50S ribosomal protein L4; Provisio	1e-04
pfam09507	427	pfam09507, CDC27, DNA polymerase subunit Cdc27	1e-04
PRK03918	880	PRK03918, PRK03918, chromosome segregation protein	1e-04
pfam05890	270	pfam05890, Ebp2, Eukaryotic rRNA processing protei	1e-04
pfam10278	178	pfam10278, Med19, Mediator of RNA pol II transcrip	1e-04
PRK05306	746	PRK05306, infB, translation initiation factor IF-2	1e-04
pfam01577	245	pfam01577, Peptidase_S30, Potyvirus P1 protease	1e-04
pfam05672	171	pfam05672, MAP7, MAP7 (E-MAP-115) family	1e-04
pfam05672	171	pfam05672, MAP7, MAP7 (E-MAP-115) family	1e-04
pfam08597	242	pfam08597, eIF3_subunit, Translation initiation fa	1e-04
PTZ00074	135	PTZ00074, PTZ00074, 60S ribosomal protein L34; Pro	1e-04
PRK04950	213	PRK04950, PRK04950, ProP expression regulator; Pro	1e-04
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	2e-04
PRK12280	158	PRK12280, rplW, 50S ribosomal protein L23; Reviewe	2e-04
PRK09510	387	PRK09510, tolA, cell envelope integrity inner memb	2e-04
PRK05901	509	PRK05901, PRK05901, RNA polymerase sigma factor; P	2e-04
COG3064	387	COG3064, TolA, Membrane protein involved in colici	2e-04
pfam07780	212	pfam07780, Spb1_C, Spb1 C-terminal domain	2e-04
pfam06102	168	pfam06102, DUF947, Domain of unknown function (DUF	2e-04
pfam09756	189	pfam09756, DDRGK, DDRGK domain	2e-04
pfam02463	1162	pfam02463, SMC_N, RecF/RecN/SMC N terminal domain	2e-04
pfam08555	90	pfam08555, DUF1754, Eukaryotic family of unknown f	2e-04
pfam14265	125	pfam14265, DUF4355, Domain of unknown function (DU	2e-04
PRK03918	880	PRK03918, PRK03918, chromosome segregation protein	2e-04
smart00435	391	smart00435, TOPEUc, DNA Topoisomerase I (eukaryota	2e-04
PRK04950	213	PRK04950, PRK04950, ProP expression regulator; Pro	2e-04
CHL00204	1832	CHL00204, ycf1, Ycf1; Provisional	2e-04
pfam03343	603	pfam03343, SART-1, SART-1 family	2e-04
pfam11208	132	pfam11208, DUF2992, Protein of unknown function (D	2e-04
pfam13863	126	pfam13863, DUF4200, Domain of unknown function (DU	2e-04
pfam10147	217	pfam10147, CR6_interact, Growth arrest and DNA-dam	2e-04
cd09270	211	cd09270, RNase_H2-B, Ribonuclease H2-B is a subuni	2e-04
PRK11192	434	PRK11192, PRK11192, ATP-dependent RNA helicase Srm	3e-04
PRK09510	387	PRK09510, tolA, cell envelope integrity inner memb	3e-04
pfam04641	254	pfam04641, Rtf2, Replication termination factor 2	3e-04
pfam11861	154	pfam11861, DUF3381, Domain of unknown function (DU	3e-04
pfam08555	90	pfam08555, DUF1754, Eukaryotic family of unknown f	3e-04
PRK03918	880	PRK03918, PRK03918, chromosome segregation protein	3e-04
pfam12569	516	pfam12569, NARP1, NMDA receptor-regulated protein	3e-04
CHL00204	1832	CHL00204, ycf1, Ycf1; Provisional	3e-04
pfam11208	132	pfam11208, DUF2992, Protein of unknown function (D	3e-04
pfam08079	71	pfam08079, Ribosomal_L30_N, Ribosomal L30 N-termin	3e-04
pfam14303	147	pfam14303, NAM-associated, No apical meristem-asso	3e-04
PTZ00372	413	PTZ00372, PTZ00372, endonuclease 4-like protein; P	4e-04
PRK14552	414	PRK14552, PRK14552, C/D box methylation guide ribo	4e-04
PRK14900	1052	PRK14900, valS, valyl-tRNA synthetase; Provisional	4e-04
pfam14303	147	pfam14303, NAM-associated, No apical meristem-asso	4e-04
pfam01851	35	pfam01851, PC_rep, Proteasome/cyclosome repeat	4e-04
pfam01851	35	pfam01851, PC_rep, Proteasome/cyclosome repeat	4e-04
PRK00247	429	PRK00247, PRK00247, putative inner membrane protei	4e-04
PRK05244	177	PRK05244, PRK05244, Der GTPase activator; Provisio	4e-04
pfam13166	713	pfam13166, AAA_13, AAA domain	4e-04
PLN02967	581	PLN02967, PLN02967, kinase	4e-04
pfam04939	164	pfam04939, RRS1, Ribosome biogenesis regulatory pr	4e-04
pfam13868	349	pfam13868, Trichoplein, Tumour suppressor, Mitosta	4e-04
PRK13042	291	PRK13042, PRK13042, superantigen-like protein; Rev	4e-04
PRK13808	333	PRK13808, PRK13808, adenylate kinase; Provisional	5e-04
pfam04935	206	pfam04935, SURF6, Surfeit locus protein 6	5e-04
COG3064	387	COG3064, TolA, Membrane protein involved in colici	5e-04
pfam09468	287	pfam09468, RNase_H2-Ydr279, Ydr279p protein family	5e-04
pfam04641	254	pfam04641, Rtf2, Replication termination factor 2	5e-04
pfam02463	1162	pfam02463, SMC_N, RecF/RecN/SMC N terminal domain	5e-04
pfam10595	349	pfam10595, UPF0564, Uncharacterized protein family	5e-04
pfam14265	125	pfam14265, DUF4355, Domain of unknown function (DU	5e-04
PRK04950	213	PRK04950, PRK04950, ProP expression regulator; Pro	5e-04
COG0810	244	COG0810, TonB, Periplasmic protein TonB, links inn	5e-04
PRK00409	782	PRK00409, PRK00409, recombination and DNA strand e	5e-04
pfam02349	81	pfam02349, MSG, Major surface glycoprotein	5e-04
pfam05764	238	pfam05764, YL1, YL1 nuclear protein	6e-04
PRK03918	880	PRK03918, PRK03918, chromosome segregation protein	6e-04
PRK03918	880	PRK03918, PRK03918, chromosome segregation protein	6e-04
pfam10278	178	pfam10278, Med19, Mediator of RNA pol II transcrip	6e-04
PTZ00074	135	PTZ00074, PTZ00074, 60S ribosomal protein L34; Pro	6e-04
cd12932	118	cd12932, RRP7_like, RRP7 domain ribosomal RNA-proc	6e-04
COG4499	434	COG4499, COG4499, Predicted membrane protein [Func	6e-04
pfam08524	150	pfam08524, rRNA_processing, rRNA processing	7e-04
pfam06102	168	pfam06102, DUF947, Domain of unknown function (DUF	7e-04
PRK03918	880	PRK03918, PRK03918, chromosome segregation protein	7e-04
pfam05890	270	pfam05890, Ebp2, Eukaryotic rRNA processing protei	7e-04
pfam03998	239	pfam03998, Utp11, Utp11 protein	7e-04
pfam08597	242	pfam08597, eIF3_subunit, Translation initiation fa	7e-04
PTZ00074	135	PTZ00074, PTZ00074, 60S ribosomal protein L34; Pro	7e-04
PTZ00074	135	PTZ00074, PTZ00074, 60S ribosomal protein L34; Pro	7e-04
PTZ00217	393	PTZ00217, PTZ00217, flap endonuclease-1; Provision	7e-04
COG5163	591	COG5163, NOP7, Protein required for biogenesis of	7e-04
pfam01577	245	pfam01577, Peptidase_S30, Potyvirus P1 protease	8e-04
pfam00183	529	pfam00183, HSP90, Hsp90 protein	8e-04
pfam09073	424	pfam09073, BUD22, BUD22	8e-04
pfam08701	80	pfam08701, GN3L_Grn1, GNL3L/Grn1 putative GTPase	8e-04
PTZ00108	1388	PTZ00108, PTZ00108, DNA topoisomerase 2-like prote	8e-04
TIGR02794	346	TIGR02794, tolA_full, TolA protein	9e-04
pfam08524	150	pfam08524, rRNA_processing, rRNA processing	9e-04
pfam05262	489	pfam05262, Borrelia_P83, Borrelia P83/100 protein	0.001
pfam05262	489	pfam05262, Borrelia_P83, Borrelia P83/100 protein	0.001
pfam07946	322	pfam07946, DUF1682, Protein of unknown function (D	0.001
pfam08555	90	pfam08555, DUF1754, Eukaryotic family of unknown f	0.001
pfam03343	603	pfam03343, SART-1, SART-1 family	0.001
pfam03343	603	pfam03343, SART-1, SART-1 family	0.001
cd09270	211	cd09270, RNase_H2-B, Ribonuclease H2-B is a subuni	0.001
pfam13868	349	pfam13868, Trichoplein, Tumour suppressor, Mitosta	0.001
COG4499	434	COG4499, COG4499, Predicted membrane protein [Func	0.001
pfam06375	561	pfam06375, BLVR, Bovine leukaemia virus receptor (	0.001
PRK07561	859	PRK07561, PRK07561, DNA topoisomerase I subunit om	0.001
COG2825	170	COG2825, HlpA, Outer membrane protein [Cell envelo	0.001
COG1498	395	COG1498, SIK1, Protein implicated in ribosomal bio	0.001
COG5269	379	COG5269, ZUO1, Ribosome-associated chaperone zuoti	0.001
pfam04747	517	pfam04747, DUF612, Protein of unknown function, DU	0.001
pfam04086	272	pfam04086, SRP-alpha_N, Signal recognition particl	0.001
PTZ00053	470	PTZ00053, PTZ00053, methionine aminopeptidase 2; P	0.001
PRK14521	186	PRK14521, rpsP, 30S ribosomal protein S16; Provisi	0.001
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	0.002
TIGR02794	346	TIGR02794, tolA_full, TolA protein	0.002
pfam08432	182	pfam08432, DUF1742, Fungal protein of unknown func	0.002
COG3064	387	COG3064, TolA, Membrane protein involved in colici	0.002
PRK14907	295	PRK14907, rplD, 50S ribosomal protein L4; Provisio	0.002
pfam09507	427	pfam09507, CDC27, DNA polymerase subunit Cdc27	0.002
pfam10278	178	pfam10278, Med19, Mediator of RNA pol II transcrip	0.002
pfam05672	171	pfam05672, MAP7, MAP7 (E-MAP-115) family	0.002
PTZ00074	135	PTZ00074, PTZ00074, 60S ribosomal protein L34; Pro	0.002
PTZ00074	135	PTZ00074, PTZ00074, 60S ribosomal protein L34; Pro	0.002
pfam01851	35	pfam01851, PC_rep, Proteasome/cyclosome repeat	0.002
COG0810	244	COG0810, TonB, Periplasmic protein TonB, links inn	0.002
pfam09073	424	pfam09073, BUD22, BUD22	0.002
PRK07561	859	PRK07561, PRK07561, DNA topoisomerase I subunit om	0.002
pfam04747	517	pfam04747, DUF612, Protein of unknown function, DU	0.002
PTZ00053	470	PTZ00053, PTZ00053, methionine aminopeptidase 2; P	0.002
pfam10659	98	pfam10659, Trypan_glycop_C, Trypanosome variant su	0.002
PRK11778	330	PRK11778, PRK11778, putative inner membrane peptid	0.002
pfam03962	188	pfam03962, Mnd1, Mnd1 family	0.002
COG4487	438	COG4487, COG4487, Uncharacterized protein conserve	0.002
pfam08496	154	pfam08496, Peptidase_S49_N, Peptidase family S49 N	0.002
CHL00189	742	CHL00189, infB, translation initiation factor 2; P	0.002
PRK07219	822	PRK07219, PRK07219, DNA topoisomerase I; Validated	0.002
pfam02414	285	pfam02414, Borrelia_orfA, Borrelia ORF-A	0.002
pfam10243	506	pfam10243, MIP-T3, Microtubule-binding protein MIP	0.003
pfam10243	506	pfam10243, MIP-T3, Microtubule-binding protein MIP	0.003
PRK05901	509	PRK05901, PRK05901, RNA polymerase sigma factor; P	0.003
pfam07946	322	pfam07946, DUF1682, Protein of unknown function (D	0.003
pfam09756	189	pfam09756, DDRGK, DDRGK domain	0.003
PRK14907	295	PRK14907, rplD, 50S ribosomal protein L4; Provisio	0.003
pfam02463	1162	pfam02463, SMC_N, RecF/RecN/SMC N terminal domain	0.003
pfam02463	1162	pfam02463, SMC_N, RecF/RecN/SMC N terminal domain	0.003
pfam02463	1162	pfam02463, SMC_N, RecF/RecN/SMC N terminal domain	0.003
PRK03918	880	PRK03918, PRK03918, chromosome segregation protein	0.003
pfam04615	728	pfam04615, Utp14, Utp14 protein	0.003
PTZ00074	135	PTZ00074, PTZ00074, 60S ribosomal protein L34; Pro	0.003
PRK04950	213	PRK04950, PRK04950, ProP expression regulator; Pro	0.003
PRK00409	782	PRK00409, PRK00409, recombination and DNA strand e	0.003
pfam04086	272	pfam04086, SRP-alpha_N, Signal recognition particl	0.003
pfam10659	98	pfam10659, Trypan_glycop_C, Trypanosome variant su	0.003
pfam10659	98	pfam10659, Trypan_glycop_C, Trypanosome variant su	0.003
PRK07219	822	PRK07219, PRK07219, DNA topoisomerase I; Validated	0.003
COG3078	169	COG3078, COG3078, Uncharacterized protein conserve	0.003
pfam12923	131	pfam12923, RRP7, Ribosomal RNA-processing protein	0.003
pfam09736	141	pfam09736, Bud13, Pre-mRNA-splicing factor of RES	0.003
PLN02381	1066	PLN02381, PLN02381, valyl-tRNA synthetase	0.003
COG1340	294	COG1340, COG1340, Uncharacterized archaeal coiled-	0.003
pfam07432	123	pfam07432, Hc1, Histone H1-like protein Hc1	0.003
pfam05424	276	pfam05424, Duffy_binding, Duffy binding domain	0.003
pfam07767	387	pfam07767, Nop53, Nop53 (60S ribosomal biogenesis)	0.004
PRK14552	414	PRK14552, PRK14552, C/D box methylation guide ribo	0.004
pfam09507	427	pfam09507, CDC27, DNA polymerase subunit Cdc27	0.004
PRK07561	859	PRK07561, PRK07561, DNA topoisomerase I subunit om	0.004
pfam09736	141	pfam09736, Bud13, Pre-mRNA-splicing factor of RES	0.004
cd08045	212	cd08045, TAF4, TATA Binding Protein (TBP) Associat	0.004
PRK06319	860	PRK06319, PRK06319, DNA topoisomerase I/SWI domain	0.004
COG5252	299	COG5252, COG5252, Uncharacterized conserved protei	0.004

>gnl|CDD|227446 COG5116, RPN2, 26S proteasome regulatory complex component [Posttranslational modification, protein turnover, chaperones]

 Score =  331 bits (849), Expect = 1e-98
 Identities = 154/365 (42%), Positives = 207/365 (56%), Gaps = 40/365 (10%)

Query: 541 DIVDDFWPENEK----EKQLQARITKLSKILSGEVSIDLHLQFLIRSNKTDMLILKNTKE 596
           D+ D    E  +    E   Q     +  ILSGE +      FL+  N TD   L ++K 
Sbjct: 249 DLEDSASQEILEILVTELVAQGYDQAVMSILSGEFTKKYLGAFLLEKNNTDFKFLNSSKS 308

Query: 597 SI--RVSICHTATIIANAFMHSGTTSDQFLRDNLEWLARATNWAKLTATASLGVIHRGHE 654
           S+  + S  H A  +AN+FM+ GT++D F R+NL+WL +A+NWAK TATASLGVIH G+ 
Sbjct: 309 SLARKFSRFHYAVSLANSFMNLGTSNDSFYRNNLDWLGKASNWAKFTATASLGVIHLGNS 368

Query: 655 TEALAHMQSYLPRETGPTSGYYEGGGLYALGLIHANHGAVINDYLLGQVKDATNEM---V 711
                 ++ YLP E   +S   EGG LYALGLI A  G    +YLL    D  +E+   +
Sbjct: 369 NPGYEILKPYLPSEVA-SSRQKEGGALYALGLIKAGFGREDTEYLLEYFLDTEDELTPEL 427

Query: 712 RHGGCLGLGLAAMGSARDDIYEQLKFNLYQDDAVTGEAAGIAMGLVLLGSKSESAIQDMV 771
            +G CLG+GL  MGSA  +IYE+LK  L  D A+ GEAA   MGL++LG+ S  AI+DM 
Sbjct: 428 AYGVCLGIGLINMGSANREIYEKLKELLKNDRALLGEAAVYGMGLLMLGTWSVEAIEDMR 487

Query: 772 AYAKETQHEKILRGLAVGISFIMYGQLENADDLVRDLCEEKDAILRRSGMYTIAMAYCGS 831
            YA ETQHE+I RGL +G + I+YG+ E ADD + +L  +K                   
Sbjct: 488 TYAGETQHERIKRGLGIGFALILYGRQEMADDYINELLYDK------------------- 528

Query: 832 GSNVATKRLLHDAILRRSGMYTIAMAYCGSGSNVATKRLLHVAVSDVNDDVRREAVTALG 891
                      D+ILR +G++++A+AY G+G+      LLH AVSD NDDVRR AV ALG
Sbjct: 529 -----------DSILRYNGVFSLALAYVGTGNLGVVSTLLHYAVSDGNDDVRRAAVIALG 577

Query: 892 FILFR 896
           F+   
Sbjct: 578 FVCCD 582

Length = 926

>gnl|CDD|227446 COG5116, RPN2, 26S proteasome regulatory complex component [Posttranslational modification, protein turnover, chaperones]

 Score =  312 bits (801), Expect = 9e-92
 Identities = 164/498 (32%), Positives = 225/498 (45%), Gaps = 133/498 (26%)

Query: 43  LAMSSIQSRSFRAQILRTLVRLYHSLSVPDYVNMAQCWIYLDDPRSVANLLGKLVAGSAD 102
           LA++ ++   FR +ILR L  +      PDY  + +  +YL+D      L+ KLV    +
Sbjct: 181 LAITLVEEEGFRKEILRMLAEIGPGKPKPDYFYVIKAVVYLNDAEKAKALIEKLV--KEN 238

Query: 103 DDLMAAQIGFDLYESATQAFLASVLQELKTCAPIPDATHVVVKVPVEGAPTPATPDTEAP 162
           D L+ AQ+ FDL +SA+Q  L                         E   T         
Sbjct: 239 DLLLYAQVAFDLEDSASQEIL-------------------------EILVTELVAQGYDQ 273

Query: 163 TPAPGTESGPSSTTPGPETKTLESLNEKEKQLQARITKLSKILSGEVSIDLHLQFLIRSN 222
                                                 +  ILSGE +      FL+  N
Sbjct: 274 -------------------------------------AVMSILSGEFTKKYLGAFLLEKN 296

Query: 223 KTDMLILKNTKESI--RVSICHTATIIANAFMHSGTTSDQFLRDNLEWLARATNWAKLTA 280
            TD   L ++K S+  + S  H A  +AN+FM+ GT++D F R+NL+WL +A+NWAK TA
Sbjct: 297 NTDFKFLNSSKSSLARKFSRFHYAVSLANSFMNLGTSNDSFYRNNLDWLGKASNWAKFTA 356

Query: 281 TASLGVIHRGHETEALAHMQSYLPRETGPTSGYYEGGGLYALGLIHANHGAVINDYLLGQ 340
           TASLGVIH G+       ++ YLP E   +S   EGG LYALGLI A  G    +YLL  
Sbjct: 357 TASLGVIHLGNSNPGYEILKPYLPSEVA-SSRQKEGGALYALGLIKAGFGREDTEYLLEY 415

Query: 341 VKDATNE-----------------------------------DDAVTGEAAGIAMGLVLL 365
             D  +E                                   D A+ GEAA   MGL++L
Sbjct: 416 FLDTEDELTPELAYGVCLGIGLINMGSANREIYEKLKELLKNDRALLGEAAVYGMGLLML 475

Query: 366 GSKSESAIQDMVAYAKETQHEKILRGLAVGISFIMYGQLENADDLVRDLCEEKDAILRRS 425
           G+ S  AI+DM  YA ETQHE+I RGL +G + I+YG+ E ADD + +L  +KD+ILR  
Sbjct: 476 GTWSVEAIEDMRTYAGETQHERIKRGLGIGFALILYGRQEMADDYINELLYDKDSILR-- 533

Query: 426 GMYTIAMAYCVSYLYFDLFSDLTYRIVKNRSGMYTIAMAYCGSGSNVATKRLLHVAVSDV 485
                                         +G++++A+AY G+G+      LLH AVSD 
Sbjct: 534 -----------------------------YNGVFSLALAYVGTGNLGVVSTLLHYAVSDG 564

Query: 486 NDDVRREAVTALGFILFR 503
           NDDVRR AV ALGF+   
Sbjct: 565 NDDVRRAAVIALGFVCCD 582

Length = 926

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 77.1 bits (189), Expect = 3e-14
 Identities = 36/98 (36%), Positives = 50/98 (51%), Gaps = 6/98 (6%)

Query: 897  KKRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKK--KKDAEKMKKKGAEKIGKK 954
            KK+    KK       + +    EAE   +K  A + KK+  KK A+  KKK  EK    
Sbjct: 1335 KKKAEEAKKAAEAAKAEAEAAADEAEAAEEKAEAAEKKKEEAKKKADAAKKKAEEKKKAD 1394

Query: 955  KKKKKKKKKKKK----KKKKKKKKEAEKMKKKTEEAEK 988
            + KKK ++ KKK    KK    KK+A++ KKK EE +K
Sbjct: 1395 EAKKKAEEDKKKADELKKAAAAKKKADEAKKKAEEKKK 1432

Length = 2084

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 74.4 bits (182), Expect = 3e-13
 Identities = 34/95 (35%), Positives = 56/95 (58%), Gaps = 5/95 (5%)

Query: 897  KKRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKK---KKDAEKMKKKGAEKIGK 953
            +K+   + KK AE+ +K  + KK+AE+ +KK  A+  KKK    K A +  K  AE    
Sbjct: 1300 EKKKADEAKKKAEEAKKADEAKKKAEEAKKK--ADAAKKKAEEAKKAAEAAKAEAEAAAD 1357

Query: 954  KKKKKKKKKKKKKKKKKKKKKEAEKMKKKTEEAEK 988
            + +  ++K +  +KKK++ KK+A+  KKK EE +K
Sbjct: 1358 EAEAAEEKAEAAEKKKEEAKKKADAAKKKAEEKKK 1392

Length = 2084

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 72.5 bits (177), Expect = 8e-13
 Identities = 40/102 (39%), Positives = 63/102 (61%), Gaps = 11/102 (10%)

Query: 897  KKRTRRKKKKGAEKIRKKKKKKKEAEKMRKK----KGAEKMKKK---KKDAEKMKKKGAE 949
            KK+    KKK A++++K    KK+A++ +KK    K A++ KKK    K A++ KKK  E
Sbjct: 1397 KKKAEEDKKK-ADELKKAAAAKKKADEAKKKAEEKKKADEAKKKAEEAKKADEAKKKAEE 1455

Query: 950  KIGKKKKKKKKKKKKKK---KKKKKKKKEAEKMKKKTEEAEK 988
                ++ KKK ++ KK    KKK ++ K+A++ KKK EEA+K
Sbjct: 1456 AKKAEEAKKKAEEAKKADEAKKKAEEAKKADEAKKKAEEAKK 1497

Length = 2084

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 72.5 bits (177), Expect = 1e-12
 Identities = 42/103 (40%), Positives = 65/103 (63%), Gaps = 12/103 (11%)

Query: 897  KKRTRRKKKKGAEKIRKKKKKKKEAEKMRKK-----KGAEKMKKK---KKDAEKMKKKGA 948
            +K+    KKK A+  +KK ++KK+A++ +KK     K A+++KK    KK A++ KKK  
Sbjct: 1370 EKKKEEAKKK-ADAAKKKAEEKKKADEAKKKAEEDKKKADELKKAAAAKKKADEAKKKAE 1428

Query: 949  EKIGK---KKKKKKKKKKKKKKKKKKKKKEAEKMKKKTEEAEK 988
            EK      KKK ++ KK  + KKK ++ K+AE+ KKK EEA+K
Sbjct: 1429 EKKKADEAKKKAEEAKKADEAKKKAEEAKKAEEAKKKAEEAKK 1471

Length = 2084

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 71.7 bits (175), Expect = 2e-12
 Identities = 39/97 (40%), Positives = 59/97 (60%), Gaps = 7/97 (7%)

Query: 896  RKKRTRRKK----KKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKI 951
            +K    +KK    KK AE+ +K  + KK+AE+ +K   A+K  ++ K AE+ KKK  E  
Sbjct: 1411 KKAAAAKKKADEAKKKAEEKKKADEAKKKAEEAKKADEAKKKAEEAKKAEEAKKKAEE-- 1468

Query: 952  GKKKKKKKKKKKKKKKKKKKKKKEAEKMKKKTEEAEK 988
              KK  + KKK ++ KK  + KK+AE+ KKK +EA+K
Sbjct: 1469 -AKKADEAKKKAEEAKKADEAKKKAEEAKKKADEAKK 1504

Length = 2084

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 71.3 bits (174), Expect = 2e-12
 Identities = 40/122 (32%), Positives = 69/122 (56%), Gaps = 13/122 (10%)

Query: 879  NDDVRREAVTALGFILFRKKRTRRKKKKGAEKIRKKKKKKK--EAEKMRKKKGAEKMKKK 936
            N+++R+     +     R+   + ++ + A++++K ++KKK  EA+K  +KK A++ KKK
Sbjct: 1251 NEEIRKFEEARMAHFARRQAAIKAEEARKADELKKAEEKKKADEAKKAEEKKKADEAKKK 1310

Query: 937  ---KKDAEKMKKKGAEKIGKK----KKKKKKKKKK---KKKKKKKKKKEAEKMKKKTEEA 986
                K A++ KKK AE+  KK    KKK ++ KK     K + +    EAE  ++K E A
Sbjct: 1311 AEEAKKADEAKKK-AEEAKKKADAAKKKAEEAKKAAEAAKAEAEAAADEAEAAEEKAEAA 1369

Query: 987  EK 988
            EK
Sbjct: 1370 EK 1371

Length = 2084

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 70.6 bits (172), Expect = 3e-12
 Identities = 39/111 (35%), Positives = 58/111 (52%), Gaps = 19/111 (17%)

Query: 897  KKRTRRKKKKGAEKIRKKKK--------KKKEAEKMRKK----KGAEKMKKK----KKDA 940
             K         AE   +K +         KK+A+  +KK    K A++ KKK    KK A
Sbjct: 1348 AKAEAEAAADEAEAAEEKAEAAEKKKEEAKKKADAAKKKAEEKKKADEAKKKAEEDKKKA 1407

Query: 941  EKMKKKGAEKIGK---KKKKKKKKKKKKKKKKKKKKKEAEKMKKKTEEAEK 988
            +++KK  A K      KKK ++KKK  + KKK ++ K+A++ KKK EEA+K
Sbjct: 1408 DELKKAAAAKKKADEAKKKAEEKKKADEAKKKAEEAKKADEAKKKAEEAKK 1458

Length = 2084

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 70.2 bits (171), Expect = 5e-12
 Identities = 37/95 (38%), Positives = 54/95 (56%), Gaps = 6/95 (6%)

Query: 897  KKRTRRKKKKGAEKIRKK---KKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGK 953
            KK+    KKK A+  +KK    KK  EA K   +  A++ +  ++ AE  +KK  E   K
Sbjct: 1321 KKKAEEAKKK-ADAAKKKAEEAKKAAEAAKAEAEAAADEAEAAEEKAEAAEKKKEEA--K 1377

Query: 954  KKKKKKKKKKKKKKKKKKKKKEAEKMKKKTEEAEK 988
            KK    KKK ++KKK  + KK+AE+ KKK +E +K
Sbjct: 1378 KKADAAKKKAEEKKKADEAKKKAEEDKKKADELKK 1412

Length = 2084

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 69.8 bits (170), Expect = 6e-12
 Identities = 37/106 (34%), Positives = 55/106 (51%), Gaps = 16/106 (15%)

Query: 896  RKKRTRRKKKKGAEKIRKKKKKKKEAEKMRK---KKGAEKMKKK----------KKDAEK 942
            +     + + + A    +  ++K EA + +K   KK A+  KKK          KK AE+
Sbjct: 1343 KAAEAAKAEAEAAADEAEAAEEKAEAAEKKKEEAKKKADAAKKKAEEKKKADEAKKKAEE 1402

Query: 943  MKKKGAEKIGKKKKKKKKKKKKKKKKKKKKKKEAEKMKKKTEEAEK 988
             KKK  E    KK    KKK  + KKK ++KK+A++ KKK EEA+K
Sbjct: 1403 DKKKADE---LKKAAAAKKKADEAKKKAEEKKKADEAKKKAEEAKK 1445

Length = 2084

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 69.8 bits (170), Expect = 6e-12
 Identities = 34/103 (33%), Positives = 57/103 (55%), Gaps = 11/103 (10%)

Query: 896  RKKRTRRKKK--KGAEKIRKKKKKKKEAEKMRK----KKGAEKMKKK----KKDAEKMKK 945
            +K   ++K    K AE+ +K  + KK+AE+ +K    KK AE+ KKK    KK AE+  K
Sbjct: 1284 KKAEEKKKADEAKKAEEKKKADEAKKKAEEAKKADEAKKKAEEAKKKADAAKKKAEE-AK 1342

Query: 946  KGAEKIGKKKKKKKKKKKKKKKKKKKKKKEAEKMKKKTEEAEK 988
            K AE    + +    + +  ++K +  +K+ E+ KKK + A+K
Sbjct: 1343 KAAEAAKAEAEAAADEAEAAEEKAEAAEKKKEEAKKKADAAKK 1385

Length = 2084

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 69.4 bits (169), Expect = 8e-12
 Identities = 35/95 (36%), Positives = 52/95 (54%), Gaps = 6/95 (6%)

Query: 897  KKRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMK---KKGAEKIGK 953
            KK+    KKK  E  +  +  K EAE       AE  ++K + AEK K   KK A+   K
Sbjct: 1328 KKKADAAKKKAEEAKKAAEAAKAEAEA--AADEAEAAEEKAEAAEKKKEEAKKKADAA-K 1384

Query: 954  KKKKKKKKKKKKKKKKKKKKKEAEKMKKKTEEAEK 988
            KK ++KKK  + KKK ++ KK+A+++KK     +K
Sbjct: 1385 KKAEEKKKADEAKKKAEEDKKKADELKKAAAAKKK 1419

Length = 2084

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 69.0 bits (168), Expect = 1e-11
 Identities = 32/92 (34%), Positives = 50/92 (54%)

Query: 897  KKRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKK 956
             K+    KKK  E  +K    KK+AE+ +K   A K + +    E    +   +  +KKK
Sbjct: 1314 AKKADEAKKKAEEAKKKADAAKKKAEEAKKAAEAAKAEAEAAADEAEAAEEKAEAAEKKK 1373

Query: 957  KKKKKKKKKKKKKKKKKKEAEKMKKKTEEAEK 988
            ++ KKK    KKK ++KK+A++ KKK EE +K
Sbjct: 1374 EEAKKKADAAKKKAEEKKKADEAKKKAEEDKK 1405

Length = 2084

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 68.2 bits (166), Expect = 2e-11
 Identities = 40/101 (39%), Positives = 64/101 (63%), Gaps = 10/101 (9%)

Query: 898  KRTRRKKKKGAEKIRKKKKKKKEAEKMRK----KKGAEKMKKK---KKDAEKMKKKGAEK 950
            K+   +KKK  E  +K ++ KK+A++++K    KK A++ KKK   KK A++ KKK  E 
Sbjct: 1384 KKKAEEKKKADEAKKKAEEDKKKADELKKAAAAKKKADEAKKKAEEKKKADEAKKKAEEA 1443

Query: 951  IGK---KKKKKKKKKKKKKKKKKKKKKEAEKMKKKTEEAEK 988
                  KKK ++ KK ++ KKK ++ K+A++ KKK EEA+K
Sbjct: 1444 KKADEAKKKAEEAKKAEEAKKKAEEAKKADEAKKKAEEAKK 1484

Length = 2084

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 67.9 bits (165), Expect = 3e-11
 Identities = 35/92 (38%), Positives = 58/92 (63%), Gaps = 3/92 (3%)

Query: 897  KKRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKK 956
            +K+   + KK AE+ +K  + KK+AE+ +K + A+K  ++ K A++ KKK  E    KK 
Sbjct: 1429 EKKKADEAKKKAEEAKKADEAKKKAEEAKKAEEAKKKAEEAKKADEAKKKAEE---AKKA 1485

Query: 957  KKKKKKKKKKKKKKKKKKEAEKMKKKTEEAEK 988
             + KKK ++ KKK  + K+A + KKK +EA+K
Sbjct: 1486 DEAKKKAEEAKKKADEAKKAAEAKKKADEAKK 1517

Length = 2084

>gnl|CDD|227441 COG5110, RPN1, 26S proteasome regulatory complex component [Posttranslational modification, protein turnover, chaperones]

 Score = 66.9 bits (163), Expect = 4e-11
 Identities = 53/245 (21%), Positives = 106/245 (43%), Gaps = 22/245 (8%)

Query: 611 NAFMHSGTTSDQFLRDNLEWLARATNWAKLTATASLGVIHRGHETEALAHMQSYLPRETG 670
           N  ++ G  +D  +  + EW+ +      ++A AS+GVI   +  + L  +  YL  +  
Sbjct: 368 NDPINLGYENDSLIPLDDEWIYKCKVPGLISAFASIGVIESWNSDKGLETLDKYLYAD-- 425

Query: 671 PTSGYYEGGGLYALGLIH-ANHG------AVINDYLLGQVKDATNEMVRHGGCLGLGLAA 723
               Y + G L  +GL             A++++YL      +++        LGLG A 
Sbjct: 426 --ESYRKAGALLGIGLSGLRVFEERPPALALLSNYL-----QSSSSKHVIAAILGLGAAF 478

Query: 724 MGSARDDIYEQLKFNLYQDDAVTGEA--AGIAMGLVLLGSKSE----SAIQDMVAYAKET 777
            G+  +++ E L+  ++  D+       A + +G V +G+ +       +Q  V   K  
Sbjct: 479 SGTQAEEVLELLQPIMFSTDSPIEVVFFASLTLGSVFVGTCNGDLTSLILQTFVERGKIE 538

Query: 778 QHEKILRGLAVGISFIMYGQLENADDLVRDLCEEKDAILRRSGMYTIAMAYCGSGSNVAT 837
              +  R LA+G++ + YG+ +  DD+   +   + A+ +   +      Y G+G  +  
Sbjct: 539 SETQWFRFLALGLASLFYGRKDQVDDVEETIMAIEGALSKHEEILVKGCQYVGTGDVLVI 598

Query: 838 KRLLH 842
           + LLH
Sbjct: 599 QSLLH 603

Length = 881

>gnl|CDD|234017 TIGR02794, tolA_full, TolA protein

 Score = 63.7 bits (155), Expect = 1e-10
 Identities = 32/99 (32%), Positives = 53/99 (53%), Gaps = 6/99 (6%)

Query: 896 RKKRTRRKK-----KKGAEKIRKKKK-KKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAE 949
           R+K   ++       K AE+  K+ + K+K+AE+ + K+ AE   K + +AEK  K+ A+
Sbjct: 90  RQKELEQRAAAEKAAKQAEQAAKQAEEKQKQAEEAKAKQAAEAKAKAEAEAEKKAKEEAK 149

Query: 950 KIGKKKKKKKKKKKKKKKKKKKKKKEAEKMKKKTEEAEK 988
           K  +++ K K   + KKK  + KKK   + K K E   K
Sbjct: 150 KQAEEEAKAKAAAEAKKKAAEAKKKAEAEAKAKAEAKAK 188

TolA couples the inner membrane complex of itself with TolQ and TolR to the outer membrane complex of TolB and OprL (also called Pal). Most of the length of the protein consists of low-complexity sequence that may differ in both length and composition from one species to another, complicating efforts to discriminate TolA (the most divergent gene in the tol-pal system) from paralogs such as TonB. Selection of members of the seed alignment and criteria for setting scoring cutoffs are based largely conserved operon struction. //The Tol-Pal complex is required for maintaining outer membrane integrity. Also involved in transport (uptake) of colicins and filamentous DNA, and implicated in pathogenesis. Transport is energized by the proton motive force. TolA is an inner membrane protein that interacts with periplasmic TolB and with outer membrane porins ompC, phoE and lamB [Transport and binding proteins, Other, Cellular processes, Pathogenesis]. Length = 346

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 64.0 bits (155), Expect = 4e-10
 Identities = 40/101 (39%), Positives = 59/101 (58%), Gaps = 11/101 (10%)

Query: 897  KKRTRRKKKKGAEKIRKKKKKKKEAEKMRKK----KGAEKMKKK---KKDAEKMKKKGAE 949
            KK+    KK  A++ +KK ++ K+AE+ +KK    K A++ KKK    K A++ KKK  E
Sbjct: 1437 KKKAEEAKK--ADEAKKKAEEAKKAEEAKKKAEEAKKADEAKKKAEEAKKADEAKKKAEE 1494

Query: 950  KIGKKKKKKKKKKKKKKKKKKKKKKEAEKMK--KKTEEAEK 988
               K  + KK  + KKK  + KK +EA+K    KK EEA+K
Sbjct: 1495 AKKKADEAKKAAEAKKKADEAKKAEEAKKADEAKKAEEAKK 1535

Length = 2084

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 63.2 bits (153), Expect = 7e-10
 Identities = 44/100 (44%), Positives = 65/100 (65%), Gaps = 9/100 (9%)

Query: 897  KKRTRRKKKKGAEKIRKKKKKKKEAEKMRK-----KKGAEKMKKK---KKDAEKMKKKGA 948
            KK     K K AE+ +K ++ KK+AE+ +K     KK AE +KK+    K AE++KKK A
Sbjct: 1653 KKAEEENKIKAAEEAKKAEEDKKKAEEAKKAEEDEKKAAEALKKEAEEAKKAEELKKKEA 1712

Query: 949  EKIGKKKKKKKKKKKKKKKKKKKKKKEAEKMKKKTEEAEK 988
            E+  KK ++ KK +++ K K ++ KKEAE+ KKK EEA+K
Sbjct: 1713 EEK-KKAEELKKAEEENKIKAEEAKKEAEEDKKKAEEAKK 1751

Length = 2084

>gnl|CDD|219124 pfam06658, DUF1168, Protein of unknown function (DUF1168)

 Score = 57.7 bits (140), Expect = 9e-10
 Identities = 37/91 (40%), Positives = 57/91 (62%), Gaps = 8/91 (8%)

Query: 898 KRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKK 957
           +  RR++ +  E + +K KK+ E E+ ++K+     +KK+KD EK  KK A    K++KK
Sbjct: 42  RALRRREYERLELMDEKWKKETEDEEFQQKR----EEKKRKDEEKTAKKRA----KRQKK 93

Query: 958 KKKKKKKKKKKKKKKKKEAEKMKKKTEEAEK 988
           K+KKKKKKK KK  KK+E E  K   E +++
Sbjct: 94  KQKKKKKKKAKKGNKKEEKEGSKSSEESSDE 124

This family consists of several hypothetical eukaryotic proteins of unknown function. Length = 142

>gnl|CDD|220648 pfam10243, MIP-T3, Microtubule-binding protein MIP-T3

 Score = 61.4 bits (149), Expect = 1e-09
 Identities = 26/93 (27%), Positives = 55/93 (59%)

Query: 896 RKKRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKK 955
           +++   +++ K  +K +K+K K++  ++  K++  EK   K+K+ EK KK    +  +++
Sbjct: 104 KEEEKEKEQVKEEKKKKKEKPKEEPKDRKPKEEAKEKRPPKEKEKEKEKKVEEPRDREEE 163

Query: 956 KKKKKKKKKKKKKKKKKKKEAEKMKKKTEEAEK 988
           KK+++ + K + KK  KKK   K K+  EE ++
Sbjct: 164 KKRERVRAKSRPKKPPKKKPPNKKKEPPEEEKQ 196

This protein, which interacts with both microtubules and TRAF3 (tumour necrosis factor receptor-associated factor 3), is conserved from worms to humans. The N-terminal region is the microtubule binding domain and is well-conserved; the C-terminal 100 residues, also well-conserved, constitute the coiled-coil region which binds to TRAF3. The central region of the protein is rich in lysine and glutamic acid and carries KKE motifs which may also be necessary for tubulin-binding, but this region is the least well-conserved. Length = 506

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 60.9 bits (147), Expect = 3e-09
 Identities = 37/96 (38%), Positives = 62/96 (64%), Gaps = 7/96 (7%)

Query: 897  KKRTRRKKKKGAEKIRKKKKKKKEAE--KMRKKKGAEKMKKKKKDAEKMKK-----KGAE 949
            KK+  + KKK AE+ +K ++ KK  E  K++  + A+K ++ KK AE+ KK     K A 
Sbjct: 1632 KKKVEQLKKKEAEEKKKAEELKKAEEENKIKAAEEAKKAEEDKKKAEEAKKAEEDEKKAA 1691

Query: 950  KIGKKKKKKKKKKKKKKKKKKKKKKEAEKMKKKTEE 985
            +  KK+ ++ KK ++ KKK+ ++KK+AE++KK  EE
Sbjct: 1692 EALKKEAEEAKKAEELKKKEAEEKKKAEELKKAEEE 1727

Length = 2084

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 60.9 bits (147), Expect = 3e-09
 Identities = 34/94 (36%), Positives = 59/94 (62%), Gaps = 5/94 (5%)

Query: 898  KRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKK---KKKDAEKMKKKGAEKIGKK 954
             +   + KK AE+ +K ++ +K+A +  KK+  E  K    KKK+AE+ KK  AE++ K 
Sbjct: 1667 AKKAEEDKKKAEEAKKAEEDEKKAAEALKKEAEEAKKAEELKKKEAEEKKK--AEELKKA 1724

Query: 955  KKKKKKKKKKKKKKKKKKKKEAEKMKKKTEEAEK 988
            +++ K K ++ KK+ ++ KK+AE+ KK  EE +K
Sbjct: 1725 EEENKIKAEEAKKEAEEDKKKAEEAKKDEEEKKK 1758

Length = 2084

>gnl|CDD|234017 TIGR02794, tolA_full, TolA protein

 Score = 59.5 bits (144), Expect = 3e-09
 Identities = 36/102 (35%), Positives = 46/102 (45%), Gaps = 10/102 (9%)

Query: 897 KKRTRRKKKKGAE---KIRKKKKKKKEAEKMRKKKGAEKMK----KKKKDAEKMKKKGAE 949
            K+   K+K+  E   K   + K K EAE  +K K   K +     K K A + KKK AE
Sbjct: 111 AKQAEEKQKQAEEAKAKQAAEAKAKAEAEAEKKAKEEAKKQAEEEAKAKAAAEAKKKAAE 170

Query: 950 KIGKKKKKKKKKKKKKKKKK---KKKKKEAEKMKKKTEEAEK 988
              K + + K K + K K K    K K EA K K   E A K
Sbjct: 171 AKKKAEAEAKAKAEAKAKAKAEEAKAKAEAAKAKAAAEAAAK 212

TolA couples the inner membrane complex of itself with TolQ and TolR to the outer membrane complex of TolB and OprL (also called Pal). Most of the length of the protein consists of low-complexity sequence that may differ in both length and composition from one species to another, complicating efforts to discriminate TolA (the most divergent gene in the tol-pal system) from paralogs such as TonB. Selection of members of the seed alignment and criteria for setting scoring cutoffs are based largely conserved operon struction. //The Tol-Pal complex is required for maintaining outer membrane integrity. Also involved in transport (uptake) of colicins and filamentous DNA, and implicated in pathogenesis. Transport is energized by the proton motive force. TolA is an inner membrane protein that interacts with periplasmic TolB and with outer membrane porins ompC, phoE and lamB [Transport and binding proteins, Other, Cellular processes, Pathogenesis]. Length = 346

>gnl|CDD|172341 PRK13808, PRK13808, adenylate kinase; Provisional

 Score = 59.5 bits (144), Expect = 3e-09
 Identities = 28/91 (30%), Positives = 38/91 (41%)

Query: 898 KRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKK 957
           K+  +     +   +   K K  A+K+ KKK A+     KK A+   K   +     KK 
Sbjct: 200 KKAAKTPAAKSGAKKASAKAKSAAKKVSKKKAAKTAVSAKKAAKTAAKAAKKAKKTAKKA 259

Query: 958 KKKKKKKKKKKKKKKKKEAEKMKKKTEEAEK 988
            KK  K  KK  KK  K A K  K   +A K
Sbjct: 260 LKKAAKAVKKAAKKAAKAAAKAAKGAAKATK 290

Length = 333

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 60.2 bits (145), Expect = 5e-09
 Identities = 40/105 (38%), Positives = 64/105 (60%), Gaps = 14/105 (13%)

Query: 898  KRTRRKKKKGAEKIRKKKKKKKEAEKMRK----KKGAEKMKKK----KKDAEKMKKK--- 946
            K    +KK  AE+ +K ++ K +AE+++K    KK  E++KKK    KK AE++KK    
Sbjct: 1599 KLYEEEKKMKAEEAKKAEEAKIKAEELKKAEEEKKKVEQLKKKEAEEKKKAEELKKAEEE 1658

Query: 947  ---GAEKIGKKKKKKKKKKKKKKKKKKKKKKEAEKMKKKTEEAEK 988
                A +  KK ++ KKK ++ KK ++ +KK AE +KK+ EEA+K
Sbjct: 1659 NKIKAAEEAKKAEEDKKKAEEAKKAEEDEKKAAEALKKEAEEAKK 1703

Length = 2084

>gnl|CDD|219838 pfam08432, DUF1742, Fungal protein of unknown function (DUF1742)

 Score = 56.2 bits (136), Expect = 6e-09
 Identities = 30/87 (34%), Positives = 45/87 (51%), Gaps = 7/87 (8%)

Query: 901 RRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKKKK 960
           ++KKK+ AE+I    K KKE E+  K+K   K KK KK  +K K K  +K  K  K +KK
Sbjct: 61  KKKKKELAEEIE---KVKKEYEE--KQKWKWKKKKSKKKKDKDKDKKDDK--KDDKSEKK 113

Query: 961 KKKKKKKKKKKKKKEAEKMKKKTEEAE 987
            +K+ + K +   K   +      E +
Sbjct: 114 DEKEAEDKLEDLTKSYSETLSTLSELK 140

This is a family of fungal proteins of unknown function. Length = 182

>gnl|CDD|220648 pfam10243, MIP-T3, Microtubule-binding protein MIP-T3

 Score = 58.7 bits (142), Expect = 1e-08
 Identities = 27/87 (31%), Positives = 49/87 (56%)

Query: 902 RKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKKKKK 961
           ++ +KG  K    K K  +  K    K  EK K++ K+ +K KK+  ++  K +K K++ 
Sbjct: 78  KRVEKGGSKGPAAKTKPAKEPKNESGKEEEKEKEQVKEEKKKKKEKPKEEPKDRKPKEEA 137

Query: 962 KKKKKKKKKKKKKEAEKMKKKTEEAEK 988
           K+K+  K+K+K+KE +  + +  E EK
Sbjct: 138 KEKRPPKEKEKEKEKKVEEPRDREEEK 164

This protein, which interacts with both microtubules and TRAF3 (tumour necrosis factor receptor-associated factor 3), is conserved from worms to humans. The N-terminal region is the microtubule binding domain and is well-conserved; the C-terminal 100 residues, also well-conserved, constitute the coiled-coil region which binds to TRAF3. The central region of the protein is rich in lysine and glutamic acid and carries KKE motifs which may also be necessary for tubulin-binding, but this region is the least well-conserved. Length = 506

>gnl|CDD|220648 pfam10243, MIP-T3, Microtubule-binding protein MIP-T3

 Score = 58.4 bits (141), Expect = 1e-08
 Identities = 32/93 (34%), Positives = 51/93 (54%), Gaps = 4/93 (4%)

Query: 897 KKRTRRKKKKGAEKIRKKKKKKKEAEKMRKK-KGAEKMKKKKKDAEKMKKKGAEKIGKKK 955
           +K+ +++K K   K RK K++ KE    ++K K  EK  ++ +D E+ KK+   +    K
Sbjct: 116 EKKKKKEKPKEEPKDRKPKEEAKEKRPPKEKEKEKEKKVEEPRDREEEKKRERVR---AK 172

Query: 956 KKKKKKKKKKKKKKKKKKKEAEKMKKKTEEAEK 988
            + KK  KKK   KKK+  E EK ++   EA K
Sbjct: 173 SRPKKPPKKKPPNKKKEPPEEEKQRQAAREAVK 205

This protein, which interacts with both microtubules and TRAF3 (tumour necrosis factor receptor-associated factor 3), is conserved from worms to humans. The N-terminal region is the microtubule binding domain and is well-conserved; the C-terminal 100 residues, also well-conserved, constitute the coiled-coil region which binds to TRAF3. The central region of the protein is rich in lysine and glutamic acid and carries KKE motifs which may also be necessary for tubulin-binding, but this region is the least well-conserved. Length = 506

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 58.2 bits (140), Expect = 2e-08
 Identities = 33/93 (35%), Positives = 58/93 (62%), Gaps = 4/93 (4%)

Query: 898  KRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKK--KKDAEKMKKKGAEKIGKKK 955
            K+   +KKK  +  +K+ ++KK+AE+++K +   K+K     K AE+ KKK  E   KK 
Sbjct: 1626 KKAEEEKKKVEQLKKKEAEEKKKAEELKKAEEENKIKAAEEAKKAEEDKKKAEE--AKKA 1683

Query: 956  KKKKKKKKKKKKKKKKKKKEAEKMKKKTEEAEK 988
            ++ +KK  +  KK+ ++ K+AE++KKK  E +K
Sbjct: 1684 EEDEKKAAEALKKEAEEAKKAEELKKKEAEEKK 1716

Length = 2084

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 58.2 bits (140), Expect = 2e-08
 Identities = 34/101 (33%), Positives = 62/101 (61%), Gaps = 10/101 (9%)

Query: 897  KKRTRRKKKKGAEKIRKKKKKKKEAEKMRK---KKGAEKMKK--KKKDAEKMKK----KG 947
            KK+    KKK A++ +K  + KK+A++ +K    K A++ KK  + K A++ KK    K 
Sbjct: 1489 KKKAEEAKKK-ADEAKKAAEAKKKADEAKKAEEAKKADEAKKAEEAKKADEAKKAEEKKK 1547

Query: 948  AEKIGKKKKKKKKKKKKKKKKKKKKKKEAEKMKKKTEEAEK 988
            A+++ K ++ KK ++KKK ++ KK +++     +K EEA+K
Sbjct: 1548 ADELKKAEELKKAEEKKKAEEAKKAEEDKNMALRKAEEAKK 1588

Length = 2084

>gnl|CDD|234017 TIGR02794, tolA_full, TolA protein

 Score = 57.2 bits (138), Expect = 2e-08
 Identities = 27/89 (30%), Positives = 51/89 (57%), Gaps = 6/89 (6%)

Query: 903 KKKKGAEKIRKKK---KKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKKK 959
           +K++ AE+ R+K+   +   E    + ++ A++ ++K+K AE+ K K A +    K K +
Sbjct: 81  EKQRAAEQARQKELEQRAAAEKAAKQAEQAAKQAEEKQKQAEEAKAKQAAE---AKAKAE 137

Query: 960 KKKKKKKKKKKKKKKEAEKMKKKTEEAEK 988
            + +KK K++ KK+ E E   K   EA+K
Sbjct: 138 AEAEKKAKEEAKKQAEEEAKAKAAAEAKK 166

TolA couples the inner membrane complex of itself with TolQ and TolR to the outer membrane complex of TolB and OprL (also called Pal). Most of the length of the protein consists of low-complexity sequence that may differ in both length and composition from one species to another, complicating efforts to discriminate TolA (the most divergent gene in the tol-pal system) from paralogs such as TonB. Selection of members of the seed alignment and criteria for setting scoring cutoffs are based largely conserved operon struction. //The Tol-Pal complex is required for maintaining outer membrane integrity. Also involved in transport (uptake) of colicins and filamentous DNA, and implicated in pathogenesis. Transport is energized by the proton motive force. TolA is an inner membrane protein that interacts with periplasmic TolB and with outer membrane porins ompC, phoE and lamB [Transport and binding proteins, Other, Cellular processes, Pathogenesis]. Length = 346

>gnl|CDD|219746 pfam08208, RNA_polI_A34, DNA-directed RNA polymerase I subunit RPA34

 Score = 55.1 bits (133), Expect = 2e-08
 Identities = 29/71 (40%), Positives = 40/71 (56%), Gaps = 7/71 (9%)

Query: 903 KKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKKKKKK 962
            + + +EK     K +KEAE   ++K  +K KK+ K  +K KK       KK+K  + K 
Sbjct: 130 SESETSEK-ETTAKVEKEAEVEEEEKKEKKKKKEVKKEKKEKKD------KKEKMVEPKG 182

Query: 963 KKKKKKKKKKK 973
            KKKKKKKKKK
Sbjct: 183 SKKKKKKKKKK 193

5. This is a family of proteins conserved from yeasts to human. Subunit A34.5 of RNA polymerase I is a non-essential subunit which is thought to help Pol I overcome topological constraints imposed on ribosomal DNA during the process of transcription. Length = 193

>gnl|CDD|218336 pfam04935, SURF6, Surfeit locus protein 6

 Score = 55.0 bits (133), Expect = 2e-08
 Identities = 38/100 (38%), Positives = 60/100 (60%), Gaps = 11/100 (11%)

Query: 896 RKKRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGA---EKMK--KKKKDAEKMKKKGAEK 950
            KK+ ++KK    + ++K + +KK+ E++ + K A   EK K  K    AE +K K  EK
Sbjct: 83  LKKKKKKKKTDYKQLLKKLEARKKKLEELDEDKAAEIEEKEKWTKALAKAEGVKVKDDEK 142

Query: 951 IGKKKKKKKKKKKKKKKKKKKKKKE------AEKMKKKTE 984
           + KK  K+K+K+KKK KK+ K++KE      AE+ KK+ E
Sbjct: 143 LLKKALKRKEKQKKKSKKEWKERKEKVEKKKAERQKKREE 182

The surfeit locus protein SURF-6 is shown to be a component of the nucleolar matrix and has a strong binding capacity for nucleic acids. Length = 206

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 57.5 bits (138), Expect = 3e-08
 Identities = 36/105 (34%), Positives = 61/105 (58%), Gaps = 15/105 (14%)

Query: 897  KKRTRRKKKKGAEKIRKKKKKKKEAEKMRKK-----KGAEKMKKK---KKDAEKMKKKGA 948
            KK+    KK  A++ +KK ++ K+A++ +KK     K A++ KK    KK A++ KK   
Sbjct: 1463 KKKAEEAKK--ADEAKKKAEEAKKADEAKKKAEEAKKKADEAKKAAEAKKKADEAKKAEE 1520

Query: 949  EKIGKKKKKKKKKKKKKKKKKKKKKKEAEKMKK-----KTEEAEK 988
             K   + KK ++ KK  + KK ++KK+A+++KK     K EE +K
Sbjct: 1521 AKKADEAKKAEEAKKADEAKKAEEKKKADELKKAEELKKAEEKKK 1565

Length = 2084

>gnl|CDD|234017 TIGR02794, tolA_full, TolA protein

 Score = 56.4 bits (136), Expect = 3e-08
 Identities = 37/104 (35%), Positives = 47/104 (45%), Gaps = 11/104 (10%)

Query: 896 RKKRTRRKKKKGAEKIRKKKKK---KKEAEKMRKKKGAEKMKKK----KKDAEKMKKKGA 948
            K +   + K  AE   +KK K   KK+AE+  K K A + KKK    KK AE   K  A
Sbjct: 124 AKAKQAAEAKAKAEAEAEKKAKEEAKKQAEEEAKAKAAAEAKKKAAEAKKKAEAEAKAKA 183

Query: 949 EKIGKKKKKKKKKK----KKKKKKKKKKKKEAEKMKKKTEEAEK 988
           E   K K ++ K K    K K   +   K EAE       EAE+
Sbjct: 184 EAKAKAKAEEAKAKAEAAKAKAAAEAAAKAEAEAAAAAAAEAER 227

TolA couples the inner membrane complex of itself with TolQ and TolR to the outer membrane complex of TolB and OprL (also called Pal). Most of the length of the protein consists of low-complexity sequence that may differ in both length and composition from one species to another, complicating efforts to discriminate TolA (the most divergent gene in the tol-pal system) from paralogs such as TonB. Selection of members of the seed alignment and criteria for setting scoring cutoffs are based largely conserved operon struction. //The Tol-Pal complex is required for maintaining outer membrane integrity. Also involved in transport (uptake) of colicins and filamentous DNA, and implicated in pathogenesis. Transport is energized by the proton motive force. TolA is an inner membrane protein that interacts with periplasmic TolB and with outer membrane porins ompC, phoE and lamB [Transport and binding proteins, Other, Cellular processes, Pathogenesis]. Length = 346

>gnl|CDD|236877 PRK11192, PRK11192, ATP-dependent RNA helicase SrmB; Provisional

 Score = 56.9 bits (138), Expect = 3e-08
 Identities = 38/132 (28%), Positives = 56/132 (42%), Gaps = 29/132 (21%)

Query: 872 HVAVSDVNDDVRREAVTALGFILFRKKRTRRKKKKGA-------------EKIR---KKK 915
           HV    +N D+ R A T     L R  RT R  +KG               KI    ++ 
Sbjct: 316 HV----INFDMPRSADT----YLHRIGRTGRAGRKGTAISLVEAHDHLLLGKIERYIEEP 367

Query: 916 KKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKKKKKKKKKKKKKKKKKKE 975
            K +  +++R K  A   KK  K ++K+  K AEK  K+K+K K KK+ +  K   K++ 
Sbjct: 368 LKARVIDELRPKTKAPSEKKTGKPSKKVLAKRAEKKEKEKEKPKVKKRHRDTKNIGKRR- 426

Query: 976 AEKMKKKTEEAE 987
               K      E
Sbjct: 427 ----KPSGTSEE 434

Length = 434

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 57.5 bits (138), Expect = 4e-08
 Identities = 33/92 (35%), Positives = 62/92 (67%), Gaps = 1/92 (1%)

Query: 898  KRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKK-KDAEKMKKKGAEKIGKKKK 956
            K+    +KK AE ++K+ ++ K+AE+++KK+  EK K ++ K AE+  K  AE+  K+ +
Sbjct: 1681 KKAEEDEKKAAEALKKEAEEAKKAEELKKKEAEEKKKAEELKKAEEENKIKAEEAKKEAE 1740

Query: 957  KKKKKKKKKKKKKKKKKKEAEKMKKKTEEAEK 988
            + KKK ++ KK +++KKK A   K++ ++AE+
Sbjct: 1741 EDKKKAEEAKKDEEEKKKIAHLKKEEEKKAEE 1772

Length = 2084

>gnl|CDD|234017 TIGR02794, tolA_full, TolA protein

 Score = 55.6 bits (134), Expect = 5e-08
 Identities = 31/100 (31%), Positives = 61/100 (61%), Gaps = 11/100 (11%)

Query: 898 KRTRRKKKKGAEKIRKKKKK-KKEAEKMRKKKGAE-----KMKKKKKDAEKMKKKGAEKI 951
            R +++KK  A+K ++++KK +++AE+  K++ AE     +++++    +  K+  AE+ 
Sbjct: 53  NRIQQQKKPAAKKEQERQKKLEQQAEEAEKQRAAEQARQKELEQRAAAEKAAKQ--AEQA 110

Query: 952 GKKKKKKKK---KKKKKKKKKKKKKKEAEKMKKKTEEAEK 988
            K+ ++K+K   + K K+  + K K EAE  KK  EEA+K
Sbjct: 111 AKQAEEKQKQAEEAKAKQAAEAKAKAEAEAEKKAKEEAKK 150

TolA couples the inner membrane complex of itself with TolQ and TolR to the outer membrane complex of TolB and OprL (also called Pal). Most of the length of the protein consists of low-complexity sequence that may differ in both length and composition from one species to another, complicating efforts to discriminate TolA (the most divergent gene in the tol-pal system) from paralogs such as TonB. Selection of members of the seed alignment and criteria for setting scoring cutoffs are based largely conserved operon struction. //The Tol-Pal complex is required for maintaining outer membrane integrity. Also involved in transport (uptake) of colicins and filamentous DNA, and implicated in pathogenesis. Transport is energized by the proton motive force. TolA is an inner membrane protein that interacts with periplasmic TolB and with outer membrane porins ompC, phoE and lamB [Transport and binding proteins, Other, Cellular processes, Pathogenesis]. Length = 346

>gnl|CDD|172341 PRK13808, PRK13808, adenylate kinase; Provisional

 Score = 55.7 bits (134), Expect = 5e-08
 Identities = 28/93 (30%), Positives = 38/93 (40%)

Query: 896 RKKRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKK 955
            K   ++   K     +K  KKK     +  KK A+   K  K A+K  KK  +K  K  
Sbjct: 208 AKSGAKKASAKAKSAAKKVSKKKAAKTAVSAKKAAKTAAKAAKKAKKTAKKALKKAAKAV 267

Query: 956 KKKKKKKKKKKKKKKKKKKEAEKMKKKTEEAEK 988
           KK  KK  K   K  K   +A K K K ++   
Sbjct: 268 KKAAKKAAKAAAKAAKGAAKATKGKAKAKKKAG 300

Length = 333

>gnl|CDD|172341 PRK13808, PRK13808, adenylate kinase; Provisional

 Score = 55.7 bits (134), Expect = 5e-08
 Identities = 30/90 (33%), Positives = 36/90 (40%), Gaps = 1/90 (1%)

Query: 897 KKRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKK 956
            K     KK   +K  K     K+A K   K  A+K KK  K A K   K  +K  KK  
Sbjct: 217 AKAKSAAKKVSKKKAAKTAVSAKKAAKTAAKA-AKKAKKTAKKALKKAAKAVKKAAKKAA 275

Query: 957 KKKKKKKKKKKKKKKKKKEAEKMKKKTEEA 986
           K   K  K   K  K K +A+K   K   A
Sbjct: 276 KAAAKAAKGAAKATKGKAKAKKKAGKKAAA 305

Length = 333

>gnl|CDD|220648 pfam10243, MIP-T3, Microtubule-binding protein MIP-T3

 Score = 56.0 bits (135), Expect = 6e-08
 Identities = 22/94 (23%), Positives = 58/94 (61%), Gaps = 2/94 (2%)

Query: 895 FRKKRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKK 954
               +T+  K+   E  ++++K+K++ ++ +KKK  ++  K++    K K++  EK   K
Sbjct: 87  GPAAKTKPAKEPKNESGKEEEKEKEQVKEEKKKK--KEKPKEEPKDRKPKEEAKEKRPPK 144

Query: 955 KKKKKKKKKKKKKKKKKKKKEAEKMKKKTEEAEK 988
           +K+K+K+KK ++ + ++++K+ E+++ K+   + 
Sbjct: 145 EKEKEKEKKVEEPRDREEEKKRERVRAKSRPKKP 178

This protein, which interacts with both microtubules and TRAF3 (tumour necrosis factor receptor-associated factor 3), is conserved from worms to humans. The N-terminal region is the microtubule binding domain and is well-conserved; the C-terminal 100 residues, also well-conserved, constitute the coiled-coil region which binds to TRAF3. The central region of the protein is rich in lysine and glutamic acid and carries KKE motifs which may also be necessary for tubulin-binding, but this region is the least well-conserved. Length = 506

>gnl|CDD|219838 pfam08432, DUF1742, Fungal protein of unknown function (DUF1742)

 Score = 53.2 bits (128), Expect = 6e-08
 Identities = 26/57 (45%), Positives = 36/57 (63%)

Query: 932 KMKKKKKDAEKMKKKGAEKIGKKKKKKKKKKKKKKKKKKKKKKEAEKMKKKTEEAEK 988
           K K+  ++ EK+KK+  EK   K KKKK KKKK K K KK  K+ +K +KK E+  +
Sbjct: 63  KKKELAEEIEKVKKEYEEKQKWKWKKKKSKKKKDKDKDKKDDKKDDKSEKKDEKEAE 119

This is a family of fungal proteins of unknown function. Length = 182

>gnl|CDD|219838 pfam08432, DUF1742, Fungal protein of unknown function (DUF1742)

 Score = 53.2 bits (128), Expect = 6e-08
 Identities = 27/70 (38%), Positives = 42/70 (60%), Gaps = 1/70 (1%)

Query: 920 EAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKKKKKKKKKKKKK-KKKKKEAEK 978
              K +KK+ AE+++K KK+ E+ +K   +K   KKKK K K KK  KK  K +KK+ ++
Sbjct: 58  TEAKKKKKELAEEIEKVKKEYEEKQKWKWKKKKSKKKKDKDKDKKDDKKDDKSEKKDEKE 117

Query: 979 MKKKTEEAEK 988
            + K E+  K
Sbjct: 118 AEDKLEDLTK 127

This is a family of fungal proteins of unknown function. Length = 182

>gnl|CDD|235250 PRK04195, PRK04195, replication factor C large subunit; Provisional

 Score = 56.1 bits (136), Expect = 6e-08
 Identities = 38/135 (28%), Positives = 76/135 (56%), Gaps = 20/135 (14%)

Query: 864 NVATK--RLLHVAVSDVNDDVRREAVTALGFILFRKKRTRRKK--------KKGAEKIRK 913
           ++A K    LH +   V    RRE +  L  I+F+       +        ++  E +  
Sbjct: 350 SIAKKIAEKLHTSKRKV----RREVLPFLS-IIFKHNPELAARLAAFLELTEEEIEFLTG 404

Query: 914 KKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKKKKKKKKKKKKKKKKK 973
            KK  K+ +K+      EK +KK+++ +K KKK A    KK+++++++K+KK+++K++++
Sbjct: 405 SKKATKKIKKI-----VEKAEKKREEEKKEKKKKAFAGKKKEEEEEEEKEKKEEEKEEEE 459

Query: 974 KEAEKMKKKTEEAEK 988
           +EAE+ K++ EE +K
Sbjct: 460 EEAEEEKEEEEEKKK 474

Length = 482

>gnl|CDD|237035 PRK12280, rplW, 50S ribosomal protein L23; Reviewed

 Score = 52.5 bits (126), Expect = 7e-08
 Identities = 29/64 (45%), Positives = 38/64 (59%), Gaps = 2/64 (3%)

Query: 915 KKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKKKKKKKKKKKKKKKKKK 974
           +K++KE  K  ++K A K KK+KK  EK +KK AEK+ KKK  K  K   KK  KK   K
Sbjct: 96  EKEQKEVSKETEEKEAIKAKKEKK--EKKEKKVAEKLAKKKSTKTTKNTTKKATKKTTTK 153

Query: 975 EAEK 978
           + E 
Sbjct: 154 KEEG 157

Length = 158

>gnl|CDD|220237 pfam09428, DUF2011, Fungal protein of unknown function (DUF2011)

 Score = 51.9 bits (125), Expect = 7e-08
 Identities = 24/74 (32%), Positives = 45/74 (60%), Gaps = 8/74 (10%)

Query: 905 KKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKKKKKKKK 964
           KK   K+ K+  ++KE +K RK+ G     KK++ A    +   E+  ++ +K+K+ +K 
Sbjct: 65  KKHNAKVEKELLREKEKKKKRKRPG-----KKRRIA---LRLRRERTKERAEKEKRTRKN 116

Query: 965 KKKKKKKKKKEAEK 978
           ++KK K+++KE EK
Sbjct: 117 REKKFKRRQKEKEK 130

This is a family of fungal proteins whose function is unknown. Length = 130

>gnl|CDD|219838 pfam08432, DUF1742, Fungal protein of unknown function (DUF1742)

 Score = 52.8 bits (127), Expect = 9e-08
 Identities = 27/81 (33%), Positives = 42/81 (51%), Gaps = 3/81 (3%)

Query: 908 AEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKKKKKKKKKKK 967
            E  +KKK+  +E EK++K+   ++  K KK   K KKK  +K   KK  KK  K +KK 
Sbjct: 58  TEAKKKKKELAEEIEKVKKEYEEKQKWKWKKKKSK-KKKDKDK--DKKDDKKDDKSEKKD 114

Query: 968 KKKKKKKEAEKMKKKTEEAEK 988
           +K+ + K  +  K  +E    
Sbjct: 115 EKEAEDKLEDLTKSYSETLST 135

This is a family of fungal proteins of unknown function. Length = 182

>gnl|CDD|235250 PRK04195, PRK04195, replication factor C large subunit; Provisional

 Score = 55.3 bits (134), Expect = 9e-08
 Identities = 26/71 (36%), Positives = 48/71 (67%)

Query: 913 KKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKKKKKKKKKKKKKKKK 972
             KK KK  EK  KK+  EK +KKKK     KK+  E+  K+KK+++K++++++ +++K+
Sbjct: 408 ATKKIKKIVEKAEKKREEEKKEKKKKAFAGKKKEEEEEEEKEKKEEEKEEEEEEAEEEKE 467

Query: 973 KKEAEKMKKKT 983
           ++E +K K+ T
Sbjct: 468 EEEEKKKKQAT 478

Length = 482

>gnl|CDD|235250 PRK04195, PRK04195, replication factor C large subunit; Provisional

 Score = 55.3 bits (134), Expect = 1e-07
 Identities = 26/71 (36%), Positives = 50/71 (70%)

Query: 901 RRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKKKK 960
            +K  K  +KI +K +KK+E EK  KKK A   KKK+++ E+ K+K  E+  +++++ ++
Sbjct: 405 SKKATKKIKKIVEKAEKKREEEKKEKKKKAFAGKKKEEEEEEEKEKKEEEKEEEEEEAEE 464

Query: 961 KKKKKKKKKKK 971
           +K+++++KKKK
Sbjct: 465 EKEEEEEKKKK 475

Length = 482

>gnl|CDD|236545 PRK09510, tolA, cell envelope integrity inner membrane protein TolA; Provisional

 Score = 54.8 bits (132), Expect = 1e-07
 Identities = 32/98 (32%), Positives = 37/98 (37%), Gaps = 7/98 (7%)

Query: 897 KKRTRRKKKKGAEKIRKKKKK--KKEAEKMRKKKGAEKMKKK-----KKDAEKMKKKGAE 949
           KK     KKK   +  KK     KK+AE     K A + KKK     KK A    KK A 
Sbjct: 161 KKAAAEAKKKAEAEAAKKAAAEAKKKAEAEAAAKAAAEAKKKAEAEAKKKAAAEAKKKAA 220

Query: 950 KIGKKKKKKKKKKKKKKKKKKKKKKEAEKMKKKTEEAE 987
              K    K   + K   +K    K AEK       AE
Sbjct: 221 AEAKAAAAKAAAEAKAAAEKAAAAKAAEKAAAAKAAAE 258

Length = 387

>gnl|CDD|235640 PRK05901, PRK05901, RNA polymerase sigma factor; Provisional

 Score = 55.0 bits (133), Expect = 1e-07
 Identities = 17/91 (18%), Positives = 35/91 (38%)

Query: 898 KRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKK 957
            +++ K     E+I++  + KK+  +   +         K   +  +    +K  K   K
Sbjct: 25  AKSKSKGFITKEEIKEALESKKKTPEQIDQVLIFLSGMVKDTDDATESDIPKKKTKTAAK 84

Query: 958 KKKKKKKKKKKKKKKKKEAEKMKKKTEEAEK 988
               K   KKK K +   ++K +KK    + 
Sbjct: 85  AAAAKAPAKKKLKDELDSSKKAEKKNALDKD 115

Length = 509

>gnl|CDD|219746 pfam08208, RNA_polI_A34, DNA-directed RNA polymerase I subunit RPA34

 Score = 52.0 bits (125), Expect = 2e-07
 Identities = 22/66 (33%), Positives = 40/66 (60%), Gaps = 2/66 (3%)

Query: 916 KKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKKKKKKKKKKKKKKKKKKE 975
            + + +EK    K   + + + ++ EK +KK  +++ K+KK+KK KK+K  + K  KKK+
Sbjct: 130 SESETSEKETTAK--VEKEAEVEEEEKKEKKKKKEVKKEKKEKKDKKEKMVEPKGSKKKK 187

Query: 976 AEKMKK 981
            +K KK
Sbjct: 188 KKKKKK 193

5. This is a family of proteins conserved from yeasts to human. Subunit A34.5 of RNA polymerase I is a non-essential subunit which is thought to help Pol I overcome topological constraints imposed on ribosomal DNA during the process of transcription. Length = 193

>gnl|CDD|235250 PRK04195, PRK04195, replication factor C large subunit; Provisional

 Score = 54.5 bits (132), Expect = 2e-07
 Identities = 29/131 (22%), Positives = 61/131 (46%), Gaps = 35/131 (26%)

Query: 893 ILFRKKRTRRKKKKGAEKIRKK--------------------KKKKKEAEKM-------- 924
           +L + K  R  +   A+KI +K                    K   + A ++        
Sbjct: 337 LLSKTKEKRETRDSIAKKIAEKLHTSKRKVRREVLPFLSIIFKHNPELAARLAAFLELTE 396

Query: 925 -------RKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKKKKKKKKKKKKKKKKKKEAE 977
                    KK  +K+KK  + AEK +++  ++  KK    KKK+++++++K+KK++E E
Sbjct: 397 EEIEFLTGSKKATKKIKKIVEKAEKKREEEKKEKKKKAFAGKKKEEEEEEEKEKKEEEKE 456

Query: 978 KMKKKTEEAEK 988
           + +++ EE ++
Sbjct: 457 EEEEEAEEEKE 467

Length = 482

>gnl|CDD|235250 PRK04195, PRK04195, replication factor C large subunit; Provisional

 Score = 54.2 bits (131), Expect = 2e-07
 Identities = 21/73 (28%), Positives = 46/73 (63%)

Query: 900 TRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKKK 959
           T  KK     K   +K +KK  E+ ++KK      KKK++ E+ +K+  E+  ++++++ 
Sbjct: 403 TGSKKATKKIKKIVEKAEKKREEEKKEKKKKAFAGKKKEEEEEEEKEKKEEEKEEEEEEA 462

Query: 960 KKKKKKKKKKKKK 972
           +++K+++++KKKK
Sbjct: 463 EEEKEEEEEKKKK 475

Length = 482

>gnl|CDD|218336 pfam04935, SURF6, Surfeit locus protein 6

 Score = 51.9 bits (125), Expect = 3e-07
 Identities = 35/96 (36%), Positives = 55/96 (57%), Gaps = 9/96 (9%)

Query: 894 LFRKKRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGA---EKMK--KKKKDAEKMKKKGA 948
           L +KK+ ++   K   K  + +KKK E   + + K A   EK K  K    AE +K K  
Sbjct: 83  LKKKKKKKKTDYKQLLKKLEARKKKLEE--LDEDKAAEIEEKEKWTKALAKAEGVKVKDD 140

Query: 949 EKIGKK--KKKKKKKKKKKKKKKKKKKKEAEKMKKK 982
           EK+ KK  K+K+K+KKK KK+ K++K+K  +K  ++
Sbjct: 141 EKLLKKALKRKEKQKKKSKKEWKERKEKVEKKKAER 176

The surfeit locus protein SURF-6 is shown to be a component of the nucleolar matrix and has a strong binding capacity for nucleic acids. Length = 206

>gnl|CDD|236944 PRK11642, PRK11642, exoribonuclease R; Provisional

 Score = 54.4 bits (131), Expect = 3e-07
 Identities = 31/110 (28%), Positives = 47/110 (42%), Gaps = 7/110 (6%)

Query: 881 DVRREAVT----ALGFILFRKKRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKK 936
           +VR EAV      + F L   +R  R   K A   R+K KK    +K  K++   K    
Sbjct: 707 EVRVEAVNMDERKIDFSLISSERAPRNVGKTA---REKAKKGDAGKKGGKRRQVGKKVNF 763

Query: 937 KKDAEKMKKKGAEKIGKKKKKKKKKKKKKKKKKKKKKKEAEKMKKKTEEA 986
           + D+    +K A+    KK  +K KK   K +K     +A++  KK    
Sbjct: 764 EPDSAFRGEKKAKPKAAKKDARKAKKPSAKTQKIAAATKAKRAAKKKVAE 813

Length = 813

>gnl|CDD|225606 COG3064, TolA, Membrane protein involved in colicin uptake [Cell envelope biogenesis, outer membrane]

 Score = 53.8 bits (129), Expect = 3e-07
 Identities = 32/98 (32%), Positives = 55/98 (56%), Gaps = 5/98 (5%)

Query: 896 RKKRTRR-----KKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEK 950
           RKK+  +     K K+ AE+ R K+ +K+  +   ++K AE+ +K+ +  +K +++ A K
Sbjct: 81  RKKKEEQVAEELKPKQAAEQERLKQLEKERLKAQEQQKQAEEAEKQAQLEQKQQEEQARK 140

Query: 951 IGKKKKKKKKKKKKKKKKKKKKKKEAEKMKKKTEEAEK 988
              ++KKK +  K K   +  K K A + KKK EEA K
Sbjct: 141 AAAEQKKKAEAAKAKAAAEAAKLKAAAEAKKKAEEAAK 178

Length = 387

>gnl|CDD|219572 pfam07780, Spb1_C, Spb1 C-terminal domain

 Score = 51.9 bits (125), Expect = 3e-07
 Identities = 35/84 (41%), Positives = 47/84 (55%), Gaps = 7/84 (8%)

Query: 905 KKGAE-KIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKKKKKKK 963
           KK AE K RKK +  K  EK +KK  AE + + +  +E+ K K  +K+ KK KKKKKK+K
Sbjct: 111 KKVAEAKARKKMRALKRLEKAKKK--AEAIAEDEDISEREKAKQIKKLYKKAKKKKKKRK 168

Query: 964 KK----KKKKKKKKKEAEKMKKKT 983
           K     KK  K K    + +K K 
Sbjct: 169 KTYVVAKKGNKGKAGRPKGVKGKY 192

This presumed domain is found at the C-terminus of a family of FtsJ-like methyltransferases. Members of this family are involved in 60S ribosomal biogenesis. Length = 212

>gnl|CDD|222447 pfam13904, DUF4207, Domain of unknown function (DUF4207)

 Score = 52.4 bits (126), Expect = 4e-07
 Identities = 28/85 (32%), Positives = 51/85 (60%)

Query: 902 RKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKKKKK 961
           R+K + A K R  K KK+ AE            ++    E+ KK+  E   KK K++++K
Sbjct: 139 RQKAQQAAKQRTPKHKKEAAESASSSLSGSAKPERNVSQEEAKKRLQEWELKKLKQQQQK 198

Query: 962 KKKKKKKKKKKKKEAEKMKKKTEEA 986
           ++++++K++KK++E E+ K+K EEA
Sbjct: 199 REEERRKQRKKQQEEEERKQKAEEA 223

This family is found in eukaryotes; it has several conserved tryptophan residues. The function is not known. Length = 261

>gnl|CDD|218336 pfam04935, SURF6, Surfeit locus protein 6

 Score = 51.2 bits (123), Expect = 5e-07
 Identities = 29/78 (37%), Positives = 44/78 (56%)

Query: 897 KKRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKK 956
             +    K K  EK+ KK  K+KE +K + KK  ++ K+K +  +  ++K  E+  KK+K
Sbjct: 129 LAKAEGVKVKDDEKLLKKALKRKEKQKKKSKKEWKERKEKVEKKKAERQKKREENLKKRK 188

Query: 957 KKKKKKKKKKKKKKKKKK 974
             KK KKKKK KKK +  
Sbjct: 189 DDKKNKKKKKAKKKGRIL 206

The surfeit locus protein SURF-6 is shown to be a component of the nucleolar matrix and has a strong binding capacity for nucleic acids. Length = 206

>gnl|CDD|237035 PRK12280, rplW, 50S ribosomal protein L23; Reviewed

 Score = 50.1 bits (120), Expect = 5e-07
 Identities = 26/64 (40%), Positives = 38/64 (59%)

Query: 908 AEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKKKKKKKKKKK 967
           +EK +K+  K+ E ++  K K  +K KK+KK AEK+ KK + K  K   KK  KK   KK
Sbjct: 95  SEKEQKEVSKETEEKEAIKAKKEKKEKKEKKVAEKLAKKKSTKTTKNTTKKATKKTTTKK 154

Query: 968 KKKK 971
           ++ K
Sbjct: 155 EEGK 158

Length = 158

>gnl|CDD|235640 PRK05901, PRK05901, RNA polymerase sigma factor; Provisional

 Score = 53.1 bits (128), Expect = 5e-07
 Identities = 20/95 (21%), Positives = 36/95 (37%)

Query: 894 LFRKKRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGK 953
           L  ++  ++K KK A K + K    KE  K   +   +  ++  +    +     +    
Sbjct: 10  LAAEEEAKKKLKKLAAKSKSKGFITKEEIKEALESKKKTPEQIDQVLIFLSGMVKDTDDA 69

Query: 954 KKKKKKKKKKKKKKKKKKKKKEAEKMKKKTEEAEK 988
            +    KKK K   K    K  A+K  K   ++ K
Sbjct: 70  TESDIPKKKTKTAAKAAAAKAPAKKKLKDELDSSK 104

Length = 509

>gnl|CDD|172341 PRK13808, PRK13808, adenylate kinase; Provisional

 Score = 52.2 bits (125), Expect = 6e-07
 Identities = 29/87 (33%), Positives = 34/87 (39%)

Query: 898 KRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKK 957
           K+   K    A+K  K   K  +  K   KK  +K  K  K A K   K A K  K   K
Sbjct: 228 KKKAAKTAVSAKKAAKTAAKAAKKAKKTAKKALKKAAKAVKKAAKKAAKAAAKAAKGAAK 287

Query: 958 KKKKKKKKKKKKKKKKKEAEKMKKKTE 984
             K K K KKK  KK     K K   +
Sbjct: 288 ATKGKAKAKKKAGKKAAAGSKAKATAK 314

Length = 333

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 53.2 bits (127), Expect = 8e-07
 Identities = 33/99 (33%), Positives = 57/99 (57%), Gaps = 9/99 (9%)

Query: 897  KKRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKK--KKKDAEKMKKKGAEKIGKK 954
            ++R   + +K  E       +++ A K  + + A+++KK  +KK A++ KK  AE+  K 
Sbjct: 1247 EERNNEEIRKFEEARMAHFARRQAAIKAEEARKADELKKAEEKKKADEAKK--AEEKKKA 1304

Query: 955  KKKKKKKKKKK-----KKKKKKKKKEAEKMKKKTEEAEK 988
             + KKK ++ K     KKK ++ KK+A+  KKK EEA+K
Sbjct: 1305 DEAKKKAEEAKKADEAKKKAEEAKKKADAAKKKAEEAKK 1343

Length = 2084

>gnl|CDD|220648 pfam10243, MIP-T3, Microtubule-binding protein MIP-T3

 Score = 52.6 bits (126), Expect = 8e-07
 Identities = 27/91 (29%), Positives = 50/91 (54%), Gaps = 7/91 (7%)

Query: 896 RKKRTRRKKKKGAEKIRKKKK-KKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKK 954
            + + R+ K++  EK   K+K K+KE     KK    + ++++K  E+++ K   K    
Sbjct: 126 EEPKDRKPKEEAKEKRPPKEKEKEKE-----KKVEEPRDREEEKKRERVRAKSRPK-KPP 179

Query: 955 KKKKKKKKKKKKKKKKKKKKEAEKMKKKTEE 985
           KKK   KKK+  +++K+++   E +K K EE
Sbjct: 180 KKKPPNKKKEPPEEEKQRQAAREAVKGKPEE 210

This protein, which interacts with both microtubules and TRAF3 (tumour necrosis factor receptor-associated factor 3), is conserved from worms to humans. The N-terminal region is the microtubule binding domain and is well-conserved; the C-terminal 100 residues, also well-conserved, constitute the coiled-coil region which binds to TRAF3. The central region of the protein is rich in lysine and glutamic acid and carries KKE motifs which may also be necessary for tubulin-binding, but this region is the least well-conserved. Length = 506

>gnl|CDD|236545 PRK09510, tolA, cell envelope integrity inner membrane protein TolA; Provisional

 Score = 52.1 bits (125), Expect = 8e-07
 Identities = 28/94 (29%), Positives = 46/94 (48%), Gaps = 1/94 (1%)

Query: 896 RKKRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKK 955
           +++   +++KK AE+  K+   K++  +    K A   K K +   K     A+K   + 
Sbjct: 108 KERLAAQEQKKQAEEAAKQAALKQKQAEEAAAKAAAAAKAKAEAEAKRAAAAAKKAAAEA 167

Query: 956 KKKKKKKKKKKKKKKKKKK-EAEKMKKKTEEAEK 988
           KKK + +  KK   + KKK EAE   K   EA+K
Sbjct: 168 KKKAEAEAAKKAAAEAKKKAEAEAAAKAAAEAKK 201

Length = 387

>gnl|CDD|225606 COG3064, TolA, Membrane protein involved in colicin uptake [Cell envelope biogenesis, outer membrane]

 Score = 52.3 bits (125), Expect = 8e-07
 Identities = 26/93 (27%), Positives = 42/93 (45%)

Query: 896 RKKRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKK 955
           + K     KKK  E  +  ++ K +AE    KK AE   K   +  K + +   K  KK 
Sbjct: 162 KLKAAAEAKKKAEEAAKAAEEAKAKAEAAAAKKKAEAEAKAAAEKAKAEAEAKAKAEKKA 221

Query: 956 KKKKKKKKKKKKKKKKKKKEAEKMKKKTEEAEK 988
           +   ++K   +KKK   K +A+K     + AE+
Sbjct: 222 EAAAEEKAAAEKKKAAAKAKADKAAAAAKAAER 254

Length = 387

>gnl|CDD|219563 pfam07767, Nop53, Nop53 (60S ribosomal biogenesis)

 Score = 52.0 bits (125), Expect = 8e-07
 Identities = 27/83 (32%), Positives = 52/83 (62%), Gaps = 7/83 (8%)

Query: 895 FRKKRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMK---KKGAEKI 951
              K  R K+K  A+  R K+K++KE E+  K++  +++KKK     ++K   K+ A+K 
Sbjct: 268 PINKPVRPKRKTKAQ--RNKEKRRKELEREAKEE--KQLKKKLAQLARLKEIAKEVAQKE 323

Query: 952 GKKKKKKKKKKKKKKKKKKKKKK 974
             + +KK+++K++ +KKK K++K
Sbjct: 324 KARARKKEQRKERGEKKKLKRRK 346

This nucleolar family of proteins are involved in 60S ribosomal biogenesis. They are specifically involved in the processing beyond the 27S stage of 25S rRNA maturation. This family contains sequences that bear similarity to the glioma tumour suppressor candidate region gene 2 protein (p60). This protein has been found to interact with herpes simplex type 1 regulatory proteins. Length = 387

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 52.8 bits (126), Expect = 9e-07
 Identities = 35/95 (36%), Positives = 56/95 (58%), Gaps = 6/95 (6%)

Query: 897  KKRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKK---KKDAEKMKKKGAEKIGK 953
            + R     K   E+ + K ++ K+AE+ + K  AE++KK    KK  E++KKK AE+  K
Sbjct: 1591 EARIEEVMKLYEEEKKMKAEEAKKAEEAKIK--AEELKKAEEEKKKVEQLKKKEAEEKKK 1648

Query: 954  KKKKKKKKKKKKKKKKKKKKKEAEKMKKKTEEAEK 988
             ++ KK +++ K K  ++ KK  E  KKK EEA+K
Sbjct: 1649 AEELKKAEEENKIKAAEEAKKAEED-KKKAEEAKK 1682

Length = 2084

>gnl|CDD|218336 pfam04935, SURF6, Surfeit locus protein 6

 Score = 50.4 bits (121), Expect = 9e-07
 Identities = 37/111 (33%), Positives = 48/111 (43%), Gaps = 18/111 (16%)

Query: 896 RKKRTRRKKKKGAE-KIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKK-------G 947
           R+KR +RK +K  + K  KKK+  +++E    K    K KKK    E  +          
Sbjct: 12  RRKREQRKARKKQKRKEAKKKEDAQKSEAEEVKNEENKSKKKAAPIENAEGNIVFSKVEF 71

Query: 948 AEKIGKKKKKKKKKKKKKKKK----------KKKKKKEAEKMKKKTEEAEK 988
           A+    KK  K KKKKKKKK            +KKK E     K  E  EK
Sbjct: 72  ADGEQAKKDLKLKKKKKKKKTDYKQLLKKLEARKKKLEELDEDKAAEIEEK 122

The surfeit locus protein SURF-6 is shown to be a component of the nucleolar matrix and has a strong binding capacity for nucleic acids. Length = 206

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 52.8 bits (126), Expect = 1e-06
 Identities = 34/112 (30%), Positives = 60/112 (53%), Gaps = 19/112 (16%)

Query: 896  RKKRTRRKKK--KGAEKIRKKKKKKKEAEKMR-----------------KKKGAEKMKKK 936
            RK    +K +  K AE+ +K  ++ K+AE+ R                 +++ A K ++ 
Sbjct: 1218 RKAEDAKKAEAVKKAEEAKKDAEEAKKAEEERNNEEIRKFEEARMAHFARRQAAIKAEEA 1277

Query: 937  KKDAEKMKKKGAEKIGKKKKKKKKKKKKKKKKKKKKKKEAEKMKKKTEEAEK 988
            +K  E  K +  +K  + KK ++KKK  + KKK ++ K+A++ KKK EEA+K
Sbjct: 1278 RKADELKKAEEKKKADEAKKAEEKKKADEAKKKAEEAKKADEAKKKAEEAKK 1329

Length = 2084

>gnl|CDD|234017 TIGR02794, tolA_full, TolA protein

 Score = 51.8 bits (124), Expect = 1e-06
 Identities = 25/96 (26%), Positives = 52/96 (54%), Gaps = 5/96 (5%)

Query: 898 KRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMK--KKKKDAEKMKKKGAEK---IG 952
            +  ++++K  E+  ++ +K++ AE+ R+K+  ++    K  K AE+  K+  EK     
Sbjct: 63  AKKEQERQKKLEQQAEEAEKQRAAEQARQKELEQRAAAEKAAKQAEQAAKQAEEKQKQAE 122

Query: 953 KKKKKKKKKKKKKKKKKKKKKKEAEKMKKKTEEAEK 988
           + K K+  + K K + + +KK + E  K+  EEA+ 
Sbjct: 123 EAKAKQAAEAKAKAEAEAEKKAKEEAKKQAEEEAKA 158

TolA couples the inner membrane complex of itself with TolQ and TolR to the outer membrane complex of TolB and OprL (also called Pal). Most of the length of the protein consists of low-complexity sequence that may differ in both length and composition from one species to another, complicating efforts to discriminate TolA (the most divergent gene in the tol-pal system) from paralogs such as TonB. Selection of members of the seed alignment and criteria for setting scoring cutoffs are based largely conserved operon struction. //The Tol-Pal complex is required for maintaining outer membrane integrity. Also involved in transport (uptake) of colicins and filamentous DNA, and implicated in pathogenesis. Transport is energized by the proton motive force. TolA is an inner membrane protein that interacts with periplasmic TolB and with outer membrane porins ompC, phoE and lamB [Transport and binding proteins, Other, Cellular processes, Pathogenesis]. Length = 346

>gnl|CDD|219746 pfam08208, RNA_polI_A34, DNA-directed RNA polymerase I subunit RPA34

 Score = 49.7 bits (119), Expect = 1e-06
 Identities = 25/63 (39%), Positives = 39/63 (61%), Gaps = 1/63 (1%)

Query: 926 KKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKKKKKKKKKKKKKKKKKKEAEKMKKKTEE 985
           + + +EK    K + E   ++  EK  KKKKK+ KK+KK+KK KK+K  E +  KKK ++
Sbjct: 131 ESETSEKETTAKVEKEAEVEE-EEKKEKKKKKEVKKEKKEKKDKKEKMVEPKGSKKKKKK 189

Query: 986 AEK 988
            +K
Sbjct: 190 KKK 192

5. This is a family of proteins conserved from yeasts to human. Subunit A34.5 of RNA polymerase I is a non-essential subunit which is thought to help Pol I overcome topological constraints imposed on ribosomal DNA during the process of transcription. Length = 193

>gnl|CDD|235250 PRK04195, PRK04195, replication factor C large subunit; Provisional

 Score = 51.8 bits (125), Expect = 1e-06
 Identities = 19/72 (26%), Positives = 47/72 (65%)

Query: 898 KRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKK 957
              +  KK      + +KK+++E ++ +KK  A K K+++++ EK KK+  ++  +++ +
Sbjct: 404 GSKKATKKIKKIVEKAEKKREEEKKEKKKKAFAGKKKEEEEEEEKEKKEEEKEEEEEEAE 463

Query: 958 KKKKKKKKKKKK 969
           ++K+++++KKKK
Sbjct: 464 EEKEEEEEKKKK 475

Length = 482

>gnl|CDD|235250 PRK04195, PRK04195, replication factor C large subunit; Provisional

 Score = 51.8 bits (125), Expect = 1e-06
 Identities = 19/77 (24%), Positives = 49/77 (63%)

Query: 890 LGFILFRKKRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAE 949
           + F+   KK T++ KK   +  +K++++KKE +K       ++ +++++  +K ++K  E
Sbjct: 399 IEFLTGSKKATKKIKKIVEKAEKKREEEKKEKKKKAFAGKKKEEEEEEEKEKKEEEKEEE 458

Query: 950 KIGKKKKKKKKKKKKKK 966
           +   +++K+++++KKKK
Sbjct: 459 EEEAEEEKEEEEEKKKK 475

Length = 482

>gnl|CDD|225606 COG3064, TolA, Membrane protein involved in colicin uptake [Cell envelope biogenesis, outer membrane]

 Score = 51.5 bits (123), Expect = 1e-06
 Identities = 29/102 (28%), Positives = 44/102 (43%), Gaps = 9/102 (8%)

Query: 896 RKKRTRRKKKKGAEKIRKKKKKKKEAEKMR------KKKGAEKMKKKKKDAE---KMKKK 946
           + +  + K    A K++   + KK+AE+        K K      KKK +AE     +K 
Sbjct: 148 KAEAAKAKAAAEAAKLKAAAEAKKKAEEAAKAAEEAKAKAEAAAAKKKAEAEAKAAAEKA 207

Query: 947 GAEKIGKKKKKKKKKKKKKKKKKKKKKKEAEKMKKKTEEAEK 988
            AE   K K +KK +   ++K   +KKK A K K     A  
Sbjct: 208 KAEAEAKAKAEKKAEAAAEEKAAAEKKKAAAKAKADKAAAAA 249

Length = 387

>gnl|CDD|220252 pfam09468, RNase_H2-Ydr279, Ydr279p protein family (RNase H2 complex component)

 Score = 50.8 bits (122), Expect = 1e-06
 Identities = 24/74 (32%), Positives = 36/74 (48%), Gaps = 2/74 (2%)

Query: 910 KIRKKKKKKKEAEKMRKKKGAEKMKKKK--KDAEKMKKKGAEKIGKKKKKKKKKKKKKKK 967
           K   K     E + + K     K KK++  +D E  + +  +K   K++ KKKK K+ K 
Sbjct: 209 KELLKSLLIPEFKPLDKYLKESKKKKRETEEDVEAAESRAEKKRKSKEEIKKKKPKESKG 268

Query: 968 KKKKKKKEAEKMKK 981
            K  KK  A+ MKK
Sbjct: 269 VKALKKVVAKGMKK 282

RNases H are enzymes that specifically hydrolyse RNA when annealed to a complementary DNA and are present in all living organisms. In yeast RNase H2 is composed of a complex of three proteins (Rnh2Ap, Ydr279p and Ylr154p), this family represents the homologues of Ydr279p. It is not known whether non yeast proteins in this family fulfil the same function. Length = 287

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 52.1 bits (124), Expect = 2e-06
 Identities = 32/92 (34%), Positives = 55/92 (59%), Gaps = 6/92 (6%)

Query: 899  RTRRKKKKGAEKIRK--KKKKKKEAEKMRKKKGAEKMKK--KKKDAEKMKKKGAEKIGKK 954
            +   + KK A++ +K  + KK  EA+K  + K A++ KK  +KK A+++KK  AE++ K 
Sbjct: 1503 KKAAEAKKKADEAKKAEEAKKADEAKKAEEAKKADEAKKAEEKKKADELKK--AEELKKA 1560

Query: 955  KKKKKKKKKKKKKKKKKKKKEAEKMKKKTEEA 986
            ++KKK ++ KK ++ K       +  KK EEA
Sbjct: 1561 EEKKKAEEAKKAEEDKNMALRKAEEAKKAEEA 1592

Length = 2084

>gnl|CDD|219124 pfam06658, DUF1168, Protein of unknown function (DUF1168)

 Score = 47.7 bits (114), Expect = 2e-06
 Identities = 29/87 (33%), Positives = 49/87 (56%), Gaps = 16/87 (18%)

Query: 902 RKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKKKKK 961
           +K+ +  E  +K+++KK++ E+   KK A++ KKK                +KKKKKKK 
Sbjct: 60  KKETEDEEFQQKREEKKRKDEEKTAKKRAKRQKKK----------------QKKKKKKKA 103

Query: 962 KKKKKKKKKKKKKEAEKMKKKTEEAEK 988
           KK  KK++K+  K +E+   + EE E+
Sbjct: 104 KKGNKKEEKEGSKSSEESSDEEEEGEE 130

This family consists of several hypothetical eukaryotic proteins of unknown function. Length = 142

>gnl|CDD|172341 PRK13808, PRK13808, adenylate kinase; Provisional

 Score = 50.7 bits (121), Expect = 2e-06
 Identities = 29/87 (33%), Positives = 37/87 (42%)

Query: 896 RKKRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKK 955
           +   + +K  K A K  KK KK  +    +  K  +K  KK   A     KGA K  K K
Sbjct: 233 KTAVSAKKAAKTAAKAAKKAKKTAKKALKKAAKAVKKAAKKAAKAAAKAAKGAAKATKGK 292

Query: 956 KKKKKKKKKKKKKKKKKKKEAEKMKKK 982
            K KKK  KK     K K  A+  K+ 
Sbjct: 293 AKAKKKAGKKAAAGSKAKATAKAPKRG 319

Length = 333

>gnl|CDD|219746 pfam08208, RNA_polI_A34, DNA-directed RNA polymerase I subunit RPA34

 Score = 48.9 bits (117), Expect = 2e-06
 Identities = 27/68 (39%), Positives = 40/68 (58%), Gaps = 10/68 (14%)

Query: 897 KKRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKK 956
           +K T  K +K AE   ++KK+KK+ ++++K+K  +K KK+K    K            KK
Sbjct: 136 EKETTAKVEKEAEVEEEEKKEKKKKKEVKKEKKEKKDKKEKMVEPK----------GSKK 185

Query: 957 KKKKKKKK 964
           KKKKKKKK
Sbjct: 186 KKKKKKKK 193

5. This is a family of proteins conserved from yeasts to human. Subunit A34.5 of RNA polymerase I is a non-essential subunit which is thought to help Pol I overcome topological constraints imposed on ribosomal DNA during the process of transcription. Length = 193

>gnl|CDD|235250 PRK04195, PRK04195, replication factor C large subunit; Provisional

 Score = 51.5 bits (124), Expect = 2e-06
 Identities = 20/76 (26%), Positives = 51/76 (67%), Gaps = 1/76 (1%)

Query: 893 ILFRKKRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIG 952
            L   K+  +K KK  EK  KK++++K+ +K +   G +K ++++++ ++ K++  E+  
Sbjct: 401 FLTGSKKATKKIKKIVEKAEKKREEEKKEKKKKAFAGKKK-EEEEEEEKEKKEEEKEEEE 459

Query: 953 KKKKKKKKKKKKKKKK 968
           ++ +++K+++++KKKK
Sbjct: 460 EEAEEEKEEEEEKKKK 475

Length = 482

>gnl|CDD|240388 PTZ00372, PTZ00372, endonuclease 4-like protein; Provisional

 Score = 51.3 bits (123), Expect = 2e-06
 Identities = 31/92 (33%), Positives = 43/92 (46%), Gaps = 3/92 (3%)

Query: 897 KKRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKK 956
              +  + K      +K KK+ K  E  +K +  +K KK+KK+    K +G  K+G K  
Sbjct: 40  STFSEEENKVATTSTKKDKKEDKNNESKKKSEKKKKKKKEKKEP---KSEGETKLGFKTP 96

Query: 957 KKKKKKKKKKKKKKKKKKEAEKMKKKTEEAEK 988
           KK KK KKK  K K  +       K  E AEK
Sbjct: 97  KKSKKTKKKPPKPKPNEDVDNAFNKIAELAEK 128

Length = 413

>gnl|CDD|218737 pfam05764, YL1, YL1 nuclear protein

 Score = 49.7 bits (119), Expect = 2e-06
 Identities = 28/109 (25%), Positives = 50/109 (45%), Gaps = 17/109 (15%)

Query: 894 LFRKKRTRRKKKK---GAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEK 950
           L R++R ++KK+      ++  KKKKKK        K  A + KKK +            
Sbjct: 78  LQREERLKKKKRVKTKAYKEPTKKKKKKDPTAAKSPKAAAPRPKKKSERISWAPTLLDSP 137

Query: 951 IGK--------------KKKKKKKKKKKKKKKKKKKKKEAEKMKKKTEE 985
             K              ++ K+++ ++KK + K +K+KE +K K+ T+E
Sbjct: 138 RRKSSRSSTVQNKEATHERLKEREIRRKKIQAKARKRKEKKKEKELTQE 186

The proteins in this family are designated YL1. These proteins have been shown to be DNA-binding and may be a transcription factor. Length = 238

>gnl|CDD|237753 PRK14552, PRK14552, C/D box methylation guide ribonucleoprotein complex aNOP56 subunit; Provisional

 Score = 51.1 bits (123), Expect = 2e-06
 Identities = 21/54 (38%), Positives = 39/54 (72%), Gaps = 1/54 (1%)

Query: 930 AEKMKKK-KKDAEKMKKKGAEKIGKKKKKKKKKKKKKKKKKKKKKKEAEKMKKK 982
            +++K++  K  E++K+K  +   KK+++KK +K+KKKKK+KKK K+ +K  +K
Sbjct: 361 GDELKEELNKRIEEIKEKYPKPPKKKREEKKPQKRKKKKKRKKKGKKRKKKGRK 414

Length = 414

>gnl|CDD|219882 pfam08524, rRNA_processing, rRNA processing

 Score = 48.0 bits (114), Expect = 2e-06
 Identities = 31/93 (33%), Positives = 54/93 (58%), Gaps = 1/93 (1%)

Query: 896 RKKRTRRKKKKGAEK-IRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKK 954
            KK TR  K K  ++ + KK + KKE  K+ +K+G    +K+  + +    K   K  KK
Sbjct: 12  GKKFTREYKVKEIQRNLTKKARLKKEYLKLLEKEGYAVPEKESAEKQVKSSKEDRKFEKK 71

Query: 955 KKKKKKKKKKKKKKKKKKKKEAEKMKKKTEEAE 987
           KK  +KK+  K++K+++++KE  K +K+ E+ E
Sbjct: 72  KKLDEKKEIAKQRKREQREKELAKRQKELEKIE 104

This is a family of proteins that are involved in rRNA processing. In a localisation study they were found to localise to the nucleus and nucleolus. The family also includes other metazoa members from plants to mammals where the protein has been named BR22 and is associated with TTF-1, thyroid transcription factor 1. In the lungs, the family binds TTF-1 to form a complex which influences the expression of the key lung surfactant protein-B (SP-B) and -C (SP-C), the small hydrophobic surfactant proteins that maintain surface tension in alveoli. Length = 150

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 51.3 bits (122), Expect = 3e-06
 Identities = 40/99 (40%), Positives = 60/99 (60%), Gaps = 10/99 (10%)

Query: 897  KKRTRRKKKKGAEKIRKK----KKKKKEAEKMRK-KKGAEKMKK--KKKDAEKMKKKGAE 949
            KK+    KK  A++ +KK    KKK  EA+K  + KK A++ KK  + K A++ KK    
Sbjct: 1476 KKKAEEAKK--ADEAKKKAEEAKKKADEAKKAAEAKKKADEAKKAEEAKKADEAKKAEEA 1533

Query: 950  KIGKKKKKKKKKKKKKKKKKKKKKKEAEKMKKKTEEAEK 988
            K   + KK ++KKK  + KK ++ K+AE+ KKK EEA+K
Sbjct: 1534 KKADEAKKAEEKKKADELKKAEELKKAEE-KKKAEEAKK 1571

Length = 2084

>gnl|CDD|236545 PRK09510, tolA, cell envelope integrity inner membrane protein TolA; Provisional

 Score = 50.2 bits (120), Expect = 3e-06
 Identities = 31/86 (36%), Positives = 39/86 (45%), Gaps = 7/86 (8%)

Query: 908 AEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMK-----KKGAEKIGKKKKKKKKKK 962
           A+K   + KKK EAE    KK A + KKK +     K     KK AE   KKK   + KK
Sbjct: 160 AKKAAAEAKKKAEAEA--AKKAAAEAKKKAEAEAAAKAAAEAKKKAEAEAKKKAAAEAKK 217

Query: 963 KKKKKKKKKKKKEAEKMKKKTEEAEK 988
           K   + K    K A + K   E+A  
Sbjct: 218 KAAAEAKAAAAKAAAEAKAAAEKAAA 243

Length = 387

>gnl|CDD|235640 PRK05901, PRK05901, RNA polymerase sigma factor; Provisional

 Score = 50.4 bits (121), Expect = 3e-06
 Identities = 20/109 (18%), Positives = 38/109 (34%)

Query: 880 DDVRREAVTALGFILFRKKRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKD 939
           ++ +++          +   T+ + K+  E  +K  ++  +          +     + D
Sbjct: 14  EEAKKKLKKLAAKSKSKGFITKEEIKEALESKKKTPEQIDQVLIFLSGMVKDTDDATESD 73

Query: 940 AEKMKKKGAEKIGKKKKKKKKKKKKKKKKKKKKKKEAEKMKKKTEEAEK 988
             K K K A K    K   KKK K +    KK +K+    K       K
Sbjct: 74  IPKKKTKTAAKAAAAKAPAKKKLKDELDSSKKAEKKNALDKDDDLNYVK 122

Length = 509

>gnl|CDD|240388 PTZ00372, PTZ00372, endonuclease 4-like protein; Provisional

 Score = 50.5 bits (121), Expect = 3e-06
 Identities = 25/84 (29%), Positives = 36/84 (42%)

Query: 905 KKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKKKKKKKK 964
            K       +++ K      +K K  +K  + KK +EK KKK  EK   K + + K   K
Sbjct: 35  SKEILSTFSEEENKVATTSTKKDKKEDKNNESKKKSEKKKKKKKEKKEPKSEGETKLGFK 94

Query: 965 KKKKKKKKKKEAEKMKKKTEEAEK 988
             KK KK KK+  K K   +    
Sbjct: 95  TPKKSKKTKKKPPKPKPNEDVDNA 118

Length = 413

>gnl|CDD|218737 pfam05764, YL1, YL1 nuclear protein

 Score = 49.3 bits (118), Expect = 3e-06
 Identities = 30/115 (26%), Positives = 51/115 (44%), Gaps = 25/115 (21%)

Query: 896 RKKRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEK------------- 942
           R K+ +R K K  ++  KKKKKK        K  A + KKK +                 
Sbjct: 83  RLKKKKRVKTKAYKEPTKKKKKKDPTAAKSPKAAAPRPKKKSERISWAPTLLDSPRRKSS 142

Query: 943 ----MKKKGAEKIGKKKKKKKKKKKKKKKKKKKKKKE------AEKMK--KKTEE 985
               ++ K A     K+++ ++KK + K +K+K+KK+       E++   K+TE 
Sbjct: 143 RSSTVQNKEATHERLKEREIRRKKIQAKARKRKEKKKEKELTQEERLAEAKETER 197

The proteins in this family are designated YL1. These proteins have been shown to be DNA-binding and may be a transcription factor. Length = 238

>gnl|CDD|217756 pfam03839, Sec62, Translocation protein Sec62

 Score = 48.6 bits (116), Expect = 3e-06
 Identities = 24/78 (30%), Positives = 34/78 (43%), Gaps = 7/78 (8%)

Query: 895 FRKKRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKK 954
           FR KR  R      E  + K  K K   ++  K      + K  +  K+  K       K
Sbjct: 7   FRAKRVVRAL----ESEKYKANKDKGNPEIYNK---INSQDKAIEKFKLLIKAQMAERVK 59

Query: 955 KKKKKKKKKKKKKKKKKK 972
           K   ++KK++KKK KKKK
Sbjct: 60  KLHSQEKKEEKKKPKKKK 77

Length = 217

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 50.9 bits (121), Expect = 4e-06
 Identities = 35/97 (36%), Positives = 56/97 (57%), Gaps = 8/97 (8%)

Query: 897  KKRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMK----KKKKDAEKMKKKGAEKIG 952
            +K+   + KK  E      +K +EA+K  + +  E MK    +KK  AE+ KK    KI 
Sbjct: 1562 EKKKAEEAKKAEEDKNMALRKAEEAKKAEEARIEEVMKLYEEEKKMKAEEAKKAEEAKIK 1621

Query: 953  ----KKKKKKKKKKKKKKKKKKKKKKEAEKMKKKTEE 985
                KK +++KKK ++ KKK+ ++KK+AE++KK  EE
Sbjct: 1622 AEELKKAEEEKKKVEQLKKKEAEEKKKAEELKKAEEE 1658

Length = 2084

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 50.5 bits (120), Expect = 4e-06
 Identities = 28/95 (29%), Positives = 58/95 (61%), Gaps = 2/95 (2%)

Query: 896  RKKRTRRKKK--KGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGK 953
            +K   ++K    K AE+++K ++KKK  E  + ++      +K ++A+K ++   E++ K
Sbjct: 1540 KKAEEKKKADELKKAEELKKAEEKKKAEEAKKAEEDKNMALRKAEEAKKAEEARIEEVMK 1599

Query: 954  KKKKKKKKKKKKKKKKKKKKKEAEKMKKKTEEAEK 988
              +++KK K ++ KK ++ K +AE++KK  EE +K
Sbjct: 1600 LYEEEKKMKAEEAKKAEEAKIKAEELKKAEEEKKK 1634

Length = 2084

>gnl|CDD|172341 PRK13808, PRK13808, adenylate kinase; Provisional

 Score = 49.9 bits (119), Expect = 4e-06
 Identities = 30/93 (32%), Positives = 39/93 (41%), Gaps = 2/93 (2%)

Query: 897 KKRTRRKKKKGAEKIRKKK--KKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKK 954
             +   KKK     +  KK  K   +A K  KK   + +KK  K  +K  KK A+   K 
Sbjct: 222 AAKKVSKKKAAKTAVSAKKAAKTAAKAAKKAKKTAKKALKKAAKAVKKAAKKAAKAAAKA 281

Query: 955 KKKKKKKKKKKKKKKKKKKKEAEKMKKKTEEAE 987
            K   K  K K K KKK  K+A    K    A+
Sbjct: 282 AKGAAKATKGKAKAKKKAGKKAAAGSKAKATAK 314

Length = 333

>gnl|CDD|114011 pfam05262, Borrelia_P83, Borrelia P83/100 protein

 Score = 50.4 bits (120), Expect = 4e-06
 Identities = 24/90 (26%), Positives = 43/90 (47%), Gaps = 5/90 (5%)

Query: 904 KKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKKKKKKK 963
            +  A+K R + ++K++  K   K       K+ K   + +K+  EK   + KK  ++  
Sbjct: 239 AQDNADKQRDEVRQKQQEAKNLPKPADTSSPKEDKQVAENQKREIEKAQIEIKKNDEEAL 298

Query: 964 KKKKKK----KKKKKEAEKM-KKKTEEAEK 988
           K K  K    K++ K +EK  + K  EA+K
Sbjct: 299 KAKDHKAFDLKQESKASEKEAEDKELEAQK 328

This family consists of several Borrelia P83/P100 antigen proteins. Length = 489

>gnl|CDD|218899 pfam06102, DUF947, Domain of unknown function (DUF947)

 Score = 47.7 bits (114), Expect = 4e-06
 Identities = 24/79 (30%), Positives = 41/79 (51%)

Query: 896 RKKRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKK 955
           +  ++R K  K  ++ R+  K+ K+ EK   K+G +    KK + +K+  K      KK 
Sbjct: 89  QSMKSRLKTLKNKDREREILKEHKKQEKELIKEGKKPYYLKKSEIKKLVLKKKFDELKKS 148

Query: 956 KKKKKKKKKKKKKKKKKKK 974
           K+  K  +KK+KK   K+K
Sbjct: 149 KQLDKALEKKRKKNAGKEK 167

Family of eukaryotic proteins with unknown function. Length = 168

>gnl|CDD|218899 pfam06102, DUF947, Domain of unknown function (DUF947)

 Score = 47.7 bits (114), Expect = 4e-06
 Identities = 26/77 (33%), Positives = 40/77 (51%)

Query: 897 KKRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKK 956
           K R +  K K  E+   K+ KK+E E +++ K    +KK +     +KKK  E    K+ 
Sbjct: 92  KSRLKTLKNKDREREILKEHKKQEKELIKEGKKPYYLKKSEIKKLVLKKKFDELKKSKQL 151

Query: 957 KKKKKKKKKKKKKKKKK 973
            K  +KK+KK   K+KK
Sbjct: 152 DKALEKKRKKNAGKEKK 168

Family of eukaryotic proteins with unknown function. Length = 168

>gnl|CDD|219655 pfam07946, DUF1682, Protein of unknown function (DUF1682)

 Score = 49.6 bits (119), Expect = 5e-06
 Identities = 20/77 (25%), Positives = 39/77 (50%), Gaps = 1/77 (1%)

Query: 889 ALGFILFRKKRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGA 948
            L  +    +   RK  K  E+  +K  K  E E+  + +  ++ KKK++   K+ K   
Sbjct: 247 KLANLKLSPE-VLRKVDKTREEEEEKILKAAEEERQEEAQEKKEEKKKEEREAKLAKLSP 305

Query: 949 EKIGKKKKKKKKKKKKK 965
           E+  K ++K++KK+ +K
Sbjct: 306 EEQRKLEEKERKKQARK 322

The members of this family are all hypothetical eukaryotic proteins of unknown function. One member is described as being an adipocyte-specific protein, but no evidence of this was found. Length = 322

>gnl|CDD|190741 pfam03763, Remorin_C, Remorin, C-terminal region

 Score = 46.2 bits (110), Expect = 5e-06
 Identities = 25/84 (29%), Positives = 42/84 (50%), Gaps = 6/84 (7%)

Query: 909 EKIRKKKKKKKEA----EKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKKKKKKKK 964
            KI  K ++++      E  +K K   ++KK ++  EK K + AEK+  K K     KK 
Sbjct: 19  AKINNKYQREEAKIQAWENKKKAKAEAELKKIERKLEKKKAEAAEKL--KNKLAAAHKKA 76

Query: 965 KKKKKKKKKKEAEKMKKKTEEAEK 988
           ++K+   + K  E+  K  E+A K
Sbjct: 77  EEKRATAEAKRGEEEAKAEEKAAK 100

Remorins are plant-specific plasma membrane-associated proteins. In tobacco remorin co-purifies with lipid rafts. Most remorins have a variable, proline-rich C-half and a more conserved N-half that is predicted to form coiled coils. Consistent with this, circular dichroism studies have demonstrated that much of the protein is alpha-helical. Remorins exist in plasma membrane preparations as oligomeric structures and form filaments in vitro. The proteins can bind polyanions including the extracellular matrix component oligogalacturonic acid (OGA). In vitro, remorin in plasma membrane preparations is phosphorylated (principally on threonine residues) in the presence of OGA and thus co-purifies with a protein kinases(s). The biological functions of remorins are unknown but roles as components of the membrane/cytoskeleton are possible. Length = 112

>gnl|CDD|220648 pfam10243, MIP-T3, Microtubule-binding protein MIP-T3

 Score = 49.9 bits (119), Expect = 6e-06
 Identities = 26/76 (34%), Positives = 42/76 (55%), Gaps = 1/76 (1%)

Query: 910 KIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKKKKKKKKKKKKK 969
           K  + K    EA K R +KG  K    K    K  K  + K  +K+K++ K++KKKKK+K
Sbjct: 65  KCAESKLSSDEAVK-RVEKGGSKGPAAKTKPAKEPKNESGKEEEKEKEQVKEEKKKKKEK 123

Query: 970 KKKKKEAEKMKKKTEE 985
            K++ +  K K++ +E
Sbjct: 124 PKEEPKDRKPKEEAKE 139

This protein, which interacts with both microtubules and TRAF3 (tumour necrosis factor receptor-associated factor 3), is conserved from worms to humans. The N-terminal region is the microtubule binding domain and is well-conserved; the C-terminal 100 residues, also well-conserved, constitute the coiled-coil region which binds to TRAF3. The central region of the protein is rich in lysine and glutamic acid and carries KKE motifs which may also be necessary for tubulin-binding, but this region is the least well-conserved. Length = 506

>gnl|CDD|236545 PRK09510, tolA, cell envelope integrity inner membrane protein TolA; Provisional

 Score = 49.4 bits (118), Expect = 6e-06
 Identities = 36/111 (32%), Positives = 47/111 (42%), Gaps = 19/111 (17%)

Query: 897 KKRTRRKKKKGAEKIRKKK----KKKKEAEKMR----KKKGAEKMKKK------KKDAEK 942
             +    K+K AE+   K     K K EAE  R     KK A + KKK      KK A +
Sbjct: 123 AAKQAALKQKQAEEAAAKAAAAAKAKAEAEAKRAAAAAKKAAAEAKKKAEAEAAKKAAAE 182

Query: 943 MKKKGAEKIGKK-----KKKKKKKKKKKKKKKKKKKKEAEKMKKKTEEAEK 988
            KKK   +   K     KKK + + KKK   + KKK  AE      + A +
Sbjct: 183 AKKKAEAEAAAKAAAEAKKKAEAEAKKKAAAEAKKKAAAEAKAAAAKAAAE 233

Length = 387

>gnl|CDD|172341 PRK13808, PRK13808, adenylate kinase; Provisional

 Score = 48.7 bits (116), Expect = 7e-06
 Identities = 30/87 (34%), Positives = 42/87 (48%), Gaps = 2/87 (2%)

Query: 897 KKRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKK 956
            K  ++ KK   + ++K  K  K+A K +  K A K  K    A K K K  +K GKK  
Sbjct: 246 AKAAKKAKKTAKKALKKAAKAVKKAAK-KAAKAAAKAAKGAAKATKGKAKAKKKAGKKAA 304

Query: 957 KKKKKKKK-KKKKKKKKKKEAEKMKKK 982
              K K   K  K+  K K+A+K+ KK
Sbjct: 305 AGSKAKATAKAPKRGAKGKKAKKVTKK 331

Length = 333

>gnl|CDD|219746 pfam08208, RNA_polI_A34, DNA-directed RNA polymerase I subunit RPA34

 Score = 47.4 bits (113), Expect = 7e-06
 Identities = 23/60 (38%), Positives = 39/60 (65%)

Query: 929 GAEKMKKKKKDAEKMKKKGAEKIGKKKKKKKKKKKKKKKKKKKKKKEAEKMKKKTEEAEK 988
           G+E    +K+   K++K+   +  +KK+KKKKK+ KK+KK+KK KKE     K +++ +K
Sbjct: 129 GSESETSEKETTAKVEKEAEVEEEEKKEKKKKKEVKKEKKEKKDKKEKMVEPKGSKKKKK 188

5. This is a family of proteins conserved from yeasts to human. Subunit A34.5 of RNA polymerase I is a non-essential subunit which is thought to help Pol I overcome topological constraints imposed on ribosomal DNA during the process of transcription. Length = 193

>gnl|CDD|218188 pfam04641, Rtf2, Replication termination factor 2

 Score = 48.5 bits (116), Expect = 7e-06
 Identities = 16/77 (20%), Positives = 30/77 (38%)

Query: 907 GAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKKKKKKKKKK 966
             E    K + ++E  K +KKK  +K KK        +   +  +  +      +  + K
Sbjct: 166 EEEVELLKARLEEERAKKKKKKKKKKTKKNNATGSSAEATVSSAVPTELSSGAGQVGEAK 225

Query: 967 KKKKKKKKEAEKMKKKT 983
           K KKK+    +  K + 
Sbjct: 226 KLKKKRSIAPDNEKSEV 242

It is vital for effective cell-replication that replication is not stalled at any point by, for instance, damaged bases. Rtf2 stabilizes the replication fork stalled at the site-specific replication barrier RTS1 by preventing replication restart until completion of DNA synthesis by a converging replication fork initiated at a flanking origin. The RTS1 element terminates replication forks that are moving in the cen2-distal direction while allowing forks moving in the cen2-proximal direction to pass through the region. Rtf2 contains a C2HC2 motif related to the C3HC4 RING-finger motif, and would appear to fold up, creating a RING finger-like structure but forming only one functional Zn2+ ion-binding site. Length = 254

>gnl|CDD|236545 PRK09510, tolA, cell envelope integrity inner membrane protein TolA; Provisional

 Score = 49.0 bits (117), Expect = 8e-06
 Identities = 27/91 (29%), Positives = 42/91 (46%), Gaps = 4/91 (4%)

Query: 902 RKKKKGAEKIRKKKKKKKEAEKMR----KKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKK 957
           R K+   E++  +++KK+  E  +    K+K AE+   K   A K K +   K      K
Sbjct: 102 RLKQLEKERLAAQEQKKQAEEAAKQAALKQKQAEEAAAKAAAAAKAKAEAEAKRAAAAAK 161

Query: 958 KKKKKKKKKKKKKKKKKEAEKMKKKTEEAEK 988
           K   + KKK + +  KK A + KKK E    
Sbjct: 162 KAAAEAKKKAEAEAAKKAAAEAKKKAEAEAA 192

Length = 387

>gnl|CDD|220383 pfam09756, DDRGK, DDRGK domain

 Score = 47.0 bits (112), Expect = 8e-06
 Identities = 23/90 (25%), Positives = 57/90 (63%), Gaps = 13/90 (14%)

Query: 897 KKRTRRKKKKGAEKIRKKKKKKKEAEKM----RKKKGAEKMKKKKKDAEKMKKKGAEKIG 952
           KK   +K+ K  EK  + +++++EAE+     RKK   ++  ++K++ E  +++      
Sbjct: 1   KKIGAKKRAKLEEK--QARRQQREAEEEEREERKKLEEKREGERKEEEELEEER------ 52

Query: 953 KKKKKKKKKKKKKKKKKKKKKKEAEKMKKK 982
            +KKK+++++K+++++ +K+++E EK+K  
Sbjct: 53  -EKKKEEEERKEREEQARKEQEEYEKLKSS 81

This is a family of proteins of approximately 300 residues, found in plants and vertebrates. They contain a highly conserved DDRGK motif. Length = 189

>gnl|CDD|225606 COG3064, TolA, Membrane protein involved in colicin uptake [Cell envelope biogenesis, outer membrane]

 Score = 48.8 bits (116), Expect = 9e-06
 Identities = 29/105 (27%), Positives = 49/105 (46%), Gaps = 13/105 (12%)

Query: 897 KKRTRRKKKKGAEKIRK---KKKKKKEAEKMRKKKGAEKMK----------KKKKDAEKM 943
           +K+ + ++K+  E+ RK   ++KKK EA K +    A K+K          +  K AE+ 
Sbjct: 124 EKQAQLEQKQQEEQARKAAAEQKKKAEAAKAKAAAEAAKLKAAAEAKKKAEEAAKAAEEA 183

Query: 944 KKKGAEKIGKKKKKKKKKKKKKKKKKKKKKKEAEKMKKKTEEAEK 988
           K K      KKK + + K   +K K + + K   + K +    EK
Sbjct: 184 KAKAEAAAAKKKAEAEAKAAAEKAKAEAEAKAKAEKKAEAAAEEK 228

Length = 387

>gnl|CDD|218899 pfam06102, DUF947, Domain of unknown function (DUF947)

 Score = 46.9 bits (112), Expect = 9e-06
 Identities = 31/87 (35%), Positives = 47/87 (54%), Gaps = 5/87 (5%)

Query: 897 KKRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKK 956
           K+  +  K +   K  K K +++E  K  KK+  E +K+ KK    +KK   +K+  KKK
Sbjct: 85  KRTLQSMKSR--LKTLKNKDREREILKEHKKQEKELIKEGKK-PYYLKKSEIKKLVLKKK 141

Query: 957 KKKKKKKKKKKK--KKKKKKEAEKMKK 981
             + KK K+  K  +KK+KK A K KK
Sbjct: 142 FDELKKSKQLDKALEKKRKKNAGKEKK 168

Family of eukaryotic proteins with unknown function. Length = 168

>gnl|CDD|219838 pfam08432, DUF1742, Fungal protein of unknown function (DUF1742)

 Score = 46.6 bits (111), Expect = 1e-05
 Identities = 23/59 (38%), Positives = 37/59 (62%)

Query: 930 AEKMKKKKKDAEKMKKKGAEKIGKKKKKKKKKKKKKKKKKKKKKKEAEKMKKKTEEAEK 988
             + KKKKK+  +  +K  ++  +K+K K KKKK KKKK K K K+ +K   K+E+ ++
Sbjct: 57  YTEAKKKKKELAEEIEKVKKEYEEKQKWKWKKKKSKKKKDKDKDKKDDKKDDKSEKKDE 115

This is a family of fungal proteins of unknown function. Length = 182

>gnl|CDD|225606 COG3064, TolA, Membrane protein involved in colicin uptake [Cell envelope biogenesis, outer membrane]

 Score = 48.4 bits (115), Expect = 1e-05
 Identities = 29/92 (31%), Positives = 43/92 (46%), Gaps = 5/92 (5%)

Query: 898 KRTRRKKKKGAEKIRKK---KKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKK 954
           K+   +  K AE+ + K      KK+AE   K   AEK K + +   K +KK AE   ++
Sbjct: 170 KKKAEEAAKAAEEAKAKAEAAAAKKKAEAEAKAA-AEKAKAEAEAKAKAEKK-AEAAAEE 227

Query: 955 KKKKKKKKKKKKKKKKKKKKEAEKMKKKTEEA 986
           K   +KKK   K K  K    A+  ++K   A
Sbjct: 228 KAAAEKKKAAAKAKADKAAAAAKAAERKAAAA 259

Length = 387

>gnl|CDD|222447 pfam13904, DUF4207, Domain of unknown function (DUF4207)

 Score = 47.8 bits (114), Expect = 1e-05
 Identities = 30/136 (22%), Positives = 64/136 (47%), Gaps = 29/136 (21%)

Query: 882 VRREAVTALGFILFRKKRTRRKK--KKGAEKIRKKKKKKKEAEKMRKKKGAEK----MKK 935
           + R+A  A    L  K+  R+KK  K   EK +++++K++E  ++R++   EK     ++
Sbjct: 81  LERQAQEAYENWLSAKQAQRQKKLQKLLEEKQKQEREKEREEAELRQRLAKEKYEEWCRQ 140

Query: 936 KKKDAEKMKK--------KGAEKIGKKKKKKKKK---------------KKKKKKKKKKK 972
           K + A K +         + A        K ++                KK K++++K++
Sbjct: 141 KAQQAAKQRTPKHKKEAAESASSSLSGSAKPERNVSQEEAKKRLQEWELKKLKQQQQKRE 200

Query: 973 KKEAEKMKKKTEEAEK 988
           ++  ++ KK+ EE E+
Sbjct: 201 EERRKQRKKQQEEEER 216

This family is found in eukaryotes; it has several conserved tryptophan residues. The function is not known. Length = 261

>gnl|CDD|220252 pfam09468, RNase_H2-Ydr279, Ydr279p protein family (RNase H2 complex component)

 Score = 48.1 bits (115), Expect = 1e-05
 Identities = 21/74 (28%), Positives = 37/74 (50%)

Query: 909 EKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKKKKKKKKKKKK 968
           +++ K     +     +  K ++K K++ ++  +  +  AEK  K K++ KKKK K+ K 
Sbjct: 209 KELLKSLLIPEFKPLDKYLKESKKKKRETEEDVEAAESRAEKKRKSKEEIKKKKPKESKG 268

Query: 969 KKKKKKEAEKMKKK 982
            K  KK   K  KK
Sbjct: 269 VKALKKVVAKGMKK 282

RNases H are enzymes that specifically hydrolyse RNA when annealed to a complementary DNA and are present in all living organisms. In yeast RNase H2 is composed of a complex of three proteins (Rnh2Ap, Ydr279p and Ylr154p), this family represents the homologues of Ydr279p. It is not known whether non yeast proteins in this family fulfil the same function. Length = 287

>gnl|CDD|218899 pfam06102, DUF947, Domain of unknown function (DUF947)

 Score = 46.5 bits (111), Expect = 1e-05
 Identities = 28/89 (31%), Positives = 47/89 (52%), Gaps = 6/89 (6%)

Query: 900 TRRKKKKGAEKIRKKKKKKKEAEKMRK-----KKGAEKMKKKKKDAEKMKK-KGAEKIGK 953
            R K+ +  EK  KK K  +E E++++     K   + +K K ++ E +K+ K  EK   
Sbjct: 60  YREKEIEELEKALKKTKDSEEKEELKRTLQSMKSRLKTLKNKDREREILKEHKKQEKELI 119

Query: 954 KKKKKKKKKKKKKKKKKKKKKEAEKMKKK 982
           K+ KK    KK + KK   KK+ +++KK 
Sbjct: 120 KEGKKPYYLKKSEIKKLVLKKKFDELKKS 148

Family of eukaryotic proteins with unknown function. Length = 168

>gnl|CDD|220648 pfam10243, MIP-T3, Microtubule-binding protein MIP-T3

 Score = 48.0 bits (114), Expect = 2e-05
 Identities = 23/94 (24%), Positives = 45/94 (47%), Gaps = 4/94 (4%)

Query: 898 KRTRRKKKKGAEKIRKKKKKKKEAEKMR---KKKGAEKMKKKKKDAEKMKKKGAEKIGKK 954
           KR  ++K+K  EK + ++ + +E EK R   + K   K   KKK   K K+   E+  ++
Sbjct: 140 KRPPKEKEKEKEK-KVEEPRDREEEKKRERVRAKSRPKKPPKKKPPNKKKEPPEEEKQRQ 198

Query: 955 KKKKKKKKKKKKKKKKKKKKEAEKMKKKTEEAEK 988
             ++  K K ++    +++++ E   K  E    
Sbjct: 199 AAREAVKGKPEEPDVNEEREKEEDDGKDRETTTS 232

This protein, which interacts with both microtubules and TRAF3 (tumour necrosis factor receptor-associated factor 3), is conserved from worms to humans. The N-terminal region is the microtubule binding domain and is well-conserved; the C-terminal 100 residues, also well-conserved, constitute the coiled-coil region which binds to TRAF3. The central region of the protein is rich in lysine and glutamic acid and carries KKE motifs which may also be necessary for tubulin-binding, but this region is the least well-conserved. Length = 506

>gnl|CDD|236545 PRK09510, tolA, cell envelope integrity inner membrane protein TolA; Provisional

 Score = 47.5 bits (113), Expect = 2e-05
 Identities = 25/95 (26%), Positives = 38/95 (40%), Gaps = 3/95 (3%)

Query: 897 KKRTRRKKKKGAEKIRKKKK---KKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGK 953
            KR     KK A + +KK +    KK A + +KK  AE   K   +A+K  +  A+K   
Sbjct: 153 AKRAAAAAKKAAAEAKKKAEAEAAKKAAAEAKKKAEAEAAAKAAAEAKKKAEAEAKKKAA 212

Query: 954 KKKKKKKKKKKKKKKKKKKKKEAEKMKKKTEEAEK 988
            + KKK   + K    K   +     +K       
Sbjct: 213 AEAKKKAAAEAKAAAAKAAAEAKAAAEKAAAAKAA 247

Length = 387

>gnl|CDD|236545 PRK09510, tolA, cell envelope integrity inner membrane protein TolA; Provisional

 Score = 47.5 bits (113), Expect = 2e-05
 Identities = 32/95 (33%), Positives = 41/95 (43%), Gaps = 9/95 (9%)

Query: 903 KKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKK-----KKKDAEKMKKKGAEKIGKKKKK 957
           K K  AE  R     KK A + +KK  AE  KK     KKK   +   K A +  KK + 
Sbjct: 146 KAKAEAEAKRAAAAAKKAAAEAKKKAEAEAAKKAAAEAKKKAEAEAAAKAAAEAKKKAEA 205

Query: 958 KKKKKKKKKKKKK----KKKKEAEKMKKKTEEAEK 988
           + KKK   + KKK     K   A+   +    AEK
Sbjct: 206 EAKKKAAAEAKKKAAAEAKAAAAKAAAEAKAAAEK 240

Length = 387

>gnl|CDD|184900 PRK14907, rplD, 50S ribosomal protein L4; Provisional

 Score = 47.6 bits (113), Expect = 2e-05
 Identities = 26/82 (31%), Positives = 36/82 (43%)

Query: 906 KGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKKKKKKKKK 965
           K   K +  ++KK  A+K    K   K KK  K       K A K+ K K  K   KK  
Sbjct: 5   KKTTKKKTTEEKKPAAKKATTSKETAKTKKTAKTTSTKAAKKAAKVKKTKSVKTTTKKVT 64

Query: 966 KKKKKKKKKEAEKMKKKTEEAE 987
            K +K +  + E + KKT + E
Sbjct: 65  VKFEKTESVKKESVAKKTVKKE 86

Length = 295

>gnl|CDD|217051 pfam02463, SMC_N, RecF/RecN/SMC N terminal domain

 Score = 48.8 bits (116), Expect = 2e-05
 Identities = 25/100 (25%), Positives = 49/100 (49%), Gaps = 1/100 (1%)

Query: 890 LGFILFRKKRTRRKKKKGAEKIRKKKKK-KKEAEKMRKKKGAEKMKKKKKDAEKMKKKGA 948
           L     R    +   +   E+I   K++ +KE E + +     K ++K+K  ++ + K  
Sbjct: 233 LKLNEERIDLLQELLRDEQEEIESSKQELEKEEEILAQVLKENKEEEKEKKLQEEELKLL 292

Query: 949 EKIGKKKKKKKKKKKKKKKKKKKKKKEAEKMKKKTEEAEK 988
            K  ++ K +  K +++K   ++K KE+EK  KK E+  K
Sbjct: 293 AKEEEELKSELLKLERRKVDDEEKLKESEKELKKLEKELK 332

This domain is found at the N terminus of SMC proteins. The SMC (structural maintenance of chromosomes) superfamily proteins have ATP-binding domains at the N- and C-termini, and two extended coiled-coil domains separated by a hinge in the middle. The eukaryotic SMC proteins form two kind of heterodimers: the SMC1/SMC3 and the SMC2/SMC4 types. These heterodimers constitute an essential part of higher order complexes, which are involved in chromatin and DNA dynamics. This family also includes the RecF and RecN proteins that are involved in DNA metabolism and recombination. Length = 1162

>gnl|CDD|221275 pfam11861, DUF3381, Domain of unknown function (DUF3381)

 Score = 45.4 bits (108), Expect = 2e-05
 Identities = 16/68 (23%), Positives = 42/68 (61%), Gaps = 1/68 (1%)

Query: 914 KKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKG-AEKIGKKKKKKKKKKKKKKKKKKKK 972
           K +KK        KK  E+ ++++ + E++ ++   +++ +K+  K K++K+++ ++K+K
Sbjct: 85  KWRKKVRKLLGLDKKEKEEEEEEEVEVEELDEEEQIDELLEKELAKLKREKRRENERKQK 144

Query: 973 KKEAEKMK 980
           +   E+MK
Sbjct: 145 EILKEQMK 152

This domain is functionally uncharacterized. This domain is found in eukaryotes. This presumed domain is typically between 156 to 174 amino acids in length. This domain is found associated with pfam07780, pfam01728. Length = 154

>gnl|CDD|219901 pfam08555, DUF1754, Eukaryotic family of unknown function (DUF1754)

 Score = 43.9 bits (104), Expect = 2e-05
 Identities = 21/46 (45%), Positives = 30/46 (65%)

Query: 942 KMKKKGAEKIGKKKKKKKKKKKKKKKKKKKKKKEAEKMKKKTEEAE 987
           K+K KG +   KKKKKKKKKK K K++   +K+E EK   +++  E
Sbjct: 9   KLKLKGKKIDVKKKKKKKKKKNKSKEEVVTEKEEEEKSSAESDLKE 54

This is a eukaryotic protein family of unknown function. Length = 90

>gnl|CDD|220611 pfam10169, Laps, Learning-associated protein

 Score = 44.8 bits (106), Expect = 2e-05
 Identities = 30/120 (25%), Positives = 48/120 (40%), Gaps = 31/120 (25%)

Query: 898 KRTRRKKKKGAEKIRKKKKKKKEAEK-------------MRKKKGAEKMKKKKKDAEKMK 944
           K  R K ++    I++KK   KE  +             M+  K    +K  ++  EK K
Sbjct: 1   KSLRSKWRRKMRAIKRKKNAPKELARLKKALGLIDGNVLMKDVKDIATVKPAEEVKEKKK 60

Query: 945 KKGAEKI---------GKKKKKKKKKKKKK---------KKKKKKKKKEAEKMKKKTEEA 986
           K+G E            K   + KK  + +         +++ KK KK+ EK KKK + A
Sbjct: 61  KEGTESEEDDEKMEVDNKAAVRNKKTLRDQHGQYPAWMNQRQAKKLKKKREKKKKKKKGA 120

This is a family of 121-amino acid secretory proteins. Laps functions in the regulation of neuronal cell adhesion and/or movement and synapse attachment. Laps binds to the ApC/EBP (Aplysia CCAAT/enhancer binding protein) promoter and activates the transcription of ApC/EBP mRNA. Length = 124

>gnl|CDD|220271 pfam09507, CDC27, DNA polymerase subunit Cdc27

 Score = 47.9 bits (114), Expect = 2e-05
 Identities = 23/92 (25%), Positives = 37/92 (40%), Gaps = 1/92 (1%)

Query: 898 KRTRRKKKKGAEKIRKKKKKKKEAEKMR-KKKGAEKMKKKKKDAEKMKKKGAEKIGKKKK 956
              +R   K  + I   + K K A+K +   K     K + K + K          K   
Sbjct: 158 ANGKRPSSKPPKSIMSPEVKVKSAKKTQDTSKETTTEKTEGKTSVKAASLKRNPPKKSNI 217

Query: 957 KKKKKKKKKKKKKKKKKKEAEKMKKKTEEAEK 988
                KKK K+KK+KK+     +K+++EE   
Sbjct: 218 MSSFFKKKTKEKKEKKEASESTVKEESEEESG 249

This protein forms the C subunit of DNA polymerase delta. It carries the essential residues for binding to the Pol1 subunit of polymerase alpha, from residues 293-332, which are characterized by the motif D--G--VT, referred to as the DPIM motif. The first 160 residues of the protein form the minimal domain for binding to the B subunit, Cdc1, of polymerase delta, the final 10 C-terminal residues, 362-372, being the DNA sliding clamp, PCNA, binding motif. Length = 427

>gnl|CDD|220818 pfam10595, UPF0564, Uncharacterized protein family UPF0564

 Score = 47.5 bits (113), Expect = 2e-05
 Identities = 21/83 (25%), Positives = 52/83 (62%)

Query: 899 RTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKK 958
            + +K +   + +R ++K+K+  E+  KK+  ++ KKKK+ A K+K++       +K ++
Sbjct: 266 PSTKKWESLVKFLRTERKEKEAKEQQEKKELEQRKKKKKEMAPKVKQRFEANDPAQKLQE 325

Query: 959 KKKKKKKKKKKKKKKKEAEKMKK 981
           ++K++  K +K++K++E E  ++
Sbjct: 326 ERKEQLAKLRKEEKEREKEYEQE 348

This family of proteins has no known function. However, one of the members is annotated as an EF-hand family protein. Length = 349

>gnl|CDD|222636 pfam14265, DUF4355, Domain of unknown function (DUF4355)

 Score = 44.6 bits (106), Expect = 2e-05
 Identities = 18/83 (21%), Positives = 43/83 (51%), Gaps = 7/83 (8%)

Query: 903 KKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKKKKKK 962
           + ++      K+  K    EK + +K   K ++KK +AEK+ K  AE+    K + + +K
Sbjct: 1   EPEEEKTFTDKEVDKAIAKEKAKWEK---KQEEKKSEAEKLAKMSAEE----KAEYELEK 53

Query: 963 KKKKKKKKKKKKEAEKMKKKTEE 985
            +K+ ++ + +    ++K + ++
Sbjct: 54  LEKELEELEAELARRELKAEAKK 76

This family of proteins is found in bacteria and viruses. Proteins in this family are typically between 180 and 214 amino acids in length. Length = 125

>gnl|CDD|235175 PRK03918, PRK03918, chromosome segregation protein; Provisional

 Score = 48.1 bits (115), Expect = 2e-05
 Identities = 31/120 (25%), Positives = 58/120 (48%), Gaps = 32/120 (26%)

Query: 898 KRTRRKKKKGAEKIRKKKKKKKEAEKMRKKK-----------------------GAEKMK 934
           KR  ++ K+  EK RK +K+ +E EK+ KK+                         E+++
Sbjct: 462 KRIEKELKEIEEKERKLRKELRELEKVLKKESELIKLKELAEQLKELEEKLKKYNLEELE 521

Query: 935 KKKKDAEKMKKK---------GAEKIGKKKKKKKKKKKKKKKKKKKKKKEAEKMKKKTEE 985
           KK ++ EK+K+K           +K  +K ++ KKK  + +KK  + ++E  ++ K+ EE
Sbjct: 522 KKAEEYEKLKEKLIKLKGEIKSLKKELEKLEELKKKLAELEKKLDELEEELAELLKELEE 581

Length = 880

>gnl|CDD|219124 pfam06658, DUF1168, Protein of unknown function (DUF1168)

 Score = 44.7 bits (106), Expect = 3e-05
 Identities = 23/78 (29%), Positives = 47/78 (60%), Gaps = 3/78 (3%)

Query: 895 FRKKRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKK 954
           F++KR  +K+K   E+   KK+ K++ +K +KKK  +K KK  K  EK   K +E+   +
Sbjct: 68  FQQKREEKKRK--DEEKTAKKRAKRQKKK-QKKKKKKKAKKGNKKEEKEGSKSSEESSDE 124

Query: 955 KKKKKKKKKKKKKKKKKK 972
           +++ ++ K+++  +  +K
Sbjct: 125 EEEGEEDKQEEPVEIMEK 142

This family consists of several hypothetical eukaryotic proteins of unknown function. Length = 142

>gnl|CDD|219838 pfam08432, DUF1742, Fungal protein of unknown function (DUF1742)

 Score = 45.5 bits (108), Expect = 3e-05
 Identities = 22/95 (23%), Positives = 45/95 (47%), Gaps = 7/95 (7%)

Query: 896 RKKRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKK 955
           ++K   +KKK   +K + K KK  + +   +KK  ++ + K +D  K   +    + + K
Sbjct: 81  KQKWKWKKKKSKKKKDKDKDKKDDKKDDKSEKKDEKEAEDKLEDLTKSYSETLSTLSELK 140

Query: 956 KKKKKKKK-------KKKKKKKKKKKEAEKMKKKT 983
            +K    K        +K++ +  KKEAE+++   
Sbjct: 141 PRKYALHKDIYQSRLDRKRRAEVAKKEAEELQNPG 175

This is a family of fungal proteins of unknown function. Length = 182

>gnl|CDD|235640 PRK05901, PRK05901, RNA polymerase sigma factor; Provisional

 Score = 47.3 bits (113), Expect = 3e-05
 Identities = 18/96 (18%), Positives = 34/96 (35%)

Query: 893 ILFRKKRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIG 952
            L  KK+T  +  +    +    K   +A +    K   K   K   A+   KK  +   
Sbjct: 41  ALESKKKTPEQIDQVLIFLSGMVKDTDDATESDIPKKKTKTAAKAAAAKAPAKKKLKDEL 100

Query: 953 KKKKKKKKKKKKKKKKKKKKKKEAEKMKKKTEEAEK 988
              KK +KK    K       K+ + + +  ++ + 
Sbjct: 101 DSSKKAEKKNALDKDDDLNYVKDIDVLNQADDDDDD 136

Length = 509

>gnl|CDD|235640 PRK05901, PRK05901, RNA polymerase sigma factor; Provisional

 Score = 47.3 bits (113), Expect = 3e-05
 Identities = 15/92 (16%), Positives = 28/92 (30%)

Query: 897 KKRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKK 956
           K+  +   +   +   +  +       M K           K   K   K A      KK
Sbjct: 35  KEEIKEALESKKKTPEQIDQVLIFLSGMVKDTDDATESDIPKKKTKTAAKAAAAKAPAKK 94

Query: 957 KKKKKKKKKKKKKKKKKKEAEKMKKKTEEAEK 988
           K K +    KK +KK   + +      ++ + 
Sbjct: 95  KLKDELDSSKKAEKKNALDKDDDLNYVKDIDV 126

Length = 509

>gnl|CDD|218737 pfam05764, YL1, YL1 nuclear protein

 Score = 46.2 bits (110), Expect = 3e-05
 Identities = 24/102 (23%), Positives = 39/102 (38%), Gaps = 20/102 (19%)

Query: 904 KKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKKKKKKK 963
            +K  ++  + KKKK+   K  K+      KKKKKD    K   A     KKK ++    
Sbjct: 74  GEKELQREERLKKKKRVKTKAYKEP---TKKKKKKDPTAAKSPKAAAPRPKKKSERISWA 130

Query: 964 -----------------KKKKKKKKKKKEAEKMKKKTEEAEK 988
                            + K+   ++ KE E  +KK +   +
Sbjct: 131 PTLLDSPRRKSSRSSTVQNKEATHERLKEREIRRKKIQAKAR 172

The proteins in this family are designated YL1. These proteins have been shown to be DNA-binding and may be a transcription factor. Length = 238

>gnl|CDD|218899 pfam06102, DUF947, Domain of unknown function (DUF947)

 Score = 45.3 bits (108), Expect = 3e-05
 Identities = 27/86 (31%), Positives = 47/86 (54%), Gaps = 2/86 (2%)

Query: 905 KKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKKKKKKKK 964
           +K  E++ K  KK K++E+  + K   +  K +    K K +  E + + KK++K+  K+
Sbjct: 62  EKEIEELEKALKKTKDSEEKEELKRTLQSMKSRLKTLKNKDREREILKEHKKQEKELIKE 121

Query: 965 KKKKKKKKKKEAEKM--KKKTEEAEK 988
            KK    KK E +K+  KKK +E +K
Sbjct: 122 GKKPYYLKKSEIKKLVLKKKFDELKK 147

Family of eukaryotic proteins with unknown function. Length = 168

>gnl|CDD|219655 pfam07946, DUF1682, Protein of unknown function (DUF1682)

 Score = 46.9 bits (112), Expect = 3e-05
 Identities = 19/80 (23%), Positives = 41/80 (51%), Gaps = 16/80 (20%)

Query: 910 KIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKKKKKKKKKKKK- 968
           K+  +  +K   +K R++   E+   K  + E+      E+  +KK++KKK++++ K   
Sbjct: 252 KLSPEVLRK--VDKTREE--EEEKILKAAEEER-----QEEAQEKKEEKKKEEREAKLAK 302

Query: 969 ------KKKKKKEAEKMKKK 982
                 +K ++KE +K  +K
Sbjct: 303 LSPEEQRKLEEKERKKQARK 322

The members of this family are all hypothetical eukaryotic proteins of unknown function. One member is described as being an adipocyte-specific protein, but no evidence of this was found. Length = 322

>gnl|CDD|184900 PRK14907, rplD, 50S ribosomal protein L4; Provisional

 Score = 46.5 bits (110), Expect = 3e-05
 Identities = 27/93 (29%), Positives = 39/93 (41%), Gaps = 1/93 (1%)

Query: 897 KKRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKK 956
           KK T++K  +  +   KK    KE  K +K       K  KK A+  K K  +   KK  
Sbjct: 5   KKTTKKKTTEEKKPAAKKATTSKETAKTKKTAKTTSTKAAKKAAKVKKTKSVKTTTKKVT 64

Query: 957 KKKKKKKKKKKKKKKKKKEA-EKMKKKTEEAEK 988
            K +K +  KK+   KK    E +  +  EA  
Sbjct: 65  VKFEKTESVKKESVAKKTVKKEAVSAEVFEASN 97

Length = 295

>gnl|CDD|214661 smart00435, TOPEUc, DNA Topoisomerase I (eukaryota)

 Score = 47.0 bits (112), Expect = 3e-05
 Identities = 23/70 (32%), Positives = 36/70 (51%)

Query: 919 KEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKKKKKKKKKKKKKKKKKKEAEK 978
           K  EK++  K   K  KK     +M      K+  K ++  +K   + K+KKK+KK+ EK
Sbjct: 281 KLQEKIKALKYQLKRLKKMILLFEMISDLKRKLKSKFERDNEKLDAEVKEKKKEKKKEEK 340

Query: 979 MKKKTEEAEK 988
            KK+ E  E+
Sbjct: 341 KKKQIERLEE 350

DNA Topoisomerase I (eukaryota), DNA topoisomerase V, Vaccina virus topoisomerase, Variola virus topoisomerase, Shope fibroma virus topoisomeras. Length = 391

>gnl|CDD|220121 pfam09135, Alb1, Alb1

 Score = 43.6 bits (103), Expect = 3e-05
 Identities = 23/89 (25%), Positives = 37/89 (41%), Gaps = 4/89 (4%)

Query: 901 RRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKG---AEKIGKKKKK 957
            R K+   ++       K E     KK+  +K K+  +   K +KKG   AE +     K
Sbjct: 25  PRAKRTDRKRPGILAASKNEGVSK-KKQRKKKPKRLTRKQRKRQKKGLERAEIVTDTLSK 83

Query: 958 KKKKKKKKKKKKKKKKKEAEKMKKKTEEA 986
           K+ K   + K  KK+K   +    K E+ 
Sbjct: 84  KRAKSIGRAKYVKKRKATWDDTNAKIEDE 112

Alb1 is a nuclear shuttling factor involved in ribosome biogenesis. Length = 112

>gnl|CDD|172341 PRK13808, PRK13808, adenylate kinase; Provisional

 Score = 46.4 bits (110), Expect = 4e-05
 Identities = 30/89 (33%), Positives = 36/89 (40%), Gaps = 6/89 (6%)

Query: 905 KKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKKKKKKKK 964
              A+K  K    K  A+K   K  +   K  KK A K     A+K  K   K  KK KK
Sbjct: 196 AANAKKAAKTPAAKSGAKKASAKAKSAAKKVSKKKAAK-TAVSAKKAAKTAAKAAKKAKK 254

Query: 965 K-----KKKKKKKKKEAEKMKKKTEEAEK 988
                 KK  K  KK A+K  K   +A K
Sbjct: 255 TAKKALKKAAKAVKKAAKKAAKAAAKAAK 283

Length = 333

>gnl|CDD|237035 PRK12280, rplW, 50S ribosomal protein L23; Reviewed

 Score = 44.8 bits (106), Expect = 4e-05
 Identities = 19/50 (38%), Positives = 32/50 (64%), Gaps = 4/50 (8%)

Query: 939 DAEKMKKKGAEKIGKKKKKKKKKKKKKKKKKKKKKKEAEKMKKKTEEAEK 988
           ++EK +K+ +    K+ ++K+  K KK+KK+KK+KK AEK+ KK      
Sbjct: 94  ESEKEQKEVS----KETEEKEAIKAKKEKKEKKEKKVAEKLAKKKSTKTT 139

Length = 158

>gnl|CDD|220237 pfam09428, DUF2011, Fungal protein of unknown function (DUF2011)

 Score = 43.8 bits (104), Expect = 4e-05
 Identities = 15/57 (26%), Positives = 34/57 (59%), Gaps = 1/57 (1%)

Query: 927 KKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKKKKKKKKKKKKKKKKKKEAEKMKKKT 983
           KK   K++K+    ++ KKK   + GKK++   + ++++ K++ +K+K   K ++K 
Sbjct: 65  KKHNAKVEKELLREKEKKKKRK-RPGKKRRIALRLRRERTKERAEKEKRTRKNREKK 120

This is a family of fungal proteins whose function is unknown. Length = 130

>gnl|CDD|225606 COG3064, TolA, Membrane protein involved in colicin uptake [Cell envelope biogenesis, outer membrane]

 Score = 46.5 bits (110), Expect = 4e-05
 Identities = 26/93 (27%), Positives = 41/93 (44%), Gaps = 1/93 (1%)

Query: 896 RKKRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKK 955
           +KK+    K K A +   K K   EA+K  ++      + K K      KK AE   K  
Sbjct: 145 QKKKAEAAKAKAAAE-AAKLKAAAEAKKKAEEAAKAAEEAKAKAEAAAAKKKAEAEAKAA 203

Query: 956 KKKKKKKKKKKKKKKKKKKEAEKMKKKTEEAEK 988
            +K K + + K K +KK + A + K   E+ + 
Sbjct: 204 AEKAKAEAEAKAKAEKKAEAAAEEKAAAEKKKA 236

Length = 387

>gnl|CDD|240578 cd12951, RRP7_Rrp7A, RRP7 domain ribosomal RNA-processing protein 7 homolog A (Rrp7A) and similar proteins

 Score = 43.8 bits (104), Expect = 4e-05
 Identities = 22/84 (26%), Positives = 47/84 (55%), Gaps = 8/84 (9%)

Query: 913 KKKKKKKEAEKMRKKKGAE---KMKKKKKDAEKMKKKGAEKIGKKKKKKKKKKKKKK--- 966
           K+++++KE ++   +   +    + KK +  +  +K+       +K+KKKKKKK+ K   
Sbjct: 32  KEEEEEKEEKEKEAEPDEDGWVTVTKKGRRPKTARKESVAAKAAEKEKKKKKKKELKNFY 91

Query: 967 --KKKKKKKKEAEKMKKKTEEAEK 988
             + ++ K+ E  +++KK EE +K
Sbjct: 92  RFQIRESKRNELAELRKKFEEDKK 115

The family corresponds to the RRP7 domain of Rrp7A, also termed gastric cancer antigen Zg14, and similar proteins which are yeast ribosomal RNA-processing protein 7 (Rrp7p) homologs mainly found in Metazoans. The cellular function of Rrp7A remains unclear currently. Rrp7A harbors an N-terminal RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain), and a C-terminal RRP7 domain. Length = 129

>gnl|CDD|240402 PTZ00399, PTZ00399, cysteinyl-tRNA-synthetase; Provisional

 Score = 46.9 bits (112), Expect = 4e-05
 Identities = 33/126 (26%), Positives = 55/126 (43%), Gaps = 23/126 (18%)

Query: 880 DDVRREAVTALGFILFRK---------------KRTRRKKKKGAEKIRKKKKKKKEAEKM 924
           D +R E +  LG  +  K               +R + +K+   E+ R +K KK+E    
Sbjct: 521 DKLRDEWLPNLGIRIEDKPDGPSVWKLDDKEELQREKEEKEALKEQKRLRKLKKQEE--- 577

Query: 925 RKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKK-----KKKKKKKKKKKKKKKKKKEAEKM 979
           +KKK  EK++K K    +  K+  +K     +          ++  KK++KK  KE +K 
Sbjct: 578 KKKKELEKLEKAKIPPAEFFKRQEDKYSAFDETGLPTHDADGEEISKKERKKLSKEYDKQ 637

Query: 980 KKKTEE 985
            K  EE
Sbjct: 638 AKLHEE 643

Length = 651

>gnl|CDD|172341 PRK13808, PRK13808, adenylate kinase; Provisional

 Score = 46.4 bits (110), Expect = 5e-05
 Identities = 31/88 (35%), Positives = 37/88 (42%)

Query: 899 RTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKK 958
           +T    KK A+   K  KK K+  K   KK A+ +KK  K A K   K A+   K  K K
Sbjct: 233 KTAVSAKKAAKTAAKAAKKAKKTAKKALKKAAKAVKKAAKKAAKAAAKAAKGAAKATKGK 292

Query: 959 KKKKKKKKKKKKKKKKEAEKMKKKTEEA 986
            K KKK  KK     K     K     A
Sbjct: 293 AKAKKKAGKKAAAGSKAKATAKAPKRGA 320

Length = 333

>gnl|CDD|218188 pfam04641, Rtf2, Replication termination factor 2

 Score = 45.8 bits (109), Expect = 5e-05
 Identities = 18/71 (25%), Positives = 30/71 (42%)

Query: 918 KKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKKKKKKKKKKKKKKKKKKEAE 977
           ++E E ++ +   E+ KKKKK  +K  KK        +         +      +  EA+
Sbjct: 166 EEEVELLKARLEEERAKKKKKKKKKKTKKNNATGSSAEATVSSAVPTELSSGAGQVGEAK 225

Query: 978 KMKKKTEEAEK 988
           K+KKK   A  
Sbjct: 226 KLKKKRSIAPD 236

It is vital for effective cell-replication that replication is not stalled at any point by, for instance, damaged bases. Rtf2 stabilizes the replication fork stalled at the site-specific replication barrier RTS1 by preventing replication restart until completion of DNA synthesis by a converging replication fork initiated at a flanking origin. The RTS1 element terminates replication forks that are moving in the cen2-distal direction while allowing forks moving in the cen2-proximal direction to pass through the region. Rtf2 contains a C2HC2 motif related to the C3HC4 RING-finger motif, and would appear to fold up, creating a RING finger-like structure but forming only one functional Zn2+ ion-binding site. Length = 254

>gnl|CDD|224212 COG1293, COG1293, Predicted RNA-binding protein homologous to eukaryotic snRNP [Transcription]

 Score = 47.0 bits (112), Expect = 5e-05
 Identities = 22/74 (29%), Positives = 39/74 (52%), Gaps = 2/74 (2%)

Query: 897 KKRTRRKKKKGAEKI--RKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKK 954
           +   + KK KGA+    R+  + K+        K A +  + KK  E+++++  E+   K
Sbjct: 367 RYFKKYKKLKGAKVNLDRQLSELKEAIAYYESAKTALEKAEGKKAIEEIREELIEEGLLK 426

Query: 955 KKKKKKKKKKKKKK 968
            KKKK+KKK+  +K
Sbjct: 427 SKKKKRKKKEWFEK 440

Length = 564

>gnl|CDD|237753 PRK14552, PRK14552, C/D box methylation guide ribonucleoprotein complex aNOP56 subunit; Provisional

 Score = 46.1 bits (110), Expect = 6e-05
 Identities = 24/65 (36%), Positives = 40/65 (61%), Gaps = 11/65 (16%)

Query: 908 AEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKKKKKKKKKKK 967
            ++++++  K+ E     K+K  +  KKK++  EK  +K      +KKKKK+KKK KK+K
Sbjct: 361 GDELKEELNKRIE---EIKEKYPKPPKKKRE--EKKPQK------RKKKKKRKKKGKKRK 409

Query: 968 KKKKK 972
           KK +K
Sbjct: 410 KKGRK 414

Length = 414

>gnl|CDD|217051 pfam02463, SMC_N, RecF/RecN/SMC N terminal domain

 Score = 46.9 bits (111), Expect = 6e-05
 Identities = 27/93 (29%), Positives = 52/93 (55%), Gaps = 2/93 (2%)

Query: 896 RKKRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKK 955
             + ++++ +K  E + +  K+ KE EK +K +  E+  K     E+  K    K+ ++K
Sbjct: 253 EIESSKQELEKEEEILAQVLKENKEEEKEKKLQ--EEELKLLAKEEEELKSELLKLERRK 310

Query: 956 KKKKKKKKKKKKKKKKKKKEAEKMKKKTEEAEK 988
              ++K K+ +K+ KK +KE +K K++ EE EK
Sbjct: 311 VDDEEKLKESEKELKKLEKELKKEKEEIEELEK 343

This domain is found at the N terminus of SMC proteins. The SMC (structural maintenance of chromosomes) superfamily proteins have ATP-binding domains at the N- and C-termini, and two extended coiled-coil domains separated by a hinge in the middle. The eukaryotic SMC proteins form two kind of heterodimers: the SMC1/SMC3 and the SMC2/SMC4 types. These heterodimers constitute an essential part of higher order complexes, which are involved in chromatin and DNA dynamics. This family also includes the RecF and RecN proteins that are involved in DNA metabolism and recombination. Length = 1162

>gnl|CDD|214661 smart00435, TOPEUc, DNA Topoisomerase I (eukaryota)

 Score = 46.2 bits (110), Expect = 6e-05
 Identities = 23/85 (27%), Positives = 40/85 (47%), Gaps = 5/85 (5%)

Query: 909 EKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKKKKKKKKKKKK 968
           EK+++K K  K   K  KK             +   K   +      + K+KKK+KKK++
Sbjct: 280 EKLQEKIKALKYQLKRLKKMILLFEMISDLKRKLKSKFERDNEKLDAEVKEKKKEKKKEE 339

Query: 969 KKKKK-----KEAEKMKKKTEEAEK 988
           KKKK+     +  EK++ +  + E+
Sbjct: 340 KKKKQIERLEERIEKLEVQATDKEE 364

DNA Topoisomerase I (eukaryota), DNA topoisomerase V, Vaccina virus topoisomerase, Variola virus topoisomerase, Shope fibroma virus topoisomeras. Length = 391

>gnl|CDD|218177 pfam04615, Utp14, Utp14 protein

 Score = 46.6 bits (111), Expect = 6e-05
 Identities = 25/90 (27%), Positives = 35/90 (38%), Gaps = 8/90 (8%)

Query: 897 KKRTRRKKKKGAEKIRKK-KKKKKEAEKMR-------KKKGAEKMKKKKKDAEKMKKKGA 948
           +     K +K A K+ K+ +K +KE E+          K  +   K  KK   K K    
Sbjct: 460 EDEEEAKVEKVANKLLKRSEKAQKEEEEEELDEENPWLKTTSSVGKSAKKQDSKKKSSSK 519

Query: 949 EKIGKKKKKKKKKKKKKKKKKKKKKKEAEK 978
                 K  K   K KKKKKK+K     + 
Sbjct: 520 LDKAANKISKAAVKVKKKKKKEKSIDLDDD 549

This protein is found to be part of a large ribonucleoprotein complex containing the U3 snoRNA. Depletion of the Utp proteins impedes production of the 18S rRNA, indicating that they are part of the active pre-rRNA processing complex. This large RNP complex has been termed the small subunit (SSU) processome. Length = 728

>gnl|CDD|218336 pfam04935, SURF6, Surfeit locus protein 6

 Score = 44.6 bits (106), Expect = 7e-05
 Identities = 33/119 (27%), Positives = 52/119 (43%), Gaps = 27/119 (22%)

Query: 896 RKKRTRRKKKKGAEKIRKKKKKKKEA-EKMRKKKGAEKMKKKKKDAEK------------ 942
           R++R  RKK+K  E  +K+  +K EA E   ++  ++K     ++AE             
Sbjct: 15  REQRKARKKQKRKEAKKKEDAQKSEAEEVKNEENKSKKKAAPIENAEGNIVFSKVEFADG 74

Query: 943 -MKKKGAEKIGKKKKKKK---------KKKKKK----KKKKKKKKKEAEKMKKKTEEAE 987
              KK  +   KKKKKK          + +KKK     + K  + +E EK  K   +AE
Sbjct: 75  EQAKKDLKLKKKKKKKKTDYKQLLKKLEARKKKLEELDEDKAAEIEEKEKWTKALAKAE 133

The surfeit locus protein SURF-6 is shown to be a component of the nucleolar matrix and has a strong binding capacity for nucleic acids. Length = 206

>gnl|CDD|220237 pfam09428, DUF2011, Fungal protein of unknown function (DUF2011)

 Score = 43.0 bits (102), Expect = 7e-05
 Identities = 21/71 (29%), Positives = 42/71 (59%), Gaps = 5/71 (7%)

Query: 918 KKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKKKKKKKKKKKKKKKKKKEAE 977
           KK   K+ K+   EK KKKK+     K+ G ++    + ++++ K++ +K+K+ +K   +
Sbjct: 65  KKHNAKVEKELLREKEKKKKR-----KRPGKKRRIALRLRRERTKERAEKEKRTRKNREK 119

Query: 978 KMKKKTEEAEK 988
           K K++ +E EK
Sbjct: 120 KFKRRQKEKEK 130

This is a family of fungal proteins whose function is unknown. Length = 130

>gnl|CDD|219901 pfam08555, DUF1754, Eukaryotic family of unknown function (DUF1754)

 Score = 42.0 bits (99), Expect = 7e-05
 Identities = 20/35 (57%), Positives = 23/35 (65%)

Query: 954 KKKKKKKKKKKKKKKKKKKKKEAEKMKKKTEEAEK 988
           K K KK   KKKKKKKKKK K  E++  + EE EK
Sbjct: 11  KLKGKKIDVKKKKKKKKKKNKSKEEVVTEKEEEEK 45

This is a eukaryotic protein family of unknown function. Length = 90

>gnl|CDD|237855 PRK14900, valS, valyl-tRNA synthetase; Provisional

 Score = 46.5 bits (110), Expect = 7e-05
 Identities = 30/80 (37%), Positives = 39/80 (48%), Gaps = 4/80 (5%)

Query: 896  RKKRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKM--KKKGAEKIGK 953
            RK   R  KK  A +   KKK  K+A    KK  A+K   KK  A+K   KK  A+K+ +
Sbjct: 975  RKTVRRSVKKAAATRAAMKKKVAKKAPA--KKAAAKKAAAKKAAAKKKVAKKAPAKKVAR 1032

Query: 954  KKKKKKKKKKKKKKKKKKKK 973
            K   KK  KK  +K   +K 
Sbjct: 1033 KPAAKKAAKKPARKAAGRKA 1052

Length = 1052

>gnl|CDD|218797 pfam05890, Ebp2, Eukaryotic rRNA processing protein EBP2

 Score = 45.4 bits (108), Expect = 7e-05
 Identities = 44/156 (28%), Positives = 59/156 (37%), Gaps = 49/156 (31%)

Query: 875 VSDVNDDVRRE---------AVTALGFILFRKKR--TRRKKKKGAE---------KIRKK 914
           + DV DD +RE         AV      L +K     +R     AE         K+RKK
Sbjct: 65  IEDVEDDFKRELAFYKQALAAVLE-ARKLLKKLGVPFKRPDDYFAEMVKSDEHMQKVRKK 123

Query: 915 ----KKKKKEAEKMRKKKGAEKMKK-----KKKDAEKMKKKGAEKIGKKKKKKK------ 959
                  KK +E+ RK++  +K  K     K ++  K KK   EKI K KKK+K      
Sbjct: 124 LLAEAAAKKASEEARKQRELKKFGKQVQVEKLQERAKEKKDMLEKIKKLKKKRKGGGDEG 183

Query: 960 -------------KKKKKKKKKKKKKKKEAEKMKKK 982
                          KKK +K    + K   K K K
Sbjct: 184 DLFDFLVDDAAKGGSKKKGRKGGAARGKPNAKRKAK 219

This family consists of several Eukaryotic rRNA processing protein EBP2 sequences. Ebp2p is required for the maturation of 25S rRNA and 60S subunit assembly. Ebp2p may be one of the target proteins of Rrs1p for executing the signal to regulate ribosome biogenesis. This family also plays a role in chromosome segregation. Length = 270

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 46.7 bits (110), Expect = 8e-05
 Identities = 32/93 (34%), Positives = 54/93 (58%), Gaps = 6/93 (6%)

Query: 897  KKRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKK----KKDAEKMKKKGAEKIG 952
             K+    KKK AE+ +K ++ KK  E+  K K AE+ KK+    KK AE+ KK   EK  
Sbjct: 1701 AKKAEELKKKEAEEKKKAEELKKA-EEENKIK-AEEAKKEAEEDKKKAEEAKKDEEEKKK 1758

Query: 953  KKKKKKKKKKKKKKKKKKKKKKEAEKMKKKTEE 985
                KK+++KK ++ +K+K+    E++ ++ E+
Sbjct: 1759 IAHLKKEEEKKAEEIRKEKEAVIEEELDEEDEK 1791

Length = 2084

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 46.3 bits (109), Expect = 8e-05
 Identities = 34/112 (30%), Positives = 58/112 (51%), Gaps = 19/112 (16%)

Query: 896  RKKRTRRKK---------KKGAEKIRK--KKKKKKEAEKMRKKKGAEKMKK--------K 936
            +K    +KK          K A++ +K  + KK  EA+K  +KK A+++KK        +
Sbjct: 1503 KKAAEAKKKADEAKKAEEAKKADEAKKAEEAKKADEAKKAEEKKKADELKKAEELKKAEE 1562

Query: 937  KKDAEKMKKKGAEKIGKKKKKKKKKKKKKKKKKKKKKKEAEKMKKKTEEAEK 988
            KK AE+ KK   +K    +K ++ KK ++ + ++  K   E+ K K EEA+K
Sbjct: 1563 KKKAEEAKKAEEDKNMALRKAEEAKKAEEARIEEVMKLYEEEKKMKAEEAKK 1614

Length = 2084

>gnl|CDD|150884 pfam10278, Med19, Mediator of RNA pol II transcription subunit 19

 Score = 44.0 bits (104), Expect = 8e-05
 Identities = 23/63 (36%), Positives = 32/63 (50%), Gaps = 4/63 (6%)

Query: 926 KKKGAEKMKKKK----KDAEKMKKKGAEKIGKKKKKKKKKKKKKKKKKKKKKKEAEKMKK 981
           KKK   K KK +       E        K  +KK KKKK +  K++KKKKK+K+ +K + 
Sbjct: 110 KKKHKHKHKKHRTQDPLPEETPSDSEGLKGHEKKHKKKKHEDDKERKKKKKEKKKKKKRH 169

Query: 982 KTE 984
             E
Sbjct: 170 SPE 172

Med19 represents a family of conserved proteins which are members of the multi-protein co-activator Mediator complex. Mediator is required for activation of RNA polymerase II transcription by DNA binding transactivators. Length = 178

>gnl|CDD|237177 PRK12704, PRK12704, phosphodiesterase; Provisional

 Score = 45.9 bits (110), Expect = 8e-05
 Identities = 33/122 (27%), Positives = 62/122 (50%), Gaps = 20/122 (16%)

Query: 886 AVTALGFILFRKKRTRRKKKKGAEKIRKK--KKKKKEAEKMRKKK---GAEKMKKKKKDA 940
            V A+     RKK     K K AE+  K+  ++ KKEAE ++K+      E++ K + + 
Sbjct: 15  VVGAVIGYFVRKKIAE-AKIKEAEEEAKRILEEAKKEAEAIKKEALLEAKEEIHKLRNEF 73

Query: 941 EKMKKKGAEKIGKKKKKKKKKK---KKKKKKKKKKKKEAEK-----------MKKKTEEA 986
           EK  ++   ++ K +K+  +K+    +K +  +K+++E EK           ++KK EE 
Sbjct: 74  EKELRERRNELQKLEKRLLQKEENLDRKLELLEKREEELEKKEKELEQKQQELEKKEEEL 133

Query: 987 EK 988
           E+
Sbjct: 134 EE 135

Length = 520

>gnl|CDD|221641 pfam12569, NARP1, NMDA receptor-regulated protein 1

 Score = 46.1 bits (110), Expect = 8e-05
 Identities = 22/82 (26%), Positives = 39/82 (47%), Gaps = 9/82 (10%)

Query: 915 KKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKKKKKKKKKKKKKKKKKK 974
           ++++ E   +   +  +K++KK++ AEK  +K   +    KKK +   KK K    + KK
Sbjct: 397 EEEEGENGNLSPAE-RKKLRKKQRKAEKKAEKEEAEKAAAKKKAEAAAKKAKGPDGETKK 455

Query: 975 E-----AEKMKKKT---EEAEK 988
                  EK+ +     EEA K
Sbjct: 456 VDPDPLGEKLARTEDPLEEAMK 477

This domain family is found in eukaryotes, and is approximately 40 amino acids in length. The family is found in association with pfam07719, pfam00515. There is a single completely conserved residue L that may be functionally important. NARP1 is the mammalian homologue of a yeast N-terminal acetyltransferase that regulates entry into the G(0) phase of the cell cycle. Length = 516

>gnl|CDD|219901 pfam08555, DUF1754, Eukaryotic family of unknown function (DUF1754)

 Score = 41.6 bits (98), Expect = 9e-05
 Identities = 19/35 (54%), Positives = 21/35 (60%)

Query: 954 KKKKKKKKKKKKKKKKKKKKKEAEKMKKKTEEAEK 988
           K KK   KKKKKKKKKK K KE    +K+ EE   
Sbjct: 13  KGKKIDVKKKKKKKKKKNKSKEEVVTEKEEEEKSS 47

This is a eukaryotic protein family of unknown function. Length = 90

>gnl|CDD|220271 pfam09507, CDC27, DNA polymerase subunit Cdc27

 Score = 45.6 bits (108), Expect = 9e-05
 Identities = 16/77 (20%), Positives = 37/77 (48%)

Query: 912 RKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKKKKKKKKKKKKKKK 971
           +K K+KK++ E        E  ++  K    ++ + AE  G  + + + + K   ++   
Sbjct: 224 KKTKEKKEKKEASESTVKEESEEESGKRDVILEDESAEPTGLDEDEDEDEPKPSGERSDS 283

Query: 972 KKKEAEKMKKKTEEAEK 988
           +++  EK K+K +  +K
Sbjct: 284 EEETEEKEKEKRKRLKK 300

This protein forms the C subunit of DNA polymerase delta. It carries the essential residues for binding to the Pol1 subunit of polymerase alpha, from residues 293-332, which are characterized by the motif D--G--VT, referred to as the DPIM motif. The first 160 residues of the protein form the minimal domain for binding to the B subunit, Cdc1, of polymerase delta, the final 10 C-terminal residues, 362-372, being the DNA sliding clamp, PCNA, binding motif. Length = 427

>gnl|CDD|217834 pfam03998, Utp11, Utp11 protein

 Score = 44.7 bits (106), Expect = 9e-05
 Identities = 25/90 (27%), Positives = 46/90 (51%), Gaps = 2/90 (2%)

Query: 893 ILFRKKRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIG 952
            L  ++  R +  +  +     +K+KK++ K ++K    K  K++K+ EK  KK  +++ 
Sbjct: 148 ELLDRRENRPRISQLEKTSLVDEKQKKKSAKKKRKL--YKELKERKEREKKLKKVEQRLE 205

Query: 953 KKKKKKKKKKKKKKKKKKKKKKEAEKMKKK 982
            +++  KK K KKKK  K K  +     KK
Sbjct: 206 LQRELMKKGKGKKKKIVKDKDGKVVYKWKK 235

This protein is found to be part of a large ribonucleoprotein complex containing the U3 snoRNA. Depletion of the Utp proteins impedes production of the 18S rRNA, indicating that they are part of the active pre-rRNA processing complex. This large RNP complex has been termed the small subunit (SSU) processome. Length = 239

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 46.3 bits (109), Expect = 1e-04
 Identities = 32/90 (35%), Positives = 51/90 (56%), Gaps = 6/90 (6%)

Query: 905  KKGAEKIRKKKKKKKEAEKMRKKKGAEKMKK--KKKDAEKMKKKGAEKIGKKKKKKKKKK 962
            KK  EK + ++ KK E +K    + AE+ KK  + +  E MK    EK  K ++ KK ++
Sbjct: 1558 KKAEEKKKAEEAKKAEEDKNMALRKAEEAKKAEEARIEEVMKLYEEEKKMKAEEAKKAEE 1617

Query: 963  KKKK----KKKKKKKKEAEKMKKKTEEAEK 988
             K K    KK +++KK+ E++KKK  E +K
Sbjct: 1618 AKIKAEELKKAEEEKKKVEQLKKKEAEEKK 1647

Length = 2084

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 45.9 bits (108), Expect = 1e-04
 Identities = 37/99 (37%), Positives = 62/99 (62%), Gaps = 9/99 (9%)

Query: 896  RKKRTRRKKK----KGAEKIRKKK-KKKKEAEKMRKKKGAEKMK--KKKKDAEKMKKKGA 948
            +K     KK+    K AE+++KK+ ++KK+AE+++K +   K+K  + KK+AE+ KKK  
Sbjct: 1688 KKAAEALKKEAEEAKKAEELKKKEAEEKKKAEELKKAEEENKIKAEEAKKEAEEDKKKAE 1747

Query: 949  EKIGKKKKKKKKKKKKKKKKKKKKKKEAEKMKKKTEEAE 987
            E   KK +++KKK    KK+++KK +E  K K+   E E
Sbjct: 1748 E--AKKDEEEKKKIAHLKKEEEKKAEEIRKEKEAVIEEE 1784

Length = 2084

>gnl|CDD|219746 pfam08208, RNA_polI_A34, DNA-directed RNA polymerase I subunit RPA34

 Score = 43.9 bits (104), Expect = 1e-04
 Identities = 22/79 (27%), Positives = 36/79 (45%), Gaps = 24/79 (30%)

Query: 896 RKKRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKK 955
              +  ++ +   E+ ++KKKKK+  ++ ++KK                         KK
Sbjct: 139 TTAKVEKEAEVEEEEKKEKKKKKEVKKEKKEKK------------------------DKK 174

Query: 956 KKKKKKKKKKKKKKKKKKK 974
           +K  + K  KKKKKKKKKK
Sbjct: 175 EKMVEPKGSKKKKKKKKKK 193

5. This is a family of proteins conserved from yeasts to human. Subunit A34.5 of RNA polymerase I is a non-essential subunit which is thought to help Pol I overcome topological constraints imposed on ribosomal DNA during the process of transcription. Length = 193

>gnl|CDD|237035 PRK12280, rplW, 50S ribosomal protein L23; Reviewed

 Score = 43.2 bits (102), Expect = 1e-04
 Identities = 22/68 (32%), Positives = 35/68 (51%), Gaps = 2/68 (2%)

Query: 920 EAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKKKKKKKKKKKKKKKKKKEAEKM 979
           E  +  +K+ +++ ++K+    K KK+  EK  KK  +K  KKK  K  K   KK  +K 
Sbjct: 93  EESEKEQKEVSKETEEKEA--IKAKKEKKEKKEKKVAEKLAKKKSTKTTKNTTKKATKKT 150

Query: 980 KKKTEEAE 987
             K EE +
Sbjct: 151 TTKKEEGK 158

Length = 158

>gnl|CDD|225606 COG3064, TolA, Membrane protein involved in colicin uptake [Cell envelope biogenesis, outer membrane]

 Score = 44.9 bits (106), Expect = 1e-04
 Identities = 24/87 (27%), Positives = 44/87 (50%)

Query: 902 RKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKKKKK 961
            ++K+  E  ++ + ++K+ E+  +K  AE+ KK +    K   + A+     + KKK +
Sbjct: 115 EQQKQAEEAEKQAQLEQKQQEEQARKAAAEQKKKAEAAKAKAAAEAAKLKAAAEAKKKAE 174

Query: 962 KKKKKKKKKKKKKEAEKMKKKTEEAEK 988
           +  K  ++ K K EA   KKK E   K
Sbjct: 175 EAAKAAEEAKAKAEAAAAKKKAEAEAK 201

Length = 387

>gnl|CDD|219563 pfam07767, Nop53, Nop53 (60S ribosomal biogenesis)

 Score = 45.1 bits (107), Expect = 1e-04
 Identities = 21/103 (20%), Positives = 49/103 (47%), Gaps = 15/103 (14%)

Query: 901 RRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEK---------------MKK 945
             KK++  E++ +KK +K   E  R  + +E + ++  D  +                + 
Sbjct: 209 AEKKRQELERVEEKKLEKMAPEASRLDEMSEGLLEESDDDGEEESDDESAWEGFESEYEP 268

Query: 946 KGAEKIGKKKKKKKKKKKKKKKKKKKKKKEAEKMKKKTEEAEK 988
                  K+K K ++ K+K++K+ +++ KE +++KKK  +  +
Sbjct: 269 INKPVRPKRKTKAQRNKEKRRKELEREAKEEKQLKKKLAQLAR 311

This nucleolar family of proteins are involved in 60S ribosomal biogenesis. They are specifically involved in the processing beyond the 27S stage of 25S rRNA maturation. This family contains sequences that bear similarity to the glioma tumour suppressor candidate region gene 2 protein (p60). This protein has been found to interact with herpes simplex type 1 regulatory proteins. Length = 387

>gnl|CDD|220252 pfam09468, RNase_H2-Ydr279, Ydr279p protein family (RNase H2 complex component)

 Score = 44.6 bits (106), Expect = 1e-04
 Identities = 20/76 (26%), Positives = 32/76 (42%), Gaps = 3/76 (3%)

Query: 899 RTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKK 958
           +   K     E     K  K+  +K R+ +   +  + +    + K+K  E+I KKK K+
Sbjct: 209 KELLKSLLIPEFKPLDKYLKESKKKKRETEEDVEAAESRA---EKKRKSKEEIKKKKPKE 265

Query: 959 KKKKKKKKKKKKKKKK 974
            K  K  KK   K  K
Sbjct: 266 SKGVKALKKVVAKGMK 281

RNases H are enzymes that specifically hydrolyse RNA when annealed to a complementary DNA and are present in all living organisms. In yeast RNase H2 is composed of a complex of three proteins (Rnh2Ap, Ydr279p and Ylr154p), this family represents the homologues of Ydr279p. It is not known whether non yeast proteins in this family fulfil the same function. Length = 287

>gnl|CDD|218188 pfam04641, Rtf2, Replication termination factor 2

 Score = 44.3 bits (105), Expect = 1e-04
 Identities = 18/70 (25%), Positives = 30/70 (42%)

Query: 915 KKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKKKKKKKKKKKKKKKKKK 974
            K + E E+ +KKK  +K K KK +A     +         +      +  + KK KKK+
Sbjct: 172 LKARLEEERAKKKKKKKKKKTKKNNATGSSAEATVSSAVPTELSSGAGQVGEAKKLKKKR 231

Query: 975 EAEKMKKKTE 984
                 +K+E
Sbjct: 232 SIAPDNEKSE 241

It is vital for effective cell-replication that replication is not stalled at any point by, for instance, damaged bases. Rtf2 stabilizes the replication fork stalled at the site-specific replication barrier RTS1 by preventing replication restart until completion of DNA synthesis by a converging replication fork initiated at a flanking origin. The RTS1 element terminates replication forks that are moving in the cen2-distal direction while allowing forks moving in the cen2-proximal direction to pass through the region. Rtf2 contains a C2HC2 motif related to the C3HC4 RING-finger motif, and would appear to fold up, creating a RING finger-like structure but forming only one functional Zn2+ ion-binding site. Length = 254

>gnl|CDD|184900 PRK14907, rplD, 50S ribosomal protein L4; Provisional

 Score = 44.9 bits (106), Expect = 1e-04
 Identities = 24/88 (27%), Positives = 35/88 (39%), Gaps = 1/88 (1%)

Query: 897 KKRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKK 956
           +++    KK    K   K KK  +    +  K A K+KK K   +   KK   K  K + 
Sbjct: 14  EEKKPAAKKATTSKETAKTKKTAKTTSTKAAKKAAKVKKTKS-VKTTTKKVTVKFEKTES 72

Query: 957 KKKKKKKKKKKKKKKKKKEAEKMKKKTE 984
            KK+   KK  KK+    E  +   K  
Sbjct: 73  VKKESVAKKTVKKEAVSAEVFEASNKLF 100

Length = 295

>gnl|CDD|220271 pfam09507, CDC27, DNA polymerase subunit Cdc27

 Score = 45.6 bits (108), Expect = 1e-04
 Identities = 22/87 (25%), Positives = 29/87 (33%), Gaps = 1/87 (1%)

Query: 903 KKKKGAEKIRKKKKKKKEAEKMR-KKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKKKKK 961
             K  A   R   K  K       K K A+K +   K+    K +G   +     K+   
Sbjct: 153 ALKPTANGKRPSSKPPKSIMSPEVKVKSAKKTQDTSKETTTEKTEGKTSVKAASLKRNPP 212

Query: 962 KKKKKKKKKKKKKEAEKMKKKTEEAEK 988
           KK        KKK  EK +KK      
Sbjct: 213 KKSNIMSSFFKKKTKEKKEKKEASEST 239

This protein forms the C subunit of DNA polymerase delta. It carries the essential residues for binding to the Pol1 subunit of polymerase alpha, from residues 293-332, which are characterized by the motif D--G--VT, referred to as the DPIM motif. The first 160 residues of the protein form the minimal domain for binding to the B subunit, Cdc1, of polymerase delta, the final 10 C-terminal residues, 362-372, being the DNA sliding clamp, PCNA, binding motif. Length = 427

>gnl|CDD|235175 PRK03918, PRK03918, chromosome segregation protein; Provisional

 Score = 45.4 bits (108), Expect = 1e-04
 Identities = 27/109 (24%), Positives = 65/109 (59%), Gaps = 3/109 (2%)

Query: 880 DDVRREAVTALGFILFRKKRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKD 939
           +++ +E    L  +L        +  +  E++ K +K+ KE E+++++   E+++K+ + 
Sbjct: 192 EELIKEKEKELEEVLREINEISSELPELREELEKLEKEVKELEELKEE--IEELEKELES 249

Query: 940 AEKMKKKGAEKIGKKKKKKKKKKKKKKKKKKKKKKEAEKMKKKTEEAEK 988
            E  K+K  EKI ++ +++ ++ KK+ ++ ++K KE +++K+K EE  K
Sbjct: 250 LEGSKRKLEEKI-RELEERIEELKKEIEELEEKVKELKELKEKAEEYIK 297

Length = 880

>gnl|CDD|218797 pfam05890, Ebp2, Eukaryotic rRNA processing protein EBP2

 Score = 44.6 bits (106), Expect = 1e-04
 Identities = 21/86 (24%), Positives = 37/86 (43%), Gaps = 6/86 (6%)

Query: 895 FRKKRTRRK--KKKGAEKIRKKKKKKKEAE----KMRKKKGAEKMKKKKKDAEKMKKKGA 948
            RK+R  +K  K+   EK++++ K+KK+      K++KK+     +    D         
Sbjct: 137 ARKQRELKKFGKQVQVEKLQERAKEKKDMLEKIKKLKKKRKGGGDEGDLFDFLVDDAAKG 196

Query: 949 EKIGKKKKKKKKKKKKKKKKKKKKKK 974
               K +K    + K   K+K K  K
Sbjct: 197 GSKKKGRKGGAARGKPNAKRKAKDAK 222

This family consists of several Eukaryotic rRNA processing protein EBP2 sequences. Ebp2p is required for the maturation of 25S rRNA and 60S subunit assembly. Ebp2p may be one of the target proteins of Rrs1p for executing the signal to regulate ribosome biogenesis. This family also plays a role in chromosome segregation. Length = 270

>gnl|CDD|150884 pfam10278, Med19, Mediator of RNA pol II transcription subunit 19

 Score = 43.7 bits (103), Expect = 1e-04
 Identities = 22/64 (34%), Positives = 36/64 (56%)

Query: 911 IRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKKKKKKKKKKKKKK 970
           +  +  KKK   K +K +  + + ++     +  K   +K  KKK +  K++KKKKK+KK
Sbjct: 104 MHIQPPKKKHKHKHKKHRTQDPLPEETPSDSEGLKGHEKKHKKKKHEDDKERKKKKKEKK 163

Query: 971 KKKK 974
           KKKK
Sbjct: 164 KKKK 167

Med19 represents a family of conserved proteins which are members of the multi-protein co-activator Mediator complex. Mediator is required for activation of RNA polymerase II transcription by DNA binding transactivators. Length = 178

>gnl|CDD|235401 PRK05306, infB, translation initiation factor IF-2; Validated

 Score = 46.0 bits (110), Expect = 1e-04
 Identities = 24/96 (25%), Positives = 43/96 (44%), Gaps = 9/96 (9%)

Query: 896 RKKRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKK 955
            +    R  +  A + + KK  KK+     KKK  ++   +     K  K    + G+++
Sbjct: 99  AEDEAARPAEAAARRPKAKKAAKKKKGPKPKKKKPKRKAARGGKRGKGGKGRRRRRGRRR 158

Query: 956 KKKKKKKKKKKKKKKKK---------KKEAEKMKKK 982
           ++KKKKK+K  +K  ++          + AEKM  K
Sbjct: 159 RRKKKKKQKPTEKIPREVVIPETITVAELAEKMAVK 194

Length = 746

>gnl|CDD|216581 pfam01577, Peptidase_S30, Potyvirus P1 protease

 Score = 44.6 bits (106), Expect = 1e-04
 Identities = 26/98 (26%), Positives = 44/98 (44%), Gaps = 12/98 (12%)

Query: 888 TALGFILFRKKR-TRRKKKKGAEKIRKKKKK--KKEAEKMRKKKGAEKMKKKKKDAEKMK 944
             +   L RK+    +++KKG   +RK       K+ EK+++++  E+   +   A  + 
Sbjct: 5   AKVAERLLRKEMSKIKQEKKGRIILRKLSPAQVAKKREKLKREEREERQFLQGAYASIVS 64

Query: 945 K---------KGAEKIGKKKKKKKKKKKKKKKKKKKKK 973
           K            E +  +    K+  KK KKKKKKKK
Sbjct: 65  KITPIGTDKVSKTESVSFRTPYYKRTTKKMKKKKKKKK 102

The potyviridae family positive stand RNA viruses with genome encoding a polyprotein. members include zucchini yellow mosaic virus, and turnip mosaic viruses which cause considerable losses of crops worldwide. This family consists of a C terminus region from various plant potyvirus P1 proteins (found at the N terminus of the polyprotein). The C terminus of P1 is a serine-type protease responsible for autocatalytic cleavage between P1 and the helper component protease pfam00851. The entire P1 protein may be involved in virus-host interactions. Length = 245

>gnl|CDD|218684 pfam05672, MAP7, MAP7 (E-MAP-115) family

 Score = 43.5 bits (102), Expect = 1e-04
 Identities = 19/92 (20%), Positives = 63/92 (68%), Gaps = 2/92 (2%)

Query: 896 RKKRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKM--KKKKKDAEKMKKKGAEKIGK 953
           ++++ RR++++     R++ K++   E++R+++ A +   ++ ++  EK K+K  E+  +
Sbjct: 41  QEEQERREQEEQDRLEREELKRRAAEERLRREEEARRQEEERAREKEEKAKRKAEEEEKQ 100

Query: 954 KKKKKKKKKKKKKKKKKKKKKEAEKMKKKTEE 985
           +++++++ +K+K++ + + ++EAE+M+ + E+
Sbjct: 101 EQEEQERIQKQKEEAEARAREEAERMRLEREK 132

The organisation of microtubules varies with the cell type and is presumably controlled by tissue-specific microtubule-associated proteins (MAPs). The 115-kDa epithelial MAP (E-MAP-115/MAP7) has been identified as a microtubule-stabilising protein predominantly expressed in cell lines of epithelial origin. The binding of this microtubule associated protein is nucleotide independent. Length = 171

>gnl|CDD|218684 pfam05672, MAP7, MAP7 (E-MAP-115) family

 Score = 43.2 bits (101), Expect = 1e-04
 Identities = 23/93 (24%), Positives = 64/93 (68%)

Query: 896 RKKRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKK 955
           R++  RR++++ A +  +K K+K E E+ ++++  E+++K+K++AE   ++ AE++  ++
Sbjct: 71  REEEARRQEEERAREKEEKAKRKAEEEEKQEQEEQERIQKQKEEAEARAREEAERMRLER 130

Query: 956 KKKKKKKKKKKKKKKKKKKEAEKMKKKTEEAEK 988
           +K  ++ ++++ ++KK+ +E  K  +K+E + +
Sbjct: 131 EKHFQQIEQERLERKKRLEEIMKRTRKSEVSPQ 163

The organisation of microtubules varies with the cell type and is presumably controlled by tissue-specific microtubule-associated proteins (MAPs). The 115-kDa epithelial MAP (E-MAP-115/MAP7) has been identified as a microtubule-stabilising protein predominantly expressed in cell lines of epithelial origin. The binding of this microtubule associated protein is nucleotide independent. Length = 171

>gnl|CDD|219924 pfam08597, eIF3_subunit, Translation initiation factor eIF3 subunit

 Score = 44.6 bits (106), Expect = 1e-04
 Identities = 17/49 (34%), Positives = 25/49 (51%)

Query: 939 DAEKMKKKGAEKIGKKKKKKKKKKKKKKKKKKKKKKEAEKMKKKTEEAE 987
           D E+ ++K  EK     K K KK  K K ++K+K K  ++ K   E  E
Sbjct: 38  DEEEDEEKEEEKAKVAAKAKAKKALKAKIEEKEKAKREKEEKGLRELEE 86

This is a family of proteins which are subunits of the eukaryotic translation initiation factor 3 (eIF3). In yeast it is called Hcr1. The Saccharomyces cerevisiae protein eIF3j (HCR1) has been shown to be required for processing of 20S pre-rRNA and binds to 18S rRNA and eIF3 subunits Rpg1p and Prt1p. Length = 242

>gnl|CDD|185429 PTZ00074, PTZ00074, 60S ribosomal protein L34; Provisional

 Score = 42.8 bits (101), Expect = 1e-04
 Identities = 20/34 (58%), Positives = 24/34 (70%)

Query: 950 KIGKKKKKKKKKKKKKKKKKKKKKKEAEKMKKKT 983
           K   K+K K+KK+KKKKKKKKKKK   +  KKK 
Sbjct: 102 KQVLKEKAKQKKQKKKKKKKKKKKTSKKAAKKKK 135

Length = 135

>gnl|CDD|235322 PRK04950, PRK04950, ProP expression regulator; Provisional

 Score = 43.8 bits (104), Expect = 1e-04
 Identities = 15/52 (28%), Positives = 30/52 (57%), Gaps = 2/52 (3%)

Query: 931 EKMKKKKKDAEKMKKKGAEKIGKKKKKKKKKKKKKKKKKKKKKKEAEKMKKK 982
            K++ ++  AE+  KK      K+K  ++++K K K  +KK+K  A+K + +
Sbjct: 108 AKVQAQR--AEQQAKKREAAGEKEKAPRRERKPKPKAPRKKRKPRAQKPEPQ 157

Length = 213

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 45.1 bits (106), Expect = 2e-04
 Identities = 30/104 (28%), Positives = 55/104 (52%), Gaps = 11/104 (10%)

Query: 896  RKKRTRRKKKKGAEKIRKKKKKK-------KEAEKMRKKKGAEKMKKKKKDAEKMKKKGA 948
            + +  +    + AE+ +K ++ +        E EK  K + A+K ++ K  AE++KK   
Sbjct: 1571 KAEEDKNMALRKAEEAKKAEEARIEEVMKLYEEEKKMKAEEAKKAEEAKIKAEELKKAEE 1630

Query: 949  EKIGKKKKKKKKKKKKKKKKKKKKKKEAEKMK----KKTEEAEK 988
            EK   ++ KKK+ ++KKK ++ KK +E  K+K     K  E +K
Sbjct: 1631 EKKKVEQLKKKEAEEKKKAEELKKAEEENKIKAAEEAKKAEEDK 1674

Length = 2084

>gnl|CDD|237035 PRK12280, rplW, 50S ribosomal protein L23; Reviewed

 Score = 42.4 bits (100), Expect = 2e-04
 Identities = 19/58 (32%), Positives = 32/58 (55%), Gaps = 1/58 (1%)

Query: 931 EKMKKKKKDAEKMKKKGAEKIGKKKKKKKKKKKKKKKKKKKKKKEAEKMKKKTEEAEK 988
           E+ +K++K+  K  ++  E I  KK+KK+KK+KK  +K  KKK          +  +K
Sbjct: 93  EESEKEQKEVSKETEE-KEAIKAKKEKKEKKEKKVAEKLAKKKSTKTTKNTTKKATKK 149

Length = 158

>gnl|CDD|236545 PRK09510, tolA, cell envelope integrity inner membrane protein TolA; Provisional

 Score = 44.4 bits (105), Expect = 2e-04
 Identities = 31/93 (33%), Positives = 47/93 (50%), Gaps = 7/93 (7%)

Query: 903 KKKKGAEKIRKKKKKKKEAEKMRKKKGAE----KMKKKKKDAEKMKKKGAEKIGKKKKKK 958
           ++K+ AE+ R K+ +K+      +KK AE    +   K+K AE+   K A     K + +
Sbjct: 93  QQKQAAEQERLKQLEKERLAAQEQKKQAEEAAKQAALKQKQAEEAAAKAAAAAKAKAEAE 152

Query: 959 KKK---KKKKKKKKKKKKKEAEKMKKKTEEAEK 988
            K+     KK   + KKK EAE  KK   EA+K
Sbjct: 153 AKRAAAAAKKAAAEAKKKAEAEAAKKAAAEAKK 185

Length = 387

>gnl|CDD|235640 PRK05901, PRK05901, RNA polymerase sigma factor; Provisional

 Score = 45.0 bits (107), Expect = 2e-04
 Identities = 20/93 (21%), Positives = 34/93 (36%)

Query: 896 RKKRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKK 955
            +     + KK  +K+  K K K    K   K+  E  KK  +  +++    +  +    
Sbjct: 8   AELAAEEEAKKKLKKLAAKSKSKGFITKEEIKEALESKKKTPEQIDQVLIFLSGMVKDTD 67

Query: 956 KKKKKKKKKKKKKKKKKKKEAEKMKKKTEEAEK 988
              +    KKK K   K   A+   KK  + E 
Sbjct: 68  DATESDIPKKKTKTAAKAAAAKAPAKKKLKDEL 100

Length = 509

>gnl|CDD|225606 COG3064, TolA, Membrane protein involved in colicin uptake [Cell envelope biogenesis, outer membrane]

 Score = 44.6 bits (105), Expect = 2e-04
 Identities = 25/104 (24%), Positives = 52/104 (50%), Gaps = 11/104 (10%)

Query: 896 RKKRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMK-----KKGAEK 950
           ++K+    +K+   + ++++++ ++A   +KKK      K   +A K+K     KK AE+
Sbjct: 116 QQKQAEEAEKQAQLEQKQQEEQARKAAAEQKKKAEAAKAKAAAEAAKLKAAAEAKKKAEE 175

Query: 951 IGKKKKKKKKK------KKKKKKKKKKKKKEAEKMKKKTEEAEK 988
             K  ++ K K      KKK + + K   ++A+   +   +AEK
Sbjct: 176 AAKAAEEAKAKAEAAAAKKKAEAEAKAAAEKAKAEAEAKAKAEK 219

Length = 387

>gnl|CDD|219572 pfam07780, Spb1_C, Spb1 C-terminal domain

 Score = 43.4 bits (103), Expect = 2e-04
 Identities = 30/94 (31%), Positives = 40/94 (42%), Gaps = 14/94 (14%)

Query: 902 RKKKKGAEKIRKKKKK---------KKEAEKMR-----KKKGAEKMKKKKKDAEKMKKKG 947
           RKK +  +++ K KKK           E EK +      KK  +K KK+KK     KK  
Sbjct: 119 RKKMRALKRLEKAKKKAEAIAEDEDISEREKAKQIKKLYKKAKKKKKKRKKTYVVAKKGN 178

Query: 948 AEKIGKKKKKKKKKKKKKKKKKKKKKKEAEKMKK 981
             K G+ K  K K K    + KK  +    K KK
Sbjct: 179 KGKAGRPKGVKGKYKVVDPRMKKDLRALKRKAKK 212

This presumed domain is found at the C-terminus of a family of FtsJ-like methyltransferases. Members of this family are involved in 60S ribosomal biogenesis. Length = 212

>gnl|CDD|218899 pfam06102, DUF947, Domain of unknown function (DUF947)

 Score = 43.0 bits (102), Expect = 2e-04
 Identities = 30/109 (27%), Positives = 50/109 (45%), Gaps = 11/109 (10%)

Query: 880 DDVRREAVTALGFILFRKKRTRRKKKKGAEKIRKK--KKKKKEAEKMRKKKGAEKMKKKK 937
           DD R + +  L      K   + K  +  E++++     K +      K +  E +K+ K
Sbjct: 58  DDYREKEIEEL-----EKALKKTKDSEEKEELKRTLQSMKSRLKTLKNKDREREILKEHK 112

Query: 938 KDAEKMKKKGAEKIGKKKKKKKKKKKKKK----KKKKKKKKEAEKMKKK 982
           K  +++ K+G +    KK + KK   KKK    KK K+  K  EK +KK
Sbjct: 113 KQEKELIKEGKKPYYLKKSEIKKLVLKKKFDELKKSKQLDKALEKKRKK 161

Family of eukaryotic proteins with unknown function. Length = 168

>gnl|CDD|220383 pfam09756, DDRGK, DDRGK domain

 Score = 42.8 bits (101), Expect = 2e-04
 Identities = 19/75 (25%), Positives = 50/75 (66%), Gaps = 2/75 (2%)

Query: 914 KKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKKKKKKKKKKKKKKKKK 973
            KK+ K  EK  +++  E  +++++  E+ K +   +  +K++++ +++++KKK+++++K
Sbjct: 5   AKKRAKLEEKQARRQQREAEEEERE--ERKKLEEKREGERKEEEELEEEREKKKEEEERK 62

Query: 974 KEAEKMKKKTEEAEK 988
           +  E+ +K+ EE EK
Sbjct: 63  EREEQARKEQEEYEK 77

This is a family of proteins of approximately 300 residues, found in plants and vertebrates. They contain a highly conserved DDRGK motif. Length = 189

>gnl|CDD|217051 pfam02463, SMC_N, RecF/RecN/SMC N terminal domain

 Score = 45.3 bits (107), Expect = 2e-04
 Identities = 28/96 (29%), Positives = 59/96 (61%), Gaps = 2/96 (2%)

Query: 893 ILFRKKRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIG 952
           IL +  +  ++++K  +K+++++ K    E+   K    K++++K D E+ K K +EK  
Sbjct: 267 ILAQVLKENKEEEK-EKKLQEEELKLLAKEEEELKSELLKLERRKVDDEE-KLKESEKEL 324

Query: 953 KKKKKKKKKKKKKKKKKKKKKKEAEKMKKKTEEAEK 988
           KK +K+ KK+K++ ++ +K+ KE E  ++  EE E+
Sbjct: 325 KKLEKELKKEKEEIEELEKELKELEIKREAEEEEEE 360

This domain is found at the N terminus of SMC proteins. The SMC (structural maintenance of chromosomes) superfamily proteins have ATP-binding domains at the N- and C-termini, and two extended coiled-coil domains separated by a hinge in the middle. The eukaryotic SMC proteins form two kind of heterodimers: the SMC1/SMC3 and the SMC2/SMC4 types. These heterodimers constitute an essential part of higher order complexes, which are involved in chromatin and DNA dynamics. This family also includes the RecF and RecN proteins that are involved in DNA metabolism and recombination. Length = 1162

>gnl|CDD|219901 pfam08555, DUF1754, Eukaryotic family of unknown function (DUF1754)

 Score = 40.9 bits (96), Expect = 2e-04
 Identities = 19/36 (52%), Positives = 23/36 (63%)

Query: 953 KKKKKKKKKKKKKKKKKKKKKKEAEKMKKKTEEAEK 988
           K K KK   KKKKKKKKKK K + E + +K EE + 
Sbjct: 11  KLKGKKIDVKKKKKKKKKKNKSKEEVVTEKEEEEKS 46

This is a eukaryotic protein family of unknown function. Length = 90

>gnl|CDD|222636 pfam14265, DUF4355, Domain of unknown function (DUF4355)

 Score = 41.9 bits (99), Expect = 2e-04
 Identities = 17/67 (25%), Positives = 33/67 (49%), Gaps = 1/67 (1%)

Query: 922 EKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKK-KKKKKKKKKKKKKKKKKKEAEKMK 980
           E+ +     E  K   K+  K +KK  EK  + +K  K   ++K + + +K +KE E+++
Sbjct: 3   EEEKTFTDKEVDKAIAKEKAKWEKKQEEKKSEAEKLAKMSAEEKAEYELEKLEKELEELE 62

Query: 981 KKTEEAE 987
            +    E
Sbjct: 63  AELARRE 69

This family of proteins is found in bacteria and viruses. Proteins in this family are typically between 180 and 214 amino acids in length. Length = 125

>gnl|CDD|235175 PRK03918, PRK03918, chromosome segregation protein; Provisional

 Score = 44.7 bits (106), Expect = 2e-04
 Identities = 27/96 (28%), Positives = 54/96 (56%), Gaps = 4/96 (4%)

Query: 895 FRKKRTRRKKKKG--AEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIG 952
           +  +    +K+     E+I   +++ KE E+  K++  E++KKK K+ EK  ++  E+  
Sbjct: 305 YLDELREIEKRLSRLEEEINGIEERIKELEE--KEERLEELKKKLKELEKRLEELEERHE 362

Query: 953 KKKKKKKKKKKKKKKKKKKKKKEAEKMKKKTEEAEK 988
             ++ K KK++ ++ KK+      EK++K+ EE EK
Sbjct: 363 LYEEAKAKKEELERLKKRLTGLTPEKLEKELEELEK 398

Length = 880

>gnl|CDD|214661 smart00435, TOPEUc, DNA Topoisomerase I (eukaryota)

 Score = 44.6 bits (106), Expect = 2e-04
 Identities = 28/86 (32%), Positives = 47/86 (54%), Gaps = 8/86 (9%)

Query: 906 KGAEKIRKKKKKKKEAEKM-----RKKKGAEKMKKK-KKDAEKMKKKGAEKIGKKKKKKK 959
           K  EKI+  K + K  +KM            K+K K ++D EK+  +  EK  KK+KKK+
Sbjct: 281 KLQEKIKALKYQLKRLKKMILLFEMISDLKRKLKSKFERDNEKLDAEVKEK--KKEKKKE 338

Query: 960 KKKKKKKKKKKKKKKEAEKMKKKTEE 985
           +KKKK+ ++ +++ ++ E      EE
Sbjct: 339 EKKKKQIERLEERIEKLEVQATDKEE 364

DNA Topoisomerase I (eukaryota), DNA topoisomerase V, Vaccina virus topoisomerase, Variola virus topoisomerase, Shope fibroma virus topoisomeras. Length = 391

>gnl|CDD|235322 PRK04950, PRK04950, ProP expression regulator; Provisional

 Score = 43.0 bits (102), Expect = 2e-04
 Identities = 18/74 (24%), Positives = 42/74 (56%), Gaps = 8/74 (10%)

Query: 915 KKKKKEA-EKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKKKKKKKKKKKKKKKKK 973
           +K+ +EA  K++ ++ AE+  KK++ A + +K        ++++K K K  +KK+K + +
Sbjct: 100 RKQLEEAKAKVQAQR-AEQQAKKREAAGEKEKA------PRRERKPKPKAPRKKRKPRAQ 152

Query: 974 KEAEKMKKKTEEAE 987
           K   +    ++ +E
Sbjct: 153 KPEPQHTPVSDISE 166

Length = 213

>gnl|CDD|214395 CHL00204, ycf1, Ycf1; Provisional

 Score = 45.5 bits (108), Expect = 2e-04
 Identities = 25/88 (28%), Positives = 41/88 (46%), Gaps = 12/88 (13%)

Query: 897  KKRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKK 956
            KK  ++KK      I   +KK  E E  R ++  E   + + +++K KK   E +   ++
Sbjct: 1500 KKINQKKKGF----IPSNEKKSIEIEN-RNQEEKEPAGQGELESDKEKKGNLESVLSNQE 1554

Query: 957  K-------KKKKKKKKKKKKKKKKKEAE 977
            K       +   KK+K KK+ K   EAE
Sbjct: 1555 KNIEEDYAESDIKKRKNKKQYKSNTEAE 1582

Length = 1832

>gnl|CDD|217502 pfam03343, SART-1, SART-1 family

 Score = 45.1 bits (107), Expect = 2e-04
 Identities = 23/88 (26%), Positives = 38/88 (43%), Gaps = 7/88 (7%)

Query: 903 KKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAE-----KIGKKKKK 957
           KK      +        EAEK R++   +K  K    +               + +  K 
Sbjct: 218 KKSDNLFTLDSGGSTDDEAEKKRQEV--KKKLKINNVSLDDDSTETPASDYYDVSEMVKF 275

Query: 958 KKKKKKKKKKKKKKKKKEAEKMKKKTEE 985
           KK KKKKKKKKK++K  + ++++ + E 
Sbjct: 276 KKPKKKKKKKKKRRKDLDEDELEPEAEG 303

SART-1 is a protein involved in cell cycle arrest and pre-mRNA splicing. It has been shown to be a component of U4/U6 x U5 tri-snRNP complex in human, Schizosaccharomyces pombe and Saccharomyces cerevisiae. SART-1 is a known tumour antigen in a range of cancers recognised by T cells. Length = 603

>gnl|CDD|221028 pfam11208, DUF2992, Protein of unknown function (DUF2992)

 Score = 42.2 bits (100), Expect = 2e-04
 Identities = 26/90 (28%), Positives = 46/90 (51%), Gaps = 8/90 (8%)

Query: 892 FILFR----KKRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKG----AEKMKKKKKDAEKM 943
           FIL      K     K     +K    K+ +++A K  KK G    A++  K + +  K 
Sbjct: 41  FILKHLSTLKFTEAVKVSIKKQKKINPKRLQRQAAKEVKKPGISTKAQQALKLEHERNKQ 100

Query: 944 KKKGAEKIGKKKKKKKKKKKKKKKKKKKKK 973
           +KK   K  K+++K++K++ K++KKK K +
Sbjct: 101 EKKKRSKEKKEEEKERKRQLKQQKKKAKHR 130

This bacterial family of proteins has no known function. However, the cis-regulatory yjdF motif, just upstream from the gene encoding the proteins for this family, is a small non-coding RNA, Rfam:RF01764. The yjdF motif is found in many Firmicutes, including Bacillus subtilis. In most cases, it resides in potential 5' UTRs of homologues of the yjdF gene whose function is unknown. However, in Streptococcus thermophilus, a yjdF RNA motif is associated with an operon whose protein products synthesise nicotinamide adenine dinucleotide (NAD+). Also, the S. thermophilus yjdF RNA lacks typical yjdF motif consensus features downstream of and including the P4 stem. Thus, if yjdF RNAs are riboswitch aptamers, the S. thermophilus RNAs might sense a distinct compound that structurally resembles the ligand bound by other yjdF RNAs. On the ohter hand, perhaps these RNAs have an alternative solution forming a similar binding site, as is observed with some SAM riboswitches. Length = 132

>gnl|CDD|206034 pfam13863, DUF4200, Domain of unknown function (DUF4200)

 Score = 41.8 bits (99), Expect = 2e-04
 Identities = 22/98 (22%), Positives = 55/98 (56%), Gaps = 9/98 (9%)

Query: 897 KKRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEK---------MKKKG 947
           K+R   + +   +  R++ ++++E  K R+++  +K ++ ++   K          K++ 
Sbjct: 5   KRREMEEVQLALDAKREEFERREELLKQREEELEKKEEELQESLIKFDKFLKENEAKRRR 64

Query: 948 AEKIGKKKKKKKKKKKKKKKKKKKKKKEAEKMKKKTEE 985
           AEK  +++KK +K+K+++ K+ K + +E +   +K EE
Sbjct: 65  AEKKAEEEKKLRKEKEEEIKELKAELEELKAEIEKLEE 102

This family is found in eukaryotes. It is a coiled-coil domain of unknwon function. Length = 126

>gnl|CDD|220600 pfam10147, CR6_interact, Growth arrest and DNA-damage-inducible proteins-interacting protein 1

 Score = 43.6 bits (103), Expect = 2e-04
 Identities = 21/110 (19%), Positives = 47/110 (42%), Gaps = 35/110 (31%)

Query: 909 EKIRKKKKKKKEAEKMRKKKGAEKMKK--------KKKDAEKMKKKGAEKIGK------- 953
           E+ R+++K+K+   + R+ + A+ M K        + +  ++ +K  A K  K       
Sbjct: 106 EENREQQKEKEARRQAREAEIAKNMAKMPQMIADWRAQKRKREQKARAAKERKERLVAEA 165

Query: 954 --------------------KKKKKKKKKKKKKKKKKKKKKEAEKMKKKT 983
                               +K+K++KKK K+ K+++K++K    +    
Sbjct: 166 REHFGYWVDPRDPRFQEMLQQKEKEEKKKVKEAKRREKEEKRMAALVAAA 215

Members of this family of proteins act as negative regulators of G1 to S cell cycle phase progression by inhibiting cyclin-dependent kinases. Inhibitory effects are additive with GADD45 proteins but occur also in the absence of GADD45 proteins. Furthermore, they act as a repressor of the orphan nuclear receptor NR4A1 by inhibiting AB domain-mediated transcriptional activity. Length = 217

>gnl|CDD|187751 cd09270, RNase_H2-B, Ribonuclease H2-B is a subunit of the eukaryotic RNase H complex which cleaves RNA-DNA hybrids

 Score = 43.4 bits (103), Expect = 2e-04
 Identities = 23/59 (38%), Positives = 34/59 (57%), Gaps = 2/59 (3%)

Query: 924 MRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKKKKKKKKKKKKKKKKKKEAEKMKKK 982
           + KK   E++KKK+ D ++ +    +K     +++KKKKKKK  KKKK KK A    K 
Sbjct: 149 LLKK--VERLKKKELDIKEAEAARDKKKSNNAEEEKKKKKKKSAKKKKLKKVAAVGMKA 205

Ribonuclease H2B is one of the three proteins of eukaryotic RNase H2 complex that is required for nucleic acid binding and hydrolysis. RNase H is classified into two families, type I (prokaryotic RNase HI, eukaryotic RNase H1 and viral RNase H) and type II (prokaryotic RNase HII and HIII, and eukaryotic RNase H2/HII). RNase H endonucleolytically hydrolyzes an RNA strand when it is annealed to a complementary DNA strand in the presence of divalent cations, in DNA replication and repair. The enzyme can be found in bacteria, archaea, and eukaryotes. Most prokaryotic and eukaryotic genomes contain multiple RNase H genes. Despite a lack of evidence for homology from sequence comparisons, type I and type II RNase H share a common fold and similar steric configurations of the four acidic active-site residues, suggesting identical or very similar catalytic mechanisms. Eukaryotic RNase HII is active during replication and is believed to play a role in removal of Okazaki fragment primers and single ribonucleotides in DNA-DNA duplexes. Eukaryotic RNase HII is functional when it forms a complex with RNase H2B and RNase H2C proteins. It is speculated that the two accessory subunits are required for correct folding of the catalytic subunit of RNase HII. Mutations in the three subunits of human RNase HII cause neurological disorder. Length = 211

>gnl|CDD|236877 PRK11192, PRK11192, ATP-dependent RNA helicase SrmB; Provisional

 Score = 44.2 bits (105), Expect = 3e-04
 Identities = 15/44 (34%), Positives = 25/44 (56%)

Query: 945 KKGAEKIGKKKKKKKKKKKKKKKKKKKKKKEAEKMKKKTEEAEK 988
           K  +EK   K  KK   K+ +KK+K+K+K + +K  + T+   K
Sbjct: 381 KAPSEKKTGKPSKKVLAKRAEKKEKEKEKPKVKKRHRDTKNIGK 424

Length = 434

>gnl|CDD|236545 PRK09510, tolA, cell envelope integrity inner membrane protein TolA; Provisional

 Score = 44.0 bits (104), Expect = 3e-04
 Identities = 32/99 (32%), Positives = 54/99 (54%), Gaps = 12/99 (12%)

Query: 902 RKKKKGAEKIRKKKKKKKEAEKMRKK-KGAEKMKK--KKKDAEKMKKKGAEKIGKKKKKK 958
           +K  K AE+ RKKK++++  E  +K+    E++K+  K++ A + +KK AE+  K+   K
Sbjct: 71  QKSAKRAEEQRKKKEQQQAEELQQKQAAEQERLKQLEKERLAAQEQKKQAEEAAKQAALK 130

Query: 959 KKKKKKKKKKKK---KKKKEAEKM------KKKTEEAEK 988
           +K+ ++   K     K K EAE        KK   EA+K
Sbjct: 131 QKQAEEAAAKAAAAAKAKAEAEAKRAAAAAKKAAAEAKK 169

Length = 387

>gnl|CDD|218188 pfam04641, Rtf2, Replication termination factor 2

 Score = 43.5 bits (103), Expect = 3e-04
 Identities = 18/72 (25%), Positives = 29/72 (40%), Gaps = 2/72 (2%)

Query: 898 KRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKK 957
            + R ++++  +K +KKKKK K+         AE         E     G     KK KK
Sbjct: 172 LKARLEEERAKKKKKKKKKKTKKNNA--TGSSAEATVSSAVPTELSSGAGQVGEAKKLKK 229

Query: 958 KKKKKKKKKKKK 969
           K+      +K +
Sbjct: 230 KRSIAPDNEKSE 241

It is vital for effective cell-replication that replication is not stalled at any point by, for instance, damaged bases. Rtf2 stabilizes the replication fork stalled at the site-specific replication barrier RTS1 by preventing replication restart until completion of DNA synthesis by a converging replication fork initiated at a flanking origin. The RTS1 element terminates replication forks that are moving in the cen2-distal direction while allowing forks moving in the cen2-proximal direction to pass through the region. Rtf2 contains a C2HC2 motif related to the C3HC4 RING-finger motif, and would appear to fold up, creating a RING finger-like structure but forming only one functional Zn2+ ion-binding site. Length = 254

>gnl|CDD|221275 pfam11861, DUF3381, Domain of unknown function (DUF3381)

 Score = 41.9 bits (99), Expect = 3e-04
 Identities = 17/70 (24%), Positives = 42/70 (60%), Gaps = 1/70 (1%)

Query: 911 IRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKKKKKKKKKKKKKK 970
           ++ +KK +K     +K+K  E+ ++ + +    +++  E + K+  K K++K+++ ++K+
Sbjct: 84  LKWRKKVRKLLGLDKKEKEEEEEEEVEVEELDEEEQIDELLEKELAKLKREKRRENERKQ 143

Query: 971 KKK-KEAEKM 979
           K+  KE  KM
Sbjct: 144 KEILKEQMKM 153

This domain is functionally uncharacterized. This domain is found in eukaryotes. This presumed domain is typically between 156 to 174 amino acids in length. This domain is found associated with pfam07780, pfam01728. Length = 154

>gnl|CDD|219901 pfam08555, DUF1754, Eukaryotic family of unknown function (DUF1754)

 Score = 40.1 bits (94), Expect = 3e-04
 Identities = 14/44 (31%), Positives = 24/44 (54%)

Query: 945 KKGAEKIGKKKKKKKKKKKKKKKKKKKKKKEAEKMKKKTEEAEK 988
           K     + KKKKKKKKK K K++   +K++E +   +   +  +
Sbjct: 13  KGKKIDVKKKKKKKKKKNKSKEEVVTEKEEEEKSSAESDLKEGE 56

This is a eukaryotic protein family of unknown function. Length = 90

>gnl|CDD|235175 PRK03918, PRK03918, chromosome segregation protein; Provisional

 Score = 44.3 bits (105), Expect = 3e-04
 Identities = 19/101 (18%), Positives = 57/101 (56%), Gaps = 9/101 (8%)

Query: 896 RKKRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGA--------EKMKKKKKDAEKMKKKG 947
           + +    + ++  ++I + ++K KE +++++K           E+   + ++ EK   + 
Sbjct: 260 KIRELEERIEELKKEIEELEEKVKELKELKEKAEEYIKLSEFYEEYLDELREIEKRLSRL 319

Query: 948 AEKIGKKKKKKKKKKKKKKKKKKKKKKEAEKMKKKTEEAEK 988
            E+I   +++ K+ ++K+++ ++ KKK  ++++K+ EE E+
Sbjct: 320 EEEINGIEERIKELEEKEERLEELKKKL-KELEKRLEELEE 359

Length = 880

>gnl|CDD|221641 pfam12569, NARP1, NMDA receptor-regulated protein 1

 Score = 44.2 bits (105), Expect = 3e-04
 Identities = 24/87 (27%), Positives = 38/87 (43%), Gaps = 4/87 (4%)

Query: 902 RKKKKGAEKIRKK---KKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKK 958
            K   GA +I  K   K    E E+   + G     ++KK  +K +K   +K  K++ +K
Sbjct: 374 FKAALGAIEIYLKLHDKPLLAEGEEEEGENGNLSPAERKKLRKKQRKA-EKKAEKEEAEK 432

Query: 959 KKKKKKKKKKKKKKKKEAEKMKKKTEE 985
              KKK +   KK K    + KK   +
Sbjct: 433 AAAKKKAEAAAKKAKGPDGETKKVDPD 459

This domain family is found in eukaryotes, and is approximately 40 amino acids in length. The family is found in association with pfam07719, pfam00515. There is a single completely conserved residue L that may be functionally important. NARP1 is the mammalian homologue of a yeast N-terminal acetyltransferase that regulates entry into the G(0) phase of the cell cycle. Length = 516

>gnl|CDD|214395 CHL00204, ycf1, Ycf1; Provisional

 Score = 44.3 bits (105), Expect = 3e-04
 Identities = 18/88 (20%), Positives = 36/88 (40%), Gaps = 4/88 (4%)

Query: 896  RKKRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKG-AEKMKKKKKDAEKMKKKGAEKIGKK 954
            +KK      +K + +I  + +++KE     + +   EK    +      +K   E   + 
Sbjct: 1505 KKKGFIPSNEKKSIEIENRNQEEKEPAGQGELESDKEKKGNLESVLSNQEKNIEEDYAES 1564

Query: 955  KKKKKKKKKKKKKKKKKKKKEAEKMKKK 982
              KK+K    KK+ K   + E +   K+
Sbjct: 1565 DIKKRKN---KKQYKSNTEAELDFFLKR 1589

Length = 1832

>gnl|CDD|221028 pfam11208, DUF2992, Protein of unknown function (DUF2992)

 Score = 41.5 bits (98), Expect = 3e-04
 Identities = 24/80 (30%), Positives = 47/80 (58%), Gaps = 3/80 (3%)

Query: 905 KKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKD--AEKMKKKGAEKIGKKKKKKKKKK 962
           K         KK+KK   K  +++ A+++KK      A++  K   E+  K++KKK+ K+
Sbjct: 50  KFTEAVKVSIKKQKKINPKRLQRQAAKEVKKPGISTKAQQALKLEHERN-KQEKKKRSKE 108

Query: 963 KKKKKKKKKKKKEAEKMKKK 982
           KK+++K++K++ + +K K K
Sbjct: 109 KKEEEKERKRQLKQQKKKAK 128

This bacterial family of proteins has no known function. However, the cis-regulatory yjdF motif, just upstream from the gene encoding the proteins for this family, is a small non-coding RNA, Rfam:RF01764. The yjdF motif is found in many Firmicutes, including Bacillus subtilis. In most cases, it resides in potential 5' UTRs of homologues of the yjdF gene whose function is unknown. However, in Streptococcus thermophilus, a yjdF RNA motif is associated with an operon whose protein products synthesise nicotinamide adenine dinucleotide (NAD+). Also, the S. thermophilus yjdF RNA lacks typical yjdF motif consensus features downstream of and including the P4 stem. Thus, if yjdF RNAs are riboswitch aptamers, the S. thermophilus RNAs might sense a distinct compound that structurally resembles the ligand bound by other yjdF RNAs. On the ohter hand, perhaps these RNAs have an alternative solution forming a similar binding site, as is observed with some SAM riboswitches. Length = 132

>gnl|CDD|203848 pfam08079, Ribosomal_L30_N, Ribosomal L30 N-terminal domain

 Score = 39.9 bits (94), Expect = 3e-04
 Identities = 21/54 (38%), Positives = 30/54 (55%), Gaps = 7/54 (12%)

Query: 935 KKKKDAEKMKKKGAEKIGKKKKKKKKKKKKKKKKKKKKKKEAEKMKKKTEEAEK 988
           KK+K  EK++ K       + KK+  KK  +KKK+K   K AEK  K+   AE+
Sbjct: 4   KKRKRNEKLRAK-------RAKKRAAKKAARKKKRKLIFKRAEKYVKEYRAAER 50

This presumed domain is found at the N-terminus of Ribosomal L30 proteins and has been termed RL30NT or NUC018. Length = 71

>gnl|CDD|222665 pfam14303, NAM-associated, No apical meristem-associated C-terminal domain

 Score = 42.0 bits (99), Expect = 3e-04
 Identities = 27/91 (29%), Positives = 41/91 (45%), Gaps = 17/91 (18%)

Query: 915 KKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEK--------------IGKKKKKKKK 960
           K + K   K  + K A K KKK+ ++        E                G+KK K+K 
Sbjct: 13  KNEPKWKSKRSELKKASKKKKKRSNSSPGSTSNEENEDEDDESTAESKRPEGRKKAKEKL 72

Query: 961 KKKKKKKKKK---KKKKEAEKMKKKTEEAEK 988
           ++ K K KK+   K+K++ E+  K   EAEK
Sbjct: 73  RRDKLKAKKEEAEKEKEKEERFMKALAEAEK 103

This domain is found in a number of different types of plant proteins including NAM-like proteins. Length = 147

>gnl|CDD|240388 PTZ00372, PTZ00372, endonuclease 4-like protein; Provisional

 Score = 43.6 bits (103), Expect = 4e-04
 Identities = 23/90 (25%), Positives = 38/90 (42%), Gaps = 6/90 (6%)

Query: 900 TRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKI-GKKKKKK 958
            + K +  +          KE           + + K       K K  +K    KKK +
Sbjct: 17  QKSKLQPISYIYSNVLVLSKEILSTF-----SEEENKVATTSTKKDKKEDKNNESKKKSE 71

Query: 959 KKKKKKKKKKKKKKKKEAEKMKKKTEEAEK 988
           KKKKKKK+KK+ K + E +   K  ++++K
Sbjct: 72  KKKKKKKEKKEPKSEGETKLGFKTPKKSKK 101

Length = 413

>gnl|CDD|237753 PRK14552, PRK14552, C/D box methylation guide ribonucleoprotein complex aNOP56 subunit; Provisional

 Score = 43.8 bits (104), Expect = 4e-04
 Identities = 18/48 (37%), Positives = 30/48 (62%), Gaps = 1/48 (2%)

Query: 941 EKMKKKGAEKIGKKKKKKKKKKKKKKKKKKKKKKEAEKMKKKTEEAEK 988
           E++ K+  E I +K  K  KKK+++KK +K+KKK+  K K K  + + 
Sbjct: 366 EELNKRIEE-IKEKYPKPPKKKREEKKPQKRKKKKKRKKKGKKRKKKG 412

Length = 414

>gnl|CDD|237855 PRK14900, valS, valyl-tRNA synthetase; Provisional

 Score = 43.8 bits (103), Expect = 4e-04
 Identities = 33/111 (29%), Positives = 46/111 (41%), Gaps = 4/111 (3%)

Query: 874  AVSDVNDDVRREAVTALGFILFRKKRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKM 933
            A     + V   A  A+  +    ++       G EK+ +  +K     +  KK  A + 
Sbjct: 933  AQPAQENTVVESAEKAVAAVSEAAQQAATAVASGIEKVAEAVRKT--VRRSVKKAAATRA 990

Query: 934  KKKKKDAEK--MKKKGAEKIGKKKKKKKKKKKKKKKKKKKKKKEAEKMKKK 982
              KKK A+K   KK  A+K   KK   KKK  KK   KK  +K A K   K
Sbjct: 991  AMKKKVAKKAPAKKAAAKKAAAKKAAAKKKVAKKAPAKKVARKPAAKKAAK 1041

Length = 1052

>gnl|CDD|222665 pfam14303, NAM-associated, No apical meristem-associated C-terminal domain

 Score = 41.2 bits (97), Expect = 4e-04
 Identities = 21/68 (30%), Positives = 38/68 (55%), Gaps = 2/68 (2%)

Query: 917 KKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKKKKKKKKKKKKKKKKKKEA 976
           +KK  EK+R+ K   K  K++ + EK K++   K   + +K++ + +KKK + K  K+E 
Sbjct: 65  RKKAKEKLRRDKLKAK--KEEAEKEKEKEERFMKALAEAEKERAELEKKKAEAKLMKEEK 122

Query: 977 EKMKKKTE 984
           + M   T 
Sbjct: 123 KIMFADTS 130

This domain is found in a number of different types of plant proteins including NAM-like proteins. Length = 147

>gnl|CDD|216739 pfam01851, PC_rep, Proteasome/cyclosome repeat

 Score = 38.6 bits (91), Expect = 4e-04
 Identities = 11/34 (32%), Positives = 21/34 (61%)

Query: 355 AAGIAMGLVLLGSKSESAIQDMVAYAKETQHEKI 388
            A +A+GL+  GS +E A++ ++ Y  +T +E  
Sbjct: 1   GAILALGLIHAGSGNEEALELLLPYLSDTSNEVR 34

Length = 35

>gnl|CDD|216739 pfam01851, PC_rep, Proteasome/cyclosome repeat

 Score = 38.6 bits (91), Expect = 4e-04
 Identities = 11/34 (32%), Positives = 21/34 (61%)

Query: 749 AAGIAMGLVLLGSKSESAIQDMVAYAKETQHEKI 782
            A +A+GL+  GS +E A++ ++ Y  +T +E  
Sbjct: 1   GAILALGLIHAGSGNEEALELLLPYLSDTSNEVR 34

Length = 35

>gnl|CDD|178945 PRK00247, PRK00247, putative inner membrane protein translocase component YidC; Validated

 Score = 43.7 bits (103), Expect = 4e-04
 Identities = 18/93 (19%), Positives = 34/93 (36%), Gaps = 18/93 (19%)

Query: 897 KKRTRRKKK---------------KGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAE 941
              T R+ +               + AE I+K +  +K   K RKK      K++  + E
Sbjct: 304 FLWTLRRNRLRMIITPWRAPELHAENAE-IKKTRTAEKNEAKARKK--EIAQKRRAAERE 360

Query: 942 KMKKKGAEKIGKKKKKKKKKKKKKKKKKKKKKK 974
             ++   E+     + + ++   K KKK     
Sbjct: 361 INREARQERAAAMARARARRAAVKAKKKGLIDA 393

Length = 429

>gnl|CDD|235370 PRK05244, PRK05244, Der GTPase activator; Provisional

 Score = 41.8 bits (99), Expect = 4e-04
 Identities = 33/108 (30%), Positives = 46/108 (42%), Gaps = 20/108 (18%)

Query: 901 RRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKK-----------DAEKMKKKGAE 949
           ++KK          K KKK  E++  +    K KKK K           + +   K  A+
Sbjct: 1   KKKKSSPKRSKGMAKSKKKTREELDAEARERKRKKKHKGLKSGSRHNEGNTQSKGKGQAQ 60

Query: 950 K----IGKKKK-----KKKKKKKKKKKKKKKKKKEAEKMKKKTEEAEK 988
           K    IG KK      ++K K KKKK K KK K   E+  +K E  E+
Sbjct: 61  KKDPRIGSKKPIPLGVEEKVKPKKKKPKSKKPKLSPEQELEKLENDER 108

Length = 177

>gnl|CDD|221952 pfam13166, AAA_13, AAA domain

 Score = 43.8 bits (104), Expect = 4e-04
 Identities = 24/78 (30%), Positives = 38/78 (48%), Gaps = 9/78 (11%)

Query: 909 EKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKKKKKK------ 962
            +I + KK+ K+ E+  ++  AE  +KK+++ EK K K  +K  KK  KK          
Sbjct: 95  AQIEELKKELKKLEEKIEQLEAEI-EKKEEELEKAKNKFLDKAWKKLAKKYDSNLSEALK 153

Query: 963 --KKKKKKKKKKKKEAEK 978
               KK  K+K  KE + 
Sbjct: 154 GLNYKKNFKEKLLKELKS 171

This family of domains contain a P-loop motif that is characteristic of the AAA superfamily. Many of the proteins in this family are conjugative transfer proteins. This family includes the PrrC protein that is thought to be the active component of the anticodon nuclease. Length = 713

>gnl|CDD|215521 PLN02967, PLN02967, kinase

 Score = 43.9 bits (103), Expect = 4e-04
 Identities = 21/89 (23%), Positives = 45/89 (50%), Gaps = 1/89 (1%)

Query: 897 KKRTRRKKKKGAEKIRKKK-KKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKK 955
           KK+  R  K+  +K   +  +  +E  ++   + A   K+ KK   + ++K A      +
Sbjct: 70  KKKPTRSVKRATKKTVVEISEPLEEGSELVVNEDAALDKESKKTPRRTRRKAAAASSDVE 129

Query: 956 KKKKKKKKKKKKKKKKKKKEAEKMKKKTE 984
           ++K +KK +K++K KK  ++ E    ++E
Sbjct: 130 EEKTEKKVRKRRKVKKMDEDVEDQGSESE 158

Length = 581

>gnl|CDD|218337 pfam04939, RRS1, Ribosome biogenesis regulatory protein (RRS1)

 Score = 41.9 bits (99), Expect = 4e-04
 Identities = 23/79 (29%), Positives = 36/79 (45%), Gaps = 11/79 (13%)

Query: 904 KKKGAEKIRKKKKKKK---EAEKMRKKKGAEKMKKKKKDAE-----KMKKKGAEKIGKKK 955
           KKKG   I+K+KK K    EA      +   K   K  + +     K      E    KK
Sbjct: 88  KKKG---IKKRKKSKLVYDEATGEWVPRWGYKRANKDLEKDWIIEVKPNDDPKEDPFAKK 144

Query: 956 KKKKKKKKKKKKKKKKKKK 974
           +++KK++  K +K++ K K
Sbjct: 145 RREKKERVAKNEKRELKNK 163

This family consists of several eukaryotic ribosome biogenesis regulatory (RRS1) proteins. RRS1 is a nuclear protein that is essential for the maturation of 25 S rRNA and the 60 S ribosomal subunit assembly in Saccharomyces cerevisiae. Length = 164

>gnl|CDD|206039 pfam13868, Trichoplein, Tumour suppressor, Mitostatin

 Score = 43.4 bits (103), Expect = 4e-04
 Identities = 17/93 (18%), Positives = 54/93 (58%), Gaps = 14/93 (15%)

Query: 896 RKKRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKK 955
            K+  ++K ++  ++  +++ ++KE EK R+++   K+               E   +K 
Sbjct: 118 EKREKQKKLREEIDEFNEERIERKEEEKEREREEELKI--------------LEYQREKA 163

Query: 956 KKKKKKKKKKKKKKKKKKKEAEKMKKKTEEAEK 988
           +++++++ +++++K++K++E  +++ + EEAE 
Sbjct: 164 EREEEREAERRERKEEKEREVARLRAQQEEAED 196

Trichoplein or mitostatin, was first defined as a meiosis-specific nuclear structural protein. It has since been linked with mitochondrial movement. It is associated with the mitochondrial outer membrane, and over-expression leads to reduction in mitochondrial motility whereas lack of it enhances mitochondrial movement. The activity appears to be mediated through binding the mitochondria to the actin intermediate filaments (IFs). Length = 349

>gnl|CDD|183854 PRK13042, PRK13042, superantigen-like protein; Reviewed

 Score = 43.1 bits (101), Expect = 4e-04
 Identities = 33/110 (30%), Positives = 45/110 (40%), Gaps = 6/110 (5%)

Query: 117 SATQAFLASVLQELKTCAPI--PDATHVVVKVPVEGAPTPATPDTEAPTPAPGTESGPSS 174
           + TQA  A+     K  AP   P +T V        A TP +   EAP   P   +  S+
Sbjct: 23  TTTQAANATTPSSTKVEAPQSTPPSTKVEAPQSKPNATTPPSTKVEAPQQTPNATTPSST 82

Query: 175 TTPGPETKTLES----LNEKEKQLQARITKLSKILSGEVSIDLHLQFLIR 220
               P++ T +     +N K K L+A  TK S     E+ I L     IR
Sbjct: 83  KVETPQSPTTKQVPTEINPKFKDLRAYYTKPSLEFKNEIGIILKKWTTIR 132

Length = 291

>gnl|CDD|172341 PRK13808, PRK13808, adenylate kinase; Provisional

 Score = 43.3 bits (102), Expect = 5e-04
 Identities = 25/79 (31%), Positives = 32/79 (40%), Gaps = 1/79 (1%)

Query: 911 IRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKKKKKKKKKKKKKK 970
           +     KK       K    +   K K  A+K+ KK A K     KK  K   K  KK K
Sbjct: 194 VGAANAKKAAKTPAAKSGAKKASAKAKSAAKKVSKKKAAKTAVSAKKAAKTAAKAAKKAK 253

Query: 971 KK-KKEAEKMKKKTEEAEK 988
           K  KK  +K  K  ++A K
Sbjct: 254 KTAKKALKKAAKAVKKAAK 272

Length = 333

>gnl|CDD|218336 pfam04935, SURF6, Surfeit locus protein 6

 Score = 42.3 bits (100), Expect = 5e-04
 Identities = 31/94 (32%), Positives = 48/94 (51%), Gaps = 14/94 (14%)

Query: 903 KKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKKKKKK 962
           + KK  +  +KKKKKK +      K+  +K++ +KK  E++ +  A +I +K+K  K   
Sbjct: 76  QAKKDLKLKKKKKKKKTDY-----KQLLKKLEARKKKLEELDEDKAAEIEEKEKWTKALA 130

Query: 963 K---KKKK------KKKKKKKEAEKMKKKTEEAE 987
           K    K K      KK  K+KE +K K K E  E
Sbjct: 131 KAEGVKVKDDEKLLKKALKRKEKQKKKSKKEWKE 164

The surfeit locus protein SURF-6 is shown to be a component of the nucleolar matrix and has a strong binding capacity for nucleic acids. Length = 206

>gnl|CDD|225606 COG3064, TolA, Membrane protein involved in colicin uptake [Cell envelope biogenesis, outer membrane]

 Score = 43.0 bits (101), Expect = 5e-04
 Identities = 27/98 (27%), Positives = 54/98 (55%), Gaps = 5/98 (5%)

Query: 896 RKKRTRRKKKKGAEKIRKKKKKKKEAEKMRK-KKGAEKMKKKKKDAEKMKKKGAEKIGKK 954
           +K   +RKKK+       K K+  E E++++ +K   K ++++K AE+ +K+   +  ++
Sbjct: 75  KKGEQQRKKKEEQVAEELKPKQAAEQERLKQLEKERLKAQEQQKQAEEAEKQAQLEQKQQ 134

Query: 955 KKKKKK----KKKKKKKKKKKKKKEAEKMKKKTEEAEK 988
           +++ +K    +KKK +  K K   EA K+K   E  +K
Sbjct: 135 EEQARKAAAEQKKKAEAAKAKAAAEAAKLKAAAEAKKK 172

Length = 387

>gnl|CDD|220252 pfam09468, RNase_H2-Ydr279, Ydr279p protein family (RNase H2 complex component)

 Score = 42.7 bits (101), Expect = 5e-04
 Identities = 24/99 (24%), Positives = 42/99 (42%), Gaps = 16/99 (16%)

Query: 875 VSDVNDDVRREAVTALGFILFRKKRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMK 934
            S +  D+ +E + +L    F+      K+     K +K++ ++             + +
Sbjct: 200 CSYLPPDLYKELLKSLLIPEFKPLDKYLKE----SKKKKRETEEDVEAAE------SRAE 249

Query: 935 KKKKDAEKMKKKGAEKIGKKKKKKKKKKKKKKKKKKKKK 973
           KK+K  E++KKK      K K+ K  K  KK   K  KK
Sbjct: 250 KKRKSKEEIKKK------KPKESKGVKALKKVVAKGMKK 282

RNases H are enzymes that specifically hydrolyse RNA when annealed to a complementary DNA and are present in all living organisms. In yeast RNase H2 is composed of a complex of three proteins (Rnh2Ap, Ydr279p and Ylr154p), this family represents the homologues of Ydr279p. It is not known whether non yeast proteins in this family fulfil the same function. Length = 287

>gnl|CDD|218188 pfam04641, Rtf2, Replication termination factor 2

 Score = 42.7 bits (101), Expect = 5e-04
 Identities = 20/69 (28%), Positives = 31/69 (44%)

Query: 903 KKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKKKKKK 962
           K +   E+ +KKKKKKK+  K     G+                GA ++G+ KK KKK+ 
Sbjct: 173 KARLEEERAKKKKKKKKKKTKKNNATGSSAEATVSSAVPTELSSGAGQVGEAKKLKKKRS 232

Query: 963 KKKKKKKKK 971
                +K +
Sbjct: 233 IAPDNEKSE 241

It is vital for effective cell-replication that replication is not stalled at any point by, for instance, damaged bases. Rtf2 stabilizes the replication fork stalled at the site-specific replication barrier RTS1 by preventing replication restart until completion of DNA synthesis by a converging replication fork initiated at a flanking origin. The RTS1 element terminates replication forks that are moving in the cen2-distal direction while allowing forks moving in the cen2-proximal direction to pass through the region. Rtf2 contains a C2HC2 motif related to the C3HC4 RING-finger motif, and would appear to fold up, creating a RING finger-like structure but forming only one functional Zn2+ ion-binding site. Length = 254

>gnl|CDD|217051 pfam02463, SMC_N, RecF/RecN/SMC N terminal domain

 Score = 43.8 bits (103), Expect = 5e-04
 Identities = 21/96 (21%), Positives = 53/96 (55%), Gaps = 5/96 (5%)

Query: 897 KKRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKK-----KKKDAEKMKKKGAEKI 951
            K+   K+++   ++ K+ K++++ +K+++++     K+      +    + +K   E+ 
Sbjct: 257 SKQELEKEEEILAQVLKENKEEEKEKKLQEEELKLLAKEEEELKSELLKLERRKVDDEEK 316

Query: 952 GKKKKKKKKKKKKKKKKKKKKKKEAEKMKKKTEEAE 987
            K+ +K+ KK +K+ KK+K++ +E EK  K+ E   
Sbjct: 317 LKESEKELKKLEKELKKEKEEIEELEKELKELEIKR 352

This domain is found at the N terminus of SMC proteins. The SMC (structural maintenance of chromosomes) superfamily proteins have ATP-binding domains at the N- and C-termini, and two extended coiled-coil domains separated by a hinge in the middle. The eukaryotic SMC proteins form two kind of heterodimers: the SMC1/SMC3 and the SMC2/SMC4 types. These heterodimers constitute an essential part of higher order complexes, which are involved in chromatin and DNA dynamics. This family also includes the RecF and RecN proteins that are involved in DNA metabolism and recombination. Length = 1162

>gnl|CDD|220818 pfam10595, UPF0564, Uncharacterized protein family UPF0564

 Score = 43.2 bits (102), Expect = 5e-04
 Identities = 22/103 (21%), Positives = 47/103 (45%), Gaps = 16/103 (15%)

Query: 896 RKKRTRRKKKKGAEKI----RKKKKKKKEAEKMRKKKG------------AEKMKKKKKD 939
           R+K+ R KK     K+     K +KK++EAE  +K K              E M++ ++ 
Sbjct: 14  REKKKREKKSIRQSKLEEELNKLEKKEEEAECKKKFKANPVPASVKLPLYEEIMEQNEER 73

Query: 940 AEKMKKKGAEKIGKKKKKKKKKKKKKKKKKKKKKKEAEKMKKK 982
            E++++K    +   +K     +++++KK    +K      ++
Sbjct: 74  REEVREKSKAILLSSQKPFSFYEREEQKKAILPRKLRSSTSER 116

This family of proteins has no known function. However, one of the members is annotated as an EF-hand family protein. Length = 349

>gnl|CDD|222636 pfam14265, DUF4355, Domain of unknown function (DUF4355)

 Score = 40.7 bits (96), Expect = 5e-04
 Identities = 18/78 (23%), Positives = 41/78 (52%), Gaps = 2/78 (2%)

Query: 897 KKRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKK 956
           K  T ++  K   K + K +KK+E +K   +K   KM  ++K   +++K   +++ + + 
Sbjct: 6   KTFTDKEVDKAIAKEKAKWEKKQEEKKSEAEK-LAKMSAEEKAEYELEKL-EKELEELEA 63

Query: 957 KKKKKKKKKKKKKKKKKK 974
           +  +++ K + KK   +K
Sbjct: 64  ELARRELKAEAKKMLSEK 81

This family of proteins is found in bacteria and viruses. Proteins in this family are typically between 180 and 214 amino acids in length. Length = 125

>gnl|CDD|235322 PRK04950, PRK04950, ProP expression regulator; Provisional

 Score = 42.2 bits (100), Expect = 5e-04
 Identities = 12/53 (22%), Positives = 26/53 (49%)

Query: 936 KKKDAEKMKKKGAEKIGKKKKKKKKKKKKKKKKKKKKKKEAEKMKKKTEEAEK 988
           K K   +  ++ A+K     +K+K  ++++K K K  +K+ +   +K E    
Sbjct: 107 KAKVQAQRAEQQAKKREAAGEKEKAPRRERKPKPKAPRKKRKPRAQKPEPQHT 159

Length = 213

>gnl|CDD|223880 COG0810, TonB, Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]

 Score = 42.5 bits (100), Expect = 5e-04
 Identities = 18/89 (20%), Positives = 32/89 (35%), Gaps = 2/89 (2%)

Query: 900 TRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKKK 959
            + + +   E+ +   + +   E    K   ++  K +K  +K K K   K   K K K 
Sbjct: 56  PQPEPEPPEEQPKPPTEPETPPEPTPPKP--KEKPKPEKKPKKPKPKPKPKPKPKPKVKP 113

Query: 960 KKKKKKKKKKKKKKKEAEKMKKKTEEAEK 988
           + K KK   K   K  A   +     +  
Sbjct: 114 QPKPKKPPSKTAAKAPAAPNQPARPPSAA 142

Length = 244

>gnl|CDD|234750 PRK00409, PRK00409, recombination and DNA strand exchange inhibitor protein; Reviewed

 Score = 43.7 bits (104), Expect = 5e-04
 Identities = 28/95 (29%), Positives = 50/95 (52%), Gaps = 19/95 (20%)

Query: 903 KKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKK-------- 954
              K AEK++++ ++KKE  +  + K  E+ +K+ + A K  KK A++I K+        
Sbjct: 541 ALLKEAEKLKEELEEKKEKLQEEEDKLLEEAEKEAQQAIKEAKKEADEIIKELRQLQKGG 600

Query: 955 -----------KKKKKKKKKKKKKKKKKKKKEAEK 978
                       +K+  K  +KK+KKKKK+KE ++
Sbjct: 601 YASVKAHELIEARKRLNKANEKKEKKKKKQKEKQE 635

Length = 782

>gnl|CDD|216985 pfam02349, MSG, Major surface glycoprotein

 Score = 39.3 bits (92), Expect = 5e-04
 Identities = 19/77 (24%), Positives = 37/77 (48%)

Query: 912 RKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKKKKKKKKKKKKKKK 971
           +  K ++K  E     +  E+     K+  +  K+   K+ K  K ++   K+ K + KK
Sbjct: 1   KDFKLEEKCKELEEYCEFLEEACPLLKEKCEKLKEKCYKLKKDLKLEELLLKELKGELKK 60

Query: 972 KKKEAEKMKKKTEEAEK 988
           KKK  + +K+K  + +K
Sbjct: 61  KKKCKKALKEKCTKLKK 77

This is a novel repeat in Pneumocystis carinii Major surface glycoprotein (MSG) some members of the alignment have up to nine repeats of this family, the repeats containing several conserved cysteines. The MSG of P. carinii is an important protein in host-pathogen interactions. Surface glycoprotein A from Pneumocystis carinii is a main target for the host immune system, this protein is implicated in the attachment of Pneumocystis carinii to the host alveolar epithelial cells, alveolar macrophages, host surfactant and possibly accounts in part for the hypoxia seen in Pneumocystis carinii pneumonia (PCP). Length = 81

>gnl|CDD|218737 pfam05764, YL1, YL1 nuclear protein

 Score = 42.0 bits (99), Expect = 6e-04
 Identities = 17/66 (25%), Positives = 28/66 (42%)

Query: 920 EAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKKKKKKKKKKKKKKKKKKEAEKM 979
           E E  ++ +  E++KKKK+   K  K+  +K  KK     K  K    + KKK +     
Sbjct: 71  EEEGEKELQREERLKKKKRVKTKAYKEPTKKKKKKDPTAAKSPKAAAPRPKKKSERISWA 130

Query: 980 KKKTEE 985
               + 
Sbjct: 131 PTLLDS 136

The proteins in this family are designated YL1. These proteins have been shown to be DNA-binding and may be a transcription factor. Length = 238

>gnl|CDD|235175 PRK03918, PRK03918, chromosome segregation protein; Provisional

 Score = 43.5 bits (103), Expect = 6e-04
 Identities = 32/128 (25%), Positives = 62/128 (48%), Gaps = 20/128 (15%)

Query: 875 VSDVNDDVRREAVTALGFILFRKKRTRRKK---KKGAEKIRKKKKKKKEAEKMRKKKGA- 930
           + ++ +   R     L  +  + K   ++    ++  E   + K KK+E E+++K+    
Sbjct: 330 IKELEEKEER-----LEELKKKLKELEKRLEELEERHELYEEAKAKKEELERLKKRLTGL 384

Query: 931 --EKMKKKKKDAEKMKKKGAEKIGKKKKKKKKKKKKKKKKKKKKKKEAEKMKKK------ 982
             EK++K+ ++ EK K++  E+I  K   +  + KK+ K+ KK  +E +K K K      
Sbjct: 385 TPEKLEKELEELEKAKEEIEEEI-SKITARIGELKKEIKELKKAIEELKKAKGKCPVCGR 443

Query: 983 --TEEAEK 988
             TEE  K
Sbjct: 444 ELTEEHRK 451

Length = 880

>gnl|CDD|235175 PRK03918, PRK03918, chromosome segregation protein; Provisional

 Score = 43.5 bits (103), Expect = 6e-04
 Identities = 24/99 (24%), Positives = 60/99 (60%), Gaps = 6/99 (6%)

Query: 896 RKKRTRRKKKKGAEKIRKKKKK-KKEAEKMRKK-KGAEKMKKKKKDAEKMKKKGA----E 949
            + +   +K++  E+++KK K+ +K  E++ ++ +  E+ K KK++ E++KK+      E
Sbjct: 328 ERIKELEEKEERLEELKKKLKELEKRLEELEERHELYEEAKAKKEELERLKKRLTGLTPE 387

Query: 950 KIGKKKKKKKKKKKKKKKKKKKKKKEAEKMKKKTEEAEK 988
           K+ K+ ++ +K K++ +++  K      ++KK+ +E +K
Sbjct: 388 KLEKELEELEKAKEEIEEEISKITARIGELKKEIKELKK 426

Length = 880

>gnl|CDD|150884 pfam10278, Med19, Mediator of RNA pol II transcription subunit 19

 Score = 41.4 bits (97), Expect = 6e-04
 Identities = 25/75 (33%), Positives = 37/75 (49%), Gaps = 7/75 (9%)

Query: 895 FRKKRTRRKKKKGAEKIRKKK-KKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGK 953
           +R    +  KKK   K +K + +     E     +G +  +KK K      KK  E   +
Sbjct: 101 YRLMHIQPPKKKHKHKHKKHRTQDPLPEETPSDSEGLKGHEKKHK------KKKHEDDKE 154

Query: 954 KKKKKKKKKKKKKKK 968
           +KKKKK+KKKKKK+ 
Sbjct: 155 RKKKKKEKKKKKKRH 169

Med19 represents a family of conserved proteins which are members of the multi-protein co-activator Mediator complex. Mediator is required for activation of RNA polymerase II transcription by DNA binding transactivators. Length = 178

>gnl|CDD|185429 PTZ00074, PTZ00074, 60S ribosomal protein L34; Provisional

 Score = 40.8 bits (96), Expect = 6e-04
 Identities = 22/40 (55%), Positives = 25/40 (62%), Gaps = 6/40 (15%)

Query: 934 KKKKKDAEKMKKKGAEKIGKKKKKKKKKKKKKKKKKKKKK 973
           K+  K+  K KK+      KKKKKKKKKKK  KK  KKKK
Sbjct: 102 KQVLKEKAKQKKQ------KKKKKKKKKKKTSKKAAKKKK 135

Length = 135

>gnl|CDD|240576 cd12932, RRP7_like, RRP7 domain ribosomal RNA-processing protein 7 (Rrp7p), ribosomal RNA-processing protein 7 homolog A (Rrp7A), and similar proteins

 Score = 40.3 bits (95), Expect = 6e-04
 Identities = 24/88 (27%), Positives = 41/88 (46%), Gaps = 24/88 (27%)

Query: 916 KKKKEAEKMRKKKGAEKMKKKKKDAE-------KMKKKGAEKIGKKKKKKKKKKKKKKKK 968
           K+++E ++  K+   E       D +         +K    +    + K K+K+KKKKKK
Sbjct: 32  KREEEEKEEAKEARNEP------DEDGFVTVTRGGRKGKTAREEAVEAKAKEKEKKKKKK 85

Query: 969 KK-----------KKKKEAEKMKKKTEE 985
           K+           KKK+E  +++KK EE
Sbjct: 86  KELEDFYRFQIREKKKEELAELRKKFEE 113

This CD corresponds to the RRP7 domain of Rrp7p and Rrp7A. Rrp7p is encoded by YCL031C gene from Saccharomyces cerevisiae. It is an essential yeast protein involved in pre-rRNA processing and ribosome assembly, and is speculated to be required for correct assembly of rpS27 into the pre-ribosomal particle. Rrp7A, also termed gastric cancer antigen Zg14, is the Rrp7p homolog mainly found in Metazoans. The cellular function of Rrp7A remains unclear currently. Both Rrp7p and Rrp7A harbor an N-terminal RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain), and a C-terminal RRP7 domain. Length = 118

>gnl|CDD|226894 COG4499, COG4499, Predicted membrane protein [Function unknown]

 Score = 43.2 bits (102), Expect = 6e-04
 Identities = 18/74 (24%), Positives = 41/74 (55%), Gaps = 3/74 (4%)

Query: 907 GAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKKKKKKKKKK 966
           G ++    K+  K+ +   KK G  K    + DA +  +  A++   K+++ +KK+K++ 
Sbjct: 364 GDKRQELLKEYNKKLQDYTKKLGEVK---DETDASEEAEAKAKEEKLKQEENEKKQKEQA 420

Query: 967 KKKKKKKKEAEKMK 980
            + K+K+++ E+ K
Sbjct: 421 DEDKEKRQKDERKK 434

Length = 434

>gnl|CDD|219882 pfam08524, rRNA_processing, rRNA processing

 Score = 40.6 bits (95), Expect = 7e-04
 Identities = 28/97 (28%), Positives = 60/97 (61%), Gaps = 7/97 (7%)

Query: 894 LFRKKRTRRK-----KKKGAEKIRKKKKKK--KEAEKMRKKKGAEKMKKKKKDAEKMKKK 946
           L +K R +++     +K+G     K+  +K  K +++ RK +  +K+ +KK+ A++ K++
Sbjct: 28  LTKKARLKKEYLKLLEKEGYAVPEKESAEKQVKSSKEDRKFEKKKKLDEKKEIAKQRKRE 87

Query: 947 GAEKIGKKKKKKKKKKKKKKKKKKKKKKEAEKMKKKT 983
             EK   K++K+ +K +  KKK+K++++  +K+ KKT
Sbjct: 88  QREKELAKRQKELEKIELSKKKQKERERRRKKLTKKT 124

This is a family of proteins that are involved in rRNA processing. In a localisation study they were found to localise to the nucleus and nucleolus. The family also includes other metazoa members from plants to mammals where the protein has been named BR22 and is associated with TTF-1, thyroid transcription factor 1. In the lungs, the family binds TTF-1 to form a complex which influences the expression of the key lung surfactant protein-B (SP-B) and -C (SP-C), the small hydrophobic surfactant proteins that maintain surface tension in alveoli. Length = 150

>gnl|CDD|218899 pfam06102, DUF947, Domain of unknown function (DUF947)

 Score = 41.1 bits (97), Expect = 7e-04
 Identities = 23/72 (31%), Positives = 41/72 (56%), Gaps = 11/72 (15%)

Query: 896 RKKRTRRK-KKKGAEKIRKKKK----KKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEK 950
           R++   ++ KK+  E I++ KK    KK E +K+  KK  +++KK K+  + ++KK    
Sbjct: 103 REREILKEHKKQEKELIKEGKKPYYLKKSEIKKLVLKKKFDELKKSKQLDKALEKK---- 158

Query: 951 IGKKKKKKKKKK 962
             +KK   K+KK
Sbjct: 159 --RKKNAGKEKK 168

Family of eukaryotic proteins with unknown function. Length = 168

>gnl|CDD|235175 PRK03918, PRK03918, chromosome segregation protein; Provisional

 Score = 43.1 bits (102), Expect = 7e-04
 Identities = 18/92 (19%), Positives = 52/92 (56%), Gaps = 4/92 (4%)

Query: 901 RRKKKKGAEKIRKKKKKKKEAEKMR--KKKGAEKMKKKKKDAEKMKKKGAE--KIGKKKK 956
            ++ +      RK ++K +E E+     KK  E++++K K+ +++K+K  E  K+ +  +
Sbjct: 244 EKELESLEGSKRKLEEKIRELEERIEELKKEIEELEEKVKELKELKEKAEEYIKLSEFYE 303

Query: 957 KKKKKKKKKKKKKKKKKKEAEKMKKKTEEAEK 988
           +   + ++ +K+  + ++E   ++++ +E E+
Sbjct: 304 EYLDELREIEKRLSRLEEEINGIEERIKELEE 335

Length = 880

>gnl|CDD|218797 pfam05890, Ebp2, Eukaryotic rRNA processing protein EBP2

 Score = 42.3 bits (100), Expect = 7e-04
 Identities = 29/93 (31%), Positives = 46/93 (49%), Gaps = 19/93 (20%)

Query: 903 KKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMK--KKG------------- 947
             KK +E+ RK+++ KK  ++++ +K  E+ K+KK   EK+K  KK              
Sbjct: 129 AAKKASEEARKQRELKKFGKQVQVEKLQERAKEKKDMLEKIKKLKKKRKGGGDEGDLFDF 188

Query: 948 ----AEKIGKKKKKKKKKKKKKKKKKKKKKKEA 976
               A K G KKK +K    + K   K+K K+A
Sbjct: 189 LVDDAAKGGSKKKGRKGGAARGKPNAKRKAKDA 221

This family consists of several Eukaryotic rRNA processing protein EBP2 sequences. Ebp2p is required for the maturation of 25S rRNA and 60S subunit assembly. Ebp2p may be one of the target proteins of Rrs1p for executing the signal to regulate ribosome biogenesis. This family also plays a role in chromosome segregation. Length = 270

>gnl|CDD|217834 pfam03998, Utp11, Utp11 protein

 Score = 42.0 bits (99), Expect = 7e-04
 Identities = 23/96 (23%), Positives = 41/96 (42%), Gaps = 15/96 (15%)

Query: 879 NDDVRREAVTALGFILFRKKRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKK 938
              + + ++          K+ R+  K+  E+  ++KK KK  +++  ++  E MKK K 
Sbjct: 159 ISQLEKTSLVDEKQKKKSAKKKRKLYKELKERKEREKKLKKVEQRLELQR--ELMKKGKG 216

Query: 939 DAEKMKKKGAEKIGKKKKKKKKKKKKKKKKKKKKKK 974
                         KKK  K K  K   K KK++K+
Sbjct: 217 K-------------KKKIVKDKDGKVVYKWKKERKR 239

This protein is found to be part of a large ribonucleoprotein complex containing the U3 snoRNA. Depletion of the Utp proteins impedes production of the 18S rRNA, indicating that they are part of the active pre-rRNA processing complex. This large RNP complex has been termed the small subunit (SSU) processome. Length = 239

>gnl|CDD|219924 pfam08597, eIF3_subunit, Translation initiation factor eIF3 subunit

 Score = 42.0 bits (99), Expect = 7e-04
 Identities = 21/59 (35%), Positives = 33/59 (55%), Gaps = 5/59 (8%)

Query: 930 AEKMKKKKKDAEKMKKKGAEKIGKKKKKKKKKKKKKKKKKKKKKKEAEKMKKKTEEAEK 988
            EK ++K K A K K K        K K ++K+K K++K++K  +E E+   + E AEK
Sbjct: 43  EEKEEEKAKVAAKAKAKK-----ALKAKIEEKEKAKREKEEKGLRELEEDTPEDELAEK 96

This is a family of proteins which are subunits of the eukaryotic translation initiation factor 3 (eIF3). In yeast it is called Hcr1. The Saccharomyces cerevisiae protein eIF3j (HCR1) has been shown to be required for processing of 20S pre-rRNA and binds to 18S rRNA and eIF3 subunits Rpg1p and Prt1p. Length = 242

>gnl|CDD|185429 PTZ00074, PTZ00074, 60S ribosomal protein L34; Provisional

 Score = 40.4 bits (95), Expect = 7e-04
 Identities = 20/33 (60%), Positives = 26/33 (78%)

Query: 949 EKIGKKKKKKKKKKKKKKKKKKKKKKEAEKMKK 981
           + + +K K+KK+KKKKKKKKKKK  K+A K KK
Sbjct: 103 QVLKEKAKQKKQKKKKKKKKKKKTSKKAAKKKK 135

Length = 135

>gnl|CDD|185429 PTZ00074, PTZ00074, 60S ribosomal protein L34; Provisional

 Score = 40.4 bits (95), Expect = 7e-04
 Identities = 20/38 (52%), Positives = 28/38 (73%)

Query: 945 KKGAEKIGKKKKKKKKKKKKKKKKKKKKKKEAEKMKKK 982
           +K  +++ K+K K+KK+KKKKKKKKKKK  +    KKK
Sbjct: 98  QKIVKQVLKEKAKQKKQKKKKKKKKKKKTSKKAAKKKK 135

Length = 135

>gnl|CDD|240317 PTZ00217, PTZ00217, flap endonuclease-1; Provisional

 Score = 42.7 bits (101), Expect = 7e-04
 Identities = 22/81 (27%), Positives = 32/81 (39%), Gaps = 6/81 (7%)

Query: 894 LFRKKRTRRKKKKGAEKIRKKKKKKKEA--EKMRKKKGAEKMKKKKKDAEKMKKKGAEKI 951
            F ++R      K  E+++K K KK +   +           K   K   K KKK A   
Sbjct: 317 NFNEERVE----KYIERLKKAKTKKTQTRLDSFFTATKKPIKKSNSKAKLKKKKKKAGAS 372

Query: 952 GKKKKKKKKKKKKKKKKKKKK 972
              K +  ++ K   KKK KK
Sbjct: 373 AVPKSETSQEAKSSGKKKVKK 393

Length = 393

>gnl|CDD|227492 COG5163, NOP7, Protein required for biogenesis of the 60S ribosomal subunit [Translation, ribosomal structure and biogenesis]

 Score = 43.1 bits (101), Expect = 7e-04
 Identities = 35/115 (30%), Positives = 53/115 (46%), Gaps = 8/115 (6%)

Query: 865 VATKRLLHVAVSDVNDD-----VRREAVTALGFILFRKKRTRRKKKKGAEKIRKKKKKKK 919
               R  HVA  + +DD      ++E       I + +     +  K   K + KK+K  
Sbjct: 480 FEDVRYEHVAGEEDDDDDEELQAQKELELEAQGIKYSETS---EADKDVNKSKNKKRKVD 536

Query: 920 EAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKKKKKKKKKKKKKKKKKK 974
           E E+ +K K      K+KK  +KMK   A+K  + +  KKKKK+  K+KK   KK
Sbjct: 537 EEEEEKKLKMIMMSNKQKKLYKKMKYSNAKKEEQAENLKKKKKQIAKQKKLDSKK 591

Length = 591

>gnl|CDD|216581 pfam01577, Peptidase_S30, Potyvirus P1 protease

 Score = 41.9 bits (99), Expect = 8e-04
 Identities = 22/91 (24%), Positives = 34/91 (37%), Gaps = 6/91 (6%)

Query: 891 GFILFRKKRT----RRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKK 946
             I   KK      +    + A+K  K K++++E  +  +   A  + K          K
Sbjct: 17  SKIKQEKKGRIILRKLSPAQVAKKREKLKREEREERQFLQGAYASIVSKITPIGTDKVSK 76

Query: 947 GA--EKIGKKKKKKKKKKKKKKKKKKKKKKE 975
                      K+  KK KKKKKKKK    +
Sbjct: 77  TESVSFRTPYYKRTTKKMKKKKKKKKVVMSD 107

The potyviridae family positive stand RNA viruses with genome encoding a polyprotein. members include zucchini yellow mosaic virus, and turnip mosaic viruses which cause considerable losses of crops worldwide. This family consists of a C terminus region from various plant potyvirus P1 proteins (found at the N terminus of the polyprotein). The C terminus of P1 is a serine-type protease responsible for autocatalytic cleavage between P1 and the helper component protease pfam00851. The entire P1 protein may be involved in virus-host interactions. Length = 245

>gnl|CDD|215774 pfam00183, HSP90, Hsp90 protein

 Score = 42.8 bits (101), Expect = 8e-04
 Identities = 20/63 (31%), Positives = 37/63 (58%), Gaps = 1/63 (1%)

Query: 919 KEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKKKKKKKKKK-KKKKKKKKEAE 977
           KE EK    +  E+ K++KK+ E+      E++ ++++K++KKKK KK K+   + +   
Sbjct: 29  KEVEKEVPDEEEEEEKEEKKEEEEKTTDKEEEVDEEEEKEEKKKKTKKVKETTTEWELLN 88

Query: 978 KMK 980
           K K
Sbjct: 89  KTK 91

Length = 529

>gnl|CDD|220102 pfam09073, BUD22, BUD22

 Score = 42.5 bits (100), Expect = 8e-04
 Identities = 27/95 (28%), Positives = 42/95 (44%), Gaps = 10/95 (10%)

Query: 897 KKRTRRKK--KKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKK 954
           KK     K  KK  EK +K+++ ++   + R+ K      K  + AE    +  +K  + 
Sbjct: 321 KKYGSGAKHVKKEREKEQKEREGRQSEWEARQAKREGGDAKAGRAAEPTGSRTQQKGDRP 380

Query: 955 KKKKKKKKKKKKKKK--------KKKKKEAEKMKK 981
           K+ +KKK KK    K        KKK KE +   K
Sbjct: 381 KRGEKKKPKKPSVDKPLHPSWEAKKKAKEKKANAK 415

BUD22 has been shown in yeast to be a nuclear protein involved in bud-site selection. It plays a role in positioning the proximal bud pole signal. More recently it has been shown to be involved in ribosome biogenesis. Length = 424

>gnl|CDD|219978 pfam08701, GN3L_Grn1, GNL3L/Grn1 putative GTPase

 Score = 38.8 bits (91), Expect = 8e-04
 Identities = 21/84 (25%), Positives = 42/84 (50%), Gaps = 16/84 (19%)

Query: 912 RKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGA-----------EKIGKKKKKKKK 960
            + K +KK AE  RK +     K+ KK+     KK             E+I ++ ++KK+
Sbjct: 2   LRYKIEKKVAEHHRKLR-----KEAKKNPTWKSKKKKDPGIPNSFPFKEEILEEIEEKKR 56

Query: 961 KKKKKKKKKKKKKKEAEKMKKKTE 984
           K++++K+++K+ +K      +K  
Sbjct: 57  KQEEEKERRKEARKAERAEARKRG 80

Grn1 (yeast) and GNL3L (human) are putative GTPases which are required for growth and play a role in processing of nucleolar pre-rRNA. This family contains a potential nuclear localisation signal. Length = 80

>gnl|CDD|240271 PTZ00108, PTZ00108, DNA topoisomerase 2-like protein; Provisional

 Score = 43.1 bits (102), Expect = 8e-04
 Identities = 28/89 (31%), Positives = 44/89 (49%), Gaps = 12/89 (13%)

Query: 909  EKIRKK-KKKKKEAEKMRK-----------KKGAEKMKKKKKDAEKMKKKGAEKIGKKKK 956
            EK+  + +KK+KE EK++             K  E ++++++  EK   K      K K 
Sbjct: 1105 EKLNAELEKKEKELEKLKNTTPKDMWLEDLDKFEEALEEQEEVEEKEIAKEQRLKSKTKG 1164

Query: 957  KKKKKKKKKKKKKKKKKKEAEKMKKKTEE 985
            K  K +K K KKK+KKKK++   K K   
Sbjct: 1165 KASKLRKPKLKKKEKKKKKSSADKSKKAS 1193

Length = 1388

>gnl|CDD|234017 TIGR02794, tolA_full, TolA protein

 Score = 42.1 bits (99), Expect = 9e-04
 Identities = 20/82 (24%), Positives = 44/82 (53%), Gaps = 1/82 (1%)

Query: 908 AEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKKKKKKK-KKK 966
           A +I+++KK   + E+ R+KK  ++ ++ +K     + +  E   +   +K  K+  +  
Sbjct: 52  ANRIQQQKKPAAKKEQERQKKLEQQAEEAEKQRAAEQARQKELEQRAAAEKAAKQAEQAA 111

Query: 967 KKKKKKKKEAEKMKKKTEEAEK 988
           K+ ++K+K+AE+ K K     K
Sbjct: 112 KQAEEKQKQAEEAKAKQAAEAK 133

TolA couples the inner membrane complex of itself with TolQ and TolR to the outer membrane complex of TolB and OprL (also called Pal). Most of the length of the protein consists of low-complexity sequence that may differ in both length and composition from one species to another, complicating efforts to discriminate TolA (the most divergent gene in the tol-pal system) from paralogs such as TonB. Selection of members of the seed alignment and criteria for setting scoring cutoffs are based largely conserved operon struction. //The Tol-Pal complex is required for maintaining outer membrane integrity. Also involved in transport (uptake) of colicins and filamentous DNA, and implicated in pathogenesis. Transport is energized by the proton motive force. TolA is an inner membrane protein that interacts with periplasmic TolB and with outer membrane porins ompC, phoE and lamB [Transport and binding proteins, Other, Cellular processes, Pathogenesis]. Length = 346

>gnl|CDD|219882 pfam08524, rRNA_processing, rRNA processing

 Score = 40.6 bits (95), Expect = 9e-04
 Identities = 24/75 (32%), Positives = 48/75 (64%)

Query: 898 KRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKK 957
           K +  K+ K +++ RK +KKKK  EK    K  ++ +++K+ A++ K+    ++ KKK+K
Sbjct: 52  KESAEKQVKSSKEDRKFEKKKKLDEKKEIAKQRKREQREKELAKRQKELEKIELSKKKQK 111

Query: 958 KKKKKKKKKKKKKKK 972
           ++++++KK  KK K 
Sbjct: 112 ERERRRKKLTKKTKS 126

This is a family of proteins that are involved in rRNA processing. In a localisation study they were found to localise to the nucleus and nucleolus. The family also includes other metazoa members from plants to mammals where the protein has been named BR22 and is associated with TTF-1, thyroid transcription factor 1. In the lungs, the family binds TTF-1 to form a complex which influences the expression of the key lung surfactant protein-B (SP-B) and -C (SP-C), the small hydrophobic surfactant proteins that maintain surface tension in alveoli. Length = 150

>gnl|CDD|114011 pfam05262, Borrelia_P83, Borrelia P83/100 protein

 Score = 42.3 bits (99), Expect = 0.001
 Identities = 19/82 (23%), Positives = 36/82 (43%), Gaps = 1/82 (1%)

Query: 897 KKRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKM-KKKGAEKIGKKK 955
            K+    +K+  EK + + KK  E     K   A  +K++ K +EK  + K  E   K++
Sbjct: 272 DKQVAENQKREIEKAQIEIKKNDEEALKAKDHKAFDLKQESKASEKEAEDKELEAQKKRE 331

Query: 956 KKKKKKKKKKKKKKKKKKKEAE 977
              +  +K K + + +     E
Sbjct: 332 PVAEDLQKTKPQVEAQPTSLNE 353

This family consists of several Borrelia P83/P100 antigen proteins. Length = 489

>gnl|CDD|114011 pfam05262, Borrelia_P83, Borrelia P83/100 protein

 Score = 41.9 bits (98), Expect = 0.001
 Identities = 23/101 (22%), Positives = 52/101 (51%), Gaps = 9/101 (8%)

Query: 896 RKKRTRRKKKKGAEKIRKK--------KKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKG 947
           +++   R+K++ A+ + K          K+  E +K   +K   ++KK  ++A K K   
Sbjct: 245 KQRDEVRQKQQEAKNLPKPADTSSPKEDKQVAENQKREIEKAQIEIKKNDEEALKAKDHK 304

Query: 948 AEKIGKKKKKKKKKKKKKKKKKKKKKKE-AEKMKKKTEEAE 987
           A  + ++ K  +K+ + K+ + +KK++  AE ++K   + E
Sbjct: 305 AFDLKQESKASEKEAEDKELEAQKKREPVAEDLQKTKPQVE 345

This family consists of several Borrelia P83/P100 antigen proteins. Length = 489

>gnl|CDD|219655 pfam07946, DUF1682, Protein of unknown function (DUF1682)

 Score = 41.9 bits (99), Expect = 0.001
 Identities = 13/55 (23%), Positives = 36/55 (65%)

Query: 934 KKKKKDAEKMKKKGAEKIGKKKKKKKKKKKKKKKKKKKKKKEAEKMKKKTEEAEK 988
            +  +  +K +++  EKI K  +++++++ ++KK++KKK++   K+ K + E ++
Sbjct: 255 PEVLRKVDKTREEEEEKILKAAEEERQEEAQEKKEEKKKEEREAKLAKLSPEEQR 309

The members of this family are all hypothetical eukaryotic proteins of unknown function. One member is described as being an adipocyte-specific protein, but no evidence of this was found. Length = 322

>gnl|CDD|219901 pfam08555, DUF1754, Eukaryotic family of unknown function (DUF1754)

 Score = 38.9 bits (91), Expect = 0.001
 Identities = 21/80 (26%), Positives = 42/80 (52%)

Query: 903 KKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKKKKKK 962
           K K     ++KKKKKKK+  K +++   EK +++K  AE   K+G E    +K ++++  
Sbjct: 11  KLKGKKIDVKKKKKKKKKKNKSKEEVVTEKEEEEKSSAESDLKEGEEDEDNEKIEQEEDG 70

Query: 963 KKKKKKKKKKKKEAEKMKKK 982
               + ++  ++   K  K+
Sbjct: 71  MNLTEAERAFEEAQRKRLKE 90

This is a eukaryotic protein family of unknown function. Length = 90

>gnl|CDD|217502 pfam03343, SART-1, SART-1 family

 Score = 42.8 bits (101), Expect = 0.001
 Identities = 23/90 (25%), Positives = 44/90 (48%), Gaps = 7/90 (7%)

Query: 896 RKKRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKK 955
            +   +RK+++  EKI K ++K++   K+   K   +      D +         + K K
Sbjct: 47  EEAEAKRKREELREKIAKAREKRERNSKLGGIKTLGEDDDDDDDTKAW-------LKKSK 99

Query: 956 KKKKKKKKKKKKKKKKKKKEAEKMKKKTEE 985
           K++KKK+ ++KK     +KE E+  + T E
Sbjct: 100 KRQKKKEAERKKALLLDEKEKERAAEYTSE 129

SART-1 is a protein involved in cell cycle arrest and pre-mRNA splicing. It has been shown to be a component of U4/U6 x U5 tri-snRNP complex in human, Schizosaccharomyces pombe and Saccharomyces cerevisiae. SART-1 is a known tumour antigen in a range of cancers recognised by T cells. Length = 603

>gnl|CDD|217502 pfam03343, SART-1, SART-1 family

 Score = 42.1 bits (99), Expect = 0.001
 Identities = 22/84 (26%), Positives = 45/84 (53%)

Query: 895 FRKKRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKK 954
           ++K++   + K+  E++R+K  K +E  +   K G  K   +  D +   K   +K  K+
Sbjct: 42  WKKRQEEAEAKRKREELREKIAKAREKRERNSKLGGIKTLGEDDDDDDDTKAWLKKSKKR 101

Query: 955 KKKKKKKKKKKKKKKKKKKKEAEK 978
           +KKK+ ++KK     +K+K+ A +
Sbjct: 102 QKKKEAERKKALLLDEKEKERAAE 125

SART-1 is a protein involved in cell cycle arrest and pre-mRNA splicing. It has been shown to be a component of U4/U6 x U5 tri-snRNP complex in human, Schizosaccharomyces pombe and Saccharomyces cerevisiae. SART-1 is a known tumour antigen in a range of cancers recognised by T cells. Length = 603

>gnl|CDD|187751 cd09270, RNase_H2-B, Ribonuclease H2-B is a subunit of the eukaryotic RNase H complex which cleaves RNA-DNA hybrids

 Score = 40.8 bits (96), Expect = 0.001
 Identities = 20/56 (35%), Positives = 28/56 (50%)

Query: 918 KKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKKKKKKKKKKKKKKKKK 973
            K+ E+++KK+   K  +  +D +K      EK  KKKK  KKKK KK      K 
Sbjct: 150 LKKVERLKKKELDIKEAEAARDKKKSNNAEEEKKKKKKKSAKKKKLKKVAAVGMKA 205

Ribonuclease H2B is one of the three proteins of eukaryotic RNase H2 complex that is required for nucleic acid binding and hydrolysis. RNase H is classified into two families, type I (prokaryotic RNase HI, eukaryotic RNase H1 and viral RNase H) and type II (prokaryotic RNase HII and HIII, and eukaryotic RNase H2/HII). RNase H endonucleolytically hydrolyzes an RNA strand when it is annealed to a complementary DNA strand in the presence of divalent cations, in DNA replication and repair. The enzyme can be found in bacteria, archaea, and eukaryotes. Most prokaryotic and eukaryotic genomes contain multiple RNase H genes. Despite a lack of evidence for homology from sequence comparisons, type I and type II RNase H share a common fold and similar steric configurations of the four acidic active-site residues, suggesting identical or very similar catalytic mechanisms. Eukaryotic RNase HII is active during replication and is believed to play a role in removal of Okazaki fragment primers and single ribonucleotides in DNA-DNA duplexes. Eukaryotic RNase HII is functional when it forms a complex with RNase H2B and RNase H2C proteins. It is speculated that the two accessory subunits are required for correct folding of the catalytic subunit of RNase HII. Mutations in the three subunits of human RNase HII cause neurological disorder. Length = 211

>gnl|CDD|206039 pfam13868, Trichoplein, Tumour suppressor, Mitostatin

 Score = 41.4 bits (98), Expect = 0.001
 Identities = 18/98 (18%), Positives = 60/98 (61%), Gaps = 5/98 (5%)

Query: 895 FRKKRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKK 954
           +++++  R++++ AE+  +K++K++E  ++R ++   + ++++ D  +      E   K+
Sbjct: 158 YQREKAEREEEREAERRERKEEKEREVARLRAQQEEAEDEREELDELRADLYQEEYERKE 217

Query: 955 KKKKKKKKKKKKKKKKKKKKE-----AEKMKKKTEEAE 987
           ++K+K++ +K++++K++ ++       EK ++  EE  
Sbjct: 218 RQKEKEEAEKRRRQKQELQRAREEQIEEKEERLQEERA 255

Trichoplein or mitostatin, was first defined as a meiosis-specific nuclear structural protein. It has since been linked with mitochondrial movement. It is associated with the mitochondrial outer membrane, and over-expression leads to reduction in mitochondrial motility whereas lack of it enhances mitochondrial movement. The activity appears to be mediated through binding the mitochondria to the actin intermediate filaments (IFs). Length = 349

>gnl|CDD|226894 COG4499, COG4499, Predicted membrane protein [Function unknown]

 Score = 42.1 bits (99), Expect = 0.001
 Identities = 16/70 (22%), Positives = 40/70 (57%)

Query: 905 KKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKKKKKKKK 964
            K  E +++  KK ++  K   +   E    ++ +A+  ++K  ++  +KK+K++  + K
Sbjct: 365 DKRQELLKEYNKKLQDYTKKLGEVKDETDASEEAEAKAKEEKLKQEENEKKQKEQADEDK 424

Query: 965 KKKKKKKKKK 974
           +K++K ++KK
Sbjct: 425 EKRQKDERKK 434

Length = 434

>gnl|CDD|115057 pfam06375, BLVR, Bovine leukaemia virus receptor (BLVR)

 Score = 42.7 bits (100), Expect = 0.001
 Identities = 29/110 (26%), Positives = 48/110 (43%), Gaps = 19/110 (17%)

Query: 896 RKKRTRRKKKKGAEKIRKKKKKKKEAEKM-----------------RKKKGAEKMKKKKK 938
           +K + + KK+K  E+ + KKK+ +  + +                  +   A  +     
Sbjct: 200 KKPKKKEKKEKEKERDKDKKKEVEGFKSLLLALDDSPASAASVAEADEASLANTVSGTAP 259

Query: 939 DAEKMKKKGAEKIGKKKKKKKKKKKKKKKK--KKKKKKEAEKMKKKTEEA 986
           D+E  + K AE    KK  K KKKK++K+K  KKKKKK        ++  
Sbjct: 260 DSEPDEPKDAEAEETKKSPKHKKKKQRKEKEEKKKKKKHHHHRCHHSDGG 309

This family consists of several bovine specific leukaemia virus receptors which are thought to function as transmembrane proteins, although their exact function is unknown. Length = 561

>gnl|CDD|236048 PRK07561, PRK07561, DNA topoisomerase I subunit omega; Validated

 Score = 42.9 bits (102), Expect = 0.001
 Identities = 11/46 (23%), Positives = 17/46 (36%)

Query: 938 KDAEKMKKKGAEKIGKKKKKKKKKKKKKKKKKKKKKKEAEKMKKKT 983
              +  K +       K    KK   K  +K K++   +EK  K T
Sbjct: 814 LAEKPEKLRYLADAPAKDPAGKKAAVKFSRKTKQQYVASEKDGKAT 859

Length = 859

>gnl|CDD|225381 COG2825, HlpA, Outer membrane protein [Cell envelope biogenesis, outer membrane]

 Score = 40.8 bits (96), Expect = 0.001
 Identities = 24/103 (23%), Positives = 49/103 (47%), Gaps = 7/103 (6%)

Query: 885 EAVTALGFILFRKK-RTRRKKKKGAEKIRKKKKKK-KEAEKMRKKKGAEKMKKKKKDAEK 942
           +A   +  +   +  +   + KK +  +  + KK+ KE +KM+K+    K  K + D + 
Sbjct: 22  QAAPKIAIVNLGRIFQESPQAKKVSADLESEFKKRQKELQKMQKE-LKAKEAKLQDDGKM 80

Query: 943 MKKKGAEKIGKKKKKKKK----KKKKKKKKKKKKKKEAEKMKK 981
                  K   + KK+K      KK+++ +K   ++EAE+ +K
Sbjct: 81  EALSDRAKAEAEIKKEKLVNAFNKKQQEYEKDLNRREAEEEQK 123

Length = 170

>gnl|CDD|224415 COG1498, SIK1, Protein implicated in ribosomal biogenesis, Nop56p homolog [Translation, ribosomal structure and biogenesis]

 Score = 42.4 bits (100), Expect = 0.001
 Identities = 14/61 (22%), Positives = 31/61 (50%), Gaps = 2/61 (3%)

Query: 917 KKKEAEKMRKK--KGAEKMKKKKKDAEKMKKKGAEKIGKKKKKKKKKKKKKKKKKKKKKK 974
            + +   +R++  K  EK+K+K        K   +K  +  + ++KKK+KK K +++  +
Sbjct: 335 GEPDGISLREELEKRIEKLKEKPPKPPTKAKPERDKKERPGRYRRKKKEKKAKSERRGLQ 394

Query: 975 E 975
            
Sbjct: 395 N 395

Length = 395

>gnl|CDD|227594 COG5269, ZUO1, Ribosome-associated chaperone zuotin [Translation, ribosomal structure and biogenesis / Posttranslational modification, protein turnover, chaperones]

 Score = 42.3 bits (99), Expect = 0.001
 Identities = 26/112 (23%), Positives = 41/112 (36%), Gaps = 20/112 (17%)

Query: 896 RKKRTRRKKKKGAEKIRKKK-------------------KKKKEAEKMRKKKGA-EKMKK 935
            K R +R K K  +  R K+                   K+ K+  K  ++ GA  K   
Sbjct: 201 AKNREKRAKLKNQDNARLKRLVQIAKKRDPRIKSFKEQEKEMKKIRKWEREAGARLKALA 260

Query: 936 KKKDAEKMKKKGAEKIGKKKKKKKKKKKKKKKKKKKKKKEAEKMKKKTEEAE 987
             K   + K K   +          KKK K+  KK  K E + +K   ++A+
Sbjct: 261 ALKGKAEAKNKAEIEAEALASATAVKKKAKEVMKKALKMEKKAIKNAAKDAD 312

Length = 379

>gnl|CDD|113514 pfam04747, DUF612, Protein of unknown function, DUF612

 Score = 42.4 bits (98), Expect = 0.001
 Identities = 28/84 (33%), Positives = 51/84 (60%), Gaps = 1/84 (1%)

Query: 903 KKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKKKKKK 962
           ++K  A+K  +K+ ++ EAE  ++    E+ K+ K + E+++K+  +K    KK + +KK
Sbjct: 89  EQKVNAKKAAEKEARRAEAEAKKRAAQEEEHKQWKAEQERIQKEQEKKEADLKKLQAEKK 148

Query: 963 KKKKKKKKKKKKEAEKMKKKTEEA 986
           K+K  K +K +K AEK KK +  A
Sbjct: 149 KEKAVKAEKAEK-AEKTKKASTPA 171

This family includes several uncharacterized proteins from Caenorhabditis elegans. Length = 517

>gnl|CDD|217884 pfam04086, SRP-alpha_N, Signal recognition particle, alpha subunit, N-terminal

 Score = 41.7 bits (98), Expect = 0.001
 Identities = 20/87 (22%), Positives = 33/87 (37%), Gaps = 11/87 (12%)

Query: 901 RRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKK---------KKKDAEKMKKKGAEKI 951
           R+ K+ G    RK++KK +E+    +   +              K K+    + K A K+
Sbjct: 130 RKPKEPG--LKRKQRKKAQESATSPESSPSSTPNSSRPSTPHLLKAKEGPSRRAKKAAKL 187

Query: 952 GKKKKKKKKKKKKKKKKKKKKKKEAEK 978
                   +K  K K   KK  K+  K
Sbjct: 188 SSTASSGDEKSPKSKAAPKKAGKKMRK 214

SRP is a complex of six distinct polypeptides and a 7S RNA that is essential for transferring nascent polypeptide chains that are destined for export from the cell to the translocation apparatus of the endoplasmic reticulum (ER) membrane. SRP binds hydrophobic signal sequences as they emerge from the ribosome, and arrests translation. Length = 272

>gnl|CDD|240246 PTZ00053, PTZ00053, methionine aminopeptidase 2; Provisional

 Score = 42.0 bits (99), Expect = 0.001
 Identities = 20/85 (23%), Positives = 37/85 (43%)

Query: 903 KKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKKKKKK 962
           + +   +K + K+K  K+  K  KK   +      +   + ++   ++  KKKKKKKKKK
Sbjct: 7   ENEVKQQKQQNKQKGTKKKNKKSKKDVDDDDAFLAELISENQEAENKQNNKKKKKKKKKK 66

Query: 963 KKKKKKKKKKKKEAEKMKKKTEEAE 987
           KKK   +         +   +   +
Sbjct: 67  KKKNLGEAYDLAYDLPVVWSSAAFQ 91

Length = 470

>gnl|CDD|237744 PRK14521, rpsP, 30S ribosomal protein S16; Provisional

 Score = 40.5 bits (95), Expect = 0.001
 Identities = 23/85 (27%), Positives = 33/85 (38%), Gaps = 4/85 (4%)

Query: 905 KKGA--EKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKKKKKK 962
            KGA  E   + K +  + EK  K    +    K K A K     AEK  K  + + +  
Sbjct: 90  AKGAFTEAQAEAKFEAWKEEKEGKVNAKKDKLSKAKKAAKKAALEAEK--KVNEARAEAV 147

Query: 963 KKKKKKKKKKKKEAEKMKKKTEEAE 987
            +KK  +       E    + EEAE
Sbjct: 148 AEKKAAEAAAVAAEEAAAAEEEEAE 172

Length = 186

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 42.1 bits (98), Expect = 0.002
 Identities = 22/90 (24%), Positives = 42/90 (46%), Gaps = 1/90 (1%)

Query: 899  RTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKK 958
            +   K   G ++  K   K  + +     +  E  ++    AE+ KK    K  + +K +
Sbjct: 1059 KAEAKAHVGQDEGLKPSYKDFDFDAKEDNRADEATEEAFGKAEEAKKTETGKAEEARKAE 1118

Query: 959  KKKKKKKKKKKKKKKKEAEKMKKKTEEAEK 988
            + KKK +  +K ++ ++AE   +K EEA K
Sbjct: 1119 EAKKKAEDARKAEEARKAEDA-RKAEEARK 1147

Length = 2084

>gnl|CDD|234017 TIGR02794, tolA_full, TolA protein

 Score = 41.7 bits (98), Expect = 0.002
 Identities = 17/82 (20%), Positives = 33/82 (40%), Gaps = 6/82 (7%)

Query: 896 RKKRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKK 955
            K +   + KK A + +KK + + +A+   K K   +  K K +A K       K   + 
Sbjct: 156 AKAKAAAEAKKKAAEAKKKAEAEAKAKAEAKAKAKAEEAKAKAEAAK------AKAAAEA 209

Query: 956 KKKKKKKKKKKKKKKKKKKEAE 977
             K + +       + ++K  E
Sbjct: 210 AAKAEAEAAAAAAAEAERKADE 231

TolA couples the inner membrane complex of itself with TolQ and TolR to the outer membrane complex of TolB and OprL (also called Pal). Most of the length of the protein consists of low-complexity sequence that may differ in both length and composition from one species to another, complicating efforts to discriminate TolA (the most divergent gene in the tol-pal system) from paralogs such as TonB. Selection of members of the seed alignment and criteria for setting scoring cutoffs are based largely conserved operon struction. //The Tol-Pal complex is required for maintaining outer membrane integrity. Also involved in transport (uptake) of colicins and filamentous DNA, and implicated in pathogenesis. Transport is energized by the proton motive force. TolA is an inner membrane protein that interacts with periplasmic TolB and with outer membrane porins ompC, phoE and lamB [Transport and binding proteins, Other, Cellular processes, Pathogenesis]. Length = 346

>gnl|CDD|219838 pfam08432, DUF1742, Fungal protein of unknown function (DUF1742)

 Score = 40.1 bits (94), Expect = 0.002
 Identities = 23/89 (25%), Positives = 41/89 (46%), Gaps = 6/89 (6%)

Query: 903 KKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKKKKKK 962
           +K+K   K +K KKKK + +   KK   +  K +KKD ++ + K  E + K   +     
Sbjct: 80  EKQKWKWKKKKSKKKKDKDKD--KKDDKKDDKSEKKDEKEAEDK-LEDLTKSYSETLSTL 136

Query: 963 KKKKKKKKKKKKEAEKM---KKKTEEAEK 988
            + K +K    K+  +    +K+  E  K
Sbjct: 137 SELKPRKYALHKDIYQSRLDRKRRAEVAK 165

This is a family of fungal proteins of unknown function. Length = 182

>gnl|CDD|225606 COG3064, TolA, Membrane protein involved in colicin uptake [Cell envelope biogenesis, outer membrane]

 Score = 41.1 bits (96), Expect = 0.002
 Identities = 24/93 (25%), Positives = 58/93 (62%), Gaps = 3/93 (3%)

Query: 896 RKKRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKK 955
           R +  +   KKG ++  +KKK+++ AE+++ K+ AE+ + K+ + E++K +  +K   ++
Sbjct: 66  RIQSQQSSAKKGEQQ--RKKKEEQVAEELKPKQAAEQERLKQLEKERLKAQEQQK-QAEE 122

Query: 956 KKKKKKKKKKKKKKKKKKKEAEKMKKKTEEAEK 988
            +K+ + ++K+++++ +K  AE+ KK      K
Sbjct: 123 AEKQAQLEQKQQEEQARKAAAEQKKKAEAAKAK 155

Length = 387

>gnl|CDD|184900 PRK14907, rplD, 50S ribosomal protein L4; Provisional

 Score = 41.1 bits (96), Expect = 0.002
 Identities = 28/101 (27%), Positives = 42/101 (41%), Gaps = 10/101 (9%)

Query: 897 KKRTRRKKKKGAEKIRKKK-------KKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAE 949
           KK   +K     E  + KK       K  K+A K++K K + K   KK   +  K +  +
Sbjct: 16  KKPAAKKATTSKETAKTKKTAKTTSTKAAKKAAKVKKTK-SVKTTTKKVTVKFEKTESVK 74

Query: 950 KIGKKKKKKKKKKKKKKKKKKKKK--KEAEKMKKKTEEAEK 988
           K    KK  KK+    +  +   K  K   K+ KK   +EK
Sbjct: 75  KESVAKKTVKKEAVSAEVFEASNKLFKNTSKLPKKLFASEK 115

Length = 295

>gnl|CDD|220271 pfam09507, CDC27, DNA polymerase subunit Cdc27

 Score = 41.7 bits (98), Expect = 0.002
 Identities = 24/97 (24%), Positives = 45/97 (46%), Gaps = 6/97 (6%)

Query: 895 FRKKRTRRKKKKGAEKIRKKKKKKKEAEKMRKK----KGAEKMKKKKKDAEKMKKKGAEK 950
           F KK+T+ KK+K        K++ +E    R      + AE     + + E   K   E+
Sbjct: 221 FFKKKTKEKKEKKEASESTVKEESEEESGKRDVILEDESAEPTGLDEDEDEDEPKPSGER 280

Query: 951 IGKKKKKKKKKKKKKKKKKKKKKKEAEKMKKKTEEAE 987
                +++ ++K+K+K+K+ KK  E E   ++ E   
Sbjct: 281 --SDSEEETEEKEKEKRKRLKKMMEDEDEDEEMEIVP 315

This protein forms the C subunit of DNA polymerase delta. It carries the essential residues for binding to the Pol1 subunit of polymerase alpha, from residues 293-332, which are characterized by the motif D--G--VT, referred to as the DPIM motif. The first 160 residues of the protein form the minimal domain for binding to the B subunit, Cdc1, of polymerase delta, the final 10 C-terminal residues, 362-372, being the DNA sliding clamp, PCNA, binding motif. Length = 427

>gnl|CDD|150884 pfam10278, Med19, Mediator of RNA pol II transcription subunit 19

 Score = 39.8 bits (93), Expect = 0.002
 Identities = 20/59 (33%), Positives = 29/59 (49%)

Query: 913 KKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKKKKKKKKKKKKKKK 971
           KK K K +  + +     E     +      KK   +K    K++KKKKK+KKKKKK+ 
Sbjct: 111 KKHKHKHKKHRTQDPLPEETPSDSEGLKGHEKKHKKKKHEDDKERKKKKKEKKKKKKRH 169

Med19 represents a family of conserved proteins which are members of the multi-protein co-activator Mediator complex. Mediator is required for activation of RNA polymerase II transcription by DNA binding transactivators. Length = 178

>gnl|CDD|218684 pfam05672, MAP7, MAP7 (E-MAP-115) family

 Score = 40.1 bits (93), Expect = 0.002
 Identities = 20/95 (21%), Positives = 65/95 (68%), Gaps = 5/95 (5%)

Query: 893 ILFRKKRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIG 952
           +L  K+R  R+++   E+  +++++++E +++ +++   +  +++   E+  ++  E+  
Sbjct: 27  LLAEKRRQAREQR---EQEEQERREQEEQDRLEREELKRRAAEERLRREEEARRQEEE-- 81

Query: 953 KKKKKKKKKKKKKKKKKKKKKKEAEKMKKKTEEAE 987
           + ++K++K K+K ++++K++++E E+++K+ EEAE
Sbjct: 82  RAREKEEKAKRKAEEEEKQEQEEQERIQKQKEEAE 116

The organisation of microtubules varies with the cell type and is presumably controlled by tissue-specific microtubule-associated proteins (MAPs). The 115-kDa epithelial MAP (E-MAP-115/MAP7) has been identified as a microtubule-stabilising protein predominantly expressed in cell lines of epithelial origin. The binding of this microtubule associated protein is nucleotide independent. Length = 171

>gnl|CDD|185429 PTZ00074, PTZ00074, 60S ribosomal protein L34; Provisional

 Score = 39.3 bits (92), Expect = 0.002
 Identities = 19/33 (57%), Positives = 23/33 (69%)

Query: 944 KKKGAEKIGKKKKKKKKKKKKKKKKKKKKKKEA 976
           K+   EK  +KK+KKKKKKKKKKK  KK  K+ 
Sbjct: 102 KQVLKEKAKQKKQKKKKKKKKKKKTSKKAAKKK 134

Length = 135

>gnl|CDD|185429 PTZ00074, PTZ00074, 60S ribosomal protein L34; Provisional

 Score = 39.3 bits (92), Expect = 0.002
 Identities = 20/33 (60%), Positives = 21/33 (63%)

Query: 942 KMKKKGAEKIGKKKKKKKKKKKKKKKKKKKKKK 974
           K   K   K  K+KKKKKKKKKKK  KK  KKK
Sbjct: 102 KQVLKEKAKQKKQKKKKKKKKKKKTSKKAAKKK 134

Length = 135

>gnl|CDD|216739 pfam01851, PC_rep, Proteasome/cyclosome repeat

 Score = 36.6 bits (86), Expect = 0.002
 Identities = 10/35 (28%), Positives = 12/35 (34%)

Query: 714 GGCLGLGLAAMGSARDDIYEQLKFNLYQDDAVTGE 748
           G  L LGL   GS  ++  E L   L         
Sbjct: 1   GAILALGLIHAGSGNEEALELLLPYLSDTSNEVRA 35

Length = 35

>gnl|CDD|223880 COG0810, TonB, Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]

 Score = 40.9 bits (96), Expect = 0.002
 Identities = 21/84 (25%), Positives = 32/84 (38%), Gaps = 6/84 (7%)

Query: 908 AEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKKKKKKKKKKK 967
            E+ + + +  +E  K   +    +   +    +  +K   EK  KK K K K K K K 
Sbjct: 53  TEEPQPEPEPPEEQPKPPTE---PETPPEPTPPKPKEKPKPEKKPKKPKPKPKPKPKPKP 109

Query: 968 K---KKKKKKEAEKMKKKTEEAEK 988
           K   + K KK   K   K   A  
Sbjct: 110 KVKPQPKPKKPPSKTAAKAPAAPN 133

Length = 244

>gnl|CDD|220102 pfam09073, BUD22, BUD22

 Score = 41.7 bits (98), Expect = 0.002
 Identities = 39/151 (25%), Positives = 54/151 (35%), Gaps = 30/151 (19%)

Query: 868 KRLLHVAVSDVNDDVRR-----EAVTALGFILFRKKRTRRKKKKGAEK-----------I 911
           +R+ +      ND + R     EA+  L      KK    K  K                
Sbjct: 26  RRIKNAEKKSKNDKLARIEEEIEALKTLDLDQLAKKYLFSKLIKVITSKPTKAWAESPEF 85

Query: 912 RKKKKKKK--------EAEKMRKKKGAEKMK------KKKKDAEKMKKKGAEKIGKKKKK 957
           R+    K         EAE + K K    +       K  K+  +   +G +KI   + K
Sbjct: 86  RQIINDKSHKANPSRSEAEVVEKLKSLNNVVSRLLNSKPVKNVLESIMEGLDKILGIETK 145

Query: 958 KKKKKKKKKKKKKKKKKEAEKMKKKTEEAEK 988
            KK K KKK KK KKK+  E   K  EE  +
Sbjct: 146 AKKGKAKKKTKKSKKKEAKESSDKDDEEESE 176

BUD22 has been shown in yeast to be a nuclear protein involved in bud-site selection. It plays a role in positioning the proximal bud pole signal. More recently it has been shown to be involved in ribosome biogenesis. Length = 424

>gnl|CDD|236048 PRK07561, PRK07561, DNA topoisomerase I subunit omega; Validated

 Score = 42.1 bits (100), Expect = 0.002
 Identities = 15/47 (31%), Positives = 23/47 (48%), Gaps = 3/47 (6%)

Query: 930 AEKMKKKKKDAEKMKKKGAEKIGKKKKKKKKKKKKKKKKKKKKKKEA 976
           AEK +K +  A+   K  A   GKK   K  +K K++    +K  +A
Sbjct: 815 AEKPEKLRYLADAPAKDPA---GKKAAVKFSRKTKQQYVASEKDGKA 858

Length = 859

>gnl|CDD|113514 pfam04747, DUF612, Protein of unknown function, DUF612

 Score = 41.2 bits (95), Expect = 0.002
 Identities = 39/129 (30%), Positives = 66/129 (51%), Gaps = 10/129 (7%)

Query: 870 LLHVAVSDVNDDVRREAVTALGFILFRK---KRTRRKKKKGAEKIRK------KKKKKKE 920
           LL   + +  +D R+EA  +L      +   K  + +KKK  ++I K      K   KK 
Sbjct: 38  LLTAVLPNSINDQRKEAFASLELTEQPQQVEKVKKSEKKKAQKQIAKDHEAEQKVNAKKA 97

Query: 921 AEKMRKKKGAEKMKKKKKDAE-KMKKKGAEKIGKKKKKKKKKKKKKKKKKKKKKKEAEKM 979
           AEK  ++  AE  K+  ++ E K  K   E+I K+++KK+   KK + +KKK+K    + 
Sbjct: 98  AEKEARRAEAEAKKRAAQEEEHKQWKAEQERIQKEQEKKEADLKKLQAEKKKEKAVKAEK 157

Query: 980 KKKTEEAEK 988
            +K E+ +K
Sbjct: 158 AEKAEKTKK 166

This family includes several uncharacterized proteins from Caenorhabditis elegans. Length = 517

>gnl|CDD|240246 PTZ00053, PTZ00053, methionine aminopeptidase 2; Provisional

 Score = 41.6 bits (98), Expect = 0.002
 Identities = 23/77 (29%), Positives = 38/77 (49%)

Query: 912 RKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKKKKKKKKKKKKKKK 971
            + K++K++ ++   KK  +K KK   D +    +   +  + + K+  KKKKKKKKKKK
Sbjct: 8   NEVKQQKQQNKQKGTKKKNKKSKKDVDDDDAFLAELISENQEAENKQNNKKKKKKKKKKK 67

Query: 972 KKKEAEKMKKKTEEAEK 988
           KK   E      +    
Sbjct: 68  KKNLGEAYDLAYDLPVV 84

Length = 470

>gnl|CDD|220838 pfam10659, Trypan_glycop_C, Trypanosome variant surface glycoprotein C-terminal domain

 Score = 38.6 bits (90), Expect = 0.002
 Identities = 22/63 (34%), Positives = 25/63 (39%)

Query: 913 KKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKKKKKKKKKKKKKKKK 972
           K K K +  EK  K    E   K K    K KK GA        +   +K K KK KK  
Sbjct: 4   KNKTKTECKEKGCKWDKKEDDGKCKPKEGKAKKNGAPVTQTAGTETTTEKCKGKKDKKDC 63

Query: 973 KKE 975
           KK 
Sbjct: 64  KKG 66

The trypanosome parasite expresses these proteins to evade the immune response. Length = 98

>gnl|CDD|236978 PRK11778, PRK11778, putative inner membrane peptidase; Provisional

 Score = 41.4 bits (98), Expect = 0.002
 Identities = 16/62 (25%), Positives = 34/62 (54%)

Query: 921 AEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKKKKKKKKKKKKKKKKKKEAEKMK 980
           A++ + +KG  ++    +  ++MK++    +  KK+ K   K +KKK+K++ K    K K
Sbjct: 30  AQRKKSQKGELEVTNLNEQYKEMKEELKAALLDKKELKAWHKAQKKKEKQEAKAAKAKSK 89

Query: 981 KK 982
            +
Sbjct: 90  PR 91

Length = 330

>gnl|CDD|202833 pfam03962, Mnd1, Mnd1 family

 Score = 40.3 bits (95), Expect = 0.002
 Identities = 23/89 (25%), Positives = 47/89 (52%), Gaps = 5/89 (5%)

Query: 900 TRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKKK 959
              K K   EK+ KK+ ++ +      +   EK+KK +++ E    +  E + + K+ +K
Sbjct: 63  ALNKLKTRLEKL-KKELEELKQRIAELQAQIEKLKKGREETE----ERTELLEELKQLEK 117

Query: 960 KKKKKKKKKKKKKKKEAEKMKKKTEEAEK 988
           + KK K + +K +K + E+++K  EE + 
Sbjct: 118 ELKKLKAELEKYEKNDPERIEKLKEETKV 146

This family of proteins includes MND1 from S. cerevisiae. The mnd1 protein forms a complex with hop2 to promote homologous chromosome pairing and meiotic double-strand break repair. Length = 188

>gnl|CDD|226889 COG4487, COG4487, Uncharacterized protein conserved in bacteria [Function unknown]

 Score = 41.3 bits (97), Expect = 0.002
 Identities = 19/86 (22%), Positives = 44/86 (51%), Gaps = 3/86 (3%)

Query: 905 KKGAEKIRKKKKKKKEAEKMR---KKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKKKKK 961
           +  AE I KK++  K  E+++   +KK  E ++ +++  E+   +    +  K+ +++++
Sbjct: 135 QNTAEIIEKKRENNKNEERLKFENEKKLEESLELEREKFEEQLHEANLDLEFKENEEQRE 194

Query: 962 KKKKKKKKKKKKKEAEKMKKKTEEAE 987
            K    KK K++ E    + + E  E
Sbjct: 195 SKWAILKKLKRRAELGSQQVQGEALE 220

Length = 438

>gnl|CDD|219868 pfam08496, Peptidase_S49_N, Peptidase family S49 N-terminal

 Score = 39.4 bits (93), Expect = 0.002
 Identities = 20/69 (28%), Positives = 33/69 (47%), Gaps = 2/69 (2%)

Query: 914 KKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKKKKKKKKKKKKKKKKK 973
            +KKK +  ++      E+ K  K+  E       E   K  +K +KK +K K K +KKK
Sbjct: 32  AQKKKGKKGELEITDLNEEYKDLKESLEAALLDKKEL--KAWEKAEKKAEKAKAKAEKKK 89

Query: 974 KEAEKMKKK 982
            + E+ K +
Sbjct: 90  AKKEEPKPR 98

This domain is found to the N-terminus of bacterial signal peptidases of the S49 family (pfam01343). Length = 154

>gnl|CDD|177089 CHL00189, infB, translation initiation factor 2; Provisional

 Score = 41.7 bits (98), Expect = 0.002
 Identities = 22/94 (23%), Positives = 41/94 (43%), Gaps = 1/94 (1%)

Query: 896 RKKRTRRKKKKGAEKIRKK-KKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKK 954
           +K +   K     +  + K K+KKK  +K+      +     K ++++     A  + +K
Sbjct: 58  KKNKKFNKTDDLKDSKKTKLKQKKKIKKKLHIDDDYDNFFDSKNNSKQFAGPLAISLMRK 117

Query: 955 KKKKKKKKKKKKKKKKKKKKEAEKMKKKTEEAEK 988
            K K +K KKK    K   K+ +K+    +E  K
Sbjct: 118 PKPKTEKLKKKITVNKSTNKKKKKVLSSKDELIK 151

Length = 742

>gnl|CDD|235971 PRK07219, PRK07219, DNA topoisomerase I; Validated

 Score = 41.5 bits (98), Expect = 0.002
 Identities = 14/62 (22%), Positives = 22/62 (35%), Gaps = 5/62 (8%)

Query: 912 RKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKKKKKKKKKKKKKKK 971
            K+KK+K+   ++   KG        K AEK+K  G E +             K      
Sbjct: 766 EKQKKEKESKSELEALKGVGA-----KTAEKLKDAGVETVTDLTAADPDAVAAKVDGVSA 820

Query: 972 KK 973
            +
Sbjct: 821 DR 822

Length = 822

>gnl|CDD|217023 pfam02414, Borrelia_orfA, Borrelia ORF-A

 Score = 40.8 bits (96), Expect = 0.002
 Identities = 30/88 (34%), Positives = 38/88 (43%), Gaps = 3/88 (3%)

Query: 904 KKKGAEKIRKK-KKKKKEAEKMRKKKGAEKMKKKKKDAEK--MKKKGAEKIGKKKKKKKK 960
           KK+  E I K  K+KK E  K R     +K   K    EK          I KK K++ K
Sbjct: 89  KKECYEIINKYFKEKKIERFKKRVNAYFKKKSNKNGSVEKNECINNKNNVINKKIKEESK 148

Query: 961 KKKKKKKKKKKKKKEAEKMKKKTEEAEK 988
           KK  K  +K K KK  +K   KT   + 
Sbjct: 149 KKNSKNIEKLKIKKYFKKCNFKTNLKKD 176

This protein is encoded by an open reading frame in plasmid borne DNA repeats of Borrelia species. This protein is known as ORF-A. The function of this putative protein is unknown. Length = 285

>gnl|CDD|220648 pfam10243, MIP-T3, Microtubule-binding protein MIP-T3

 Score = 41.0 bits (96), Expect = 0.003
 Identities = 17/67 (25%), Positives = 38/67 (56%)

Query: 922 EKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKKKKKKKKKKKKKKKKKKEAEKMKK 981
            K+   +  ++++K        K K A++   +  K+++K+K++ K++KKKKKE  K + 
Sbjct: 69  SKLSSDEAVKRVEKGGSKGPAAKTKPAKEPKNESGKEEEKEKEQVKEEKKKKKEKPKEEP 128

Query: 982 KTEEAEK 988
           K  + ++
Sbjct: 129 KDRKPKE 135

This protein, which interacts with both microtubules and TRAF3 (tumour necrosis factor receptor-associated factor 3), is conserved from worms to humans. The N-terminal region is the microtubule binding domain and is well-conserved; the C-terminal 100 residues, also well-conserved, constitute the coiled-coil region which binds to TRAF3. The central region of the protein is rich in lysine and glutamic acid and carries KKE motifs which may also be necessary for tubulin-binding, but this region is the least well-conserved. Length = 506

>gnl|CDD|220648 pfam10243, MIP-T3, Microtubule-binding protein MIP-T3

 Score = 41.0 bits (96), Expect = 0.003
 Identities = 20/94 (21%), Positives = 46/94 (48%), Gaps = 4/94 (4%)

Query: 896 RKKRTRRKKKKG--AEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGK 953
            K++ ++ ++     E+ ++++ + K   K   KK      KKK+  E+ K++ A +   
Sbjct: 147 EKEKEKKVEEPRDREEEKKRERVRAKSRPKKPPKKKPP--NKKKEPPEEEKQRQAAREAV 204

Query: 954 KKKKKKKKKKKKKKKKKKKKKEAEKMKKKTEEAE 987
           K K ++    ++++K++   K+ E      EE E
Sbjct: 205 KGKPEEPDVNEEREKEEDDGKDRETTTSPMEEDE 238

This protein, which interacts with both microtubules and TRAF3 (tumour necrosis factor receptor-associated factor 3), is conserved from worms to humans. The N-terminal region is the microtubule binding domain and is well-conserved; the C-terminal 100 residues, also well-conserved, constitute the coiled-coil region which binds to TRAF3. The central region of the protein is rich in lysine and glutamic acid and carries KKE motifs which may also be necessary for tubulin-binding, but this region is the least well-conserved. Length = 506

>gnl|CDD|235640 PRK05901, PRK05901, RNA polymerase sigma factor; Provisional

 Score = 40.7 bits (96), Expect = 0.003
 Identities = 21/96 (21%), Positives = 32/96 (33%), Gaps = 20/96 (20%)

Query: 913 KKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKK--------------- 957
           K +   +E  K + KK A K K K    ++  K+  E   K  ++               
Sbjct: 7   KAELAAEEEAKKKLKKLAAKSKSKGFITKEEIKEALESKKKTPEQIDQVLIFLSGMVKDT 66

Query: 958 -----KKKKKKKKKKKKKKKKKEAEKMKKKTEEAEK 988
                    KKK K   K    +A   KK  +E + 
Sbjct: 67  DDATESDIPKKKTKTAAKAAAAKAPAKKKLKDELDS 102

Length = 509

>gnl|CDD|219655 pfam07946, DUF1682, Protein of unknown function (DUF1682)

 Score = 40.7 bits (96), Expect = 0.003
 Identities = 17/63 (26%), Positives = 40/63 (63%)

Query: 926 KKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKKKKKKKKKKKKKKKKKKEAEKMKKKTEE 985
             +   K+ K +++ E+   K AE+  +++ ++KK++KKK++++ K  K + + ++K EE
Sbjct: 254 SPEVLRKVDKTREEEEEKILKAAEEERQEEAQEKKEEKKKEEREAKLAKLSPEEQRKLEE 313

Query: 986 AEK 988
            E+
Sbjct: 314 KER 316

The members of this family are all hypothetical eukaryotic proteins of unknown function. One member is described as being an adipocyte-specific protein, but no evidence of this was found. Length = 322

>gnl|CDD|220383 pfam09756, DDRGK, DDRGK domain

 Score = 39.7 bits (93), Expect = 0.003
 Identities = 19/75 (25%), Positives = 54/75 (72%), Gaps = 5/75 (6%)

Query: 914 KKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKKKKKKKKKKKKKKKKK 973
           KK   K+  K+ +K+     ++++++AE+ +++  +K+ ++K++ ++K++++ +++++KK
Sbjct: 1   KKIGAKKRAKLEEKQA----RRQQREAEEEEREERKKL-EEKREGERKEEEELEEEREKK 55

Query: 974 KEAEKMKKKTEEAEK 988
           KE E+ K++ E+A K
Sbjct: 56  KEEEERKEREEQARK 70

This is a family of proteins of approximately 300 residues, found in plants and vertebrates. They contain a highly conserved DDRGK motif. Length = 189

>gnl|CDD|184900 PRK14907, rplD, 50S ribosomal protein L4; Provisional

 Score = 40.3 bits (94), Expect = 0.003
 Identities = 21/82 (25%), Positives = 32/82 (39%), Gaps = 3/82 (3%)

Query: 910 KIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKKKKKKKKKKKKK 969
               KK  KK+  + +K    +    K+    K   K       KK  K KK K  K   
Sbjct: 1   MAETKKTTKKKTTEEKKPAAKKATTSKETAKTKKTAKTTSTKAAKKAAKVKKTKSVKTTT 60

Query: 970 KK---KKKEAEKMKKKTEEAEK 988
           KK   K ++ E +KK++   + 
Sbjct: 61  KKVTVKFEKTESVKKESVAKKT 82

Length = 295

>gnl|CDD|217051 pfam02463, SMC_N, RecF/RecN/SMC N terminal domain

 Score = 41.1 bits (96), Expect = 0.003
 Identities = 24/104 (23%), Positives = 49/104 (47%), Gaps = 8/104 (7%)

Query: 893 ILFRKKRTRRKKKKG--------AEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMK 944
               KK    ++K          AE+  K +K K E EK  K K  E+  +  ++  K +
Sbjct: 755 KSRLKKEEEEEEKSELSLKEKELAEEEEKTEKLKVEEEKEEKLKAQEEELRALEEELKEE 814

Query: 945 KKGAEKIGKKKKKKKKKKKKKKKKKKKKKKEAEKMKKKTEEAEK 988
            +  E+     ++++K K+++ ++   + KE +K++K  EE  +
Sbjct: 815 AELLEEEQLLIEQEEKIKEEELEELALELKEEQKLEKLAEEELE 858

This domain is found at the N terminus of SMC proteins. The SMC (structural maintenance of chromosomes) superfamily proteins have ATP-binding domains at the N- and C-termini, and two extended coiled-coil domains separated by a hinge in the middle. The eukaryotic SMC proteins form two kind of heterodimers: the SMC1/SMC3 and the SMC2/SMC4 types. These heterodimers constitute an essential part of higher order complexes, which are involved in chromatin and DNA dynamics. This family also includes the RecF and RecN proteins that are involved in DNA metabolism and recombination. Length = 1162

>gnl|CDD|217051 pfam02463, SMC_N, RecF/RecN/SMC N terminal domain

 Score = 41.1 bits (96), Expect = 0.003
 Identities = 17/88 (19%), Positives = 46/88 (52%)

Query: 901 RRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKKKK 960
             K +K   +  K++K K + E++R  +   K + +  + E++  +  EKI +++ ++  
Sbjct: 781 EEKTEKLKVEEEKEEKLKAQEEELRALEEELKEEAELLEEEQLLIEQEEKIKEEELEELA 840

Query: 961 KKKKKKKKKKKKKKEAEKMKKKTEEAEK 988
            + K+++K +K  +E  +  ++    E+
Sbjct: 841 LELKEEQKLEKLAEEELERLEEEITKEE 868

This domain is found at the N terminus of SMC proteins. The SMC (structural maintenance of chromosomes) superfamily proteins have ATP-binding domains at the N- and C-termini, and two extended coiled-coil domains separated by a hinge in the middle. The eukaryotic SMC proteins form two kind of heterodimers: the SMC1/SMC3 and the SMC2/SMC4 types. These heterodimers constitute an essential part of higher order complexes, which are involved in chromatin and DNA dynamics. This family also includes the RecF and RecN proteins that are involved in DNA metabolism and recombination. Length = 1162

>gnl|CDD|217051 pfam02463, SMC_N, RecF/RecN/SMC N terminal domain

 Score = 41.1 bits (96), Expect = 0.003
 Identities = 18/91 (19%), Positives = 53/91 (58%)

Query: 898 KRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKK 957
            + +  + K  E+++  ++K KE E+  +K   +K +++++ +E   K+      ++K +
Sbjct: 726 DKVQEAQDKINEELKLLEQKIKEKEEEEEKSRLKKEEEEEEKSELSLKEKELAEEEEKTE 785

Query: 958 KKKKKKKKKKKKKKKKKEAEKMKKKTEEAEK 988
           K K +++K++K K +++E   ++++ +E  +
Sbjct: 786 KLKVEEEKEEKLKAQEEELRALEEELKEEAE 816

This domain is found at the N terminus of SMC proteins. The SMC (structural maintenance of chromosomes) superfamily proteins have ATP-binding domains at the N- and C-termini, and two extended coiled-coil domains separated by a hinge in the middle. The eukaryotic SMC proteins form two kind of heterodimers: the SMC1/SMC3 and the SMC2/SMC4 types. These heterodimers constitute an essential part of higher order complexes, which are involved in chromatin and DNA dynamics. This family also includes the RecF and RecN proteins that are involved in DNA metabolism and recombination. Length = 1162

>gnl|CDD|235175 PRK03918, PRK03918, chromosome segregation protein; Provisional

 Score = 41.2 bits (97), Expect = 0.003
 Identities = 23/97 (23%), Positives = 55/97 (56%), Gaps = 7/97 (7%)

Query: 896 RKKRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKK 955
           R  R   +     E+I++ ++K++  E+++KK   ++++K+ ++ E+  +   E+   KK
Sbjct: 315 RLSRLEEEINGIEERIKELEEKEERLEELKKKL--KELEKRLEELEERHEL-YEEAKAKK 371

Query: 956 KKKKKKKKKKK----KKKKKKKKEAEKMKKKTEEAEK 988
           ++ ++ KK+      +K +K+ +E EK K++ EE   
Sbjct: 372 EELERLKKRLTGLTPEKLEKELEELEKAKEEIEEEIS 408

Length = 880

>gnl|CDD|218177 pfam04615, Utp14, Utp14 protein

 Score = 41.2 bits (97), Expect = 0.003
 Identities = 22/106 (20%), Positives = 38/106 (35%), Gaps = 14/106 (13%)

Query: 896 RKKRTRRKKKKGAEKIRKKKKKKKEA-------------EKMRKKKGAEKMKKKKKDAEK 942
             K  +   K      + +K++++E                   KK   K K   K  + 
Sbjct: 464 EAKVEKVANKLLKRSEKAQKEEEEEELDEENPWLKTTSSVGKSAKKQDSKKKSSSKLDKA 523

Query: 943 MKKKGAEKIGKKKKKKKKKKKKKKKKKKKKKKEAEKMKKKTEEAEK 988
             K  ++   K KKKKKK+K          ++++ K+    EE E 
Sbjct: 524 ANKI-SKAAVKVKKKKKKEKSIDLDDDLIDEEDSIKLDVDDEEDED 568

This protein is found to be part of a large ribonucleoprotein complex containing the U3 snoRNA. Depletion of the Utp proteins impedes production of the 18S rRNA, indicating that they are part of the active pre-rRNA processing complex. This large RNP complex has been termed the small subunit (SSU) processome. Length = 728

>gnl|CDD|185429 PTZ00074, PTZ00074, 60S ribosomal protein L34; Provisional

 Score = 38.5 bits (90), Expect = 0.003
 Identities = 19/37 (51%), Positives = 27/37 (72%)

Query: 942 KMKKKGAEKIGKKKKKKKKKKKKKKKKKKKKKKEAEK 978
           K+ K+  ++  K+KK+KKKKKKKKKKK  KK  + +K
Sbjct: 99  KIVKQVLKEKAKQKKQKKKKKKKKKKKTSKKAAKKKK 135

Length = 135

>gnl|CDD|235322 PRK04950, PRK04950, ProP expression regulator; Provisional

 Score = 39.9 bits (94), Expect = 0.003
 Identities = 16/72 (22%), Positives = 31/72 (43%), Gaps = 6/72 (8%)

Query: 913 KKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKKKKKKKKKKKKKKKK 972
           K K + + AE+  KK+ A   K+K    E+  K       K  +KK+K + +K + +   
Sbjct: 107 KAKVQAQRAEQQAKKREAAGEKEKAPRRERKPKP------KAPRKKRKPRAQKPEPQHTP 160

Query: 973 KKEAEKMKKKTE 984
             +  ++     
Sbjct: 161 VSDISELTVGQA 172

Length = 213

>gnl|CDD|234750 PRK00409, PRK00409, recombination and DNA strand exchange inhibitor protein; Reviewed

 Score = 41.4 bits (98), Expect = 0.003
 Identities = 28/96 (29%), Positives = 52/96 (54%), Gaps = 12/96 (12%)

Query: 897 KKRTRRKKKKGAEKIRK----KKKKKKEAEKMRK------KKGAEKMKKKKKDAEKMKKK 946
            K   + K++  EK  K    + K  +EAEK  +      KK A+++ K+ +  +K    
Sbjct: 543 LKEAEKLKEELEEKKEKLQEEEDKLLEEAEKEAQQAIKEAKKEADEIIKELRQLQKGGYA 602

Query: 947 G--AEKIGKKKKKKKKKKKKKKKKKKKKKKEAEKMK 980
              A ++ + +K+  K  +KK+KKKKK+K++ E++K
Sbjct: 603 SVKAHELIEARKRLNKANEKKEKKKKKQKEKQEELK 638

Length = 782

>gnl|CDD|217884 pfam04086, SRP-alpha_N, Signal recognition particle, alpha subunit, N-terminal

 Score = 40.5 bits (95), Expect = 0.003
 Identities = 23/111 (20%), Positives = 37/111 (33%), Gaps = 23/111 (20%)

Query: 895 FRKKRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMK---------- 944
            +K+    K  +  E+ +K KK      + + K+   K K++KK  E             
Sbjct: 101 SKKQAKSPKAMRTFEESKKSKKTVDSMIERKPKEPGLKRKQRKKAQESATSPESSPSSTP 160

Query: 945 -------------KKGAEKIGKKKKKKKKKKKKKKKKKKKKKKEAEKMKKK 982
                        K+G  +  KK  K         +K  K K   +K  KK
Sbjct: 161 NSSRPSTPHLLKAKEGPSRRAKKAAKLSSTASSGDEKSPKSKAAPKKAGKK 211

SRP is a complex of six distinct polypeptides and a 7S RNA that is essential for transferring nascent polypeptide chains that are destined for export from the cell to the translocation apparatus of the endoplasmic reticulum (ER) membrane. SRP binds hydrophobic signal sequences as they emerge from the ribosome, and arrests translation. Length = 272

>gnl|CDD|220838 pfam10659, Trypan_glycop_C, Trypanosome variant surface glycoprotein C-terminal domain

 Score = 37.8 bits (88), Expect = 0.003
 Identities = 15/55 (27%), Positives = 24/55 (43%)

Query: 934 KKKKKDAEKMKKKGAEKIGKKKKKKKKKKKKKKKKKKKKKKEAEKMKKKTEEAEK 988
            KK K   + K+KG +   K+   K K K+ K KK      +    +  TE+ + 
Sbjct: 2   NKKNKTKTECKEKGCKWDKKEDDGKCKPKEGKAKKNGAPVTQTAGTETTTEKCKG 56

The trypanosome parasite expresses these proteins to evade the immune response. Length = 98

>gnl|CDD|220838 pfam10659, Trypan_glycop_C, Trypanosome variant surface glycoprotein C-terminal domain

 Score = 37.8 bits (88), Expect = 0.003
 Identities = 23/67 (34%), Positives = 30/67 (44%), Gaps = 1/67 (1%)

Query: 909 EKIRKKKKKKKEAE-KMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKKKKKKKKKKK 967
            K  K K + KE   K  KK+   K K K+  A+K      +  G +   +K K KK KK
Sbjct: 2   NKKNKTKTECKEKGCKWDKKEDDGKCKPKEGKAKKNGAPVTQTAGTETTTEKCKGKKDKK 61

Query: 968 KKKKKKK 974
             KK  K
Sbjct: 62  DCKKGCK 68

The trypanosome parasite expresses these proteins to evade the immune response. Length = 98

>gnl|CDD|235971 PRK07219, PRK07219, DNA topoisomerase I; Validated

 Score = 41.5 bits (98), Expect = 0.003
 Identities = 15/80 (18%), Positives = 27/80 (33%), Gaps = 5/80 (6%)

Query: 907 GAEKIRKKKKKKKEAE--KMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKKKKKKKK 964
           G   +R K     E       K    EK KK+K+   +++     K    K  +K K   
Sbjct: 740 GLPLLRVKGGFGDELGCCNNPKCNYTEKQKKEKESKSELEA---LKGVGAKTAEKLKDAG 796

Query: 965 KKKKKKKKKKEAEKMKKKTE 984
            +        + + +  K +
Sbjct: 797 VETVTDLTAADPDAVAAKVD 816

Length = 822

>gnl|CDD|225620 COG3078, COG3078, Uncharacterized protein conserved in bacteria [Function unknown]

 Score = 39.4 bits (92), Expect = 0.003
 Identities = 29/106 (27%), Positives = 48/106 (45%), Gaps = 16/106 (15%)

Query: 896 RKKRTRRKKKKGAEKIRKKKKKKKEAE-----KMRKKKGAEKMKKKKKDAEKMKKKGAE- 949
           R K+TRR + K  +K R+K +++ +AE     + +K+KG     +     E    K    
Sbjct: 3   RSKKTRRPRSKADKKARRKTREELDAEARDRKRQKKRKGLASGSRHSGGNENSGNKQQNQ 62

Query: 950 ----KIGKKKK------KKKKKKKKKKKKKKKKKKEAEKMKKKTEE 985
               +IG KK       +K  K+ K K +K K   +AE    + +E
Sbjct: 63  KKDPRIGSKKPIPLGVTEKVTKQHKPKSEKPKLSPQAELELLENDE 108

Length = 169

>gnl|CDD|221857 pfam12923, RRP7, Ribosomal RNA-processing protein 7 (RRP7)

 Score = 38.7 bits (91), Expect = 0.003
 Identities = 20/79 (25%), Positives = 41/79 (51%), Gaps = 7/79 (8%)

Query: 891 GFILFRKKRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGA-----EKMKKKKKDAEKMKK 945
           G+    +   +RK      K  ++++K KE +K +KK+       +  +KKK++  +++K
Sbjct: 51  GWTTVTRGGRKRKAGASRNKAAEERRKLKEKKKKKKKELENFYRFQIREKKKEELAELRK 110

Query: 946 KGAEKIGKKKKKKKKKKKK 964
           K  E   KK+ ++ K  +K
Sbjct: 111 KFEED--KKRIEQLKAARK 127

RRP7 is an essential protein in yeast that is involved in pre-rRNA processing and ribosome assembly. It is speculated to be required for correct assembly of rpS27 into the pre-ribosomal particle. Length = 131

>gnl|CDD|220371 pfam09736, Bud13, Pre-mRNA-splicing factor of RES complex

 Score = 38.8 bits (91), Expect = 0.003
 Identities = 19/75 (25%), Positives = 37/75 (49%), Gaps = 4/75 (5%)

Query: 896 RKKRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAE----KI 951
           RK+   ++  KG  +  +++K+ +E EK + K  A     +  D E  +++  +    + 
Sbjct: 30  RKEEKEKEWGKGLVQKEEREKRLEELEKAKNKPLARYADDEDYDEELKEQERWDDPMAQF 89

Query: 952 GKKKKKKKKKKKKKK 966
            +KKK+K  KK K  
Sbjct: 90  LRKKKEKTDKKGKPL 104

This entry is characterized by proteins with alternating conserved and low-complexity regions. Bud13 together with Snu17p and a newly identified factor, Pml1p/Ylr016c, form a novel trimeric complex. called The RES complex, pre-mRNA retention and splicing complex. Subunits of this complex are not essential for viability of yeasts but they are required for efficient splicing in vitro and in vivo. Furthermore, inactivation of this complex causes pre-mRNA leakage from the nucleus. Bud13 contains a unique, phylogenetically conserved C-terminal region of unknown function. Length = 141

>gnl|CDD|215214 PLN02381, PLN02381, valyl-tRNA synthetase

 Score = 41.4 bits (97), Expect = 0.003
 Identities = 21/64 (32%), Positives = 33/64 (51%)

Query: 914 KKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKKKKKKKKKKKKKKKKK 973
           +KK   E E  RKKK  EK K+K+    K  +K A+   + ++        KK +KK +K
Sbjct: 9   EKKILTEEELERKKKKEEKAKEKELKKLKAAQKEAKAKLQAQQASDGTNVPKKSEKKSRK 68

Query: 974 KEAE 977
           ++ E
Sbjct: 69  RDVE 72

Length = 1066

>gnl|CDD|224259 COG1340, COG1340, Uncharacterized archaeal coiled-coil protein [Function unknown]

 Score = 40.4 bits (95), Expect = 0.003
 Identities = 21/87 (24%), Positives = 57/87 (65%), Gaps = 3/87 (3%)

Query: 900 TRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKKK 959
           T  ++++  +KI++ +K+ ++A+K  ++   EK+K+ K + +++KKK A +I +K ++  
Sbjct: 129 TPEEERELVQKIKELRKELEDAKKALEEN--EKLKELKAEIDELKKK-AREIHEKIQELA 185

Query: 960 KKKKKKKKKKKKKKKEAEKMKKKTEEA 986
            + ++  ++  K  +EA++++K+ +E 
Sbjct: 186 NEAQEYHEEMIKLFEEADELRKEADEL 212

Length = 294

>gnl|CDD|148820 pfam07432, Hc1, Histone H1-like protein Hc1

 Score = 38.2 bits (88), Expect = 0.003
 Identities = 30/84 (35%), Positives = 40/84 (47%)

Query: 899 RTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKK 958
           RT   K +   K+ +K+  K E   + KKK A+K  K  K  +K  K  A+K      KK
Sbjct: 35  RTDSIKLEKIAKLYRKESIKAEKSGLMKKKPAKKAPKAAKAPKKAAKAPAKKAAAAPAKK 94

Query: 959 KKKKKKKKKKKKKKKKEAEKMKKK 982
            K  K K   KK   K+ +KM KK
Sbjct: 95  AKAVKAKPATKKTAAKKVKKMSKK 118

This family consists of several bacterial histone H1-like Hc1 proteins. In Chlamydia, Hc1 is expressed in the late stages of the life cycle, concomitant with the reorganisation of chlamydial reticulate bodies into elementary bodies. This suggests that Hc1 protein plays a role in the condensation of chromatin during intracellular differentiation. Length = 123

>gnl|CDD|218585 pfam05424, Duffy_binding, Duffy binding domain

 Score = 40.0 bits (94), Expect = 0.003
 Identities = 26/60 (43%), Positives = 34/60 (56%), Gaps = 5/60 (8%)

Query: 934 KKKKKDAEKMKKKGAEKIGKKKKKKKKKK-----KKKKKKKKKKKKEAEKMKKKTEEAEK 988
           +++KK  EK+KKK  EK   K   KK  K     KK KK    KKKE +K KKK ++ +K
Sbjct: 199 RERKKKLEKLKKKCKEKKCNKYCSKKCTKCKNACKKYKKWIDNKKKEWDKQKKKYKKYKK 258

This domain is found in Plasmodium Duffy binding proteins. Plasmodium vivax and Plasmodium knowlesi merozoites invade human erythrocytes that express Duffy blood group surface determinants. The Duffy receptor family is localised in micronemes, an organelle found in all organisms of the phylum Apicomplexa. Length = 276

>gnl|CDD|219563 pfam07767, Nop53, Nop53 (60S ribosomal biogenesis)

 Score = 40.5 bits (95), Expect = 0.004
 Identities = 19/83 (22%), Positives = 45/83 (54%), Gaps = 3/83 (3%)

Query: 907 GAEKIRKKK-KKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKKKKKKKKK 965
                +  + K+K +A++ ++K+   K  +++   EK  KK   ++ + K+  K+  +K+
Sbjct: 266 YEPINKPVRPKRKTKAQRNKEKR--RKELEREAKEEKQLKKKLAQLARLKEIAKEVAQKE 323

Query: 966 KKKKKKKKKEAEKMKKKTEEAEK 988
           K + +KK++  E+ +KK  +  K
Sbjct: 324 KARARKKEQRKERGEKKKLKRRK 346

This nucleolar family of proteins are involved in 60S ribosomal biogenesis. They are specifically involved in the processing beyond the 27S stage of 25S rRNA maturation. This family contains sequences that bear similarity to the glioma tumour suppressor candidate region gene 2 protein (p60). This protein has been found to interact with herpes simplex type 1 regulatory proteins. Length = 387

>gnl|CDD|237753 PRK14552, PRK14552, C/D box methylation guide ribonucleoprotein complex aNOP56 subunit; Provisional

 Score = 40.3 bits (95), Expect = 0.004
 Identities = 23/78 (29%), Positives = 34/78 (43%), Gaps = 32/78 (41%)

Query: 897 KKRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKK 956
            KR    K+K  +  +KK+++KK                                 +K+K
Sbjct: 369 NKRIEEIKEKYPKPPKKKREEKKP--------------------------------QKRK 396

Query: 957 KKKKKKKKKKKKKKKKKK 974
           KKKK+KKK KK+KKK +K
Sbjct: 397 KKKKRKKKGKKRKKKGRK 414

Length = 414

>gnl|CDD|220271 pfam09507, CDC27, DNA polymerase subunit Cdc27

 Score = 40.2 bits (94), Expect = 0.004
 Identities = 16/92 (17%), Positives = 32/92 (34%), Gaps = 3/92 (3%)

Query: 897 KKRTRRKKKKGAEKIRKKKKKKKEAEK---MRKKKGAEKMKKKKKDAEKMKKKGAEKIGK 953
            K T  +K +G   ++    K+   +K   M      +  +KK+K          E   +
Sbjct: 188 SKETTTEKTEGKTSVKAASLKRNPPKKSNIMSSFFKKKTKEKKEKKEASESTVKEESEEE 247

Query: 954 KKKKKKKKKKKKKKKKKKKKKEAEKMKKKTEE 985
             K+    + +  +     + E E   K + E
Sbjct: 248 SGKRDVILEDESAEPTGLDEDEDEDEPKPSGE 279

This protein forms the C subunit of DNA polymerase delta. It carries the essential residues for binding to the Pol1 subunit of polymerase alpha, from residues 293-332, which are characterized by the motif D--G--VT, referred to as the DPIM motif. The first 160 residues of the protein form the minimal domain for binding to the B subunit, Cdc1, of polymerase delta, the final 10 C-terminal residues, 362-372, being the DNA sliding clamp, PCNA, binding motif. Length = 427

>gnl|CDD|236048 PRK07561, PRK07561, DNA topoisomerase I subunit omega; Validated

 Score = 40.5 bits (96), Expect = 0.004
 Identities = 12/47 (25%), Positives = 18/47 (38%), Gaps = 3/47 (6%)

Query: 940 AEKMKKKGAEKIGKKKKKKKKKKKKKKKKKKKKKKEAEKMKKKTEEA 986
           AEK +K    +       K    KK   K  +K K+     +K  +A
Sbjct: 815 AEKPEKL---RYLADAPAKDPAGKKAAVKFSRKTKQQYVASEKDGKA 858

Length = 859

>gnl|CDD|220371 pfam09736, Bud13, Pre-mRNA-splicing factor of RES complex

 Score = 38.4 bits (90), Expect = 0.004
 Identities = 22/96 (22%), Positives = 47/96 (48%), Gaps = 19/96 (19%)

Query: 897 KKRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKG---AEKMKKKKKDAEKMKKKG------ 947
           +     +K++  ++  K++K++KE ++    KG    E+ +K+ ++ EK K K       
Sbjct: 10  RIIDIEEKRE-EKEREKEEKERKEEKEKEWGKGLVQKEEREKRLEELEKAKNKPLARYAD 68

Query: 948 AEKIGKKKKKKKK---------KKKKKKKKKKKKKK 974
            E   ++ K++++         +KKK+K  KK K  
Sbjct: 69  DEDYDEELKEQERWDDPMAQFLRKKKEKTDKKGKPL 104

This entry is characterized by proteins with alternating conserved and low-complexity regions. Bud13 together with Snu17p and a newly identified factor, Pml1p/Ylr016c, form a novel trimeric complex. called The RES complex, pre-mRNA retention and splicing complex. Subunits of this complex are not essential for viability of yeasts but they are required for efficient splicing in vitro and in vivo. Furthermore, inactivation of this complex causes pre-mRNA leakage from the nucleus. Bud13 contains a unique, phylogenetically conserved C-terminal region of unknown function. Length = 141

>gnl|CDD|173965 cd08045, TAF4, TATA Binding Protein (TBP) Associated Factor 4 (TAF4) is one of several TAFs that bind TBP and is involved in forming Transcription Factor IID (TFIID) complex

 Score = 39.6 bits (93), Expect = 0.004
 Identities = 26/92 (28%), Positives = 50/92 (54%), Gaps = 12/92 (13%)

Query: 878 VNDDVRREAVTALGFILFRKKRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKK 937
           +  DVR++    L F L + +R   +K+   E+ R  +  K  +E+ R K+ A++M  +K
Sbjct: 108 ITSDVRKQ----LRF-LEQLEREEEEKRDEEERERLLRAAKSRSEQSRLKQKAKEM--QK 160

Query: 938 KDAEKMKKKGAE-----KIGKKKKKKKKKKKK 964
           ++ E+M+ + A       IG +KKKK++   +
Sbjct: 161 EEDEEMRHRAANATALAAIGGRKKKKRRITMR 192

The TATA Binding Protein (TBP) Associated Factor 4 (TAF4) is one of several TAFs that bind TBP and are involved in forming the Transcription Factor IID (TFIID) complex. TFIID is one of seven General Transcription Factors (GTF) (TFIIA, TFIIB, TFIID, TFIIE, TFIIF, and TFIID) that are involved in accurate initiation of transcription by RNA polymerase II in eukaryote. TFIID plays an important role in the recognition of promoter DNA and assembly of the pre-initiation complex. TFIID complex is composed of the TBP and at least 13 TAFs. TAFs from various species were originally named by their predicted molecular weight or their electrophoretic mobility in polyacrylamide gels. A new, unified nomenclature for the pol II TAFs has been suggested to show the relationship between TAF orthologs and paralogs. Several hypotheses are proposed for TAFs functions such as serving as activator-binding sites, core-promoter recognition or a role in essential catalytic activity. Each TAF, with the help of a specific activator, is required only for the expression of subset of genes and is not universally involved for transcription as are GTFs. In yeast and human cells, TAFs have been found as components of other complexes besides TFIID. Several TAFs interact via histone-fold (HFD) motifs; HFD is the interaction motif involved in heterodimerization of the core histones and their assembly into nucleosome octamers. The minimal HFD contains three alpha-helices linked by two loops and is found in core histones, TAFS and many other transcription factors. TFIID has a histone octamer-like substructure. TAF4 domain interacts with TAF12 and makes a novel histone-like heterodimer that binds DNA and has a core promoter function of a subset of genes. Length = 212

>gnl|CDD|235778 PRK06319, PRK06319, DNA topoisomerase I/SWI domain fusion protein; Validated

 Score = 40.6 bits (95), Expect = 0.004
 Identities = 22/51 (43%), Positives = 24/51 (47%), Gaps = 2/51 (3%)

Query: 926 KKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKKKKKKKKKKKKKKKKKKEA 976
           K  G  K   +KK   K KKK A   GK  K  KKK K K KK  KK+   
Sbjct: 738 KYAGTPKTPYEKK--TKAKKKSASTKGKAAKTVKKKSKAKSKKTTKKRAGP 786

Length = 860

>gnl|CDD|227577 COG5252, COG5252, Uncharacterized conserved protein, contains CCCH-type Zn-finger protein [General function prediction only]

 Score = 40.1 bits (93), Expect = 0.004
 Identities = 24/74 (32%), Positives = 39/74 (52%), Gaps = 9/74 (12%)

Query: 924 MRKKKGAEKMKKKKKDAEK-MKKKGAEK-IGKKKKKKKKKKKKKKK-------KKKKKKK 974
           M  KK A+K ++  K A + M+K+  +K  G K K +  K +   K       K++ +KK
Sbjct: 1   MPPKKMAKKQQESGKKATRDMRKELEDKTFGLKNKNRSTKVQAIIKQIETLNLKEQLEKK 60

Query: 975 EAEKMKKKTEEAEK 988
           E  +M++K  E EK
Sbjct: 61  EKMRMEEKRREPEK 74

Length = 299

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	988
KOG2062|consensus	929		100.0
KOG2062|consensus	929		100.0
COG5116	926	RPN2 26S proteasome regulatory complex component [	100.0
KOG2005|consensus	878		100.0
COG5116	926	RPN2 26S proteasome regulatory complex component [	100.0
COG5110	881	RPN1 26S proteasome regulatory complex component [	100.0
KOG2005|consensus	878		100.0
COG5110	881	RPN1 26S proteasome regulatory complex component [	100.0
PRK09687	280	putative lyase; Provisional	98.73
PRK09687	280	putative lyase; Provisional	98.63
PLN03200	2102	cellulose synthase-interactive protein; Provisiona	98.33
PRK13800	897	putative oxidoreductase/HEAT repeat-containing pro	98.19
KOG1858|consensus	1496		98.15
PRK13800	897	putative oxidoreductase/HEAT repeat-containing pro	98.06
PF01851	35	PC_rep: Proteasome/cyclosome repeat; InterPro: IPR	98.04
PF01851	35	PC_rep: Proteasome/cyclosome repeat; InterPro: IPR	97.68
TIGR02270	410	conserved hypothetical protein. Members are found	97.44
KOG2002|consensus	1018		97.38
KOG1858|consensus	1496		97.37
KOG4364|consensus	811		97.24
TIGR02270	410	conserved hypothetical protein. Members are found	96.56
COG1413	335	FOG: HEAT repeat [Energy production and conversion	96.5
PLN03200	2102	cellulose synthase-interactive protein; Provisiona	96.35
COG1413	335	FOG: HEAT repeat [Energy production and conversion	95.93
PF13646	88	HEAT_2: HEAT repeats; PDB: 1OYZ_A 3FGA_A 2PF4_C 2I	95.82
PF13646	88	HEAT_2: HEAT repeats; PDB: 1OYZ_A 3FGA_A 2PF4_C 2I	95.75
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	95.58
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	95.3
KOG2572|consensus	498		94.12
KOG1824|consensus	1233		93.47
PTZ00121	2084	MAEBL; Provisional	93.15
KOG0166|consensus	514		92.35
PF01602	526	Adaptin_N: Adaptin N terminal region; InterPro: IP	92.27
PF01602	526	Adaptin_N: Adaptin N terminal region; InterPro: IP	92.09
smart00638	574	LPD_N Lipoprotein N-terminal Domain.	91.98
KOG2573|consensus	498		91.58
PTZ00266	1021	NIMA-related protein kinase; Provisional	90.66
KOG2573|consensus	498		90.41
KOG2171|consensus	1075		90.39
KOG0166|consensus	514		90.19
KOG1144|consensus	1064		90.07
PRK11788	389	tetratricopeptide repeat protein; Provisional	89.98
PTZ00121	2084	MAEBL; Provisional	89.31
PF05004	309	IFRD: Interferon-related developmental regulator (	88.47
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	88.29
KOG1824|consensus	1233		88.2
KOG1943|consensus	1133		87.4
COG5064	526	SRP1 Karyopherin (importin) alpha [Intracellular t	87.32
PF07946	321	DUF1682: Protein of unknown function (DUF1682); In	87.01
KOG0567|consensus	289		86.9
KOG0163|consensus	1259		86.74
KOG2171|consensus	1075		86.15
COG5064	526	SRP1 Karyopherin (importin) alpha [Intracellular t	85.33
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	84.84
PTZ00429	746	beta-adaptin; Provisional	84.76
PF08208	198	RNA_polI_A34: DNA-directed RNA polymerase I subuni	84.38
PF01347	618	Vitellogenin_N: Lipoprotein amino terminal region;	84.02
KOG3809|consensus	583		83.72
KOG1029|consensus	1118		82.97
COG5181	975	HSH155 U2 snRNP spliceosome subunit [RNA processin	82.41
PF07946	321	DUF1682: Protein of unknown function (DUF1682); In	82.22
KOG0112|consensus	975		81.1

>KOG2062|consensus

Probab=100.00  E-value=9.7e-111  Score=958.90  Aligned_cols=516  Identities=50%  Similarity=0.792  Sum_probs=451.5

Q ss_pred             HHHHHHHhcCCCC---Cc---cccCCC---CCCCCCChhhhhhhhhhhhhhcccccChHHHHHHHHHHHHHHhcCCcccH
Q psy6893           3 VFEAAIKQMTPPR---SF---TTRSRW---PCPPFSRVHSALKSCVPWCLAMSSIQSRSFRAQILRTLVRLYHSLSVPDY   73 (988)
Q Consensus         3 ~~~~~~~~~~~~~---~~---~~~~~~---~~~~~~~~~~~L~y~~~~~~~~~~v~~~~fR~~vL~lL~~ly~~~~~pDy   73 (988)
                      ||.+|+. -++.+   |.   |+|+|-   --+++.++..++.|+++  ++|++|+|++||++||+++++.|+.+++|||
T Consensus       137 mi~kcl~-d~e~~~aiGia~E~~rld~ie~Ail~~d~~~~~~~yll~--l~~s~v~~~efR~~vlr~lv~~y~~~~~PDy  213 (929)
T KOG2062|consen  137 MIQKCLD-DNEYKQAIGIAFETRRLDIIEEAILKSDSVIGNLTYLLE--LLISLVNNREFRNKVLRLLVKTYLKLPSPDY  213 (929)
T ss_pred             HHHHhhh-hhHHHHHHhHHhhhhhHHHHHHHhccccccchHHHHHHH--HHHHHHhhHHHHHHHHHHHHHHHccCCCCCe
Confidence            6677776 55555   33   788877   35677788888999999  5599999999999999999999999999999


Q ss_pred             HHHHHHHHHcCChHHHHHHHHHhhcCCCCchhHHHHHHHhhcccccHHHHHHHHHhhcccCCCCCCCccccccCCCCCCC
Q psy6893          74 VNMAQCWIYLDDPRSVANLLGKLVAGSADDDLMAAQIGFDLYESATQAFLASVLQELKTCAPIPDATHVVVKVPVEGAPT  153 (988)
Q Consensus        74 ~~~~qc~~~Lnd~~~va~il~~L~~~~~~~~l~ayQiaFdL~~~~~Q~fl~~v~~~l~~~~~~~~~~~~~~~~~~~~~~~  153 (988)
                      +++|||+++||||+.|+++|.+|++  +++.++||||||||+|+++|+||..|++.|+.+ .                  
T Consensus       214 ~~vc~c~v~Ldd~~~va~ll~kL~~--e~~~llayQIAFDL~esasQefL~~v~~~l~~d-~------------------  272 (929)
T KOG2062|consen  214 FSVCQCYVFLDDAEAVADLLEKLVK--EDDLLLAYQIAFDLYESASQEFLDSVLDRLPAD-D------------------  272 (929)
T ss_pred             eeeeeeeEEcCCHHHHHHHHHHHHh--cchhhhHHHHHHHHhhccCHHHHHHHHHHcccc-c------------------
Confidence            9999999999999999999999998  466899999999999999999999999999742 0                  


Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCCCCCcccchhhHHHHHHHHHHHHhhhcccCccchhhHHHHhhhcccchHHhHHhhh
Q psy6893         154 PATPDTEAPTPAPGTESGPSSTTPGPETKTLESLNEKEKQLQARITKLSKILSGEVSIDLHLQFLIRSNKTDMLILKNTK  233 (988)
Q Consensus       154 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~IL~g~~~~~l~~~fL~~~n~~d~~iL~~~k  233 (988)
                           .        +++                         ..+.++++||+|++++++|++||++||+||+.||+++|
T Consensus       273 -----~--------~de-------------------------~p~~kii~ILSGe~tik~~l~FL~~~N~tD~~iL~~iK  314 (929)
T KOG2062|consen  273 -----A--------RDE-------------------------KPMEKIISILSGEETIKLYLQFLLRHNNTDLLILEEIK  314 (929)
T ss_pred             -----c--------ccc-------------------------ChHHHHHHHhcCchHHHHHHHHHHHcCCchHHHHHHHH
Confidence                 0        000                         01578999999999999999999999999999999999


Q ss_pred             hhhhhhhhhhHHHHHHHhhhccCCcccccccchhHHHhhccchhhHHhhhccceecCChHHHHHHHhcccCCCCCCCCCc
Q psy6893         234 ESIRVSICHTATIIANAFMHSGTTSDQFLRDNLEWLARATNWAKLTATASLGVIHRGHETEALAHMQSYLPRETGPTSGY  313 (988)
Q Consensus       234 ~s~r~s~~~~A~~~~Naf~naG~~~D~fl~~n~~Wl~k~~~~~~~sAtASLG~Ih~~~~~~gl~~l~~yL~s~~~~~~~y  313 (988)
                      +++|+|+||+|++|+|||||+|||+|+|+|+|++|+.|++||+||||||||||||+||..+|+++|.+|||+++++++.|
T Consensus       315 ~s~r~sv~H~A~~iAN~fMh~GTT~D~FlR~NL~WlskAtNWaKFtAtAsLGvIH~G~~~~~~~ll~pYLP~~~~~~s~y  394 (929)
T KOG2062|consen  315 ESVRNSVCHTATLIANAFMHAGTTSDTFLRNNLDWLSKATNWAKFTATASLGVIHRGHENQAMKLLAPYLPKEAGEGSGY  394 (929)
T ss_pred             HHHHHhhhhHHHHHHHHHHhcCCcchHHHHhchhHHhhcchHhhhhhhhhcceeeccccchHHHHhhhhCCccCCCCCCc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999988889999


Q ss_pred             cchhHHHHHhhhccCCCCchhHHHHHHhhhhc--------------------------------CCCchhHHHHHHHHHH
Q psy6893         314 YEGGGLYALGLIHANHGAVINDYLLGQVKDAT--------------------------------NEDDAVTGEAAGIAMG  361 (988)
Q Consensus       314 ~~~GaL~alGli~~g~~~~~~d~l~~lL~~~~--------------------------------~~d~~~~~~aA~lglG  361 (988)
                      ++||||||+||||+||+....+||+..|++..                                ..|+++.|+||++|||
T Consensus       395 ~EGGalyAlGLIhA~hG~~~~~yL~~~Lk~~~~e~v~hG~cLGlGLa~mGSa~~eiYe~lKevLy~D~AvsGEAAgi~MG  474 (929)
T KOG2062|consen  395 KEGGALYALGLIHANHGRGITDYLLQQLKTAENEVVRHGACLGLGLAGMGSANEEIYEKLKEVLYNDSAVSGEAAGIAMG  474 (929)
T ss_pred             cccchhhhhhccccCcCccHHHHHHHHHHhccchhhhhhhhhhccchhcccccHHHHHHHHHHHhccchhhhhHHHHhhh
Confidence            99999999999999999889999988665543                                3699999999999999


Q ss_pred             HhhccCCChhHHHHHHHhhhhcchHHHHHHHHHHHHHHhcCChhhHHHHHHHHhhcchhhhhccchhHHHHHhhhhhhhc
Q psy6893         362 LVLLGSKSESAIQDMVAYAKETQHEKILRGLAVGISFIMYGQLENADDLVRDLCEEKDAILRRSGMYTIAMAYCVSYLYF  441 (988)
Q Consensus       362 L~~~Gs~~~~~~~~L~~~~~dt~~E~~~r~lalgl~~v~~g~~e~a~~li~~L~~~~d~~lr~~~~~~~~l~l~Lgll~~  441 (988)
                      |+|+||.+.+++++|+.|+++||||+|+||+++|++++.||++|.++.+|..|+.++||+||++                
T Consensus       475 l~mlGt~~~eaiedm~~Ya~ETQHeki~RGl~vGiaL~~ygrqe~Ad~lI~el~~dkdpilR~~----------------  538 (929)
T KOG2062|consen  475 LLMLGTANQEAIEDMLTYAQETQHEKIIRGLAVGIALVVYGRQEDADPLIKELLRDKDPILRYG----------------  538 (929)
T ss_pred             hHhhCcCcHHHHHHHHHHhhhhhHHHHHHHHHHhHHHHHhhhhhhhHHHHHHHhcCCchhhhhh----------------
Confidence            9999999999999999999999999999999999999999999999999999999999999997                


Q ss_pred             cccchhhHHhhccchhHHHHHhhhccCCCHHHHHHHHHHhccCCCchhhHHHHHHHHHHhhcCccccccccCCCCchhHH
Q psy6893         442 DLFSDLTYRIVKNRSGMYTIAMAYCGSGSNVATKRLLHVAVSDVNDDVRREAVTALGFILFRTLFYVAPACTRSPWPGVI  521 (988)
Q Consensus       442 g~~~e~~l~~~~~~~~~~~~~~AYaGTGN~~~Iq~LLhi~~s~~~~dvrr~AV~~lg~I~~~~~~~~g~~~~~~~~p~ai  521 (988)
                                     |+|+.++||+||||+.+|++|||++|||++|||||+||++||||++++|         ..+|..+
T Consensus       539 ---------------Gm~t~alAy~GTgnnkair~lLh~aVsD~nDDVrRaAVialGFVl~~dp---------~~~~s~V  594 (929)
T KOG2062|consen  539 ---------------GMYTLALAYVGTGNNKAIRRLLHVAVSDVNDDVRRAAVIALGFVLFRDP---------EQLPSTV  594 (929)
T ss_pred             ---------------hHHHHHHHHhccCchhhHHHhhcccccccchHHHHHHHHHheeeEecCh---------hhchHHH
Confidence                           6779999999999999999999999999999999999999999999999         7889999


Q ss_pred             hhccchhhhhhHhhHHHhhhhcccCCCCchhhHHHHHHHHHhhhccCCchhHHHHHHHHHhcCCchHHHHHhhhhhhhhh
Q psy6893         522 SLLDDPMIELKEFSLKKLNDIVDDFWPENEKEKQLQARITKLSKILSGEVSIDLHLQFLIRSNKTDMLILKNTKESIRVS  601 (988)
Q Consensus       522 ~lL~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~Il~g~~~~~l~l~fL~~~n~tD~~il~~~kds~r~s  601 (988)
                      ++|++.-                                                       |..           +|  
T Consensus       595 ~lLses~-------------------------------------------------------N~H-----------VR--  606 (929)
T KOG2062|consen  595 SLLSESY-------------------------------------------------------NPH-----------VR--  606 (929)
T ss_pred             HHHhhhc-------------------------------------------------------Chh-----------hh--
Confidence            8888322                                                       000           13  


Q ss_pred             hhhhHHHHHHHHhhcCCCchhhhcchhHHHHhhcccchhhhhhhhcccccCChHHHHHHHhhcCCCCCCCCCccchhhHH
Q psy6893         602 ICHTATIIANAFMHSGTTSDQFLRDNLEWLARATNWAKLTATASLGVIHRGHETEALAHMQSYLPRETGPTSGYYEGGGL  681 (988)
Q Consensus       602 ~~h~A~~~ana~~naGt~~D~flr~~~~wl~k~~~w~kfsA~ASLG~Ih~gn~~~~l~~L~~yL~~~~~s~~~~~k~GAL  681 (988)
                         .++.+|.|+.-||||+                                  .+++.+|+|..+    ...+|+|-||+
T Consensus       607 ---yGaA~ALGIaCAGtG~----------------------------------~eAi~lLepl~~----D~~~fVRQgAl  645 (929)
T KOG2062|consen  607 ---YGAAMALGIACAGTGL----------------------------------KEAINLLEPLTS----DPVDFVRQGAL  645 (929)
T ss_pred             ---hhHHHHHhhhhcCCCc----------------------------------HHHHHHHhhhhc----ChHHHHHHHHH
Confidence               2567888888888884                                  157888888874    44579999999


Q ss_pred             HHHhhhccCCchH-------HHHHHHHHhhh-cCchhhHHHHHHhhHhhhcCCCCH
Q psy6893         682 YALGLIHANHGAV-------INDYLLGQVKD-ATNEMVRHGGCLGLGLAAMGSARD  729 (988)
Q Consensus       682 ~AlGlI~ag~~~~-------~~~~Ll~~l~~-s~~~~ir~gA~LGLGla~~Gs~~~  729 (988)
                      .|+++|..-+-+.       ....|...+.+ +.+.....||||+=|+.-+|-+|.
T Consensus       646 Ia~amIm~Q~t~~~~pkv~~frk~l~kvI~dKhEd~~aK~GAilAqGildaGGrNv  701 (929)
T KOG2062|consen  646 IALAMIMIQQTEQLCPKVNGFRKQLEKVINDKHEDGMAKFGAILAQGILDAGGRNV  701 (929)
T ss_pred             HHHHHHHHhcccccCchHHHHHHHHHHHhhhhhhHHHHHHHHHHHhhhhhcCCceE
Confidence            9999997765331       23333322222 123478888888888888887775

>KOG2062|consensus

Probab=100.00  E-value=8.8e-86  Score=753.94  Aligned_cols=317  Identities=65%  Similarity=1.056  Sum_probs=310.7

Q ss_pred             HHHHHhhhccCCchhHHHHHHHHHhcCCchHHHHHhhhhhhhhhhhhhHHHHHHHHhhcCCCchhhhcchhHHHHhhccc
Q psy6893         558 ARITKLSKILSGEVSIDLHLQFLIRSNKTDMLILKNTKESIRVSICHTATIIANAFMHSGTTSDQFLRDNLEWLARATNW  637 (988)
Q Consensus       558 ~~~~~l~~Il~g~~~~~l~l~fL~~~n~tD~~il~~~kds~r~s~~h~A~~~ana~~naGt~~D~flr~~~~wl~k~~~w  637 (988)
                      ..++++++||+|++++++|++||+++|+||+.||+.+|++.|+|+||+|+++||||||+||++|+|+|+|++|+.|++||
T Consensus       277 ~p~~kii~ILSGe~tik~~l~FL~~~N~tD~~iL~~iK~s~r~sv~H~A~~iAN~fMh~GTT~D~FlR~NL~WlskAtNW  356 (929)
T KOG2062|consen  277 KPMEKIISILSGEETIKLYLQFLLRHNNTDLLILEEIKESVRNSVCHTATLIANAFMHAGTTSDTFLRNNLDWLSKATNW  356 (929)
T ss_pred             ChHHHHHHHhcCchHHHHHHHHHHHcCCchHHHHHHHHHHHHHhhhhHHHHHHHHHHhcCCcchHHHHhchhHHhhcchH
Confidence            34899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             chhhhhhhhcccccCChHHHHHHHhhcCCCCCCCCCccchhhHHHHHhhhccCCchHHHHHHHHHhhhcCchhhHHHHHH
Q psy6893         638 AKLTATASLGVIHRGHETEALAHMQSYLPRETGPTSGYYEGGGLYALGLIHANHGAVINDYLLGQVKDATNEMVRHGGCL  717 (988)
Q Consensus       638 ~kfsA~ASLG~Ih~gn~~~~l~~L~~yL~~~~~s~~~~~k~GAL~AlGlI~ag~~~~~~~~Ll~~l~~s~~~~ir~gA~L  717 (988)
                      +||+||||||+||+||..+|+++|.||||++..+++.|++|||||||||||+|||.++++||+++|++.+++++|||+||
T Consensus       357 aKFtAtAsLGvIH~G~~~~~~~ll~pYLP~~~~~~s~y~EGGalyAlGLIhA~hG~~~~~yL~~~Lk~~~~e~v~hG~cL  436 (929)
T KOG2062|consen  357 AKFTATASLGVIHRGHENQAMKLLAPYLPKEAGEGSGYKEGGALYALGLIHANHGRGITDYLLQQLKTAENEVVRHGACL  436 (929)
T ss_pred             hhhhhhhhcceeeccccchHHHHhhhhCCccCCCCCCccccchhhhhhccccCcCccHHHHHHHHHHhccchhhhhhhhh
Confidence            99999999999999999999999999999877778999999999999999999999999999999999999999999999


Q ss_pred             hhHhhhcCCCCHHHHHHHHHhhccCChhhHHHHHHHhhcccCCCCCHHHHHHHHHHHHhcccchhhhHHHHHHHHHhcCC
Q psy6893         718 GLGLAAMGSARDDIYEQLKFNLYQDDAVTGEAAGIAMGLVLLGSKSESAIQDMVAYAKETQHEKILRGLAVGISFIMYGQ  797 (988)
Q Consensus       718 GLGla~~Gs~~~dv~~~L~~~l~~D~~~~~e~AalAlGLI~vGs~n~d~i~~ll~~~~etq~e~i~R~lalgLgLi~~Gr  797 (988)
                      ||||+.|||+|+++|+.|+.++|.|+++++|+|+++|||+|+||.|.+++++|++|.+||||++|.|++++||+|+.|||
T Consensus       437 GlGLa~mGSa~~eiYe~lKevLy~D~AvsGEAAgi~MGl~mlGt~~~eaiedm~~Ya~ETQHeki~RGl~vGiaL~~ygr  516 (929)
T KOG2062|consen  437 GLGLAGMGSANEEIYEKLKEVLYNDSAVSGEAAGIAMGLLMLGTANQEAIEDMLTYAQETQHEKIIRGLAVGIALVVYGR  516 (929)
T ss_pred             hccchhcccccHHHHHHHHHHHhccchhhhhHHHHhhhhHhhCcCcHHHHHHHHHHhhhhhHHHHHHHHHHhHHHHHhhh
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             chhHHHHHHHHhcccchhhhhhcHHHHHHHHcCCCChhHHHHHHHHHHHhhhhhhhhhhhccCCCchHHHHHhhhhhccC
Q psy6893         798 LENADDLVRDLCEEKDAILRRSGMYTIAMAYCGSGSNVATKRLLHDAILRRSGMYTIAMAYCGSGSNVATKRLLHVAVSD  877 (988)
Q Consensus       798 ~e~a~~li~~L~~~~dp~~r~~~~~~lslAyaGtGnvl~iq~lL~~~~~~~lG~alia~g~~~tgn~~air~ll~~~~sd  877 (988)
                      |+++|.+|+.|..++||++||++||++++||+|                              |||+.|||+|||+++||
T Consensus       517 qe~Ad~lI~el~~dkdpilR~~Gm~t~alAy~G------------------------------Tgnnkair~lLh~aVsD  566 (929)
T KOG2062|consen  517 QEDADPLIKELLRDKDPILRYGGMYTLALAYVG------------------------------TGNNKAIRRLLHVAVSD  566 (929)
T ss_pred             hhhhHHHHHHHhcCCchhhhhhhHHHHHHHHhc------------------------------cCchhhHHHhhcccccc
Confidence            999999999999999999999999999999999                              99999999999999999


Q ss_pred             CChhhhhhHHhhhhhhhhhhhhhhHhh
Q psy6893         878 VNDDVRREAVTALGFILFRKKRTRRKK  904 (988)
Q Consensus       878 ~~~~vrraa~~alg~i~~~npeq~pk~  904 (988)
                      +||||||+|++++|||++++|+++|..
T Consensus       567 ~nDDVrRaAVialGFVl~~dp~~~~s~  593 (929)
T KOG2062|consen  567 VNDDVRRAAVIALGFVLFRDPEQLPST  593 (929)
T ss_pred             cchHHHHHHHHHheeeEecChhhchHH
Confidence            999999999999999999999977553

>COG5116 RPN2 26S proteasome regulatory complex component [Posttranslational modification, protein turnover, chaperones]

Probab=100.00  E-value=4.7e-86  Score=737.19  Aligned_cols=484  Identities=38%  Similarity=0.596  Sum_probs=408.8

Q ss_pred             CChhhhhhhhhhhhhhcccccChHHHHHHHHHHHHHHhcCCcccHHHHHHHHHHcCChHHHHHHHHHhhcCCCCc-hhHH
Q psy6893          29 SRVHSALKSCVPWCLAMSSIQSRSFRAQILRTLVRLYHSLSVPDYVNMAQCWIYLDDPRSVANLLGKLVAGSADD-DLMA  107 (988)
Q Consensus        29 ~~~~~~L~y~~~~~~~~~~v~~~~fR~~vL~lL~~ly~~~~~pDy~~~~qc~~~Lnd~~~va~il~~L~~~~~~~-~l~a  107 (988)
                      .+..++.+|.++  +++++|.+.+||++|||.|.+++...++||||.+-+|+++|||.+.+..+|.+|++.  +| .+-|
T Consensus       169 ~~d~di~~ylL~--Lait~v~~~~fr~~ilr~l~~~~~~~~~pdyf~v~k~vv~LnDa~~a~~L~~kL~~e--nd~~l~a  244 (926)
T COG5116         169 GNDCDIINYLLD--LAITLVEEEGFRKEILRMLAEIGPGKPKPDYFYVIKAVVYLNDAEKAKALIEKLVKE--NDLLLYA  244 (926)
T ss_pred             CCcccHHHHHHH--HHHHHhhhHHHHHHHHHHHHHhcCCCCCCcEEEEeEEEEEeccHHHHHHHHHHHHhh--hhhhhhh
Confidence            345568999999  669999999999999999999999999999999999999999999999999999863  34 3445


Q ss_pred             HHHHHhhcccccHHHHHHHHHhhcccCCCCCCCccccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCcccchh
Q psy6893         108 AQIGFDLYESATQAFLASVLQELKTCAPIPDATHVVVKVPVEGAPTPATPDTEAPTPAPGTESGPSSTTPGPETKTLESL  187 (988)
Q Consensus       108 yQiaFdL~~~~~Q~fl~~v~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  187 (988)
                       |+||||.++++|+|++-    |+..                     ....                   +.        
T Consensus       245 -qvAFdledsasqe~lei----l~t~---------------------~vA~-------------------~~--------  271 (926)
T COG5116         245 -QVAFDLEDSASQEILEI----LVTE---------------------LVAQ-------------------GY--------  271 (926)
T ss_pred             -hheehhccccCHHHHHh----ccch---------------------hhhc-------------------cc--------
Confidence             99999999999999963    2210                     0000                   01        


Q ss_pred             hHHHHHHHHHHHHhhhcccCccchhhHHHHhhhcccchHHhHHhhhhhh--hhhhhhhHHHHHHHhhhccCCcccccccc
Q psy6893         188 NEKEKQLQARITKLSKILSGEVSIDLHLQFLIRSNKTDMLILKNTKESI--RVSICHTATIIANAFMHSGTTSDQFLRDN  265 (988)
Q Consensus       188 ~~~~~~~~~~~~~~~~IL~g~~~~~l~~~fL~~~n~~d~~iL~~~k~s~--r~s~~~~A~~~~Naf~naG~~~D~fl~~n  265 (988)
                                -+++++||||+.+.+++..||+.+|+||+.+|+++|+|+  |+|+.|+|.+|+|+|||+||++|.|+|+|
T Consensus       272 ----------d~av~~ILSGe~t~ky~~~FLl~~nntd~~~Ln~sk~sl~~k~s~fH~avs~AN~fMn~GTs~dsf~r~N  341 (926)
T COG5116         272 ----------DQAVMSILSGEFTKKYLGAFLLEKNNTDFKFLNSSKSSLARKFSRFHYAVSLANSFMNLGTSNDSFYRNN  341 (926)
T ss_pred             ----------cHHHHHHhcCcchhHHHHHHHHhcCCcceeehhcchhhhhhhhhhhhhHHHHHHHHhhcCCCcchHhhcC
Confidence                      035999999999999999999999999999999999998  78999999999999999999999999999


Q ss_pred             hhHHHhhccchhhHHhhhccceecCChHHHHHHHhcccCCCCCCCCCccchhHHHHHhhhccCCCCchhHHHHHH-----
Q psy6893         266 LEWLARATNWAKLTATASLGVIHRGHETEALAHMQSYLPRETGPTSGYYEGGGLYALGLIHANHGAVINDYLLGQ-----  340 (988)
Q Consensus       266 ~~Wl~k~~~~~~~sAtASLG~Ih~~~~~~gl~~l~~yL~s~~~~~~~y~~~GaL~alGli~~g~~~~~~d~l~~l-----  340 (988)
                      ++|++|++||+||||||||||||+||..+|.++|.||||++. .++.|++||||||+|||++|++....+|++..     
T Consensus       342 l~wlgka~nWaKFtatAslGvIH~gn~n~~~~il~pYLP~e~-ass~~~eGGalyalGLI~Agfgr~~TeYL~e~~~~te  420 (926)
T COG5116         342 LDWLGKASNWAKFTATASLGVIHLGNSNPGYEILKPYLPSEV-ASSRQKEGGALYALGLIKAGFGREDTEYLLEYFLDTE  420 (926)
T ss_pred             chhhhhcchHhhhhhhhhceeEeeccCCchhHhhhccCCccc-chhhhccCceeeeehhhccCcCcccHHHHHHHhCccc
Confidence            999999999999999999999999999999999999999863 36889999999999999999998788888752     


Q ss_pred             ------------------------------hhhhcCCCchhHHHHHHHHHHHhhccCCChhHHHHHHHhhhhcchHHHHH
Q psy6893         341 ------------------------------VKDATNEDDAVTGEAAGIAMGLVLLGSKSESAIQDMVAYAKETQHEKILR  390 (988)
Q Consensus       341 ------------------------------L~~~~~~d~~~~~~aA~lglGL~~~Gs~~~~~~~~L~~~~~dt~~E~~~r  390 (988)
                                                    |++.+.+|+++.++||++||||.|+||+..++|++|..|+++||||+|.|
T Consensus       421 De~~~~l~yG~~LGiGL~~MgSan~eiye~lKe~l~nD~a~~geAa~~gMGl~mLgt~s~eai~dm~tya~ETqhe~i~R  500 (926)
T COG5116         421 DELTPELAYGVCLGIGLINMGSANREIYEKLKELLKNDRALLGEAAVYGMGLLMLGTWSVEAIEDMRTYAGETQHERIKR  500 (926)
T ss_pred             ccccHHHHHHHHhhhcchhcccccHHHHHHHHHHHhcchhhhhhhhhhccceeeecCCCHHHHHHHHHHhcchhhhhHHh
Confidence                                          44445579999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcCChhhHHHHHHHHhhcchhhhhccchhHHHHHhhhhhhhccccchhhHHhhccchhHHHHHhhhccCCC
Q psy6893         391 GLAVGISFIMYGQLENADDLVRDLCEEKDAILRRSGMYTIAMAYCVSYLYFDLFSDLTYRIVKNRSGMYTIAMAYCGSGS  470 (988)
Q Consensus       391 ~lalgl~~v~~g~~e~a~~li~~L~~~~d~~lr~~~~~~~~l~l~Lgll~~g~~~e~~l~~~~~~~~~~~~~~AYaGTGN  470 (988)
                      ++++|+++|.||+||.++.+|..|+.++|+++|++                               |+|..++|||||||
T Consensus       501 glgig~aLi~ygrqe~add~I~ell~d~ds~lRy~-------------------------------G~fs~alAy~GTgn  549 (926)
T COG5116         501 GLGIGFALILYGRQEMADDYINELLYDKDSILRYN-------------------------------GVFSLALAYVGTGN  549 (926)
T ss_pred             hhhhhhhHhhhhhHHHHHHHHHHHhcCchHHhhhc-------------------------------cHHHHHHHHhcCCc
Confidence            99999999999999999999999999999999997                               56789999999999


Q ss_pred             HHHHHHHHHHhccCCCchhhHHHHHHHHHHhhcCccccccccCCCCchhHHhhccchhhhhhHhhHHHhhhhcccCCCCc
Q psy6893         471 NVATKRLLHVAVSDVNDDVRREAVTALGFILFRTLFYVAPACTRSPWPGVISLLDDPMIELKEFSLKKLNDIVDDFWPEN  550 (988)
Q Consensus       471 ~~~Iq~LLhi~~s~~~~dvrr~AV~~lg~I~~~~~~~~g~~~~~~~~p~ai~lL~~~~~~~~~~~~~~l~~~~~~~~~~~  550 (988)
                      ..+|+.|||++++|.+|||||+||++||||+++++         ..+|.-+.+|++.                ||+    
T Consensus       550 ~~vv~~lLh~avsD~nDDVrRAAViAlGfvc~~D~---------~~lv~tvelLs~s----------------hN~----  600 (926)
T COG5116         550 LGVVSTLLHYAVSDGNDDVRRAAVIALGFVCCDDR---------DLLVGTVELLSES----------------HNF----  600 (926)
T ss_pred             chhHhhhheeecccCchHHHHHHHHheeeeEecCc---------chhhHHHHHhhhc----------------cch----
Confidence            99999999999999999999999999999999987         5666666665511                110    


Q ss_pred             hhhHHHHHHHHHhhhccCCchhHHHHHHHHHhcCCchHHHHHhhhhhhhhhhhhhHHHHHHHHhhcCCCchhhhcchhHH
Q psy6893         551 EKEKQLQARITKLSKILSGEVSIDLHLQFLIRSNKTDMLILKNTKESIRVSICHTATIIANAFMHSGTTSDQFLRDNLEW  630 (988)
Q Consensus       551 ~~~~~~~~~~~~l~~Il~g~~~~~l~l~fL~~~n~tD~~il~~~kds~r~s~~h~A~~~ana~~naGt~~D~flr~~~~w  630 (988)
                                               |                     +|     .++.||.|+.-+|+|..         
T Consensus       601 -------------------------h---------------------VR-----~g~AvaLGiacag~G~~---------  620 (926)
T COG5116         601 -------------------------H---------------------VR-----AGVAVALGIACAGTGDK---------  620 (926)
T ss_pred             -------------------------h---------------------hh-----hhhHHHhhhhhcCCccH---------
Confidence                                     0                     12     14556777777777631         


Q ss_pred             HHhhcccchhhhhhhhcccccCChHHHHHHHhhcCCCCCCCCCccchhhHHHHHhhhccCCch-------HHHHHHHHHh
Q psy6893         631 LARATNWAKLTATASLGVIHRGHETEALAHMQSYLPRETGPTSGYYEGGGLYALGLIHANHGA-------VINDYLLGQV  703 (988)
Q Consensus       631 l~k~~~w~kfsA~ASLG~Ih~gn~~~~l~~L~~yL~~~~~s~~~~~k~GAL~AlGlI~ag~~~-------~~~~~Ll~~l  703 (988)
                                               .++.+|++..+    ...+++|.||+.|+|.|-.-+..       .++.-+.+-+
T Consensus       621 -------------------------~a~diL~~L~~----D~~dfVRQ~AmIa~~mIl~Q~n~~Lnp~v~~I~k~f~~vI  671 (926)
T COG5116         621 -------------------------VATDILEALMY----DTNDFVRQSAMIAVGMILMQCNPELNPNVKRIIKKFNRVI  671 (926)
T ss_pred             -------------------------HHHHHHHHHhh----CcHHHHHHHHHHHHHHHHhhcCcccChhHHHHHHHHHHHH
Confidence                                     35667777765    45678888888888888665532       2344443333


Q ss_pred             hhc-CchhhHHHHHHhhHhhhcCCCCH
Q psy6893         704 KDA-TNEMVRHGGCLGLGLAAMGSARD  729 (988)
Q Consensus       704 ~~s-~~~~ir~gA~LGLGla~~Gs~~~  729 (988)
                      .+. .+-....|||++=|+.-+|-+|-
T Consensus       672 ~~Khe~glaklGA~laqGi~~aGGRNv  698 (926)
T COG5116         672 VDKHESGLAKLGAVLAQGISEAGGRNV  698 (926)
T ss_pred             hhhhHhHHHHHHHHHHhhhhhcCCceE
Confidence            222 23377888888888888887664

>KOG2005|consensus

Probab=100.00  E-value=3.7e-82  Score=717.25  Aligned_cols=488  Identities=19%  Similarity=0.260  Sum_probs=427.8

Q ss_pred             hcccccChHHHHHHHHHHHHHHhcCCcccHHHHHHHHHHcCChHHHHHHHHHhhcCCCCchhHHHHHHHhhcccccHHHH
Q psy6893          44 AMSSIQSRSFRAQILRTLVRLYHSLSVPDYVNMAQCWIYLDDPRSVANLLGKLVAGSADDDLMAAQIGFDLYESATQAFL  123 (988)
Q Consensus        44 ~~~~v~~~~fR~~vL~lL~~ly~~~~~pDy~~~~qc~~~Lnd~~~va~il~~L~~~~~~~~l~ayQiaFdL~~~~~Q~fl  123 (988)
                      |..+++.|+ ..-+||+...+|.+|..  |.+..+|+++|||.+.|.++|..+     .|+++..|+||.|.+  +|.|+
T Consensus       229 c~~~lP~Pd-d~~ll~~a~~IYlKf~~--~~~al~~ai~l~~~~~v~~vf~s~-----~D~~~kKQ~~ymLaR--~~i~~  298 (878)
T KOG2005|consen  229 CVPLLPGPD-DVALLRTALKIYLKFNE--YPRALVGAIRLDDMKEVKEVFTSC-----TDPLLKKQMAYMLAR--HGIYF  298 (878)
T ss_pred             HhhcCCCch-hhHHHHHHHHHHHHHHH--hHHHHHHHHhcCcHHHHHHHHHhc-----cCHHHHHHHHHHHHh--cCCce
Confidence            457888888 78899999999999885  999999999999999999999999     899999999999988  77777


Q ss_pred             HHHHHhhcccCCCCCCCccccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCcccchhhHHHHHHHHHHHHhhh
Q psy6893         124 ASVLQELKTCAPIPDATHVVVKVPVEGAPTPATPDTEAPTPAPGTESGPSSTTPGPETKTLESLNEKEKQLQARITKLSK  203 (988)
Q Consensus       124 ~~v~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  203 (988)
                      +     +.+.                          ++..++.                +    |.+-+++|..++|+++
T Consensus       299 e-----~~~~--------------------------e~l~di~----------------s----N~~Lse~f~~LarELe  327 (878)
T KOG2005|consen  299 E-----LSED--------------------------EELQDIL----------------S----NGKLSEHFLYLARELE  327 (878)
T ss_pred             e-----cCcC--------------------------HHHHHHH----------------c----cccHHHHHHHHHHHhc
Confidence            5     2110                          0000111                1    1234679999999999


Q ss_pred             cccCccchhhHHHHhhhcccchHHhHHhhhhhhhhhhhhhHHHHHHHhhhccCCcccccccch----hHHHhhccchhhH
Q psy6893         204 ILSGEVSIDLHLQFLIRSNKTDMLILKNTKESIRVSICHTATIIANAFMHSGTTSDQFLRDNL----EWLARATNWAKLT  279 (988)
Q Consensus       204 IL~g~~~~~l~~~fL~~~n~~d~~iL~~~k~s~r~s~~~~A~~~~Naf~naG~~~D~fl~~n~----~Wl~k~~~~~~~s  279 (988)
                      |++||+|++||+.||+.+....-       .++.|+++|+|++|||||||||||+|++|.++.    .|+||||++||.|
T Consensus       328 imepk~pedIyK~hl~~~r~~s~-------a~vdSarqnla~~fvNgFVn~Gyg~Dkl~~~~~~s~~~w~yknke~g~~s  400 (878)
T KOG2005|consen  328 IMEPKVPEDIYKSHLEDSRGGSG-------AGVDSARQNLAATFVNGFVNAGYGQDKLMLVQEGSRVNWLYKNKEHGMTS  400 (878)
T ss_pred             ccCCCChHHHHHHHHhccccccc-------cCccHHHHHHHHHHHHHHhhcccCCCceeccCccccCcceeeccccCchH
Confidence            99999999999999998662111       124667799999999999999999999999865    6999999999999


Q ss_pred             HhhhccceecCChHHHHHHHhcccCCCCCCCCCccchhHHHHHhhhccCCCCchhHHHHHHhhhhcCCCchhHHHHHHHH
Q psy6893         280 ATASLGVIHRGHETEALAHMQSYLPRETGPTSGYYEGGGLYALGLIHANHGAVINDYLLGQVKDATNEDDAVTGEAAGIA  359 (988)
Q Consensus       280 AtASLG~Ih~~~~~~gl~~l~~yL~s~~~~~~~y~~~GaL~alGli~~g~~~~~~d~l~~lL~~~~~~d~~~~~~aA~lg  359 (988)
                      |+||+|+|.+||+|.||+++|+|||+    +++|+++|||+|+|++++|+++ +|||++++|++++.+++...+.+|++|
T Consensus       401 a~aS~G~I~~Wnvd~gL~qldkylys----~~~~ikaGaLLgigi~~~gv~n-e~dpalALLsdyv~~~~s~~ri~aIlG  475 (878)
T KOG2005|consen  401 AAASLGMIQLWNVDKGLEQLDKYLYS----DESYIKAGALLGIGISNSGVFN-ECDPALALLSDYLQSSSSIHRIGAILG  475 (878)
T ss_pred             hhhhcchhheecchhhHHHHHHHhhc----CCchhhhccceeeeeecccccc-ccCHHHHHHHHhccCCCceeehHHhhh
Confidence            99999999999999999999999998    5899999999999999999998 999999999999999999999999999


Q ss_pred             HHHhhccCCChhHHHHHHHhhhhcch--HH-HHHHHHHHHHHHhcCChhhHHHHHHHHhhcchhhhhccchhHHHHHhhh
Q psy6893         360 MGLVLLGSKSESAIQDMVAYAKETQH--EK-ILRGLAVGISFIMYGQLENADDLVRDLCEEKDAILRRSGMYTIAMAYCV  436 (988)
Q Consensus       360 lGL~~~Gs~~~~~~~~L~~~~~dt~~--E~-~~r~lalgl~~v~~g~~e~a~~li~~L~~~~d~~lr~~~~~~~~l~l~L  436 (988)
                      ||++|+||.|+++...|.|++.|++.  |+ .++++++|++|||+||+|.+..|+|+||++++..+..  .|.|||+|||
T Consensus       476 LglayaGsq~e~V~~lL~Pi~~d~~~~~ev~~~aslsLG~IfvGscn~dvts~ilqtlmekse~El~d--~~~RFL~LGL  553 (878)
T KOG2005|consen  476 LGLAYAGSQREEVLELLSPIMFDTKSPMEVVAFASLSLGMIFVGSCNEDVTSSILQTLMEKSETELED--QWFRFLALGL  553 (878)
T ss_pred             hHHhhcCCchHHHHHHHhHHhcCCCCchhHHHHHHhhcceeEEecCChHHHHHHHHHHHHhhhhhhhc--hHHHHHHHHH
Confidence            99999999999999999999999884  56 9999999999999999999999999999999988877  8999999999


Q ss_pred             hhhhcccc--chhhHHh---hccchhHH----HHHhhhccCCCHHHH--HHHHHHhccCCCch--hhHHHHHHHHHHhhc
Q psy6893         437 SYLYFDLF--SDLTYRI---VKNRSGMY----TIAMAYCGSGSNVAT--KRLLHVAVSDVNDD--VRREAVTALGFILFR  503 (988)
Q Consensus       437 gll~~g~~--~e~~l~~---~~~~~~~~----~~~~AYaGTGN~~~I--q~LLhi~~s~~~~d--vrr~AV~~lg~I~~~  503 (988)
                      |++|+|+|  +|++++.   +++|++.+    +.+|||+|||||++|  |.+||+|.+|..++  .+..||+|+|+|+||
T Consensus       554 ~llflgkqe~~d~~~e~~~~i~~~~~~~~~~lv~~caYaGTGnvl~Iq~q~ll~~cgE~~~~~e~~~~~avLgiAliAMg  633 (878)
T KOG2005|consen  554 ALLFLGKQESVDAVVETIKAIEGPIRKHESILVKSCAYAGTGNVLKIQSQLLLSFCGEHDADLESEQELAVLGIALIAMG  633 (878)
T ss_pred             HHHHhcccchHHHHHHHHHHhhhHHHHHHHHHHHHhhccccCceEEechhhhhhhcCCCccchhhhccchhhhhhhhhhh
Confidence            99999999  9998887   88898877    999999999999999  99999999987654  356899999999999


Q ss_pred             Cc-------------cccccccCCCCchhHHhhccchhhhhhHhhHHHhhhhcccCCCCchhhHHHHHHHHHhhhccCCc
Q psy6893         504 TL-------------FYVAPACTRSPWPGVISLLDDPMIELKEFSLKKLNDIVDDFWPENEKEKQLQARITKLSKILSGE  570 (988)
Q Consensus       504 ~~-------------~~~g~~~~~~~~p~ai~lL~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~Il~g~  570 (988)
                      +.             ++||++.+||++|+|+++|+.  +|++.+..+.|.+..|+.++.                     
T Consensus       634 eeig~eM~lR~f~h~l~yge~~iRravPLal~llsv--SNPq~~vlDtLsk~shd~D~e---------------------  690 (878)
T KOG2005|consen  634 EEIGSEMVLRHFGHLLHYGEPHIRRAVPLALGLLSV--SNPQVNVLDTLSKFSHDGDLE---------------------  690 (878)
T ss_pred             hhhhhHHHHHHHHHHHHcCCHHHHHHHHHHHhhhcc--CCCcchHHHHHHHhccCcchH---------------------
Confidence            96             389999999999999999994  345556778888777763221                     


Q ss_pred             hhHHHHHHHHHhcCCchHHHHHhhhhhhhhhhhhhHHHHHHHHhhcCCCchhh---hcchhHHHHhhcccchhhhhhhhc
Q psy6893         571 VSIDLHLQFLIRSNKTDMLILKNTKESIRVSICHTATIIANAFMHSGTTSDQF---LRDNLEWLARATNWAKLTATASLG  647 (988)
Q Consensus       571 ~~~~l~l~fL~~~n~tD~~il~~~kds~r~s~~h~A~~~ana~~naGt~~D~f---lr~~~~wl~k~~~w~kfsA~ASLG  647 (988)
                                                     +. ++++|+.|++.|||+|.++   +|...+|+||.. ...|.+.-..|
T Consensus       691 -------------------------------va-~naIfamGLiGAGTnNARla~mLrqlaSYyyKd~-~~Lf~vriAQG  737 (878)
T KOG2005|consen  691 -------------------------------VA-MNAIFAMGLIGAGTNNARLAQMLRQLASYYYKDS-KALFVVRIAQG  737 (878)
T ss_pred             -------------------------------HH-HHHHHHhccccCCcchHHHHHHHHHHHHHHhccc-hhHHHHHHHHH
Confidence                                           11 3679999999999999887   677788888876 46789999999


Q ss_pred             ccccCChHHHHHHHhhcC
Q psy6893         648 VIHRGHETEALAHMQSYL  665 (988)
Q Consensus       648 ~Ih~gn~~~~l~~L~~yL  665 (988)
                      ++|+|   +|.-.|.||-
T Consensus       738 L~hlG---KGtltl~p~~  752 (878)
T KOG2005|consen  738 LVHLG---KGTLTLSPFH  752 (878)
T ss_pred             HHHhc---CCceeccccc
Confidence            99999   7888888885

>COG5116 RPN2 26S proteasome regulatory complex component [Posttranslational modification, protein turnover, chaperones]

Probab=100.00  E-value=4.8e-70  Score=608.94  Aligned_cols=401  Identities=41%  Similarity=0.607  Sum_probs=340.3

Q ss_pred             CHHHHHHHHHHhccCCCch-hhHHHHHHHHHHhhcCcc----ccccccCC-CCchhHHhhccchhhhhhHhhHHHhhhhc
Q psy6893         470 SNVATKRLLHVAVSDVNDD-VRREAVTALGFILFRTLF----YVAPACTR-SPWPGVISLLDDPMIELKEFSLKKLNDIV  543 (988)
Q Consensus       470 N~~~Iq~LLhi~~s~~~~d-vrr~AV~~lg~I~~~~~~----~~g~~~~~-~~~p~ai~lL~~~~~~~~~~~~~~l~~~~  543 (988)
                      +...|-.||.++.+.+.+. -|....=-+.-+.++.|-    .++.+.+- .-...|.+|+..+...+.+.-.+++.   
T Consensus       171 d~di~~ylL~Lait~v~~~~fr~~ilr~l~~~~~~~~~pdyf~v~k~vv~LnDa~~a~~L~~kL~~end~~l~aqvA---  247 (926)
T COG5116         171 DCDIINYLLDLAITLVEEEGFRKEILRMLAEIGPGKPKPDYFYVIKAVVYLNDAEKAKALIEKLVKENDLLLYAQVA---  247 (926)
T ss_pred             cccHHHHHHHHHHHHhhhHHHHHHHHHHHHHhcCCCCCCcEEEEeEEEEEeccHHHHHHHHHHHHhhhhhhhhhhhe---
Confidence            3446778999888877553 454444455667776641    22221110 12235566655333222222112222   


Q ss_pred             ccCCCCchhhHHHH-------HH---HHHhhhccCCchhHHHHHHHHHhcCCchHHHHHhhhhhh--hhhhhhhHHHHHH
Q psy6893         544 DDFWPENEKEKQLQ-------AR---ITKLSKILSGEVSIDLHLQFLIRSNKTDMLILKNTKESI--RVSICHTATIIAN  611 (988)
Q Consensus       544 ~~~~~~~~~~~~~~-------~~---~~~l~~Il~g~~~~~l~l~fL~~~n~tD~~il~~~kds~--r~s~~h~A~~~an  611 (988)
                        |++......+.-       .+   -+.+++||+|+++.+++..||..+|+||+.+|+++|+|.  |.|++|+|.+|||
T Consensus       248 --Fdledsasqe~leil~t~~vA~~~d~av~~ILSGe~t~ky~~~FLl~~nntd~~~Ln~sk~sl~~k~s~fH~avs~AN  325 (926)
T COG5116         248 --FDLEDSASQEILEILVTELVAQGYDQAVMSILSGEFTKKYLGAFLLEKNNTDFKFLNSSKSSLARKFSRFHYAVSLAN  325 (926)
T ss_pred             --ehhccccCHHHHHhccchhhhccccHHHHHHhcCcchhHHHHHHHHhcCCcceeehhcchhhhhhhhhhhhhHHHHHH
Confidence              222222211111       11   246999999999999999999999999999999999995  7899999999999


Q ss_pred             HHhhcCCCchhhhcchhHHHHhhcccchhhhhhhhcccccCChHHHHHHHhhcCCCCCCCCCccchhhHHHHHhhhccCC
Q psy6893         612 AFMHSGTTSDQFLRDNLEWLARATNWAKLTATASLGVIHRGHETEALAHMQSYLPRETGPTSGYYEGGGLYALGLIHANH  691 (988)
Q Consensus       612 a~~naGt~~D~flr~~~~wl~k~~~w~kfsA~ASLG~Ih~gn~~~~l~~L~~yL~~~~~s~~~~~k~GAL~AlGlI~ag~  691 (988)
                      +|||+||++|.|+|+|++|++|++||+||+||||||+||+||..+|.++|.||||++. +++.|++||||||+|+|++|+
T Consensus       326 ~fMn~GTs~dsf~r~Nl~wlgka~nWaKFtatAslGvIH~gn~n~~~~il~pYLP~e~-ass~~~eGGalyalGLI~Agf  404 (926)
T COG5116         326 SFMNLGTSNDSFYRNNLDWLGKASNWAKFTATASLGVIHLGNSNPGYEILKPYLPSEV-ASSRQKEGGALYALGLIKAGF  404 (926)
T ss_pred             HHhhcCCCcchHhhcCchhhhhcchHhhhhhhhhceeEeeccCCchhHhhhccCCccc-chhhhccCceeeeehhhccCc
Confidence            9999999999999999999999999999999999999999999999999999999763 577899999999999999999


Q ss_pred             chHHHHHHHHHhhhcCch---hhHHHHHHhhHhhhcCCCCHHHHHHHHHhhccCChhhHHHHHHHhhcccCCCCCHHHHH
Q psy6893         692 GAVINDYLLGQVKDATNE---MVRHGGCLGLGLAAMGSARDDIYEQLKFNLYQDDAVTGEAAGIAMGLVLLGSKSESAIQ  768 (988)
Q Consensus       692 ~~~~~~~Ll~~l~~s~~~---~ir~gA~LGLGla~~Gs~~~dv~~~L~~~l~~D~~~~~e~AalAlGLI~vGs~n~d~i~  768 (988)
                      |.+..+||++++.++.++   ++.||+|||+||+.|||+|.++|+.|+.+++.|++..+|+|+++|||+|+||+..++++
T Consensus       405 gr~~TeYL~e~~~~teDe~~~~l~yG~~LGiGL~~MgSan~eiye~lKe~l~nD~a~~geAa~~gMGl~mLgt~s~eai~  484 (926)
T COG5116         405 GREDTEYLLEYFLDTEDELTPELAYGVCLGIGLINMGSANREIYEKLKELLKNDRALLGEAAVYGMGLLMLGTWSVEAIE  484 (926)
T ss_pred             CcccHHHHHHHhCcccccccHHHHHHHHhhhcchhcccccHHHHHHHHHHHhcchhhhhhhhhhccceeeecCCCHHHHH
Confidence            999999999988888776   99999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhcccchhhhHHHHHHHHHhcCCchhHHHHHHHHhcccchhhhhhcHHHHHHHHcCCCChhHHHHHHHHHHHhh
Q psy6893         769 DMVAYAKETQHEKILRGLAVGISFIMYGQLENADDLVRDLCEEKDAILRRSGMYTIAMAYCGSGSNVATKRLLHDAILRR  848 (988)
Q Consensus       769 ~ll~~~~etq~e~i~R~lalgLgLi~~Gr~e~a~~li~~L~~~~dp~~r~~~~~~lslAyaGtGnvl~iq~lL~~~~~~~  848 (988)
                      +|.+|.+||||++|.|++++|++||.||||+.++.+|..|..+.||++||.+++++++||||                  
T Consensus       485 dm~tya~ETqhe~i~Rglgig~aLi~ygrqe~add~I~ell~d~ds~lRy~G~fs~alAy~G------------------  546 (926)
T COG5116         485 DMRTYAGETQHERIKRGLGIGFALILYGRQEMADDYINELLYDKDSILRYNGVFSLALAYVG------------------  546 (926)
T ss_pred             HHHHHhcchhhhhHHhhhhhhhhHhhhhhHHHHHHHHHHHhcCchHHhhhccHHHHHHHHhc------------------
Confidence            99999999999999999999999999999999999999999999999999999999999999                  


Q ss_pred             hhhhhhhhhccCCCchHHHHHhhhhhccCCChhhhhhHHhhhhhhhhhhhhhhHhhhh
Q psy6893         849 SGMYTIAMAYCGSGSNVATKRLLHVAVSDVNDDVRREAVTALGFILFRKKRTRRKKKK  906 (988)
Q Consensus       849 lG~alia~g~~~tgn~~air~ll~~~~sd~~~~vrraa~~alg~i~~~npeq~pk~~k  906 (988)
                                  |||..+|+.|+|+++||+||||||||++++|||++++|...+..++
T Consensus       547 ------------Tgn~~vv~~lLh~avsD~nDDVrRAAViAlGfvc~~D~~~lv~tve  592 (926)
T COG5116         547 ------------TGNLGVVSTLLHYAVSDGNDDVRRAAVIALGFVCCDDRDLLVGTVE  592 (926)
T ss_pred             ------------CCcchhHhhhheeecccCchHHHHHHHHheeeeEecCcchhhHHHH
Confidence                        9999999999999999999999999999999999999997765433

>COG5110 RPN1 26S proteasome regulatory complex component [Posttranslational modification, protein turnover, chaperones]

Probab=100.00  E-value=6.1e-63  Score=550.36  Aligned_cols=489  Identities=17%  Similarity=0.192  Sum_probs=411.4

Q ss_pred             hcccccChHHHHHHHHHHHHHHhcCCcccHHHHHHHHHHcCChHHHHHHHHHhhcCCCCchhHHHHHHHhhcccccHHHH
Q psy6893          44 AMSSIQSRSFRAQILRTLVRLYHSLSVPDYVNMAQCWIYLDDPRSVANLLGKLVAGSADDDLMAAQIGFDLYESATQAFL  123 (988)
Q Consensus        44 ~~~~v~~~~fR~~vL~lL~~ly~~~~~pDy~~~~qc~~~Lnd~~~va~il~~L~~~~~~~~l~ayQiaFdL~~~~~Q~fl  123 (988)
                      |..+.+-|+ -...|+...++|.++..  .....-.++.|++...+.+.++..     +|+.+-.|++|.|++  +|.+.
T Consensus       231 cv~llp~pe-dVa~l~ta~~IYlk~~~--lt~av~~aiRl~~~~~i~e~~~a~-----~Dp~~kKQ~~YiLAr--q~~~~  300 (881)
T COG5110         231 CVPLLPPPE-DVALLETALKIYLKMGD--LTRAVVGAIRLQKSKEIIEYVRAI-----EDPDYKKQCLYILAR--QNLYY  300 (881)
T ss_pred             hhccCCChH-HHHHHHHHHHHHHhhhH--HHHHHHHHHhcccHHHHHHHHHhc-----cChHHHHHHHHHHHh--ccCCc
Confidence            456788888 56789999999999774  777788899999999999999887     889999999999977  22111


Q ss_pred             HHHHHhhcccCCCCCCCccccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCcccchhhHHHHHHHHHHHHhhh
Q psy6893         124 ASVLQELKTCAPIPDATHVVVKVPVEGAPTPATPDTEAPTPAPGTESGPSSTTPGPETKTLESLNEKEKQLQARITKLSK  203 (988)
Q Consensus       124 ~~v~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  203 (988)
                      +         ..                      |.+         ..+        .-.    |.+-++||..+.+++.
T Consensus       301 e---------~~----------------------dee---------~~d--------il~----Ng~lsdhf~ylgkELn  328 (881)
T COG5110         301 E---------AS----------------------DEE---------EKD--------ILS----NGYLSDHFRYLGKELN  328 (881)
T ss_pred             c---------cC----------------------CHH---------HHH--------Hhc----CCcHHHHHHHHHHHhc
Confidence            1         00                      000         000        001    1234789999999999


Q ss_pred             cccCccchhhHHHHhhhcccchHHhHHhhhhhhhhhhhhhHHHHHHHhhhccCCcccccccchhHHHhhccchhhHHhhh
Q psy6893         204 ILSGEVSIDLHLQFLIRSNKTDMLILKNTKESIRVSICHTATIIANAFMHSGTTSDQFLRDNLEWLARATNWAKLTATAS  283 (988)
Q Consensus       204 IL~g~~~~~l~~~fL~~~n~~d~~iL~~~k~s~r~s~~~~A~~~~Naf~naG~~~D~fl~~n~~Wl~k~~~~~~~sAtAS  283 (988)
                      +..|+.|++||+.||.... +-++ +    ..+.++-+|+|.+|||+|+|+|+++|+++-.+.+|+||++..|+.||+||
T Consensus       329 l~~PkvpedI~K~hl~~~k-~~~~-~----agi~sA~qnla~~fvn~~inlgy~nD~li~~dd~wiyk~k~~gliSa~aS  402 (881)
T COG5110         329 LDKPKVPEDILKGHLKYDK-DTRQ-L----AGIGSANQNLAMGFVNDPINLGYENDSLIPLDDEWIYKCKVPGLISAFAS  402 (881)
T ss_pred             CCCCCChHHHHHhhhhccc-cchh-h----cccchhhhHHHHhhhccccccCccCCeeeecchhhhhcCCCCChhheeec
Confidence            9999999999999986532 2111 1    12367779999999999999999999999999999999999999999999


Q ss_pred             ccceecCChHHHHHHHhcccCCCCCCCCCccchhHHHHHhhhccCCCCchhHHHHHHhhhhcCCCchhHHHHHHHHHHHh
Q psy6893         284 LGVIHRGHETEALAHMQSYLPRETGPTSGYYEGGGLYALGLIHANHGAVINDYLLGQVKDATNEDDAVTGEAAGIAMGLV  363 (988)
Q Consensus       284 LG~Ih~~~~~~gl~~l~~yL~s~~~~~~~y~~~GaL~alGli~~g~~~~~~d~l~~lL~~~~~~d~~~~~~aA~lglGL~  363 (988)
                      +|+|..||.+.||++||+|||+    +.+|.|+|||+|+|+.+.++++ +.+|++++|++++.+.+...+.||++|||++
T Consensus       403 IG~i~~WN~d~gl~~Ldkyly~----de~~~KaGaLLGig~s~~~v~~-E~~palalLs~yl~s~s~k~~~aaiLGlg~a  477 (881)
T COG5110         403 IGVIESWNSDKGLETLDKYLYA----DESYRKAGALLGIGLSGLRVFE-ERPPALALLSNYLQSSSSKHVIAAILGLGAA  477 (881)
T ss_pred             chhhhhhhhHhhHHHHHHHHhc----Ccccccccceeeeeeccccccc-ccchHHHHHHHhccCCchHHHHHHHhhhHHh
Confidence            9999999999999999999998    5899999999999999999998 9999999999999999999999999999999


Q ss_pred             hccCCChhHHHHHHHhhhhcch--HH-HHHHHHHHHHHHhcCChhhHHHHHHHHhhcchhhhhccchhHHHHHhhhhhhh
Q psy6893         364 LLGSKSESAIQDMVAYAKETQH--EK-ILRGLAVGISFIMYGQLENADDLVRDLCEEKDAILRRSGMYTIAMAYCVSYLY  440 (988)
Q Consensus       364 ~~Gs~~~~~~~~L~~~~~dt~~--E~-~~r~lalgl~~v~~g~~e~a~~li~~L~~~~d~~lr~~~~~~~~l~l~Lgll~  440 (988)
                      |.|+.++++++.|.|++.+|+.  |. +++++++|.+|||+||+|.++.++|+++++.......  .|.||||||||+||
T Consensus       478 fsGt~~eevl~lL~Pi~~std~pie~~~~asltLg~vFvGtcngD~ts~ilqtf~Er~~~e~~t--qw~RFlaLgLa~Lf  555 (881)
T COG5110         478 FSGTQAEEVLELLQPIMFSTDSPIEVVFFASLTLGSVFVGTCNGDLTSLILQTFVERGKIESET--QWFRFLALGLASLF  555 (881)
T ss_pred             hcCCcHHHHHHHhhhhhcCCCCcHHHHHHHHHhhhheEeeccCchHHHHHHHHHHHhhhhhhhh--HHHHHHHHHHHHHH
Confidence            9999999999999999999984  77 9999999999999999999999999999997755555  79999999999999


Q ss_pred             cccc--chhhHHh---hccchh----HHHHHhhhccCCCHHHHHHHHHHhccCCCch-------hhHHHHHHHHHHhhcC
Q psy6893         441 FDLF--SDLTYRI---VKNRSG----MYTIAMAYCGSGSNVATKRLLHVAVSDVNDD-------VRREAVTALGFILFRT  504 (988)
Q Consensus       441 ~g~~--~e~~l~~---~~~~~~----~~~~~~AYaGTGN~~~Iq~LLhi~~s~~~~d-------vrr~AV~~lg~I~~~~  504 (988)
                      +||+  +++++++   |++|..    +++.+|+|+||||++.||.|||+|.+...|+       ++..|++|+++|+||+
T Consensus       556 ~g~~d~~d~v~eti~aIeg~ls~~~eiLv~~c~Y~GTGdvl~Iq~lLhv~~e~~~D~~k~~ea~ie~~a~Lg~AliamGe  635 (881)
T COG5110         556 YGRKDQVDDVEETIMAIEGALSKHEEILVKGCQYVGTGDVLVIQSLLHVKDEFTGDTLKNEEALIESLALLGCALIAMGE  635 (881)
T ss_pred             ccccchhHHHHHHHHHhcchhhhhHHHHHhhceecccCcHHHHHHHHhccCCCCcccchhhHHHHHHHHHhhhHHhhhcc
Confidence            9999  7777776   666654    4599999999999999999999999887776       3567999999999998


Q ss_pred             c-------------cccccccCCCCchhHHhhccchhhhhhHhhHHHhhhhcccCCCCchhhHHHHHHHHHhhhccCCch
Q psy6893         505 L-------------FYVAPACTRSPWPGVISLLDDPMIELKEFSLKKLNDIVDDFWPENEKEKQLQARITKLSKILSGEV  571 (988)
Q Consensus       505 ~-------------~~~g~~~~~~~~p~ai~lL~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~Il~g~~  571 (988)
                      .             ++||.+.+|+.+|+|.++|+.  .++..+..|.|.+..|+                          
T Consensus       636 dig~eMvlRhf~h~mhyg~~hiR~~~PLa~gils~--SnPQm~vfDtL~r~shd--------------------------  687 (881)
T COG5110         636 DIGSEMVLRHFSHSMHYGSSHIRSVLPLAYGILSP--SNPQMNVFDTLERSSHD--------------------------  687 (881)
T ss_pred             hhhHHHHHHHhhhHhhcCcHHHHHHHHHHHhcccC--CCcchHHHHHHHHhccc--------------------------
Confidence            6             389999999999999999985  12223355555555554                          


Q ss_pred             hHHHHHHHHHhcCCchHHHHHhhhhhhhhhhhhhHHHHHHHHhhcCCCchhh---hcchhHHHHhhcccchhhhhhhhcc
Q psy6893         572 SIDLHLQFLIRSNKTDMLILKNTKESIRVSICHTATIIANAFMHSGTTSDQF---LRDNLEWLARATNWAKLTATASLGV  648 (988)
Q Consensus       572 ~~~l~l~fL~~~n~tD~~il~~~kds~r~s~~h~A~~~ana~~naGt~~D~f---lr~~~~wl~k~~~w~kfsA~ASLG~  648 (988)
                                    .|+.          .+   ..++|+.|++.|||.|.++   +|...+|++|.. .+.|..-...|+
T Consensus       688 --------------~dl~----------v~---~ntIfamGLiGAGT~NaRlaqlLrQlaSYY~kes-~aLfv~riAQGL  739 (881)
T COG5110         688 --------------GDLN----------VI---INTIFAMGLIGAGTLNARLAQLLRQLASYYYKES-KALFVLRIAQGL  739 (881)
T ss_pred             --------------cchh----------HH---HHHHHHhhccccCcchHHHHHHHHHHHHHHhhcc-chhhHHHHHHHH
Confidence                          2221          11   3678999999999999876   677888988887 467888899999


Q ss_pred             cccCChHHHHHHHhhcCC
Q psy6893         649 IHRGHETEALAHMQSYLP  666 (988)
Q Consensus       649 Ih~gn~~~~l~~L~~yL~  666 (988)
                      +|+|   +|...|+||-.
T Consensus       740 l~LG---KGtmti~p~~~  754 (881)
T COG5110         740 LSLG---KGTMTISPLYF  754 (881)
T ss_pred             HHhc---CCceeeccccc
Confidence            9999   78888888864

>KOG2005|consensus

Probab=100.00  E-value=6.1e-63  Score=560.93  Aligned_cols=344  Identities=23%  Similarity=0.347  Sum_probs=314.7

Q ss_pred             HhhhhcccCCCCchhhHHHHHHHHHhhhccCCchhHHHHHHHHHhcCCchHHHHHhhhhhhhhhhhhhHHHHHHHHhhcC
Q psy6893         538 KLNDIVDDFWPENEKEKQLQARITKLSKILSGEVSIDLHLQFLIRSNKTDMLILKNTKESIRVSICHTATIIANAFMHSG  617 (988)
Q Consensus       538 ~l~~~~~~~~~~~~~~~~~~~~~~~l~~Il~g~~~~~l~l~fL~~~n~tD~~il~~~kds~r~s~~h~A~~~ana~~naG  617 (988)
                      .|.+|+.|..     .++++..+++-+.|+.+.++.++|..||+.++...    ..-.||+|.++   |++|||||+|||
T Consensus       305 ~l~di~sN~~-----Lse~f~~LarELeimepk~pedIyK~hl~~~r~~s----~a~vdSarqnl---a~~fvNgFVn~G  372 (878)
T KOG2005|consen  305 ELQDILSNGK-----LSEHFLYLARELEIMEPKVPEDIYKSHLEDSRGGS----GAGVDSARQNL---AATFVNGFVNAG  372 (878)
T ss_pred             HHHHHHcccc-----HHHHHHHHHHHhcccCCCChHHHHHHHHhcccccc----ccCccHHHHHH---HHHHHHHHhhcc
Confidence            3666777643     45799999999999999999999999999888322    13457889985   999999999999


Q ss_pred             CCchhhhcchh----HHHHhhcccchhhhhhhhcccccCChHHHHHHHhhcCCCCCCCCCccchhhHHHHHhhhccCCch
Q psy6893         618 TTSDQFLRDNL----EWLARATNWAKLTATASLGVIHRGHETEALAHMQSYLPRETGPTSGYYEGGGLYALGLIHANHGA  693 (988)
Q Consensus       618 t~~D~flr~~~----~wl~k~~~w~kfsA~ASLG~Ih~gn~~~~l~~L~~yL~~~~~s~~~~~k~GAL~AlGlI~ag~~~  693 (988)
                      ||+|++|.++.    .|+||++++++.+|+||+|+|.+||+|.|+++|++|++    ++++|+++|||+|+|++++|+.+
T Consensus       373 yg~Dkl~~~~~~s~~~w~yknke~g~~sa~aS~G~I~~Wnvd~gL~qldkyly----s~~~~ikaGaLLgigi~~~gv~n  448 (878)
T KOG2005|consen  373 YGQDKLMLVQEGSRVNWLYKNKEHGMTSAAASLGMIQLWNVDKGLEQLDKYLY----SDESYIKAGALLGIGISNSGVFN  448 (878)
T ss_pred             cCCCceeccCccccCcceeeccccCchHhhhhcchhheecchhhHHHHHHHhh----cCCchhhhccceeeeeecccccc
Confidence            99999998753    69999999999999999999999999999999999997    78999999999999999999988


Q ss_pred             H--HHHHHHHHhhhcCchhhHHHHHHhhHhhhcCCCCHHHHHHHHHhhccCChhhHH---HHHHHhhcccCCCCCHHHHH
Q psy6893         694 V--INDYLLGQVKDATNEMVRHGGCLGLGLAAMGSARDDIYEQLKFNLYQDDAVTGE---AAGIAMGLVLLGSKSESAIQ  768 (988)
Q Consensus       694 ~--~~~~Ll~~l~~s~~~~ir~gA~LGLGla~~Gs~~~dv~~~L~~~l~~D~~~~~e---~AalAlGLI~vGs~n~d~i~  768 (988)
                      +  ++.+|++.+.++++..+|+||+||||+||+||+|++|...|.|++.. +..+++   +|++++|+|||||||+|+.+
T Consensus       449 e~dpalALLsdyv~~~~s~~ri~aIlGLglayaGsq~e~V~~lL~Pi~~d-~~~~~ev~~~aslsLG~IfvGscn~dvts  527 (878)
T KOG2005|consen  449 ECDPALALLSDYLQSSSSIHRIGAILGLGLAYAGSQREEVLELLSPIMFD-TKSPMEVVAFASLSLGMIFVGSCNEDVTS  527 (878)
T ss_pred             ccCHHHHHHHHhccCCCceeehHHhhhhHHhhcCCchHHHHHHHhHHhcC-CCCchhHHHHHHhhcceeEEecCChHHHH
Confidence            6  78888898889989999999999999999999999999999999954 433344   79999999999999999999


Q ss_pred             HHHHHHHhcc----cchhhhHHHHHHHHHhcCCchhHHHHHHHHhcccchhhhhhcHHHHHHHHcCCCChhHH--HHHHH
Q psy6893         769 DMVAYAKETQ----HEKILRGLAVGISFIMYGQLENADDLVRDLCEEKDAILRRSGMYTIAMAYCGSGSNVAT--KRLLH  842 (988)
Q Consensus       769 ~ll~~~~etq----~e~i~R~lalgLgLi~~Gr~e~a~~li~~L~~~~dp~~r~~~~~~lslAyaGtGnvl~i--q~lL~  842 (988)
                      .|+|.++|..    .+.|.||+++|||++|+|++|.+|++.+.++++++|+.++..+++.+|||+|||||++|  |.++|
T Consensus       528 ~ilqtlmekse~El~d~~~RFL~LGL~llflgkqe~~d~~~e~~~~i~~~~~~~~~~lv~~caYaGTGnvl~Iq~q~ll~  607 (878)
T KOG2005|consen  528 SILQTLMEKSETELEDQWFRFLALGLALLFLGKQESVDAVVETIKAIEGPIRKHESILVKSCAYAGTGNVLKIQSQLLLS  607 (878)
T ss_pred             HHHHHHHHhhhhhhhchHHHHHHHHHHHHHhcccchHHHHHHHHHHhhhHHHHHHHHHHHHhhccccCceEEechhhhhh
Confidence            9999987754    58899999999999999999999999999999999999999999999999999999999  99999


Q ss_pred             HHHH-----------hhhhhhhhhhhccCCCchHHHHHhhhhhccCCChhhhhhHHhhhhhhhhhhhhh
Q psy6893         843 DAIL-----------RRSGMYTIAMAYCGSGSNVATKRLLHVAVSDVNDDVRREAVTALGFILFRKKRT  900 (988)
Q Consensus       843 ~~~~-----------~~lG~alia~g~~~tgn~~air~ll~~~~sd~~~~vrraa~~alg~i~~~npeq  900 (988)
                      .|.+           +++|+|+|+||++ +|.+|++|.|.|++..+ ++++||++|+|+|+++.+||+.
T Consensus       608 ~cgE~~~~~e~~~~~avLgiAliAMgee-ig~eM~lR~f~h~l~yg-e~~iRravPLal~llsvSNPq~  674 (878)
T KOG2005|consen  608 FCGEHDADLESEQELAVLGIALIAMGEE-IGSEMVLRHFGHLLHYG-EPHIRRAVPLALGLLSVSNPQV  674 (878)
T ss_pred             hcCCCccchhhhccchhhhhhhhhhhhh-hhhHHHHHHHHHHHHcC-CHHHHHHHHHHHhhhccCCCcc
Confidence            9986           7999999999999 99999999999999885 7899999999999999999983

>COG5110 RPN1 26S proteasome regulatory complex component [Posttranslational modification, protein turnover, chaperones]

Probab=100.00  E-value=4.2e-51  Score=455.88  Aligned_cols=345  Identities=20%  Similarity=0.246  Sum_probs=305.7

Q ss_pred             hhhhcccCCCCchhhHHHHHHHHHhhhccCCchhHHHHHHHHHhcCCchHHHHHhhhhhhhhhhhhhHHHHHHHHhhcCC
Q psy6893         539 LNDIVDDFWPENEKEKQLQARITKLSKILSGEVSIDLHLQFLIRSNKTDMLILKNTKESIRVSICHTATIIANAFMHSGT  618 (988)
Q Consensus       539 l~~~~~~~~~~~~~~~~~~~~~~~l~~Il~g~~~~~l~l~fL~~~n~tD~~il~~~kds~r~s~~h~A~~~ana~~naGt  618 (988)
                      +.+|..|.+     .++++.-+.+-+.+..+..+.+++..+|.-...+ .+ + .-.+++..++   |.+|+|+++|+|+
T Consensus       307 ~~dil~Ng~-----lsdhf~ylgkELnl~~PkvpedI~K~hl~~~k~~-~~-~-agi~sA~qnl---a~~fvn~~inlgy  375 (881)
T COG5110         307 EKDILSNGY-----LSDHFRYLGKELNLDKPKVPEDILKGHLKYDKDT-RQ-L-AGIGSANQNL---AMGFVNDPINLGY  375 (881)
T ss_pred             HHHHhcCCc-----HHHHHHHHHHHhcCCCCCChHHHHHhhhhccccc-hh-h-cccchhhhHH---HHhhhccccccCc
Confidence            445555543     4578889999999999999999988765433222 11 1 1224456664   8899999999999


Q ss_pred             CchhhhcchhHHHHhhcccchhhhhhhhcccccCChHHHHHHHhhcCCCCCCCCCccchhhHHHHHhhhccCCchH--HH
Q psy6893         619 TSDQFLRDNLEWLARATNWAKLTATASLGVIHRGHETEALAHMQSYLPRETGPTSGYYEGGGLYALGLIHANHGAV--IN  696 (988)
Q Consensus       619 ~~D~flr~~~~wl~k~~~w~kfsA~ASLG~Ih~gn~~~~l~~L~~yL~~~~~s~~~~~k~GAL~AlGlI~ag~~~~--~~  696 (988)
                      .||+++-.+-+|+||++..++.+|+||+|+|..||.+.|+++|++||+    ++++|.++|||+++|+...+++++  ++
T Consensus       376 ~nD~li~~dd~wiyk~k~~gliSa~aSIG~i~~WN~d~gl~~Ldkyly----~de~~~KaGaLLGig~s~~~v~~E~~pa  451 (881)
T COG5110         376 ENDSLIPLDDEWIYKCKVPGLISAFASIGVIESWNSDKGLETLDKYLY----ADESYRKAGALLGIGLSGLRVFEERPPA  451 (881)
T ss_pred             cCCeeeecchhhhhcCCCCChhheeecchhhhhhhhHhhHHHHHHHHh----cCcccccccceeeeeecccccccccchH
Confidence            999999988999999999999999999999999999999999999997    788999999999999998888775  67


Q ss_pred             HHHHHHhhhcCchhhHHHHHHhhHhhhcCCCCHHHHHHHHHhhccCCh--hhHHHHHHHhhcccCCCCCHHHHHHHHHHH
Q psy6893         697 DYLLGQVKDATNEMVRHGGCLGLGLAAMGSARDDIYEQLKFNLYQDDA--VTGEAAGIAMGLVLLGSKSESAIQDMVAYA  774 (988)
Q Consensus       697 ~~Ll~~l~~s~~~~ir~gA~LGLGla~~Gs~~~dv~~~L~~~l~~D~~--~~~e~AalAlGLI~vGs~n~d~i~~ll~~~  774 (988)
                      .+|++...++++..++..|+||||+||.|+.++++.+.|.|++.+++.  ....+|++++|.||+||||+|+.+.|+|.+
T Consensus       452 lalLs~yl~s~s~k~~~aaiLGlg~afsGt~~eevl~lL~Pi~~std~pie~~~~asltLg~vFvGtcngD~ts~ilqtf  531 (881)
T COG5110         452 LALLSNYLQSSSSKHVIAAILGLGAAFSGTQAEEVLELLQPIMFSTDSPIEVVFFASLTLGSVFVGTCNGDLTSLILQTF  531 (881)
T ss_pred             HHHHHHhccCCchHHHHHHHhhhHHhhcCCcHHHHHHHhhhhhcCCCCcHHHHHHHHHhhhheEeeccCchHHHHHHHHH
Confidence            788888888888999999999999999999999999999999976544  223479999999999999999999999988


Q ss_pred             Hhcc----cchhhhHHHHHHHHHhcCCchhHHHHHHHHhcccchhhhhhcHHHHHHHHcCCCChhHHHHHHHHHHH----
Q psy6893         775 KETQ----HEKILRGLAVGISFIMYGQLENADDLVRDLCEEKDAILRRSGMYTIAMAYCGSGSNVATKRLLHDAIL----  846 (988)
Q Consensus       775 ~etq----~e~i~R~lalgLgLi~~Gr~e~a~~li~~L~~~~dp~~r~~~~~~lslAyaGtGnvl~iq~lL~~~~~----  846 (988)
                      .|..    ...|.||+++|||++||||+|.+|.+.+++..++.|+.|...+++-+|+|+|||||+.||++||.|-+    
T Consensus       532 ~Er~~~e~~tqw~RFlaLgLa~Lf~g~~d~~d~v~eti~aIeg~ls~~~eiLv~~c~Y~GTGdvl~Iq~lLhv~~e~~~D  611 (881)
T COG5110         532 VERGKIESETQWFRFLALGLASLFYGRKDQVDDVEETIMAIEGALSKHEEILVKGCQYVGTGDVLVIQSLLHVKDEFTGD  611 (881)
T ss_pred             HHhhhhhhhhHHHHHHHHHHHHHHccccchhHHHHHHHHHhcchhhhhHHHHHhhceecccCcHHHHHHHHhccCCCCcc
Confidence            7643    57899999999999999999999999999999999999999999999999999999999999997664    


Q ss_pred             ------------hhhhhhhhhhhccCCCchHHHHHhhhhhccCCChhhhhhHHhhhhhhhhhhhhh
Q psy6893         847 ------------RRSGMYTIAMAYCGSGSNVATKRLLHVAVSDVNDDVRREAVTALGFILFRKKRT  900 (988)
Q Consensus       847 ------------~~lG~alia~g~~~tgn~~air~ll~~~~sd~~~~vrraa~~alg~i~~~npeq  900 (988)
                                  +++|+|+|+||++ +|.+|+.|.+.|.+..+ ++++|+++|+|+|.+.++||+.
T Consensus       612 ~~k~~ea~ie~~a~Lg~AliamGed-ig~eMvlRhf~h~mhyg-~~hiR~~~PLa~gils~SnPQm  675 (881)
T COG5110         612 TLKNEEALIESLALLGCALIAMGED-IGSEMVLRHFSHSMHYG-SSHIRSVLPLAYGILSPSNPQM  675 (881)
T ss_pred             cchhhHHHHHHHHHhhhHHhhhcch-hhHHHHHHHhhhHhhcC-cHHHHHHHHHHHhcccCCCcch
Confidence                        7899999999999 99999999999999886 8999999999999999999983

>PRK09687 putative lyase; Provisional

Probab=98.73  E-value=1.4e-06  Score=96.69  Aligned_cols=131  Identities=18%  Similarity=0.240  Sum_probs=91.5

Q ss_pred             hhhhhhhhcccccCChHHHHHHHhhcCCCCCCCCCccchhhHHHHHhhhccCCchHHHHHHHHHhhhcCchhhHHHHHHh
Q psy6893         639 KLTATASLGVIHRGHETEALAHMQSYLPRETGPTSGYYEGGGLYALGLIHANHGAVINDYLLGQVKDATNEMVRHGGCLG  718 (988)
Q Consensus       639 kfsA~ASLG~Ih~gn~~~~l~~L~~yL~~~~~s~~~~~k~GAL~AlGlI~ag~~~~~~~~Ll~~l~~s~~~~ir~gA~LG  718 (988)
                      ++.|+.+||.|-  +. .++..|.+.|.    ..++++|..|.+|||-+..+. ..+...|...+ +..+..||..|+.|
T Consensus       145 R~~a~~aLg~~~--~~-~ai~~L~~~L~----d~~~~VR~~A~~aLg~~~~~~-~~~~~~L~~~L-~D~~~~VR~~A~~a  215 (280)
T PRK09687        145 RFAVAFALSVIN--DE-AAIPLLINLLK----DPNGDVRNWAAFALNSNKYDN-PDIREAFVAML-QDKNEEIRIEAIIG  215 (280)
T ss_pred             HHHHHHHHhccC--CH-HHHHHHHHHhc----CCCHHHHHHHHHHHhcCCCCC-HHHHHHHHHHh-cCCChHHHHHHHHH
Confidence            367788887664  44 58888888885    456789999999999883222 23666676666 44577899999999


Q ss_pred             hHhhhcCCCCHHHHHHHHHhhccCChhhHHHHHHHhhcccCCCCCHHHHHHHHHHHHhcccchhhhHHHH
Q psy6893         719 LGLAAMGSARDDIYEQLKFNLYQDDAVTGEAAGIAMGLVLLGSKSESAIQDMVAYAKETQHEKILRGLAV  788 (988)
Q Consensus       719 LGla~~Gs~~~dv~~~L~~~l~~D~~~~~e~AalAlGLI~vGs~n~d~i~~ll~~~~etq~e~i~R~lal  788 (988)
                      ||-    .+++.++..|+..+. |+. .+..|+.|+|-+  |  +.+++..|.+++....+..+.+....
T Consensus       216 Lg~----~~~~~av~~Li~~L~-~~~-~~~~a~~ALg~i--g--~~~a~p~L~~l~~~~~d~~v~~~a~~  275 (280)
T PRK09687        216 LAL----RKDKRVLSVLIKELK-KGT-VGDLIIEAAGEL--G--DKTLLPVLDTLLYKFDDNEIITKAID  275 (280)
T ss_pred             HHc----cCChhHHHHHHHHHc-CCc-hHHHHHHHHHhc--C--CHhHHHHHHHHHhhCCChhHHHHHHH
Confidence            987    345788999998884 333 344677777775  6  46788888888765555555544433

>PRK09687 putative lyase; Provisional

Probab=98.63  E-value=1.9e-06  Score=95.62  Aligned_cols=37  Identities=14%  Similarity=0.062  Sum_probs=29.3

Q ss_pred             hhhhhhccCCCchHHHHHhhhhhccCCChhhhhhHHhhh
Q psy6893         852 YTIAMAYCGSGSNVATKRLLHVAVSDVNDDVRREAVTAL  890 (988)
Q Consensus       852 alia~g~~~tgn~~air~ll~~~~sd~~~~vrraa~~al  890 (988)
                      +..++|+.  |.+.++..|..++..++|..|++.+.+++
T Consensus       241 a~~ALg~i--g~~~a~p~L~~l~~~~~d~~v~~~a~~a~  277 (280)
T PRK09687        241 IIEAAGEL--GDKTLLPVLDTLLYKFDDNEIITKAIDKL  277 (280)
T ss_pred             HHHHHHhc--CCHhHHHHHHHHHhhCCChhHHHHHHHHH
Confidence            44567774  77889999999987677889999887776

>PLN03200 cellulose synthase-interactive protein; Provisional

Probab=98.33  E-value=0.00031  Score=94.05  Aligned_cols=184  Identities=20%  Similarity=0.171  Sum_probs=102.2

Q ss_pred             hhHHHHHHhhhhcCCCchhHHHHHHHHHHHhhccCC----------ChhHHHHHHHhhhhcc-hHHHHHHHHHHH-HHHh
Q psy6893         333 INDYLLGQVKDATNEDDAVTGEAAGIAMGLVLLGSK----------SESAIQDMVAYAKETQ-HEKILRGLAVGI-SFIM  400 (988)
Q Consensus       333 ~~d~l~~lL~~~~~~d~~~~~~aA~lglGL~~~Gs~----------~~~~~~~L~~~~~dt~-~E~~~r~lalgl-~~v~  400 (988)
                      ...|++.+|++    .+...++.|+-+|..+-.++.          .+.++..|++.+.+.. .+..++..+++. .-+.
T Consensus       100 aIppLV~LL~s----Gs~eaKe~AA~AL~sLS~~~~~D~~~~~I~v~~GaVp~Lv~lL~~gsk~d~~L~~~Av~AL~nLs  175 (2102)
T PLN03200        100 CIPPLLSLLKS----GSAEAQKAAAEAIYAVSSGGLSDHVGSKIFSTEGVVPSLWDQLQPGNKQDKVVEGLLTGALRNLC  175 (2102)
T ss_pred             ChHHHHHHHHC----CCHHHHHHHHHHHHHHHcCcchhhhhhhhhhhcCChHHHHHHHhCCchhhHHHHHHHHHHHHHHh
Confidence            56778888754    357899999988887776642          2446678888888754 466555554433 2333


Q ss_pred             cCChh---------hHHHHHHHHhhcchhhhhccchhHHHHHhhhhhhhccccchhhHHhhccchhHHHHHhhhccCCCH
Q psy6893         401 YGQLE---------NADDLVRDLCEEKDAILRRSGMYTIAMAYCVSYLYFDLFSDLTYRIVKNRSGMYTIAMAYCGSGSN  471 (988)
Q Consensus       401 ~g~~e---------~a~~li~~L~~~~d~~lr~~~~~~~~l~l~Lgll~~g~~~e~~l~~~~~~~~~~~~~~AYaGTGN~  471 (988)
                      ..++.         .+..+++.| ...++.++..+.+      .|..+-           ...+.+.  ..+.  ..   
T Consensus       176 ~~~en~~~~IIeaGaVp~LV~LL-sS~d~~lQ~eAa~------aLa~La-----------ss~ee~~--~aVI--ea---  230 (2102)
T PLN03200        176 GSTDGFWSATLEAGGVDILVKLL-SSGNSDAQANAAS------LLARLM-----------MAFESSI--SKVL--DA---  230 (2102)
T ss_pred             cCccchHHHHHHcCCHHHHHHHH-cCCCHHHHHHHHH------HHHHHH-----------cCChHHH--HHHH--HC---
Confidence            32222         223344444 3344444432111      010000           0111111  1111  11   


Q ss_pred             HHHHHHHHHhccCCCchhhHHHHHHHHHHhhcCccccccccCCCCchhHHhhccchhh---------hhhHhhHHHhhhh
Q psy6893         472 VATKRLLHVAVSDVNDDVRREAVTALGFILFRTLFYVAPACTRSPWPGVISLLDDPMI---------ELKEFSLKKLNDI  542 (988)
Q Consensus       472 ~~Iq~LLhi~~s~~~~dvrr~AV~~lg~I~~~~~~~~g~~~~~~~~p~ai~lL~~~~~---------~~~~~~~~~l~~~  542 (988)
                      -+|..|++++.++.+.++|..|+-.|+-|+.+++-+-..-...-|+|.-|.++..|..         +..++-+.-|.++
T Consensus       231 GaVP~LV~LL~sg~~~~VRE~AA~AL~nLAs~s~e~r~~Iv~aGgIp~LI~lL~sp~~e~~~~~~~~~Lqe~AvwALsNI  310 (2102)
T PLN03200        231 GAVKQLLKLLGQGNEVSVRAEAAGALEALSSQSKEAKQAIADAGGIPALINATVAPSKEFMQGEFAQALQENAMGALANI  310 (2102)
T ss_pred             CCHHHHHHHHccCCChHHHHHHHHHHHHHhcCCHHHHHHHHHCCCHHHHHHHHhCcchhhhccccchHHHHHHHHHHHHH
Confidence            2388899988887777899999999999998765321111123578888888874431         1233333446676


Q ss_pred             ccc
Q psy6893         543 VDD  545 (988)
Q Consensus       543 ~~~  545 (988)
                      ..+
T Consensus       311 cgg  313 (2102)
T PLN03200        311 CGG  313 (2102)
T ss_pred             hCC
Confidence            665

>PRK13800 putative oxidoreductase/HEAT repeat-containing protein; Provisional

Probab=98.19  E-value=0.00012  Score=93.51  Aligned_cols=194  Identities=19%  Similarity=0.180  Sum_probs=125.7

Q ss_pred             hhhhhhhhcccccCChHHHHHHHhhcCCCCCCCCCccchhhHHHHHhhhccCCchHHHHHHHHHhhhcCchhhHHHHHHh
Q psy6893         639 KLTATASLGVIHRGHETEALAHMQSYLPRETGPTSGYYEGGGLYALGLIHANHGAVINDYLLGQVKDATNEMVRHGGCLG  718 (988)
Q Consensus       639 kfsA~ASLG~Ih~gn~~~~l~~L~~yL~~~~~s~~~~~k~GAL~AlGlI~ag~~~~~~~~Ll~~l~~s~~~~ir~gA~LG  718 (988)
                      +..|+..||.+..+++.    .|-.+|.    ..++.+|..|+.+||-+..      ...|+..+ +.++..||..++-+
T Consensus       701 R~~A~~aL~~~~~~~~~----~l~~~L~----D~d~~VR~~Av~aL~~~~~------~~~l~~~l-~D~~~~VR~~aa~a  765 (897)
T PRK13800        701 RAAALDVLRALRAGDAA----LFAAALG----DPDHRVRIEAVRALVSVDD------VESVAGAA-TDENREVRIAVAKG  765 (897)
T ss_pred             HHHHHHHHHhhccCCHH----HHHHHhc----CCCHHHHHHHHHHHhcccC------cHHHHHHh-cCCCHHHHHHHHHH
Confidence            35667777777776653    3444664    5678999999999998733      12233333 45578999999998


Q ss_pred             hHhhhcCCCCHHHHHHHHHhhccCChhhHHHHHHHhhcccCCCCCHHHHHHHHHHHHhcccchhhhH-HHHHHHHHhcCC
Q psy6893         719 LGLAAMGSARDDIYEQLKFNLYQDDAVTGEAAGIAMGLVLLGSKSESAIQDMVAYAKETQHEKILRG-LAVGISFIMYGQ  797 (988)
Q Consensus       719 LGla~~Gs~~~dv~~~L~~~l~~D~~~~~e~AalAlGLI~vGs~n~d~i~~ll~~~~etq~e~i~R~-lalgLgLi~~Gr  797 (988)
                      ||-  +|+........|..++..++......|..+||-+  |.. ..++..+++.+.+.  +...|. .+-+||.  ++.
T Consensus       766 L~~--~~~~~~~~~~~L~~ll~D~d~~VR~aA~~aLg~~--g~~-~~~~~~l~~aL~d~--d~~VR~~Aa~aL~~--l~~  836 (897)
T PRK13800        766 LAT--LGAGGAPAGDAVRALTGDPDPLVRAAALAALAEL--GCP-PDDVAAATAALRAS--AWQVRQGAARALAG--AAA  836 (897)
T ss_pred             HHH--hccccchhHHHHHHHhcCCCHHHHHHHHHHHHhc--CCc-chhHHHHHHHhcCC--ChHHHHHHHHHHHh--ccc
Confidence            876  4666666677888777433333344666677765  432 33445566655332  233454 5555654  467


Q ss_pred             chhHHHHHHHHhcccchhhhhhcHHHHHHHHcCCCChhHHHHHHHHHHHhhhhhhhhhhhccCCCchHHHHHhhhhhccC
Q psy6893         798 LENADDLVRDLCEEKDAILRRSGMYTIAMAYCGSGSNVATKRLLHDAILRRSGMYTIAMAYCGSGSNVATKRLLHVAVSD  877 (988)
Q Consensus       798 ~e~a~~li~~L~~~~dp~~r~~~~~~lslAyaGtGnvl~iq~lL~~~~~~~lG~alia~g~~~tgn~~air~ll~~~~sd  877 (988)
                      ++....++..| .++++..|...+.+++                                .. .|++.+...|. -+.+|
T Consensus       837 ~~a~~~L~~~L-~D~~~~VR~~A~~aL~--------------------------------~~-~~~~~a~~~L~-~al~D  881 (897)
T PRK13800        837 DVAVPALVEAL-TDPHLDVRKAAVLALT--------------------------------RW-PGDPAARDALT-TALTD  881 (897)
T ss_pred             cchHHHHHHHh-cCCCHHHHHHHHHHHh--------------------------------cc-CCCHHHHHHHH-HHHhC
Confidence            77777777776 5778888888655443                                11 25666766665 44568


Q ss_pred             CChhhhhhHHhhhh
Q psy6893         878 VNDDVRREAVTALG  891 (988)
Q Consensus       878 ~~~~vrraa~~alg  891 (988)
                      .+.+||++|..+|+
T Consensus       882 ~d~~Vr~~A~~aL~  895 (897)
T PRK13800        882 SDADVRAYARRALA  895 (897)
T ss_pred             CCHHHHHHHHHHHh
Confidence            89999999998874

>KOG1858|consensus

Probab=98.15  E-value=1.9e-05  Score=100.50  Aligned_cols=231  Identities=14%  Similarity=0.203  Sum_probs=136.3

Q ss_pred             HHHhhhcccCccchhhHHHHhhhcccchHHhHHhhhhhhhhhhh--hhHHHHHHHhhhccCCcccccc----c-------
Q psy6893         198 ITKLSKILSGEVSIDLHLQFLIRSNKTDMLILKNTKESIRVSIC--HTATIIANAFMHSGTTSDQFLR----D-------  264 (988)
Q Consensus       198 ~~~~~~IL~g~~~~~l~~~fL~~~n~~d~~iL~~~k~s~r~s~~--~~A~~~~Naf~naG~~~D~fl~----~-------  264 (988)
                      ++.+...|.+..|+-+-.+-+   -..|.++.+..+.-+. .+|  -.|.-+.-|++-.||..+.--.    +       
T Consensus       722 ~~~V~~lL~~~~pi~i~~~~~---~~~D~~~~e~q~~~l~-~lc~RTma~pvGrg~l~~~T~~p~~t~~~~~p~l~~~g~  797 (1496)
T KOG1858|consen  722 MAEVRSLLNSSSPIVIETEQL---KTEDLEFKEEQEKFLQ-QLCLRTMALPVGRGMLTYGTKVPLPTESLTIPKLNLLGR  797 (1496)
T ss_pred             HHHHHHHhccCCCeEEEEeee---ccchhhhHHHHHHHHH-HHHHHHhccchhhhhhcccccCCCcccccccchhhcccc
Confidence            344445555555554433333   1246665433321111 111  1355566777777887665432    0       


Q ss_pred             ---------chhH-HHhhccchhhHHhhhccc-eecCChHHHHHHHh-cccCCCCCCCCCccchhHHHHHhhhccCCCCc
Q psy6893         265 ---------NLEW-LARATNWAKLTATASLGV-IHRGHETEALAHMQ-SYLPRETGPTSGYYEGGGLYALGLIHANHGAV  332 (988)
Q Consensus       265 ---------n~~W-l~k~~~~~~~sAtASLG~-Ih~~~~~~gl~~l~-~yL~s~~~~~~~y~~~GaL~alGli~~g~~~~  332 (988)
                               +.+- ...-++|+-|-..-+.|+ |-....+     |+ .++--++.......-||=|+||||=  ||-..
T Consensus       798 ~p~~~~ti~~~e~~~~~~teWp~FhngVa~GLrIsp~~~~-----Ids~WI~fnkp~~~~a~haGfl~glGLn--GhL~~  870 (1496)
T KOG1858|consen  798 HPGTLITIENKEIENQELTEWPEFHNGVASGLRISPFATE-----IDSSWIVFNKPKELTAEHAGFLFGLGLN--GHLKA  870 (1496)
T ss_pred             CCcccceecCchhhccccccchhhHHHHHhhcccCccccc-----ccceeEEEecCCCcchheeheeeecccc--ccccc
Confidence                     1121 135578999987766665 2221111     21 1110011124556789999999983  33210


Q ss_pred             hhHHHHHHhhhhcCCCchhHHHHHHHHHHHhhccCCChhHHHHHHHhhhh----cchHH-----HHH--HHHHHHHHHhc
Q psy6893         333 INDYLLGQVKDATNEDDAVTGEAAGIAMGLVLLGSKSESAIQDMVAYAKE----TQHEK-----ILR--GLAVGISFIMY  401 (988)
Q Consensus       333 ~~d~l~~lL~~~~~~d~~~~~~aA~lglGL~~~Gs~~~~~~~~L~~~~~d----t~~E~-----~~r--~lalgl~~v~~  401 (988)
                      ..   .-.+-.++...+..+..|=-+||+..|.||++.++...|.-++.-    |..|.     +..  -+.+||-|-|+
T Consensus       871 L~---~~~i~qyls~~h~~tSvgLLlGlsaS~~GtmD~ki~Kllsvhl~allp~ts~El~i~~~iQtAaIvGlGlLy~gS  947 (1496)
T KOG1858|consen  871 LN---TWHIYQYLSPKHEMTSVGLLLGLSASYRGTMDAKITKLLSVHLSALLPATSTELNIPLLIQTAAIVGLGLLYAGS  947 (1496)
T ss_pred             cc---HHHHHHHccCCCcceeHHHHhhhhHhhcCccchhHHHHHHHHHhhcCCCCcccccCchhhhhhhhhhhhheecCc
Confidence            00   112334455667788888999999999999999998777655542    22221     333  34566666688


Q ss_pred             CChhhHHHHHHHHhhcchh---hhhccchhHHHHHhhhhhhhcccc
Q psy6893         402 GQLENADDLVRDLCEEKDA---ILRRSGMYTIAMAYCVSYLYFDLF  444 (988)
Q Consensus       402 g~~e~a~~li~~L~~~~d~---~lr~~~~~~~~l~l~Lgll~~g~~  444 (988)
                      |+.-.++.+++.+-....+   .-|.  .|...-.++|||+++|++
T Consensus       948 ~h~~iaevL~~Eigr~~~~e~~~~rE--~Y~laAG~SLGLi~LG~G  991 (1496)
T KOG1858|consen  948 AHRRIAEVLLAEIGRPPNPENVLERE--GYKLAAGFSLGLINLGRG  991 (1496)
T ss_pred             chHHHHHHHHHHhcCCCCcccchhhh--hhhhhcCcccceeeeccC
Confidence            9999999999999877655   2455  588888899999999996

>PRK13800 putative oxidoreductase/HEAT repeat-containing protein; Provisional

Probab=98.06  E-value=0.00043  Score=88.65  Aligned_cols=120  Identities=15%  Similarity=0.044  Sum_probs=62.3

Q ss_pred             hhhhhhcccccCChHHHHHHHhhcCCCCCCCCCccchhhHHHHHhhhccCCchHHHHHHHHHhhhcCchhhHHHHHHhhH
Q psy6893         641 TATASLGVIHRGHETEALAHMQSYLPRETGPTSGYYEGGGLYALGLIHANHGAVINDYLLGQVKDATNEMVRHGGCLGLG  720 (988)
Q Consensus       641 sA~ASLG~Ih~gn~~~~l~~L~~yL~~~~~s~~~~~k~GAL~AlGlI~ag~~~~~~~~Ll~~l~~s~~~~ir~gA~LGLG  720 (988)
                      .++.+||-+..++. .+...|..++.    ..++.+|.-|+.+||-+.  ....+...|...+ .+++..+|.+|+-.||
T Consensus       761 ~aa~aL~~~~~~~~-~~~~~L~~ll~----D~d~~VR~aA~~aLg~~g--~~~~~~~~l~~aL-~d~d~~VR~~Aa~aL~  832 (897)
T PRK13800        761 AVAKGLATLGAGGA-PAGDAVRALTG----DPDPLVRAAALAALAELG--CPPDDVAAATAAL-RASAWQVRQGAARALA  832 (897)
T ss_pred             HHHHHHHHhccccc-hhHHHHHHHhc----CCCHHHHHHHHHHHHhcC--CcchhHHHHHHHh-cCCChHHHHHHHHHHH
Confidence            34444444443332 13444555553    345677777777777662  2222223344444 2344667777777776


Q ss_pred             hhhcCCCCHHHHHHHHHhhccCChhhHHHHHHHhhcccCCCCCHHHHHHHHHHHH
Q psy6893         721 LAAMGSARDDIYEQLKFNLYQDDAVTGEAAGIAMGLVLLGSKSESAIQDMVAYAK  775 (988)
Q Consensus       721 la~~Gs~~~dv~~~L~~~l~~D~~~~~e~AalAlGLI~vGs~n~d~i~~ll~~~~  775 (988)
                      .  +|  .++.+..|.+.+..++...+..|+.+||.+   .++.++...+...+.
T Consensus       833 ~--l~--~~~a~~~L~~~L~D~~~~VR~~A~~aL~~~---~~~~~a~~~L~~al~  880 (897)
T PRK13800        833 G--AA--ADVAVPALVEALTDPHLDVRKAAVLALTRW---PGDPAARDALTTALT  880 (897)
T ss_pred             h--cc--ccchHHHHHHHhcCCCHHHHHHHHHHHhcc---CCCHHHHHHHHHHHh
Confidence            5  23  345566777766322233344666677664   235566555555443

>PF01851 PC_rep: Proteasome/cyclosome repeat; InterPro: IPR002015 A weakly conserved repeat module of unknown function, which occurs in two regulatory subunits of the 26S-proteasome and in one subunit of the APC-complex (cyclosome) []

Probab=98.04  E-value=5.6e-06  Score=63.39  Aligned_cols=34  Identities=29%  Similarity=0.489  Sum_probs=30.0

Q ss_pred             HHHHHHHHhhccCCChhHHHHHHHhhhhcchHHH
Q psy6893         355 AAGIAMGLVLLGSKSESAIQDMVAYAKETQHEKI  388 (988)
Q Consensus       355 aA~lglGL~~~Gs~~~~~~~~L~~~~~dt~~E~~  388 (988)
                      +|++||||+|+||+++++++.|.|+++|++++++
T Consensus         1 gA~lgLGl~~aGs~~~~~~~~L~~~l~~~~~~~~   34 (35)
T PF01851_consen    1 GAILGLGLIYAGSGNEEVLDLLRPYLSDTSNEMI   34 (35)
T ss_dssp             HHHHHHHHHTTTT--HHHHHHHHHHHCTSSHHHH
T ss_pred             CcHHHHHHHHcCCCCHHHHHHHHHHHHhcccccc
Confidence            5899999999999999999999999999998864

; PDB: 4ADY_A.

>PF01851 PC_rep: Proteasome/cyclosome repeat; InterPro: IPR002015 A weakly conserved repeat module of unknown function, which occurs in two regulatory subunits of the 26S-proteasome and in one subunit of the APC-complex (cyclosome) []

Probab=97.68  E-value=5.2e-05  Score=58.08  Aligned_cols=30  Identities=33%  Similarity=0.575  Sum_probs=25.0

Q ss_pred             HHHHhhHhhhcCCCCHHHHHHHHHhhccCC
Q psy6893         714 GGCLGLGLAAMGSARDDIYEQLKFNLYQDD  743 (988)
Q Consensus       714 gA~LGLGla~~Gs~~~dv~~~L~~~l~~D~  743 (988)
                      |||+|||++|+||+|+++++.|.|.++.++
T Consensus         1 gA~lgLGl~~aGs~~~~~~~~L~~~l~~~~   30 (35)
T PF01851_consen    1 GAILGLGLIYAGSGNEEVLDLLRPYLSDTS   30 (35)
T ss_dssp             HHHHHHHHHTTTT--HHHHHHHHHHHCTSS
T ss_pred             CcHHHHHHHHcCCCCHHHHHHHHHHHHhcc
Confidence            799999999999999999999999995433

; PDB: 4ADY_A.

>TIGR02270 conserved hypothetical protein

Probab=97.44  E-value=0.0098  Score=69.72  Aligned_cols=152  Identities=14%  Similarity=0.087  Sum_probs=98.4

Q ss_pred             hhhhhhcccccCChHHHHHHHhhcCCCCCCCCCccchhhHHHHHhhhccCCchHHHHHHHHHhhhcCchhhHHHHHHhhH
Q psy6893         641 TATASLGVIHRGHETEALAHMQSYLPRETGPTSGYYEGGGLYALGLIHANHGAVINDYLLGQVKDATNEMVRHGGCLGLG  720 (988)
Q Consensus       641 sA~ASLG~Ih~gn~~~~l~~L~~yL~~~~~s~~~~~k~GAL~AlGlI~ag~~~~~~~~Ll~~l~~s~~~~ir~gA~LGLG  720 (988)
                      .+.+.+|....    .+...+.+.|.    ..+++++.-|+-++|.+....   ....|. ....+.++.||.+|+-||+
T Consensus       136 aal~al~~r~~----~~~~~L~~~L~----d~d~~Vra~A~raLG~l~~~~---a~~~L~-~al~d~~~~VR~aA~~al~  203 (410)
T TIGR02270       136 IGLAALGAHRH----DPGPALEAALT----HEDALVRAAALRALGELPRRL---SESTLR-LYLRDSDPEVRFAALEAGL  203 (410)
T ss_pred             HHHHHHHhhcc----ChHHHHHHHhc----CCCHHHHHHHHHHHHhhcccc---chHHHH-HHHcCCCHHHHHHHHHHHH
Confidence            34455555332    24556667774    567899999999999994322   333343 3346678899999999998


Q ss_pred             hhhcCCCCHHHHHHHHHhhccCChhh-HHHHHHHhhcccCCCCCHHHHHHHHHHHHhcccchhhhHHHHHHHHHhcCCch
Q psy6893         721 LAAMGSARDDIYEQLKFNLYQDDAVT-GEAAGIAMGLVLLGSKSESAIQDMVAYAKETQHEKILRGLAVGISFIMYGQLE  799 (988)
Q Consensus       721 la~~Gs~~~dv~~~L~~~l~~D~~~~-~e~AalAlGLI~vGs~n~d~i~~ll~~~~etq~e~i~R~lalgLgLi~~Gr~e  799 (988)
                      +  +|+  ++....|.... .+.... ...++.++++.    ++..+++.|.+++.+..   ..+.++.++|  .+|...
T Consensus       204 ~--lG~--~~A~~~l~~~~-~~~g~~~~~~l~~~lal~----~~~~a~~~L~~ll~d~~---vr~~a~~AlG--~lg~p~  269 (410)
T TIGR02270       204 L--AGS--RLAWGVCRRFQ-VLEGGPHRQRLLVLLAVA----GGPDAQAWLRELLQAAA---TRREALRAVG--LVGDVE  269 (410)
T ss_pred             H--cCC--HhHHHHHHHHH-hccCccHHHHHHHHHHhC----CchhHHHHHHHHhcChh---hHHHHHHHHH--HcCCcc
Confidence            7  466  66667666533 333332 23445555554    46688888888886543   5566666676  567888


Q ss_pred             hHHHHHHHHhcccchhhhhhc
Q psy6893         800 NADDLVRDLCEEKDAILRRSG  820 (988)
Q Consensus       800 ~a~~li~~L~~~~dp~~r~~~  820 (988)
                      .+..+++.|..  +++.|.++
T Consensus       270 av~~L~~~l~d--~~~aR~A~  288 (410)
T TIGR02270       270 AAPWCLEAMRE--PPWARLAG  288 (410)
T ss_pred             hHHHHHHHhcC--cHHHHHHH
Confidence            99999998763  34555543

Members are found in Myxococcus xanthus (six members), Geobacter sulfurreducens, and Pseudomonas aeruginosa; a short protein homologous to the N-terminal region is found in Mesorhizobium loti. All sequence are from Proteobacteria. The function is unknown.

>KOG2002|consensus

Probab=97.38  E-value=0.82  Score=57.71  Aligned_cols=193  Identities=19%  Similarity=0.153  Sum_probs=101.8

Q ss_pred             CChHHHHHHHhcccCCCCCCCCCccchhHHHHHhhhccCCCCc-hhHHHHHHhhhhc--CCCchhHHHHHHHHHHHhhcc
Q psy6893         290 GHETEALAHMQSYLPRETGPTSGYYEGGGLYALGLIHANHGAV-INDYLLGQVKDAT--NEDDAVTGEAAGIAMGLVLLG  366 (988)
Q Consensus       290 ~~~~~gl~~l~~yL~s~~~~~~~y~~~GaL~alGli~~g~~~~-~~d~l~~lL~~~~--~~d~~~~~~aA~lglGL~~~G  366 (988)
                      ++.+.++..+...|.-     +| .-.+|+.|||++--+..+. ...-.+.+|....  +..+|++-.  .++ +..|.=
T Consensus       213 ~~~~~a~~a~~ralqL-----dp-~~v~alv~L~~~~l~~~d~~s~~~~~~ll~~ay~~n~~nP~~l~--~LA-n~fyfK  283 (1018)
T KOG2002|consen  213 GMSEKALLAFERALQL-----DP-TCVSALVALGEVDLNFNDSDSYKKGVQLLQRAYKENNENPVALN--HLA-NHFYFK  283 (1018)
T ss_pred             cchhhHHHHHHHHHhc-----Ch-hhHHHHHHHHHHHHHccchHHHHHHHHHHHHHHhhcCCCcHHHH--HHH-HHHhhc
Confidence            4456666666666654     22 5689999999987776642 1223334443332  223333321  222 333333


Q ss_pred             CCChhHHHHHHHhhhhcchHH--HHHHHHHHHHHHhcCChhhHHHHHH-HHhhcchh-hhhccchhHHHHHhhhhhhhcc
Q psy6893         367 SKSESAIQDMVAYAKETQHEK--ILRGLAVGISFIMYGQLENADDLVR-DLCEEKDA-ILRRSGMYTIAMAYCVSYLYFD  442 (988)
Q Consensus       367 s~~~~~~~~L~~~~~dt~~E~--~~r~lalgl~~v~~g~~e~a~~li~-~L~~~~d~-~lr~~~~~~~~l~l~Lgll~~g  442 (988)
                      -.-+.|.+..--.+..|.++.  .-...-+|=.+=..|+-|.|=.... .+-.+.+. ++.         -+|||-.|+-
T Consensus       284 ~dy~~v~~la~~ai~~t~~~~~~aes~Y~~gRs~Ha~Gd~ekA~~yY~~s~k~~~d~~~l~---------~~GlgQm~i~  354 (1018)
T KOG2002|consen  284 KDYERVWHLAEHAIKNTENKSIKAESFYQLGRSYHAQGDFEKAFKYYMESLKADNDNFVLP---------LVGLGQMYIK  354 (1018)
T ss_pred             ccHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHccCCCCcccc---------ccchhHHHHH
Confidence            333334443333344444333  3345566777777788887776544 33333333 222         3688988888


Q ss_pred             cc----chhhHHh----hcc-chhHHHHHhhhccCC-CHHHHHHHHHHhcc---CCCchhhHHHHHHHHHHhh
Q psy6893         443 LF----SDLTYRI----VKN-RSGMYTIAMAYCGSG-SNVATKRLLHVAVS---DVNDDVRREAVTALGFILF  502 (988)
Q Consensus       443 ~~----~e~~l~~----~~~-~~~~~~~~~AYaGTG-N~~~Iq~LLhi~~s---~~~~dvrr~AV~~lg~I~~  502 (988)
                      +.    +..+.+.    .|. +.-+.++||-|++.+ .+.++++-..+...   -..+|  ..|.+.|+++.-
T Consensus       355 ~~dle~s~~~fEkv~k~~p~~~etm~iLG~Lya~~~~~~~~~d~a~~~l~K~~~~~~~d--~~a~l~laql~e  425 (1018)
T KOG2002|consen  355 RGDLEESKFCFEKVLKQLPNNYETMKILGCLYAHSAKKQEKRDKASNVLGKVLEQTPVD--SEAWLELAQLLE  425 (1018)
T ss_pred             hchHHHHHHHHHHHHHhCcchHHHHHHHHhHHHhhhhhhHHHHHHHHHHHHHHhccccc--HHHHHHHHHHHH
Confidence            88    3333343    343 455669999999996 23333322222222   11122  337777777775

>KOG1858|consensus

Probab=97.37  E-value=0.0014  Score=84.09  Aligned_cols=223  Identities=21%  Similarity=0.303  Sum_probs=137.9

Q ss_pred             CCCccchhhHHHHHhhhccCCchHHHHHHHHHhhhc-----C-----chhhHHHHHHhhHhhhcCCCCHHHHHHHHHhhc
Q psy6893         671 PTSGYYEGGGLYALGLIHANHGAVINDYLLGQVKDA-----T-----NEMVRHGGCLGLGLAAMGSARDDIYEQLKFNLY  740 (988)
Q Consensus       671 s~~~~~k~GAL~AlGlI~ag~~~~~~~~Ll~~l~~s-----~-----~~~ir~gA~LGLGla~~Gs~~~dv~~~L~~~l~  740 (988)
                      +.++.+--|-|+|++..+-|.-+.-+..++..+..+     .     +..++.+|++|+|+.|+||++..+-+.|+.=+-
T Consensus       882 ~~h~~tSvgLLlGlsaS~~GtmD~ki~Kllsvhl~allp~ts~El~i~~~iQtAaIvGlGlLy~gS~h~~iaevL~~Eig  961 (1496)
T KOG1858|consen  882 PKHEMTSVGLLLGLSASYRGTMDAKITKLLSVHLSALLPATSTELNIPLLIQTAAIVGLGLLYAGSAHRRIAEVLLAEIG  961 (1496)
T ss_pred             CCCcceeHHHHhhhhHhhcCccchhHHHHHHHHHhhcCCCCcccccCchhhhhhhhhhhhheecCcchHHHHHHHHHHhc
Confidence            567889999999999887777654333333322222     1     247999999999999999999999888876553


Q ss_pred             c----CChhhHH----HHHHHhhcccCCCCCHH-------HHHHHHHHHHh------------------------ccc-c
Q psy6893         741 Q----DDAVTGE----AAGIAMGLVLLGSKSES-------AIQDMVAYAKE------------------------TQH-E  780 (988)
Q Consensus       741 ~----D~~~~~e----~AalAlGLI~vGs~n~d-------~i~~ll~~~~e------------------------tq~-e  780 (988)
                      .    |+....|    +|++++|||++|.|+.-       ....+..|+..                        |.. +
T Consensus       962 r~~~~e~~~~rE~Y~laAG~SLGLi~LG~G~~~~g~~d~~~~~~l~~ym~~g~~r~~~~~~~~~~~~~~q~~eg~t~~~d 1041 (1496)
T KOG1858|consen  962 RPPNPENVLEREGYKLAAGFSLGLINLGRGSNLPGMSDLKLVSRLLVYMVGGVRRPIDVPQNEKYRSSTQILEGSTSNLD 1041 (1496)
T ss_pred             CCCCcccchhhhhhhhhcCcccceeeeccCCCCcchhcccchHHHHHHhhccccccccccccccccchhhhccCceeeee
Confidence            2    2223344    69999999999998753       34556666541                        111 2


Q ss_pred             hhhhHHHHHHHHHhcCCc--hhHHHH------HHHHhcccc-----------------------------hh--------
Q psy6893         781 KILRGLAVGISFIMYGQL--ENADDL------VRDLCEEKD-----------------------------AI--------  815 (988)
Q Consensus       781 ~i~R~lalgLgLi~~Gr~--e~a~~l------i~~L~~~~d-----------------------------p~--------  815 (988)
                      -...+.+++|+++|+--.  .-++.+      +.....-+|                             ++        
T Consensus      1042 v~~pGAviAl~mmflktnn~~Ia~~l~~p~t~yll~~vrPd~l~lR~~a~~lImW~~I~p~~~wv~~~vp~~ir~~~~~~ 1121 (1496)
T KOG1858|consen 1042 VTAPGAVIALGMMFLKTNNFEIANALRPPDTRYLLDFVRPDFLLLRVIARNLIMWDRIKPDYDWVKSQVPDVIREQADLQ 1121 (1496)
T ss_pred             cCCccHHHHHHHHHHHhchHHHHhhcCCCchhhHHhhcchHHHHHHHHHhhhhHHHhhCchHHHHHhhCCHHHHHhhhhh
Confidence            223588899999886332  211110      000000000                             11        


Q ss_pred             --------------hhhhcHHHHHHHHcCCCChhHHHHHHHHHHH-------------------------hhhhhhhhhh
Q psy6893         816 --------------LRRSGMYTIAMAYCGSGSNVATKRLLHDAIL-------------------------RRSGMYTIAM  856 (988)
Q Consensus       816 --------------~r~~~~~~lslAyaGtGnvl~iq~lL~~~~~-------------------------~~lG~alia~  856 (988)
                                    .-.++++.+++-||||||. ++...|+--..                         ..+=+.-++|
T Consensus      1122 ~dvd~~tl~q~~~~~~aGac~slgLrfagt~n~-~aknil~s~v~~fl~l~~~P~~~~~~~~~~~tv~~cl~v~i~sls~ 1200 (1496)
T KOG1858|consen 1122 EDVDLETLSQAYVNILAGACFSLGLRFAGTGNL-KAKNILNSFVDDFLRLCSLPLKSNDGRVTAVTVERCLSVLIISLSM 1200 (1496)
T ss_pred             hhhhhhhHHHHHHHHHHHHHHHHHhhhcccCCh-hHHHHHHHHHHHHHHHhhccCccCCCcccchhHHHHHHHHHHHHHH
Confidence                          1235577889999999998 55555554221                         1122344567


Q ss_pred             hccCCCchHHHHH--hhhhhccCCChhhh----hhHHhhhhhhhh
Q psy6893         857 AYCGSGSNVATKR--LLHVAVSDVNDDVR----REAVTALGFILF  895 (988)
Q Consensus       857 g~~~tgn~~air~--ll~~~~sd~~~~vr----raa~~alg~i~~  895 (988)
                      .-.|+|+-.+.|.  ++|.-.+ +..+++    -++=+|+|++..
T Consensus      1201 vmagSgdleVlr~~r~Lr~~~~-~~~~~~yg~~ma~h~alGil~l 1244 (1496)
T KOG1858|consen 1201 VMAGSGDLEVLRRLRFLRSRTS-PYGHMNYGAQMATHMALGILFL 1244 (1496)
T ss_pred             HHhhcCchHHHHHHHHHHHhcc-CCCcccchhHHHHHHhhceeEe
Confidence            7788999999875  5666555 444555    455566776654

>KOG4364|consensus

Probab=97.24  E-value=0.00085  Score=79.59  Aligned_cols=13  Identities=15%  Similarity=0.143  Sum_probs=6.5

Q ss_pred             hhcccCCCCCHHH
Q psy6893         754 MGLVLLGSKSESA  766 (988)
Q Consensus       754 lGLI~vGs~n~d~  766 (988)
                      -++.+.++...-+
T Consensus       155 ~~~~~~~~s~~vV  167 (811)
T KOG4364|consen  155 RDLKIMPSSVRVV  167 (811)
T ss_pred             cCcccCCCcchhH
Confidence            3555556544333

>TIGR02270 conserved hypothetical protein

Probab=96.56  E-value=0.1  Score=61.35  Aligned_cols=208  Identities=17%  Similarity=0.065  Sum_probs=107.5

Q ss_pred             HHHHHhhcCCCCCCCCCccchhhHHHHHhhhccCCchHHHHHHHHHhhhcCchhhHHHHHHhhHhhhcCCCCHHHHHHHH
Q psy6893         657 ALAHMQSYLPRETGPTSGYYEGGGLYALGLIHANHGAVINDYLLGQVKDATNEMVRHGGCLGLGLAAMGSARDDIYEQLK  736 (988)
Q Consensus       657 ~l~~L~~yL~~~~~s~~~~~k~GAL~AlGlI~ag~~~~~~~~Ll~~l~~s~~~~ir~gA~LGLGla~~Gs~~~dv~~~L~  736 (988)
                      ++..|-..|.    +.++.++.++..|||.|  +. ..+...|...+ .+.+..+|..++-.+|.     .+.+.+..|+
T Consensus        87 ~~~~L~~~L~----d~~~~vr~aaa~ALg~i--~~-~~a~~~L~~~L-~~~~p~vR~aal~al~~-----r~~~~~~~L~  153 (410)
T TIGR02270        87 DLRSVLAVLQ----AGPEGLCAGIQAALGWL--GG-RQAEPWLEPLL-AASEPPGRAIGLAALGA-----HRHDPGPALE  153 (410)
T ss_pred             HHHHHHHHhc----CCCHHHHHHHHHHHhcC--Cc-hHHHHHHHHHh-cCCChHHHHHHHHHHHh-----hccChHHHHH
Confidence            4555555663    34555777777777776  22 11344444444 34455666666555544     3445567777


Q ss_pred             HhhccCChhh-HHHHHHHhhcccCCCCCHHHHHHHHHHHHhcccchhhhH-HHHHHHHHhcCCchhHHHHHHHHhcccch
Q psy6893         737 FNLYQDDAVT-GEAAGIAMGLVLLGSKSESAIQDMVAYAKETQHEKILRG-LAVGISFIMYGQLENADDLVRDLCEEKDA  814 (988)
Q Consensus       737 ~~l~~D~~~~-~e~AalAlGLI~vGs~n~d~i~~ll~~~~etq~e~i~R~-lalgLgLi~~Gr~e~a~~li~~L~~~~dp  814 (988)
                      +.|. |+... ...|.-++|-+  |  ..+.+..+...+  .+++.-.|. .+.+++++  |..+..+.++... +..++
T Consensus       154 ~~L~-d~d~~Vra~A~raLG~l--~--~~~a~~~L~~al--~d~~~~VR~aA~~al~~l--G~~~A~~~l~~~~-~~~g~  223 (410)
T TIGR02270       154 AALT-HEDALVRAAALRALGEL--P--RRLSESTLRLYL--RDSDPEVRFAALEAGLLA--GSRLAWGVCRRFQ-VLEGG  223 (410)
T ss_pred             HHhc-CCCHHHHHHHHHHHHhh--c--cccchHHHHHHH--cCCCHHHHHHHHHHHHHc--CCHhHHHHHHHHH-hccCc
Confidence            7774 33332 33455566665  3  234444444432  223333443 33345433  4555555555423 22333


Q ss_pred             hhhhhcHHHHHHHHcCCCChhHHHHHHHHHH--HhhhhhhhhhhhccCCCchHHHHHhhhhhccCCChhhhhhHHhhhhh
Q psy6893         815 ILRRSGMYTIAMAYCGSGSNVATKRLLHDAI--LRRSGMYTIAMAYCGSGSNVATKRLLHVAVSDVNDDVRREAVTALGF  892 (988)
Q Consensus       815 ~~r~~~~~~lslAyaGtGnvl~iq~lL~~~~--~~~lG~alia~g~~~tgn~~air~ll~~~~sd~~~~vrraa~~alg~  892 (988)
                      ..+..  ....++..|  ++ .+...|....  ..+.-.++.++|.  .|...++..|+..+..+   .++|.|-+++..
T Consensus       224 ~~~~~--l~~~lal~~--~~-~a~~~L~~ll~d~~vr~~a~~AlG~--lg~p~av~~L~~~l~d~---~~aR~A~eA~~~  293 (410)
T TIGR02270       224 PHRQR--LLVLLAVAG--GP-DAQAWLRELLQAAATRREALRAVGL--VGDVEAAPWCLEAMREP---PWARLAGEAFSL  293 (410)
T ss_pred             cHHHH--HHHHHHhCC--ch-hHHHHHHHHhcChhhHHHHHHHHHH--cCCcchHHHHHHHhcCc---HHHHHHHHHHHH
Confidence            32322  222333332  22 2222222221  1233345566776  58899999999987433   599999999988


Q ss_pred             hhhhh
Q psy6893         893 ILFRK  897 (988)
Q Consensus       893 i~~~n  897 (988)
                      |.--+
T Consensus       294 ItG~~  298 (410)
T TIGR02270       294 ITGMD  298 (410)
T ss_pred             hhCCC
Confidence            87644

Members are found in Myxococcus xanthus (six members), Geobacter sulfurreducens, and Pseudomonas aeruginosa; a short protein homologous to the N-terminal region is found in Mesorhizobium loti. All sequence are from Proteobacteria. The function is unknown.

>COG1413 FOG: HEAT repeat [Energy production and conversion]

Probab=96.50  E-value=0.48  Score=53.58  Aligned_cols=151  Identities=19%  Similarity=0.199  Sum_probs=84.6

Q ss_pred             chhhhhhhhcccccCChHHHHHHHhhcCCCCCCCCCccchhhHHHHHhhhccCCchHHHHHHHHHhhhcCchhhHHHHHH
Q psy6893         638 AKLTATASLGVIHRGHETEALAHMQSYLPRETGPTSGYYEGGGLYALGLIHANHGAVINDYLLGQVKDATNEMVRHGGCL  717 (988)
Q Consensus       638 ~kfsA~ASLG~Ih~gn~~~~l~~L~~yL~~~~~s~~~~~k~GAL~AlGlI~ag~~~~~~~~Ll~~l~~s~~~~ir~gA~L  717 (988)
                      -++.+..+||.+...   .+...+.+++.    ..+..++.-|..+||.+...+. .+...+ .......+..+|..++.
T Consensus       165 ~r~~a~~~l~~~~~~---~~~~~l~~~l~----~~~~~vr~~Aa~aL~~~~~~~~-~~~~~l-~~~~~~~~~~vr~~~~~  235 (335)
T COG1413         165 VRAAAAEALGELGDP---EAIPLLIELLE----DEDADVRRAAASALGQLGSENV-EAADLL-VKALSDESLEVRKAALL  235 (335)
T ss_pred             HHHHHHHHHHHcCCh---hhhHHHHHHHh----CchHHHHHHHHHHHHHhhcchh-hHHHHH-HHHhcCCCHHHHHHHHH
Confidence            456788888877654   56777777775    4456899999999999955431 222333 33345567799999999


Q ss_pred             hhHhhhcCCCCHHHHHHHHHhhccCChhhHHHHHHHhhcccCCCCCHHHHHHHHHHHHhcccchhhhHHHHHHHHHhcCC
Q psy6893         718 GLGLAAMGSARDDIYEQLKFNLYQDDAVTGEAAGIAMGLVLLGSKSESAIQDMVAYAKETQHEKILRGLAVGISFIMYGQ  797 (988)
Q Consensus       718 GLGla~~Gs~~~dv~~~L~~~l~~D~~~~~e~AalAlGLI~vGs~n~d~i~~ll~~~~etq~e~i~R~lalgLgLi~~Gr  797 (988)
                      .||..  |  .++....|...+..++......++++++    +   .+.............+..+........++..++.
T Consensus       236 ~l~~~--~--~~~~~~~l~~~l~~~~~~~~~~~~~~~~----~---~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~  304 (335)
T COG1413         236 ALGEI--G--DEEAVDALAKALEDEDVILALLAAAALG----A---LDLAEAALPLLLLLIDEANAVRLEAALALGQIGQ  304 (335)
T ss_pred             Hhccc--C--cchhHHHHHHHHhccchHHHHHHHHHhc----c---cCchhhHHHHHHHhhcchhhHHHHHHHHHHhhcc
Confidence            99874  3  3344555655554333333334555555    1   1222222222223334444433333333555555


Q ss_pred             chhHHHHHHHH
Q psy6893         798 LENADDLVRDL  808 (988)
Q Consensus       798 ~e~a~~li~~L  808 (988)
                      .....+.+-..
T Consensus       305 ~~~~~a~~~~~  315 (335)
T COG1413         305 EKAVAALLLAL  315 (335)
T ss_pred             cchHHHHHHHh
Confidence            55544444443

>PLN03200 cellulose synthase-interactive protein; Provisional

Probab=96.35  E-value=2.2  Score=58.80  Aligned_cols=67  Identities=15%  Similarity=0.096  Sum_probs=47.8

Q ss_pred             HHHhhhccCCCHH---------HHHHHHHHhccCCCchhhHHHHHHHHHHhhcCcc-ccccccCCCCchhHHhhccchh
Q psy6893         460 TIAMAYCGSGSNV---------ATKRLLHVAVSDVNDDVRREAVTALGFILFRTLF-YVAPACTRSPWPGVISLLDDPM  528 (988)
Q Consensus       460 ~~~~AYaGTGN~~---------~Iq~LLhi~~s~~~~dvrr~AV~~lg~I~~~~~~-~~g~~~~~~~~p~ai~lL~~~~  528 (988)
                      +..+.|.-.|+..         .|+.|++++.+. ++.+|+.|+..|+.|.-+++. +-.+..+ -|+|.-+.||..+.
T Consensus       425 v~aL~~L~~~~~e~~~aIi~~ggIp~LV~LL~s~-s~~iQ~~A~~~L~nLa~~ndenr~aIiea-GaIP~LV~LL~s~~  501 (2102)
T PLN03200        425 IRALSSLCCGKGGLWEALGGREGVQLLISLLGLS-SEQQQEYAVALLAILTDEVDESKWAITAA-GGIPPLVQLLETGS  501 (2102)
T ss_pred             HHHHHHHhCCCHHHHHHHHHcCcHHHHHHHHcCC-CHHHHHHHHHHHHHHHcCCHHHHHHHHHC-CCHHHHHHHHcCCC
Confidence            6777777777665         577888888654 568899999999999876653 2222223 48899999887543

>COG1413 FOG: HEAT repeat [Energy production and conversion]

Probab=95.93  E-value=0.3  Score=55.25  Aligned_cols=155  Identities=21%  Similarity=0.173  Sum_probs=98.1

Q ss_pred             HHHHHHhhcCCCCCCCCCccchhhHHHHHhhhccCCchHHHHHHHHHhhhcCchhhHHHHHHhhHhhhcCCCCHHHHHHH
Q psy6893         656 EALAHMQSYLPRETGPTSGYYEGGGLYALGLIHANHGAVINDYLLGQVKDATNEMVRHGGCLGLGLAAMGSARDDIYEQL  735 (988)
Q Consensus       656 ~~l~~L~~yL~~~~~s~~~~~k~GAL~AlGlI~ag~~~~~~~~Ll~~l~~s~~~~ir~gA~LGLGla~~Gs~~~dv~~~L  735 (988)
                      .....+..++-    +.+..+|.+|.+.+|.+..   .+++..|.+.+ .+.+..+|..|..+||-    -+++..+..|
T Consensus        43 ~~~~~~~~~l~----~~~~~vr~~aa~~l~~~~~---~~av~~l~~~l-~d~~~~vr~~a~~aLg~----~~~~~a~~~l  110 (335)
T COG1413          43 EAADELLKLLE----DEDLLVRLSAAVALGELGS---EEAVPLLRELL-SDEDPRVRDAAADALGE----LGDPEAVPPL  110 (335)
T ss_pred             hhHHHHHHHHc----CCCHHHHHHHHHHHhhhch---HHHHHHHHHHh-cCCCHHHHHHHHHHHHc----cCChhHHHHH
Confidence            56677777774    4478999999999887721   22555555544 44567899999998875    5578888889


Q ss_pred             HHhhcc-CChhhHHHHHHHhhcccCCCCCHHHHHHHHHHHHhcc----------cchhhhHHHHHHHHHhcCCchhHHHH
Q psy6893         736 KFNLYQ-DDAVTGEAAGIAMGLVLLGSKSESAIQDMVAYAKETQ----------HEKILRGLAVGISFIMYGQLENADDL  804 (988)
Q Consensus       736 ~~~l~~-D~~~~~e~AalAlGLI~vGs~n~d~i~~ll~~~~etq----------~e~i~R~lalgLgLi~~Gr~e~a~~l  804 (988)
                      +..+.. .+......++.++|.+  |  +...+..++..+.+..          .....|..++.. |.-+|-++....+
T Consensus       111 i~~l~~d~~~~vR~~aa~aL~~~--~--~~~a~~~l~~~l~~~~~~~a~~~~~~~~~~~r~~a~~~-l~~~~~~~~~~~l  185 (335)
T COG1413         111 VELLENDENEGVRAAAARALGKL--G--DERALDPLLEALQDEDSGSAAAALDAALLDVRAAAAEA-LGELGDPEAIPLL  185 (335)
T ss_pred             HHHHHcCCcHhHHHHHHHHHHhc--C--chhhhHHHHHHhccchhhhhhhhccchHHHHHHHHHHH-HHHcCChhhhHHH
Confidence            888864 3344455788888876  4  4555777777665433          111234444433 5556777787788


Q ss_pred             HHHHhcccchhhhhhcHHHHHHHHcC
Q psy6893         805 VRDLCEEKDAILRRSGMYTIAMAYCG  830 (988)
Q Consensus       805 i~~L~~~~dp~~r~~~~~~lslAyaG  830 (988)
                      ++.+.... ...|...  +.++...|
T Consensus       186 ~~~l~~~~-~~vr~~A--a~aL~~~~  208 (335)
T COG1413         186 IELLEDED-ADVRRAA--ASALGQLG  208 (335)
T ss_pred             HHHHhCch-HHHHHHH--HHHHHHhh
Confidence            87766433 3455553  33444444

>PF13646 HEAT_2: HEAT repeats; PDB: 1OYZ_A 3FGA_A 2PF4_C 2IAE_A 3B2A_A

Probab=95.82  E-value=0.034  Score=49.95  Aligned_cols=87  Identities=22%  Similarity=0.334  Sum_probs=50.9

Q ss_pred             HHHHHhhhhcchHHHHHHHHHHHHHHhcCChhhHHHHHHHHhhcchhhhhccchhHHHHHhhhhhhhccccchhhHHhhc
Q psy6893         374 QDMVAYAKETQHEKILRGLAVGISFIMYGQLENADDLVRDLCEEKDAILRRSGMYTIAMAYCVSYLYFDLFSDLTYRIVK  453 (988)
Q Consensus       374 ~~L~~~~~dt~~E~~~r~lalgl~~v~~g~~e~a~~li~~L~~~~d~~lr~~~~~~~~l~l~Lgll~~g~~~e~~l~~~~  453 (988)
                      +.|+..+.+.....+++..+..|+  ..++++....+++.+ .++++.+|..+                           
T Consensus         2 ~~L~~~l~~~~~~~vr~~a~~~L~--~~~~~~~~~~L~~~l-~d~~~~vr~~a---------------------------   51 (88)
T PF13646_consen    2 PALLQLLQNDPDPQVRAEAARALG--ELGDPEAIPALIELL-KDEDPMVRRAA---------------------------   51 (88)
T ss_dssp             HHHHHHHHTSSSHHHHHHHHHHHH--CCTHHHHHHHHHHHH-TSSSHHHHHHH---------------------------
T ss_pred             HHHHHHHhcCCCHHHHHHHHHHHH--HcCCHhHHHHHHHHH-cCCCHHHHHHH---------------------------
Confidence            445555533333333333333333  445556666666655 66677777632                           


Q ss_pred             cchhHHHHHhhhccCCCHHHHHHHHHHhccCCCchhhHHHHHHHH
Q psy6893         454 NRSGMYTIAMAYCGSGSNVATKRLLHVAVSDVNDDVRREAVTALG  498 (988)
Q Consensus       454 ~~~~~~~~~~AYaGTGN~~~Iq~LLhi~~s~~~~dvrr~AV~~lg  498 (988)
                            +.+++..|  +..+++.|.+.+.++.++.+|..|+.+||
T Consensus        52 ------~~aL~~i~--~~~~~~~L~~~l~~~~~~~vr~~a~~aL~   88 (88)
T PF13646_consen   52 ------ARALGRIG--DPEAIPALIKLLQDDDDEVVREAAAEALG   88 (88)
T ss_dssp             ------HHHHHCCH--HHHTHHHHHHHHTC-SSHHHHHHHHHHHH
T ss_pred             ------HHHHHHhC--CHHHHHHHHHHHcCCCcHHHHHHHHhhcC
Confidence                  45556664  57788888888877766667888888776

>PF13646 HEAT_2: HEAT repeats; PDB: 1OYZ_A 3FGA_A 2PF4_C 2IAE_A 3B2A_A

Probab=95.75  E-value=0.046  Score=49.08  Aligned_cols=71  Identities=23%  Similarity=0.302  Sum_probs=33.7

Q ss_pred             HHHHHhhhcCchhhHHHHHHhhHhhhcCCCCHHHHHHHHHhhccCChhhHHHHHHHhhcccCCCCCHHHHHHHHHHHHh
Q psy6893         698 YLLGQVKDATNEMVRHGGCLGLGLAAMGSARDDIYEQLKFNLYQDDAVTGEAAGIAMGLVLLGSKSESAIQDMVAYAKE  776 (988)
Q Consensus       698 ~Ll~~l~~s~~~~ir~gA~LGLGla~~Gs~~~dv~~~L~~~l~~D~~~~~e~AalAlGLI~vGs~n~d~i~~ll~~~~e  776 (988)
                      .|++.+.++++..+|.-|+..||-    .++++++..|...+..++......|+.++|.+  |  +.+++..|.+.+.+
T Consensus         3 ~L~~~l~~~~~~~vr~~a~~~L~~----~~~~~~~~~L~~~l~d~~~~vr~~a~~aL~~i--~--~~~~~~~L~~~l~~   73 (88)
T PF13646_consen    3 ALLQLLQNDPDPQVRAEAARALGE----LGDPEAIPALIELLKDEDPMVRRAAARALGRI--G--DPEAIPALIKLLQD   73 (88)
T ss_dssp             HHHHHHHTSSSHHHHHHHHHHHHC----CTHHHHHHHHHHHHTSSSHHHHHHHHHHHHCC--H--HHHTHHHHHHHHTC
T ss_pred             HHHHHHhcCCCHHHHHHHHHHHHH----cCCHhHHHHHHHHHcCCCHHHHHHHHHHHHHh--C--CHHHHHHHHHHHcC
Confidence            344444444555555555555552    23445555555555322222333455555554  2  34455555554433

>TIGR02917 PEP_TPR_lipo putative PEP-CTERM system TPR-repeat lipoprotein

Probab=95.58  E-value=9.1  Score=47.63  Aligned_cols=211  Identities=12%  Similarity=0.038  Sum_probs=99.1

Q ss_pred             ccCChHHHHHHHhhcCCCCCCCCCccchhhHHHHHhhhccCCchHHHHHHHHHhhhcCchhhHHHHHHhhHhhhcCCCC-
Q psy6893         650 HRGHETEALAHMQSYLPRETGPTSGYYEGGGLYALGLIHANHGAVINDYLLGQVKDATNEMVRHGGCLGLGLAAMGSAR-  728 (988)
Q Consensus       650 h~gn~~~~l~~L~~yL~~~~~s~~~~~k~GAL~AlGlI~ag~~~~~~~~Ll~~l~~s~~~~ir~gA~LGLGla~~Gs~~-  728 (988)
                      ..|+.++++..+...+..    ...+...-..++..+...|..+++...+.......++..   -+...+|.++...++ 
T Consensus       647 ~~~~~~~A~~~~~~~~~~----~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~---~~~~~~~~~~~~~g~~  719 (899)
T TIGR02917       647 VMKNYAKAITSLKRALEL----KPDNTEAQIGLAQLLLAAKRTESAKKIAKSLQKQHPKAA---LGFELEGDLYLRQKDY  719 (899)
T ss_pred             HcCCHHHHHHHHHHHHhc----CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcCCh---HHHHHHHHHHHHCCCH
Confidence            378888888888777641    112233333333334444444444444432222222111   122334445544444 


Q ss_pred             HHHHHHHHHhhccCChhhHHHHHHHhhcccCCCCCHHHH-HHHHHHHHhcccchhhhHHHHHHHHHhcCCchhHHHHHHH
Q psy6893         729 DDIYEQLKFNLYQDDAVTGEAAGIAMGLVLLGSKSESAI-QDMVAYAKETQHEKILRGLAVGISFIMYGQLENADDLVRD  807 (988)
Q Consensus       729 ~dv~~~L~~~l~~D~~~~~e~AalAlGLI~vGs~n~d~i-~~ll~~~~etq~e~i~R~lalgLgLi~~Gr~e~a~~li~~  807 (988)
                      ++.+..+...+..++..   .+.+.++.+....|+.+-. ..+-+++.....+ ..-...++..+...|+.+.+..+++.
T Consensus       720 ~~A~~~~~~~~~~~~~~---~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~~~~-~~~~~~la~~~~~~g~~~~A~~~~~~  795 (899)
T TIGR02917       720 PAAIQAYRKALKRAPSS---QNAIKLHRALLASGNTAEAVKTLEAWLKTHPND-AVLRTALAELYLAQKDYDKAIKHYRT  795 (899)
T ss_pred             HHHHHHHHHHHhhCCCc---hHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC-HHHHHHHHHHHHHCcCHHHHHHHHHH
Confidence            33455555444322221   1222333333344444433 3333333322222 22223333334556888888888877


Q ss_pred             HhcccchhhhhhcHHHHHHHHcCCCChhHHHHHHHHHHH---------hhhhhhhhhhhccCCCchHHHHHhhhhhccCC
Q psy6893         808 LCEEKDAILRRSGMYTIAMAYCGSGSNVATKRLLHDAIL---------RRSGMYTIAMAYCGSGSNVATKRLLHVAVSDV  878 (988)
Q Consensus       808 L~~~~dp~~r~~~~~~lslAyaGtGnvl~iq~lL~~~~~---------~~lG~alia~g~~~tgn~~air~ll~~~~sd~  878 (988)
                      +.....+.  ...+..++..|...|+ .+...++.....         ..+|.++..+|.-    ..|+..+-+.+..+|
T Consensus       796 ~~~~~p~~--~~~~~~l~~~~~~~~~-~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~----~~A~~~~~~a~~~~~  868 (899)
T TIGR02917       796 VVKKAPDN--AVVLNNLAWLYLELKD-PRALEYAEKALKLAPNIPAILDTLGWLLVEKGEA----DRALPLLRKAVNIAP  868 (899)
T ss_pred             HHHhCCCC--HHHHHHHHHHHHhcCc-HHHHHHHHHHHhhCCCCcHHHHHHHHHHHHcCCH----HHHHHHHHHHHhhCC
Confidence            76443221  2223445566666667 445555555543         2456666565554    556666655555444

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=95.30  E-value=11  Score=46.86  Aligned_cols=212  Identities=15%  Similarity=0.064  Sum_probs=101.7

Q ss_pred             cccCChHHHHHHHhhcCCCCCCCCCccchhhHHHHHhhhccCC--chHHHHHHHHHhhhcCchhhHHHHHHhhHhhhcCC
Q psy6893         649 IHRGHETEALAHMQSYLPRETGPTSGYYEGGGLYALGLIHANH--GAVINDYLLGQVKDATNEMVRHGGCLGLGLAAMGS  726 (988)
Q Consensus       649 Ih~gn~~~~l~~L~~yL~~~~~s~~~~~k~GAL~AlGlI~ag~--~~~~~~~Ll~~l~~s~~~~ir~gA~LGLGla~~Gs  726 (988)
                      ...|+.++++..+..++...  +  ..  .-+.+.+|.+....  ..+++..+...+...++..   .+...+|.++.-.
T Consensus       578 ~~~~~~~~A~~~~~~~~~~~--~--~~--~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~---~~~~~l~~~~~~~  648 (899)
T TIGR02917       578 LGKGQLKKALAILNEAADAA--P--DS--PEAWLMLGRAQLAAGDLNKAVSSFKKLLALQPDSA---LALLLLADAYAVM  648 (899)
T ss_pred             HHCCCHHHHHHHHHHHHHcC--C--CC--HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCh---HHHHHHHHHHHHc
Confidence            34678888888888776411  1  11  12344444444333  3445555544333222221   2334455555333


Q ss_pred             CC-HHHHHHHHHhhccCChhhHHHHHHHhhcccCCCCCHHHHHHHHHHHHhcccchhhhHHHHHHHHHhcCCchhHHHHH
Q psy6893         727 AR-DDIYEQLKFNLYQDDAVTGEAAGIAMGLVLLGSKSESAIQDMVAYAKETQHEKILRGLAVGISFIMYGQLENADDLV  805 (988)
Q Consensus       727 ~~-~dv~~~L~~~l~~D~~~~~e~AalAlGLI~vGs~n~d~i~~ll~~~~etq~e~i~R~lalgLgLi~~Gr~e~a~~li  805 (988)
                      ++ ++....+...+..++...  .+-+.++.+..-.++.+-...+.+.+.+...........+|..+...|+.+.+...+
T Consensus       649 ~~~~~A~~~~~~~~~~~~~~~--~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~  726 (899)
T TIGR02917       649 KNYAKAITSLKRALELKPDNT--EAQIGLAQLLLAAKRTESAKKIAKSLQKQHPKAALGFELEGDLYLRQKDYPAAIQAY  726 (899)
T ss_pred             CCHHHHHHHHHHHHhcCCCCH--HHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcCChHHHHHHHHHHHHCCCHHHHHHHH
Confidence            33 334444444443222211  122233333334445554444444443322222222333444445566666666666


Q ss_pred             HHHhcc-cchhhhhhcHHHHHHHHcCCCChhHHHHHHHHHHH---------hhhhhhhhhhhccCCCchHHHHHhhhhhc
Q psy6893         806 RDLCEE-KDAILRRSGMYTIAMAYCGSGSNVATKRLLHDAIL---------RRSGMYTIAMAYCGSGSNVATKRLLHVAV  875 (988)
Q Consensus       806 ~~L~~~-~dp~~r~~~~~~lslAyaGtGnvl~iq~lL~~~~~---------~~lG~alia~g~~~tgn~~air~ll~~~~  875 (988)
                      +..... +++    ..++.++..|...|+.....+.+..+..         ..+|.++..+|+.    ..|+..+-.++.
T Consensus       727 ~~~~~~~~~~----~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~la~~~~~~g~~----~~A~~~~~~~~~  798 (899)
T TIGR02917       727 RKALKRAPSS----QNAIKLHRALLASGNTAEAVKTLEAWLKTHPNDAVLRTALAELYLAQKDY----DKAIKHYRTVVK  798 (899)
T ss_pred             HHHHhhCCCc----hHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCcCH----HHHHHHHHHHHH
Confidence            554432 222    3345566667777777776666666553         3455555556654    556666666555


Q ss_pred             cCCC
Q psy6893         876 SDVN  879 (988)
Q Consensus       876 sd~~  879 (988)
                      .+|+
T Consensus       799 ~~p~  802 (899)
T TIGR02917       799 KAPD  802 (899)
T ss_pred             hCCC
Confidence            5553

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.

>KOG2572|consensus

Probab=94.12  E-value=0.022  Score=64.82  Aligned_cols=8  Identities=63%  Similarity=0.696  Sum_probs=3.6

Q ss_pred             chhhhHHH
Q psy6893         780 EKILRGLA  787 (988)
Q Consensus       780 e~i~R~la  787 (988)
                      -+|.|.++
T Consensus       354 GKIaR~LA  361 (498)
T KOG2572|consen  354 GKIARSLA  361 (498)
T ss_pred             cHHHHHHH
Confidence            34444443

>KOG1824|consensus

Probab=93.47  E-value=31  Score=44.34  Aligned_cols=230  Identities=17%  Similarity=0.204  Sum_probs=118.6

Q ss_pred             ccchhhhhhhhcccccCChHHHHH-----HHhhcCCCCCCCCCccchhhHHHHHhhhccCCchHHHHHHHHHhhhcCc--
Q psy6893         636 NWAKLTATASLGVIHRGHETEALA-----HMQSYLPRETGPTSGYYEGGGLYALGLIHANHGAVINDYLLGQVKDATN--  708 (988)
Q Consensus       636 ~w~kfsA~ASLG~Ih~gn~~~~l~-----~L~~yL~~~~~s~~~~~k~GAL~AlGlI~ag~~~~~~~~Ll~~l~~s~~--  708 (988)
                      +--+..|.-|+|.|..+-...+..     ++..|     .+.++.++..|-||||-+..|+-+.-+..++.++.+.+.  
T Consensus       833 ~~ikvfa~LslGElgr~~~~s~~~e~~~~iieaf-----~sp~edvksAAs~ALGsl~vgnl~~yLpfil~qi~sqpk~Q  907 (1233)
T KOG1824|consen  833 DSIKVFALLSLGELGRRKDLSPQNELKDTIIEAF-----NSPSEDVKSAASYALGSLAVGNLPKYLPFILEQIESQPKRQ  907 (1233)
T ss_pred             hhHHHHHHhhhhhhccCCCCCcchhhHHHHHHHc-----CCChHHHHHHHHHHhhhhhcCchHhHHHHHHHHHhcchHhH
Confidence            345678899999998865332222     22322     256788999999999999877766677778887765532  


Q ss_pred             hhhHHHHHHhhHhhhcC---CCCHHHHHHHHHhhccCChhhHHHHHHHhhcccCCCCCHHHHHHHHHHHH--hcccchhh
Q psy6893         709 EMVRHGGCLGLGLAAMG---SARDDIYEQLKFNLYQDDAVTGEAAGIAMGLVLLGSKSESAIQDMVAYAK--ETQHEKIL  783 (988)
Q Consensus       709 ~~ir~gA~LGLGla~~G---s~~~dv~~~L~~~l~~D~~~~~e~AalAlGLI~vGs~n~d~i~~ll~~~~--etq~e~i~  783 (988)
                      ...-|.--.-++-+...   +.-+++...|..-......-++...|-.+|..-+  -+++-   ++.-+.  .+......
T Consensus       908 yLLLhSlkevi~~~svd~~~~~v~~IW~lL~k~cE~~eegtR~vvAECLGkL~l--~epes---LlpkL~~~~~S~a~~~  982 (1233)
T KOG1824|consen  908 YLLLHSLKEVIVSASVDGLKPYVEKIWALLFKHCECAEEGTRNVVAECLGKLVL--IEPES---LLPKLKLLLRSEASNT  982 (1233)
T ss_pred             HHHHHHHHHHHHHhccchhhhhHHHHHHHHHHhcccchhhhHHHHHHHhhhHHh--CChHH---HHHHHHHHhcCCCcch
Confidence            35555554455444333   2234455555554432222223355666666422  23332   222222  13344555


Q ss_pred             hHHHHHH-HHHhcCCchhHHHHHH-------HHhcccchhhhhhcHHHHHHHHcCCCChhHHHHHHHHHHHhhhhhhhhh
Q psy6893         784 RGLAVGI-SFIMYGQLENADDLVR-------DLCEEKDAILRRSGMYTIAMAYCGSGSNVATKRLLHDAILRRSGMYTIA  855 (988)
Q Consensus       784 R~lalgL-gLi~~Gr~e~a~~li~-------~L~~~~dp~~r~~~~~~lslAyaGtGnvl~iq~lL~~~~~~~lG~alia  855 (988)
                      |..+++. -+.---+..-+|+++.       .+..++|+-.|+.+..++.-  +-..-+--|-.++-..++++.      
T Consensus       983 rs~vvsavKfsisd~p~~id~~lk~~ig~fl~~~~dpDl~VrrvaLvv~nS--aahNKpslIrDllpeLLp~Ly------ 1054 (1233)
T KOG1824|consen  983 RSSVVSAVKFSISDQPQPIDPLLKQQIGDFLKLLRDPDLEVRRVALVVLNS--AAHNKPSLIRDLLPELLPLLY------ 1054 (1233)
T ss_pred             hhhhhheeeeeecCCCCccCHHHHHHHHHHHHHHhCCchhHHHHHHHHHHH--HHccCHhHHHHHHHHHHHHHH------
Confidence            6555543 1111223344555554       23344555556555444433  333334334444444443322      


Q ss_pred             hhccCCCchHHHHH-hhhhh-------ccCCChhhhhhHHhhh
Q psy6893         856 MAYCGSGSNVATKR-LLHVA-------VSDVNDDVRREAVTAL  890 (988)
Q Consensus       856 ~g~~~tgn~~air~-ll~~~-------~sd~~~~vrraa~~al  890 (988)
                             ++..||+ ++|-.       +-|..-|+|.+|.+++
T Consensus      1055 -------~eTkvrkelIreVeMGPFKH~VDdgLd~RKaaFEcm 1090 (1233)
T KOG1824|consen 1055 -------SETKVRKELIREVEMGPFKHTVDDGLDLRKAAFECM 1090 (1233)
T ss_pred             -------HhhhhhHhhhhhhcccCccccccchHHHHHHHHHHH
Confidence                   2333332 33322       1233567888888887

>PTZ00121 MAEBL; Provisional

Probab=93.15  E-value=0.24  Score=64.04  Aligned_cols=22  Identities=14%  Similarity=0.314  Sum_probs=12.1

Q ss_pred             HHHHHHHHHHHHhcCChhhHHH
Q psy6893         388 ILRGLAVGISFIMYGQLENADD  409 (988)
Q Consensus       388 ~~r~lalgl~~v~~g~~e~a~~  409 (988)
                      -..|+||--+++-+|.-+.-..
T Consensus       718 ~kSG~AM~~G~l~~CP~~~n~e  739 (2084)
T PTZ00121        718 DKSGIAMHHGFLASCPIDENEE  739 (2084)
T ss_pred             cchhhHHhcCCcccCCCcccHH
Confidence            3456666666666665444433

>KOG0166|consensus

Probab=92.35  E-value=2.9  Score=50.34  Aligned_cols=208  Identities=16%  Similarity=0.123  Sum_probs=132.9

Q ss_pred             HHHHHHHhhhcCchhhHHHHHHhhHhhhcCCCCHH-------HHHHHHHhhccCChhhHHHHHHHhhcccCCCCC-----
Q psy6893         696 NDYLLGQVKDATNEMVRHGGCLGLGLAAMGSARDD-------IYEQLKFNLYQDDAVTGEAAGIAMGLVLLGSKS-----  763 (988)
Q Consensus       696 ~~~Ll~~l~~s~~~~ir~gA~LGLGla~~Gs~~~d-------v~~~L~~~l~~D~~~~~e~AalAlGLI~vGs~n-----  763 (988)
                      +..|...+....++.++..|+-.|=-++.||....       +.-.++.++++.+....|.|..|+|-|---+-.     
T Consensus       111 v~~lV~~l~~~~~~~lq~eAAWaLTnIAsgtse~T~~vv~agavp~fi~Ll~s~~~~v~eQavWALgNIagds~~~Rd~v  190 (514)
T KOG0166|consen  111 VPRLVEFLSRDDNPTLQFEAAWALTNIASGTSEQTKVVVDAGAVPIFIQLLSSPSADVREQAVWALGNIAGDSPDCRDYV  190 (514)
T ss_pred             HHHHHHHHccCCChhHHHHHHHHHHHHhcCchhhccccccCCchHHHHHHhcCCcHHHHHHHHHHHhccccCChHHHHHH
Confidence            44555666556667889999998866655554332       223456667667777788999999998433211     


Q ss_pred             --HHHHHHHHHHHHhcccchhhhHHHHHHHHHhcCCc-----hhHHHHHH---HHhcccchhhhhhcHHHHHHHHcCCCC
Q psy6893         764 --ESAIQDMVAYAKETQHEKILRGLAVGISFIMYGQL-----ENADDLVR---DLCEEKDAILRRSGMYTIAMAYCGSGS  833 (988)
Q Consensus       764 --~d~i~~ll~~~~etq~e~i~R~lalgLgLi~~Gr~-----e~a~~li~---~L~~~~dp~~r~~~~~~lslAyaGtGn  833 (988)
                        ..++..++.++.....-.+.|-+.-.|.-++-|+.     +.+..++.   .|..+.|+...  .....+++|..-|-
T Consensus       191 l~~g~l~pLl~~l~~~~~~~~lRn~tW~LsNlcrgk~P~P~~~~v~~iLp~L~~ll~~~D~~Vl--~Da~WAlsyLsdg~  268 (514)
T KOG0166|consen  191 LSCGALDPLLRLLNKSDKLSMLRNATWTLSNLCRGKNPSPPFDVVAPILPALLRLLHSTDEEVL--TDACWALSYLTDGS  268 (514)
T ss_pred             HhhcchHHHHHHhccccchHHHHHHHHHHHHHHcCCCCCCcHHHHHHHHHHHHHHHhcCCHHHH--HHHHHHHHHHhcCC
Confidence              11334444444332223466888888888888885     44444444   44455677655  34556778988777


Q ss_pred             hhHHHHHHHH--------HHH----hhhhhhhhhhhccCCCchH---------HHHHhhhhhccCCChhhhhhHHhhhhh
Q psy6893         834 NVATKRLLHD--------AIL----RRSGMYTIAMAYCGSGSNV---------ATKRLLHVAVSDVNDDVRREAVTALGF  892 (988)
Q Consensus       834 vl~iq~lL~~--------~~~----~~lG~alia~g~~~tgn~~---------air~ll~~~~sd~~~~vrraa~~alg~  892 (988)
                      ..+||-++.-        ++.    -++-=|+-+.|.+-||+..         ++..|.+++.+.+.+++|..|++.++-
T Consensus       269 ne~iq~vi~~gvv~~LV~lL~~~~~~v~~PaLRaiGNIvtG~d~QTq~vi~~~~L~~l~~ll~~s~~~~ikkEAcW~iSN  348 (514)
T KOG0166|consen  269 NEKIQMVIDAGVVPRLVDLLGHSSPKVVTPALRAIGNIVTGSDEQTQVVINSGALPVLSNLLSSSPKESIKKEACWTISN  348 (514)
T ss_pred             hHHHHHHHHccchHHHHHHHcCCCcccccHHHhhccceeeccHHHHHHHHhcChHHHHHHHhccCcchhHHHHHHHHHHH
Confidence            7777765543        211    2232345555665566654         455566677767888999999999999


Q ss_pred             hhhhhhhhhHhhh
Q psy6893         893 ILFRKKRTRRKKK  905 (988)
Q Consensus       893 i~~~npeq~pk~~  905 (988)
                      |...+++++..+.
T Consensus       349 ItAG~~~qiqaVi  361 (514)
T KOG0166|consen  349 ITAGNQEQIQAVI  361 (514)
T ss_pred             hhcCCHHHHHHHH
Confidence            9999999876653

>PF01602 Adaptin_N: Adaptin N terminal region; InterPro: IPR002553 Proteins synthesized 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=92.27  E-value=12  Score=44.99  Aligned_cols=111  Identities=15%  Similarity=0.176  Sum_probs=71.9

Q ss_pred             HHHHhcccCCCCCCCCCccchhHHHHHhhhccCCCCchhHHHHHHhhhhcCCCchhHHHHHHHHHHHhhccCCCh--h-H
Q psy6893         296 LAHMQSYLPRETGPTSGYYEGGGLYALGLIHANHGAVINDYLLGQVKDATNEDDAVTGEAAGIAMGLVLLGSKSE--S-A  372 (988)
Q Consensus       296 l~~l~~yL~s~~~~~~~y~~~GaL~alGli~~g~~~~~~d~l~~lL~~~~~~d~~~~~~aA~lglGL~~~Gs~~~--~-~  372 (988)
                      ...|.+-|-+    +++|+++=||-.++-+.  . ....+++...+...+.++++.+|..|++++.-+|--..+.  . +
T Consensus        81 ~n~l~kdl~~----~n~~~~~lAL~~l~~i~--~-~~~~~~l~~~v~~ll~~~~~~VRk~A~~~l~~i~~~~p~~~~~~~  153 (526)
T PF01602_consen   81 INSLQKDLNS----PNPYIRGLALRTLSNIR--T-PEMAEPLIPDVIKLLSDPSPYVRKKAALALLKIYRKDPDLVEDEL  153 (526)
T ss_dssp             HHHHHHHHCS----SSHHHHHHHHHHHHHH---S-HHHHHHHHHHHHHHHHSSSHHHHHHHHHHHHHHHHHCHCCHHGGH
T ss_pred             HHHHHHhhcC----CCHHHHHHHHhhhhhhc--c-cchhhHHHHHHHHHhcCCchHHHHHHHHHHHHHhccCHHHHHHHH
Confidence            3444555554    58899999999999876  2 2366667777777777788999999999998887653332  2 5


Q ss_pred             HHHHHHhhhhcchHHHHHHHHHHHHHHhcCChh----hHHHHHHHHh
Q psy6893         373 IQDMVAYAKETQHEKILRGLAVGISFIMYGQLE----NADDLVRDLC  415 (988)
Q Consensus       373 ~~~L~~~~~dt~~E~~~r~lalgl~~v~~g~~e----~a~~li~~L~  415 (988)
                      ++.|...+.|+++.+...++.+-...  ..+++    ....++..|.
T Consensus       154 ~~~l~~lL~d~~~~V~~~a~~~l~~i--~~~~~~~~~~~~~~~~~L~  198 (526)
T PF01602_consen  154 IPKLKQLLSDKDPSVVSAALSLLSEI--KCNDDSYKSLIPKLIRILC  198 (526)
T ss_dssp             HHHHHHHTTHSSHHHHHHHHHHHHHH--HCTHHHHTTHHHHHHHHHH
T ss_pred             HHHHhhhccCCcchhHHHHHHHHHHH--ccCcchhhhhHHHHHHHhh
Confidence            67777878777766655544433322  33333    3444555543

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 []. Clathrin coats contain both clathrin and adaptor complexes that link clathrin to receptors in coated vesicles. Clathrin-associated protein complexes are believed to interact with the cytoplasmic tails of membrane proteins, leading to their selection and concentration. The two major types of clathrin adaptor complexes are the heterotetrameric adaptor protein (AP) complexes, and the monomeric GGA (Golgi-localising, Gamma-adaptin ear domain homology, ARF-binding proteins) adaptors []. All AP complexes are heterotetramers composed of two large subunits (adaptins), a medium subunit (mu) and a small subunit (sigma). Each subunit has a specific function. Adaptin subunits recognise and bind to clathrin through their hinge region (clathrin box), and recruit accessory proteins that modulate AP function through their C-terminal appendage domains. By contrast, GGAs are monomers composed of four domains, which have functions similar to AP subunits: an N-terminal VHS (Vps27p/Hrs/Stam) domain, a GAT (GGA and Tom1) domain, a hinge region, and a C-terminal GAE (gamma-adaptin ear) domain. The GAE domain is similar to the AP gamma-adaptin ear domain, being responsible for the recruitment of accessory proteins that regulate clathrin-mediated endocytosis []. While clathrin mediates endocytic protein transport from ER to Golgi, coatomers (COPI, COPII) primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the N-terminal domain of various adaptins from different AP clathrin adaptor complexes (including AP1, AP2, AP3 and AP4), and from the beta and gamma subunits of various coatomer (COP) adaptors. This domain has a 2-layer alpha/alpha fold that forms a right-handed superhelix, and is a member of the ARM repeat superfamily []. The N-terminal region of the various AP adaptor proteins share strong sequence identity; by contrast, the C-terminal domains of different adaptins share similar structural folds, but have little sequence identity []. It has been proposed that the N-terminal domain interacts with another uniform component of the coated vesicles. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0006886 intracellular protein transport, 0016192 vesicle-mediated transport, 0030117 membrane coat; PDB: 1W63_C 2JKR_A 2JKT_A 2XA7_A 2VGL_B 3TJZ_E.

>PF01602 Adaptin_N: Adaptin N terminal region; InterPro: IPR002553 Proteins synthesized 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=92.09  E-value=33  Score=41.13  Aligned_cols=104  Identities=14%  Similarity=0.029  Sum_probs=53.9

Q ss_pred             hccc-chhhhhhhhcccccCChHH--HHHHHhhcCCCCCCCCCccchhhHHHHHhhhcc-CCchHHHHHHHHHhhhcCch
Q psy6893         634 ATNW-AKLTATASLGVIHRGHETE--ALAHMQSYLPRETGPTSGYYEGGGLYALGLIHA-NHGAVINDYLLGQVKDATNE  709 (988)
Q Consensus       634 ~~~w-~kfsA~ASLG~Ih~gn~~~--~l~~L~~yL~~~~~s~~~~~k~GAL~AlGlI~a-g~~~~~~~~Ll~~l~~s~~~  709 (988)
                      .+++ -+|.+.-+|-.|..-++..  .....-.++.   ++++.++|.-++--+-.+.. .+...++..|...+.+..+.
T Consensus       278 s~~~nvr~~~L~~L~~l~~~~~~~v~~~~~~~~~l~---~~~d~~Ir~~~l~lL~~l~~~~n~~~Il~eL~~~l~~~~d~  354 (526)
T PF01602_consen  278 SSDPNVRYIALDSLSQLAQSNPPAVFNQSLILFFLL---YDDDPSIRKKALDLLYKLANESNVKEILDELLKYLSELSDP  354 (526)
T ss_dssp             SSSHHHHHHHHHHHHHHCCHCHHHHGTHHHHHHHHH---CSSSHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHC--H
T ss_pred             cccchhehhHHHHHHHhhcccchhhhhhhhhhheec---CCCChhHHHHHHHHHhhcccccchhhHHHHHHHHHHhccch
Confidence            4444 5666666666665544111  1111122332   25677888888776665522 12224667777776555455


Q ss_pred             hhHHHHHHhhHhhhc--CCCCHHHHHHHHHhhc
Q psy6893         710 MVRHGGCLGLGLAAM--GSARDDIYEQLKFNLY  740 (988)
Q Consensus       710 ~ir~gA~LGLGla~~--Gs~~~dv~~~L~~~l~  740 (988)
                      .++.-++..+|.+..  ....+..++.|..++.
T Consensus       355 ~~~~~~i~~I~~la~~~~~~~~~~v~~l~~ll~  387 (526)
T PF01602_consen  355 DFRRELIKAIGDLAEKFPPDAEWYVDTLLKLLE  387 (526)
T ss_dssp             HHHHHHHHHHHHHHHHHGSSHHHHHHHHHHHHH
T ss_pred             hhhhhHHHHHHHHHhccCchHHHHHHHHHHhhh
Confidence            577777776665431  2222445566666664

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 []. Clathrin coats contain both clathrin and adaptor complexes that link clathrin to receptors in coated vesicles. Clathrin-associated protein complexes are believed to interact with the cytoplasmic tails of membrane proteins, leading to their selection and concentration. The two major types of clathrin adaptor complexes are the heterotetrameric adaptor protein (AP) complexes, and the monomeric GGA (Golgi-localising, Gamma-adaptin ear domain homology, ARF-binding proteins) adaptors []. All AP complexes are heterotetramers composed of two large subunits (adaptins), a medium subunit (mu) and a small subunit (sigma). Each subunit has a specific function. Adaptin subunits recognise and bind to clathrin through their hinge region (clathrin box), and recruit accessory proteins that modulate AP function through their C-terminal appendage domains. By contrast, GGAs are monomers composed of four domains, which have functions similar to AP subunits: an N-terminal VHS (Vps27p/Hrs/Stam) domain, a GAT (GGA and Tom1) domain, a hinge region, and a C-terminal GAE (gamma-adaptin ear) domain. The GAE domain is similar to the AP gamma-adaptin ear domain, being responsible for the recruitment of accessory proteins that regulate clathrin-mediated endocytosis []. While clathrin mediates endocytic protein transport from ER to Golgi, coatomers (COPI, COPII) primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the N-terminal domain of various adaptins from different AP clathrin adaptor complexes (including AP1, AP2, AP3 and AP4), and from the beta and gamma subunits of various coatomer (COP) adaptors. This domain has a 2-layer alpha/alpha fold that forms a right-handed superhelix, and is a member of the ARM repeat superfamily []. The N-terminal region of the various AP adaptor proteins share strong sequence identity; by contrast, the C-terminal domains of different adaptins share similar structural folds, but have little sequence identity []. It has been proposed that the N-terminal domain interacts with another uniform component of the coated vesicles. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0006886 intracellular protein transport, 0016192 vesicle-mediated transport, 0030117 membrane coat; PDB: 1W63_C 2JKR_A 2JKT_A 2XA7_A 2VGL_B 3TJZ_E.

>smart00638 LPD_N Lipoprotein N-terminal Domain

Probab=91.98  E-value=18  Score=44.37  Aligned_cols=100  Identities=16%  Similarity=0.170  Sum_probs=65.2

Q ss_pred             ccchhhhhhhhcccccCChHHHHHHHhhcCCCCCCCCCccchhhHHHHHhhhccCCchHHHHHHHHHhhhc-CchhhHHH
Q psy6893         636 NWAKLTATASLGVIHRGHETEALAHMQSYLPRETGPTSGYYEGGGLYALGLIHANHGAVINDYLLGQVKDA-TNEMVRHG  714 (988)
Q Consensus       636 ~w~kfsA~ASLG~Ih~gn~~~~l~~L~~yL~~~~~s~~~~~k~GAL~AlGlI~ag~~~~~~~~Ll~~l~~s-~~~~ir~g  714 (988)
                      .+.+....=+||-+..  + .++..|.+|+..+ ...+.++|--|++||--+...+...+...|+..+.+. .+..+|+.
T Consensus       460 ~~~~~~~LkaLGN~g~--~-~~i~~l~~~l~~~-~~~~~~iR~~Av~Alr~~a~~~p~~v~~~l~~i~~n~~e~~EvRia  535 (574)
T smart00638      460 EEEIQLYLKALGNAGH--P-SSIKVLEPYLEGA-EPLSTFIRLAAILALRNLAKRDPRKVQEVLLPIYLNRAEPPEVRMA  535 (574)
T ss_pred             chheeeHHHhhhccCC--h-hHHHHHHHhcCCC-CCCCHHHHHHHHHHHHHHHHhCchHHHHHHHHHHcCCCCChHHHHH
Confidence            3556666667775544  3 5778888888722 3446688888888888664344445666666666554 34578888


Q ss_pred             HHHhhHhhhcCC-CCHHHHHHHHHhhccCC
Q psy6893         715 GCLGLGLAAMGS-ARDDIYEQLKFNLYQDD  743 (988)
Q Consensus       715 A~LGLGla~~Gs-~~~dv~~~L~~~l~~D~  743 (988)
                      |++.|    |-+ ....++..+...+..|.
T Consensus       536 A~~~l----m~t~P~~~~l~~ia~~l~~E~  561 (574)
T smart00638      536 AVLVL----METKPSVALLQRIAELLNKEP  561 (574)
T ss_pred             HHHHH----HhcCCCHHHHHHHHHHHhhcC
Confidence            88877    455 56667777777664433

>KOG2573|consensus

Probab=91.58  E-value=0.11  Score=59.19  Aligned_cols=8  Identities=50%  Similarity=0.742  Sum_probs=4.0

Q ss_pred             hHHhhccc
Q psy6893         519 GVISLLDD  526 (988)
Q Consensus       519 ~ai~lL~~  526 (988)
                      .+|+||.+
T Consensus       171 qaI~lLDq  178 (498)
T KOG2573|consen  171 QAIALLDQ  178 (498)
T ss_pred             HHHHHHHH
Confidence            44555554

>PTZ00266 NIMA-related protein kinase; Provisional

Probab=90.66  E-value=0.79  Score=59.42  Aligned_cols=11  Identities=36%  Similarity=0.878  Sum_probs=5.1

Q ss_pred             HHhhhccCCCH
Q psy6893         461 IAMAYCGSGSN  471 (988)
Q Consensus       461 ~~~AYaGTGN~  471 (988)
                      +.|.|+..|+.
T Consensus        91 IVMEY~~gGSL  101 (1021)
T PTZ00266         91 ILMEFCDAGDL  101 (1021)
T ss_pred             EEEeCCCCCcH
Confidence            34455555543

>KOG2573|consensus

Probab=90.41  E-value=0.097  Score=59.75  Aligned_cols=10  Identities=40%  Similarity=0.408  Sum_probs=5.5

Q ss_pred             ccchhhhHHH
Q psy6893         778 QHEKILRGLA  787 (988)
Q Consensus       778 q~e~i~R~la  787 (988)
                      ..-.|+|++|
T Consensus       366 NKGRISRyLA  375 (498)
T KOG2573|consen  366 NKGRISRYLA  375 (498)
T ss_pred             ccchHHHHHH
Confidence            3455666655

>KOG2171|consensus

Probab=90.39  E-value=71  Score=41.92  Aligned_cols=136  Identities=15%  Similarity=0.138  Sum_probs=77.3

Q ss_pred             HHHHHhhcCCCCCCCCCccchhhHHHHHhhhccCCchH-------HHHHHHHHhhhcCchhhHHHHHHhhHhhhcCCC--
Q psy6893         657 ALAHMQSYLPRETGPTSGYYEGGGLYALGLIHANHGAV-------INDYLLGQVKDATNEMVRHGGCLGLGLAAMGSA--  727 (988)
Q Consensus       657 ~l~~L~~yL~~~~~s~~~~~k~GAL~AlGlI~ag~~~~-------~~~~Ll~~l~~s~~~~ir~gA~LGLGla~~Gs~--  727 (988)
                      .+..+..++.    |.+.+-|-.||+||+-|.-|+..-       ++..+++.+ +.+++.||++||..+|...-.=.  
T Consensus       349 ~~~~l~~~l~----S~~w~~R~AaL~Als~i~EGc~~~m~~~l~~Il~~Vl~~l-~DphprVr~AA~naigQ~stdl~p~  423 (1075)
T KOG2171|consen  349 LFEALEAMLQ----STEWKERHAALLALSVIAEGCSDVMIGNLPKILPIVLNGL-NDPHPRVRYAALNAIGQMSTDLQPE  423 (1075)
T ss_pred             HHHHHHHHhc----CCCHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHhhc-CCCCHHHHHHHHHHHHhhhhhhcHH
Confidence            3455556665    678899999999999998888642       455555555 44678999999999998532111  


Q ss_pred             -----CHHHHHHHHHhhccCChhh-H-H--HHHHHhhcccCCCCCHHHHHHHHHHHHh--------cccchhhhHHHHHH
Q psy6893         728 -----RDDIYEQLKFNLYQDDAVT-G-E--AAGIAMGLVLLGSKSESAIQDMVAYAKE--------TQHEKILRGLAVGI  790 (988)
Q Consensus       728 -----~~dv~~~L~~~l~~D~~~~-~-e--~AalAlGLI~vGs~n~d~i~~ll~~~~e--------tq~e~i~R~lalgL  790 (988)
                           .+.+...|...+  |+... . .  +|+...+  |.--|..++++.++.-+.+        .......-.++-+|
T Consensus       424 iqk~~~e~l~~aL~~~l--d~~~~~rV~ahAa~al~n--f~E~~~~~~l~pYLd~lm~~~l~~L~~~~~~~v~e~vvtaI  499 (1075)
T KOG2171|consen  424 IQKKHHERLPPALIALL--DSTQNVRVQAHAAAALVN--FSEECDKSILEPYLDGLMEKKLLLLLQSSKPYVQEQAVTAI  499 (1075)
T ss_pred             HHHHHHHhccHHHHHHh--cccCchHHHHHHHHHHHH--HHHhCcHHHHHHHHHHHHHHHHHHHhcCCchhHHHHHHHHH
Confidence                 112223444444  33221 2 2  2222222  2334566777766654443        22233334555567


Q ss_pred             HHHhcCCchhH
Q psy6893         791 SFIMYGQLENA  801 (988)
Q Consensus       791 gLi~~Gr~e~a  801 (988)
                      |-+-.--++..
T Consensus       500 asvA~AA~~~F  510 (1075)
T KOG2171|consen  500 ASVADAAQEKF  510 (1075)
T ss_pred             HHHHHHHhhhh
Confidence            66655444443

>KOG0166|consensus

Probab=90.19  E-value=24  Score=42.84  Aligned_cols=270  Identities=17%  Similarity=0.160  Sum_probs=144.0

Q ss_pred             HHHHHHHHhccCCCchhhHHHHHHHHHHhhcCccccccccCCCCchhHHhhccchhhhhhHhhHHHhhhhcccCCCCchh
Q psy6893         473 ATKRLLHVAVSDVNDDVRREAVTALGFILFRTLFYVAPACTRSPWPGVISLLDDPMIELKEFSLKKLNDIVDDFWPENEK  552 (988)
Q Consensus       473 ~Iq~LLhi~~s~~~~dvrr~AV~~lg~I~~~~~~~~g~~~~~~~~p~ai~lL~~~~~~~~~~~~~~l~~~~~~~~~~~~~  552 (988)
                      .|.+|...+..+.++.+|-.|+-+|--|+.|+.-+.-...-.-++|.-|.||..|-..-.+.-+=-|.+|+++.-.-..+
T Consensus       110 ~v~~lV~~l~~~~~~~lq~eAAWaLTnIAsgtse~T~~vv~agavp~fi~Ll~s~~~~v~eQavWALgNIagds~~~Rd~  189 (514)
T KOG0166|consen  110 VVPRLVEFLSRDDNPTLQFEAAWALTNIASGTSEQTKVVVDAGAVPIFIQLLSSPSADVREQAVWALGNIAGDSPDCRDY  189 (514)
T ss_pred             cHHHHHHHHccCCChhHHHHHHHHHHHHhcCchhhccccccCCchHHHHHHhcCCcHHHHHHHHHHHhccccCChHHHHH
Confidence            46777777777778889999999999999999887777777789999999998654321111111166777762110000


Q ss_pred             hHHHHHHHHHhhhccCCchhHHHH--HHHHH----hc--CCchHHHHHhhhhhhhhhhhhhHHHHHHHHhhcCCCchhhh
Q psy6893         553 EKQLQARITKLSKILSGEVSIDLH--LQFLI----RS--NKTDMLILKNTKESIRVSICHTATIIANAFMHSGTTSDQFL  624 (988)
Q Consensus       553 ~~~~~~~~~~l~~Il~g~~~~~l~--l~fL~----~~--n~tD~~il~~~kds~r~s~~h~A~~~ana~~naGt~~D~fl  624 (988)
                       --....+..|+.++.....+.++  +.+..    |+  .+..+.-+               ..+--++...=...|.-.
T Consensus       190 -vl~~g~l~pLl~~l~~~~~~~~lRn~tW~LsNlcrgk~P~P~~~~v---------------~~iLp~L~~ll~~~D~~V  253 (514)
T KOG0166|consen  190 -VLSCGALDPLLRLLNKSDKLSMLRNATWTLSNLCRGKNPSPPFDVV---------------APILPALLRLLHSTDEEV  253 (514)
T ss_pred             -HHhhcchHHHHHHhccccchHHHHHHHHHHHHHHcCCCCCCcHHHH---------------HHHHHHHHHHHhcCCHHH
Confidence             00011123333333322221111  00000    00  00100000               001111111112223333


Q ss_pred             cchhHHHHh-hc-cc-chhhhhhhhcccccCChHHHHHHHhhcCCCCCCCCCccchhhHHHHHhhhccCCchH-------
Q psy6893         625 RDNLEWLAR-AT-NW-AKLTATASLGVIHRGHETEALAHMQSYLPRETGPTSGYYEGGGLYALGLIHANHGAV-------  694 (988)
Q Consensus       625 r~~~~wl~k-~~-~w-~kfsA~ASLG~Ih~gn~~~~l~~L~~yL~~~~~s~~~~~k~GAL~AlGlI~ag~~~~-------  694 (988)
                      ..+.-|.-. -. +| .+..++--.|         ....|-+.|-    ..++.+.--||-++|-|-.|....       
T Consensus       254 l~Da~WAlsyLsdg~ne~iq~vi~~g---------vv~~LV~lL~----~~~~~v~~PaLRaiGNIvtG~d~QTq~vi~~  320 (514)
T KOG0166|consen  254 LTDACWALSYLTDGSNEKIQMVIDAG---------VVPRLVDLLG----HSSPKVVTPALRAIGNIVTGSDEQTQVVINS  320 (514)
T ss_pred             HHHHHHHHHHHhcCChHHHHHHHHcc---------chHHHHHHHc----CCCcccccHHHhhccceeeccHHHHHHHHhc
Confidence            333334111 11 11 1222222222         2233444553    446678889999999998887541       


Q ss_pred             -HHHHHHHHhhhcCchhhHHHHHHhhHhhhcCCCC-------HHHHHHHHHhhccCChhhHHHHHHHhhcccCCCCCHHH
Q psy6893         695 -INDYLLGQVKDATNEMVRHGGCLGLGLAAMGSAR-------DDIYEQLKFNLYQDDAVTGEAAGIAMGLVLLGSKSESA  766 (988)
Q Consensus       695 -~~~~Ll~~l~~s~~~~ir~gA~LGLGla~~Gs~~-------~dv~~~L~~~l~~D~~~~~e~AalAlGLI~vGs~n~d~  766 (988)
                       ++..|...+..+..+.++-.||.-++=+.+|+..       ..++-.|+.++...+.....-|+.|++-.-.| |+.+-
T Consensus       321 ~~L~~l~~ll~~s~~~~ikkEAcW~iSNItAG~~~qiqaVida~l~p~Li~~l~~~ef~~rKEAawaIsN~ts~-g~~~q  399 (514)
T KOG0166|consen  321 GALPVLSNLLSSSPKESIKKEACWTISNITAGNQEQIQAVIDANLIPVLINLLQTAEFDIRKEAAWAISNLTSS-GTPEQ  399 (514)
T ss_pred             ChHHHHHHHhccCcchhHHHHHHHHHHHhhcCCHHHHHHHHHcccHHHHHHHHhccchHHHHHHHHHHHhhccc-CCHHH
Confidence             3455655665566778999999999999998763       23455666666444444444689999877666 55666


Q ss_pred             HHHHHH
Q psy6893         767 IQDMVA  772 (988)
Q Consensus       767 i~~ll~  772 (988)
                      +..|+.
T Consensus       400 i~yLv~  405 (514)
T KOG0166|consen  400 IKYLVE  405 (514)
T ss_pred             HHHHHH
Confidence            555544

>KOG1144|consensus

Probab=90.07  E-value=0.29  Score=60.00  Aligned_cols=7  Identities=29%  Similarity=0.463  Sum_probs=2.7

Q ss_pred             HHHHHHH
Q psy6893         801 ADDLVRD  807 (988)
Q Consensus       801 a~~li~~  807 (988)
                      .+.++..
T Consensus       112 ~dkllas  118 (1064)
T KOG1144|consen  112 LDKLLAS  118 (1064)
T ss_pred             hHHHhhh
Confidence            3344333

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=89.98  E-value=30  Score=39.41  Aligned_cols=191  Identities=14%  Similarity=0.056  Sum_probs=92.4

Q ss_pred             cccCChHHHHHHHhhcCCCCCCCCCccchhhHHHHHhhhccCCc--hHHHHHHHHHhhhcCchhhHHHHHHhhHhhhcCC
Q psy6893         649 IHRGHETEALAHMQSYLPRETGPTSGYYEGGGLYALGLIHANHG--AVINDYLLGQVKDATNEMVRHGGCLGLGLAAMGS  726 (988)
Q Consensus       649 Ih~gn~~~~l~~L~~yL~~~~~s~~~~~k~GAL~AlGlI~ag~~--~~~~~~Ll~~l~~s~~~~ir~gA~LGLGla~~Gs  726 (988)
                      ...|+.++++..++..+...  ...+..+.-++..+|.+....+  ..+..++...+...+   ....+...++.++...
T Consensus        80 ~~~g~~~~A~~~~~~~l~~~--~~~~~~~~~~~~~La~~~~~~g~~~~A~~~~~~~l~~~~---~~~~~~~~la~~~~~~  154 (389)
T PRK11788         80 RRRGEVDRAIRIHQNLLSRP--DLTREQRLLALQELGQDYLKAGLLDRAEELFLQLVDEGD---FAEGALQQLLEIYQQE  154 (389)
T ss_pred             HHcCcHHHHHHHHHHHhcCC--CCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCc---chHHHHHHHHHHHHHh
Confidence            35677888888877766411  1112223345555666555443  335544444332221   2234455555565555


Q ss_pred             CCHH-HHHHHHHhhccCChhh-HH--HHHHHhhcccCCCCCHHHHHHHHHHHHhcccchhhhHHHHHHHHHhcCCchhHH
Q psy6893         727 ARDD-IYEQLKFNLYQDDAVT-GE--AAGIAMGLVLLGSKSESAIQDMVAYAKETQHEKILRGLAVGISFIMYGQLENAD  802 (988)
Q Consensus       727 ~~~d-v~~~L~~~l~~D~~~~-~e--~AalAlGLI~vGs~n~d~i~~ll~~~~etq~e~i~R~lalgLgLi~~Gr~e~a~  802 (988)
                      ++.+ ..+.+...+..++... ..  ..-..+|.+....++.+-...++.-+.+...+.......++..+...|+.+.+.
T Consensus       155 g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~  234 (389)
T PRK11788        155 KDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALARGDLDAARALLKKALAADPQCVRASILLGDLALAQGDYAAAI  234 (389)
T ss_pred             chHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhHCcCCHHHHHHHHHHHHHCCCHHHHH
Confidence            5533 3333333332221111 11  122355666666666554333333222222222223344555556677777777


Q ss_pred             HHHHHHhcccchhhhhhcHHHHHHHHcCCCChhHHHHHHHHHH
Q psy6893         803 DLVRDLCEEKDAILRRSGMYTIAMAYCGSGSNVATKRLLHDAI  845 (988)
Q Consensus       803 ~li~~L~~~~dp~~r~~~~~~lslAyaGtGnvl~iq~lL~~~~  845 (988)
                      .+++.+.... |.........++.+|+..|++....+.+..+.
T Consensus       235 ~~~~~~~~~~-p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~  276 (389)
T PRK11788        235 EALERVEEQD-PEYLSEVLPKLMECYQALGDEAEGLEFLRRAL  276 (389)
T ss_pred             HHHHHHHHHC-hhhHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            7777665432 22112223455667777788777666666554

>PTZ00121 MAEBL; Provisional

Probab=89.31  E-value=1  Score=58.57  Aligned_cols=24  Identities=25%  Similarity=0.228  Sum_probs=13.5

Q ss_pred             hHHHHHHHHHHHhhccCCChhHHH
Q psy6893         351 VTGEAAGIAMGLVLLGSKSESAIQ  374 (988)
Q Consensus       351 ~~~~aA~lglGL~~~Gs~~~~~~~  374 (988)
                      +.-.-.|+||=--|.-+|.-+.-.
T Consensus       715 ip~~kSG~AM~~G~l~~CP~~~n~  738 (2084)
T PTZ00121        715 IPYDKSGIAMHHGFLASCPIDENE  738 (2084)
T ss_pred             ecccchhhHHhcCCcccCCCcccH
Confidence            444455667755566666655443

>PF05004 IFRD: Interferon-related developmental regulator (IFRD); InterPro: IPR007701 Interferon-related developmental regulator (IFRD1) is the human homologue of the Rattus norvegicus early response protein PC4 and its murine homologue TIS7 []

Probab=88.47  E-value=8.3  Score=43.91  Aligned_cols=31  Identities=29%  Similarity=0.229  Sum_probs=25.3

Q ss_pred             hHHHHHhhhhhccCCChhhhhhHHhhhhhhhh
Q psy6893         864 NVATKRLLHVAVSDVNDDVRREAVTALGFILF  895 (988)
Q Consensus       864 ~~air~ll~~~~sd~~~~vrraa~~alg~i~~  895 (988)
                      +.++.+|..++.++ +.+||.+|-.+++++.=
T Consensus       227 ~~~~~~l~~lL~s~-d~~VRiAAGEaiAll~E  257 (309)
T PF05004_consen  227 EEALPALSELLDSD-DVDVRIAAGEAIALLYE  257 (309)
T ss_pred             HHHHHHHHHHhcCC-CHHHHHHHHHHHHHHHH
Confidence            55677788888775 88999999999998854

The exact function of IFRD1 is unknown but it has been shown that PC4 is necessary for muscle differentiation and that it might have a role in signal transduction. This entry also contains IFRD2 and its murine equivalent SKMc15, which are highly expressed soon after gastrulation and in the hepatic primordium, suggesting an involvement in early hematopoiesis [].

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=88.29  E-value=81  Score=39.68  Aligned_cols=187  Identities=14%  Similarity=0.060  Sum_probs=78.4

Q ss_pred             cccCChHHHHHHHhhcCCCCCCCCCccchhhHHHHHhhhccCCchHHHHHHHHHhhhcCchhhHHHHHHhhHhhhcCCCC
Q psy6893         649 IHRGHETEALAHMQSYLPRETGPTSGYYEGGGLYALGLIHANHGAVINDYLLGQVKDATNEMVRHGGCLGLGLAAMGSAR  728 (988)
Q Consensus       649 Ih~gn~~~~l~~L~~yL~~~~~s~~~~~k~GAL~AlGlI~ag~~~~~~~~Ll~~l~~s~~~~ir~gA~LGLGla~~Gs~~  728 (988)
                      ...|+.++++..++..+...   ..+....-.+++..+...|...+++..+...+...++.   ..+...||.++.-.++
T Consensus       188 ~~~g~~~eA~~~~~~~l~~~---~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~p~~---~~~~~~Lg~~l~~~G~  261 (656)
T PRK15174        188 LNKSRLPEDHDLARALLPFF---ALERQESAGLAVDTLCAVGKYQEAIQTGESALARGLDG---AALRRSLGLAYYQSGR  261 (656)
T ss_pred             HHcCCHHHHHHHHHHHHhcC---CCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCC---HHHHHHHHHHHHHcCC
Confidence            45567777777766665421   00111111222333344455455555544444332221   1222334444443333


Q ss_pred             HH-----HHHHHHHhhccCChhhHHHHHHHhhcccCCCCCHHHHHHHHHHHHhcccchhhhHHHHHHHHHhcCCchhHHH
Q psy6893         729 DD-----IYEQLKFNLYQDDAVTGEAAGIAMGLVLLGSKSESAIQDMVAYAKETQHEKILRGLAVGISFIMYGQLENADD  803 (988)
Q Consensus       729 ~d-----v~~~L~~~l~~D~~~~~e~AalAlGLI~vGs~n~d~i~~ll~~~~etq~e~i~R~lalgLgLi~~Gr~e~a~~  803 (988)
                      .+     ....+...+..++...  .+-..+|.+....++.+-....++-+.....+...-...++..+...|+.+++..
T Consensus       262 ~~eA~~~A~~~~~~Al~l~P~~~--~a~~~lg~~l~~~g~~~eA~~~l~~al~l~P~~~~a~~~La~~l~~~G~~~eA~~  339 (656)
T PRK15174        262 SREAKLQAAEHWRHALQFNSDNV--RIVTLYADALIRTGQNEKAIPLLQQSLATHPDLPYVRAMYARALRQVGQYTAASD  339 (656)
T ss_pred             chhhHHHHHHHHHHHHhhCCCCH--HHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHH
Confidence            22     3444444443333221  2333445555555554443333333322222211112234444556677766666


Q ss_pred             HHHHHhcccchhhhhhcHHHHHHHHcCCCChhHHHHHHHHHH
Q psy6893         804 LVRDLCEEKDAILRRSGMYTIAMAYCGSGSNVATKRLLHDAI  845 (988)
Q Consensus       804 li~~L~~~~dp~~r~~~~~~lslAyaGtGnvl~iq~lL~~~~  845 (988)
                      .++.+... +|... ...+..+.+|...|+.......+..+.
T Consensus       340 ~l~~al~~-~P~~~-~~~~~~a~al~~~G~~deA~~~l~~al  379 (656)
T PRK15174        340 EFVQLARE-KGVTS-KWNRYAAAALLQAGKTSEAESVFEHYI  379 (656)
T ss_pred             HHHHHHHh-Cccch-HHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            66555432 12110 111223444555566655555555443

>KOG1824|consensus

Probab=88.20  E-value=4  Score=51.72  Aligned_cols=239  Identities=17%  Similarity=0.174  Sum_probs=143.1

Q ss_pred             HHHhhccchhhHHhhhccceec-CChHHHHHHHhcccCCCCCCCCCccchhHHHHHhhhccCCCCchhHHHHHHhhhhcC
Q psy6893         268 WLARATNWAKLTATASLGVIHR-GHETEALAHMQSYLPRETGPTSGYYEGGGLYALGLIHANHGAVINDYLLGQVKDATN  346 (988)
Q Consensus       268 Wl~k~~~~~~~sAtASLG~Ih~-~~~~~gl~~l~~yL~s~~~~~~~y~~~GaL~alGli~~g~~~~~~d~l~~lL~~~~~  346 (988)
                      -+.|.-.++.-.-+|.|-.+-. -+-.-+-+++..++.+   .++.-++-=|++.+|-+.-+....-...+...+-+.++
T Consensus       791 ~l~kqa~~siA~cvA~Lt~~~~~~s~s~a~kl~~~~~s~---~s~~~ikvfa~LslGElgr~~~~s~~~e~~~~iieaf~  867 (1233)
T KOG1824|consen  791 GLHKQAYYSIAKCVAALTCACPQKSKSLATKLIQDLQSP---KSSDSIKVFALLSLGELGRRKDLSPQNELKDTIIEAFN  867 (1233)
T ss_pred             chhHHHHHHHHHHHHHHHHhccccchhHHHHHHHHHhCC---CCchhHHHHHHhhhhhhccCCCCCcchhhHHHHHHHcC
Confidence            4666666666666676666655 1111223444444432   25667888999999999887764444445556777788


Q ss_pred             CCchhHHHHHHHHHHHhhccCCChhHHHHHHHhhh-hcc------h---HHHHHHHHHHHHHHhcCChhhHHHHHHHHhh
Q psy6893         347 EDDAVTGEAAGIAMGLVLLGSKSESAIQDMVAYAK-ETQ------H---EKILRGLAVGISFIMYGQLENADDLVRDLCE  416 (988)
Q Consensus       347 ~d~~~~~~aA~lglGL~~~Gs~~~~~~~~L~~~~~-dt~------~---E~~~r~lalgl~~v~~g~~e~a~~li~~L~~  416 (988)
                      +.+.-+..||++|||-+-+|+-+. -+..++..+. +..      |   |.|.++ +..      +-.+.++.|...|+.
T Consensus       868 sp~edvksAAs~ALGsl~vgnl~~-yLpfil~qi~sqpk~QyLLLhSlkevi~~~-svd------~~~~~v~~IW~lL~k  939 (1233)
T KOG1824|consen  868 SPSEDVKSAASYALGSLAVGNLPK-YLPFILEQIESQPKRQYLLLHSLKEVIVSA-SVD------GLKPYVEKIWALLFK  939 (1233)
T ss_pred             CChHHHHHHHHHHhhhhhcCchHh-HHHHHHHHHhcchHhHHHHHHHHHHHHHHh-ccc------hhhhhHHHHHHHHHH
Confidence            889999999999999888887643 2333333222 211      1   222221 111      345678888888887


Q ss_pred             cchhhhhccchhHHHHHhhhhhhhccccchh--hHHh-h--ccch--hHHHHHhhhccCCCHHHHHHHHH-------Hhc
Q psy6893         417 EKDAILRRSGMYTIAMAYCVSYLYFDLFSDL--TYRI-V--KNRS--GMYTIAMAYCGSGSNVATKRLLH-------VAV  482 (988)
Q Consensus       417 ~~d~~lr~~~~~~~~l~l~Lgll~~g~~~e~--~l~~-~--~~~~--~~~~~~~AYaGTGN~~~Iq~LLh-------i~~  482 (988)
                      +-+-.- .|.  .-.+|.|||.+-+=.....  -++. +  +.|.  ...+.+.=|-=|-....|..+|.       .+.
T Consensus       940 ~cE~~e-egt--R~vvAECLGkL~l~epesLlpkL~~~~~S~a~~~rs~vvsavKfsisd~p~~id~~lk~~ig~fl~~~ 1016 (1233)
T KOG1824|consen  940 HCECAE-EGT--RNVVAECLGKLVLIEPESLLPKLKLLLRSEASNTRSSVVSAVKFSISDQPQPIDPLLKQQIGDFLKLL 1016 (1233)
T ss_pred             hcccch-hhh--HHHHHHHhhhHHhCChHHHHHHHHHHhcCCCcchhhhhhheeeeeecCCCCccCHHHHHHHHHHHHHH
Confidence            653321 221  3468999999876554111  1111 1  1121  12255556666666666666665       345


Q ss_pred             cCCCchhhHHHHHHHHHHhhcCccccccccCCCCchhHHhhcc
Q psy6893         483 SDVNDDVRREAVTALGFILFRTLFYVAPACTRSPWPGVISLLD  525 (988)
Q Consensus       483 s~~~~dvrr~AV~~lg~I~~~~~~~~g~~~~~~~~p~ai~lL~  525 (988)
                      .|++-.|||.|+..+--.+-+.|     +|+|.-.|+.+-+|-
T Consensus      1017 ~dpDl~VrrvaLvv~nSaahNKp-----slIrDllpeLLp~Ly 1054 (1233)
T KOG1824|consen 1017 RDPDLEVRRVALVVLNSAAHNKP-----SLIRDLLPELLPLLY 1054 (1233)
T ss_pred             hCCchhHHHHHHHHHHHHHccCH-----hHHHHHHHHHHHHHH
Confidence            67777899999887776665444     777777777666554

>KOG1943|consensus

Probab=87.40  E-value=1.1e+02  Score=40.18  Aligned_cols=155  Identities=14%  Similarity=0.105  Sum_probs=82.8

Q ss_pred             hhhhhhhhcccccCChHHHH-HHHhhcCCCCCCCCCccchhhHHHHHhhhccCCch-H---------HHHHHHHHhh---
Q psy6893         639 KLTATASLGVIHRGHETEAL-AHMQSYLPRETGPTSGYYEGGGLYALGLIHANHGA-V---------INDYLLGQVK---  704 (988)
Q Consensus       639 kfsA~ASLG~Ih~gn~~~~l-~~L~~yL~~~~~s~~~~~k~GAL~AlGlI~ag~~~-~---------~~~~Ll~~l~---  704 (988)
                      ++.++.+|-.++.|.++.-. -.+-|+|.+ +-+.+...+-|..+|.|-|-.+... +         .+.-+.+.+.   
T Consensus       561 relaa~aL~~Ls~~~pk~~a~~~L~~lld~-~ls~~~~~r~g~~la~~ev~~~~~~l~~~~~~l~e~~i~~l~~ii~~~~  639 (1133)
T KOG1943|consen  561 RELAAYALHKLSLTEPKYLADYVLPPLLDS-TLSKDASMRHGVFLAAGEVIGALRKLEPVIKGLDENRIAGLLSIIPPIC  639 (1133)
T ss_pred             HHHHHHHHHHHHHhhHHhhcccchhhhhhh-hcCCChHHhhhhHHHHHHHHHHhhhhhhhhhhhHHHHhhhhhhhccHHH
Confidence            36888888888888776443 224444432 2356777888888888876444321 0         1111211110   


Q ss_pred             ----hc-CchhhHHHHHHhhHhhhcCCCC---HHHHHHHHHhhc-cC--Ch-----hhHHHHHHHhhcccCCCCCHH-HH
Q psy6893         705 ----DA-TNEMVRHGGCLGLGLAAMGSAR---DDIYEQLKFNLY-QD--DA-----VTGEAAGIAMGLVLLGSKSES-AI  767 (988)
Q Consensus       705 ----~s-~~~~ir~gA~LGLGla~~Gs~~---~dv~~~L~~~l~-~D--~~-----~~~e~AalAlGLI~vGs~n~d-~i  767 (988)
                          .- ...++|-+.+-++-......-+   +-+.+....++- .+  ..     ..-..+.+..-.++...++.+ ++
T Consensus       640 ~~~~~rg~~~lmr~~~~~~Ie~~s~s~~~~~~~~v~e~~~~ll~~~l~~~n~i~~~av~av~~l~s~y~~~d~~~~~~li  719 (1133)
T KOG1943|consen  640 DRYFYRGQGTLMRQATLKFIEQLSLSKDRLFQDFVIENWQMLLAQNLTLPNQIRDAAVSAVSDLVSTYVKADEGEEAPLI  719 (1133)
T ss_pred             HHHhccchHHHHHHHHHHHHHHhhhccchhHHHHHHHHHHHHHHHhhcchHHHHHHHHHHHHHHHHHHHhcCchhhhHHH
Confidence                00 1134554444444443333322   234443333332 12  11     111234455566666666666 66


Q ss_pred             HHHHHHHHhcccchhhhHHHHHHHHHh
Q psy6893         768 QDMVAYAKETQHEKILRGLAVGISFIM  794 (988)
Q Consensus       768 ~~ll~~~~etq~e~i~R~lalgLgLi~  794 (988)
                      ..++..+.+...+.+.|++.+.+|.+-
T Consensus       720 ~~~ls~~~~~~~~~~r~g~~lal~~lp  746 (1133)
T KOG1943|consen  720 TRYLSRLTKCSEERIRRGLILALGVLP  746 (1133)
T ss_pred             HHHHHHhcCchHHHHHHHHHHHHccCc
Confidence            777777766667889999988887654

>COG5064 SRP1 Karyopherin (importin) alpha [Intracellular trafficking and secretion]

Probab=87.32  E-value=8.6  Score=43.92  Aligned_cols=208  Identities=16%  Similarity=0.176  Sum_probs=132.0

Q ss_pred             HHHHHHHhhhcCchhhHHHHHHhhHhhhcCCCCHH-------HHHHHHHhhccCChhhHHHHHHHhhcccCCCCC-----
Q psy6893         696 NDYLLGQVKDATNEMVRHGGCLGLGLAAMGSARDD-------IYEQLKFNLYQDDAVTGEAAGIAMGLVLLGSKS-----  763 (988)
Q Consensus       696 ~~~Ll~~l~~s~~~~ir~gA~LGLGla~~Gs~~~d-------v~~~L~~~l~~D~~~~~e~AalAlGLI~vGs~n-----  763 (988)
                      ...+.+.+.+......+..|.-.|-=++.||.+..       +.-.++.+|++.+....|.|--|+|-|-=.|..     
T Consensus       116 VpRfvefm~~~q~~mlqfEAaWalTNiaSGtt~QTkvVvd~~AVPlfiqlL~s~~~~V~eQavWALGNiAGDS~~~RD~v  195 (526)
T COG5064         116 VPRFVEFMDEIQRDMLQFEAAWALTNIASGTTQQTKVVVDAGAVPLFIQLLSSTEDDVREQAVWALGNIAGDSEGCRDYV  195 (526)
T ss_pred             cHHHHHHHHhcchhHHHHHHHHHHhhhccCcccceEEEEeCCchHHHHHHHcCchHHHHHHHHHHhccccCCchhHHHHH
Confidence            44456666677778899999999988888887654       345677777655555678899999998322211     


Q ss_pred             --HHHHHHHHHHHHhcc-cchhhhHHHHHHHHHhcCCc--------hhHHHHHHHHhcccchhhhhhcHHHHHHHHcCCC
Q psy6893         764 --ESAIQDMVAYAKETQ-HEKILRGLAVGISFIMYGQL--------ENADDLVRDLCEEKDAILRRSGMYTIAMAYCGSG  832 (988)
Q Consensus       764 --~d~i~~ll~~~~etq-~e~i~R~lalgLgLi~~Gr~--------e~a~~li~~L~~~~dp~~r~~~~~~lslAyaGtG  832 (988)
                        ..+++.++.++.+.. |-.+.|...--|.=+.-|+.        ..+-+++..|..+.||-.-.-++++  +.|+.-|
T Consensus       196 L~~galeplL~ll~ss~~~ismlRn~TWtLSNlcRGknP~P~w~~isqalpiL~KLiys~D~evlvDA~WA--iSYlsDg  273 (526)
T COG5064         196 LQCGALEPLLGLLLSSAIHISMLRNATWTLSNLCRGKNPPPDWSNISQALPILAKLIYSRDPEVLVDACWA--ISYLSDG  273 (526)
T ss_pred             HhcCchHHHHHHHHhccchHHHHHHhHHHHHHhhCCCCCCCchHHHHHHHHHHHHHHhhcCHHHHHHHHHH--HHHhccC
Confidence              113455566555433 45566766666655665654        2355666777777777665655554  5699988


Q ss_pred             ChhHHHHHHHHHHHhh------------hhhhhhhhhccCCCchH---------HHHHhhhhhccCCChhhhhhHHhhhh
Q psy6893         833 SNVATKRLLHDAILRR------------SGMYTIAMAYCGSGSNV---------ATKRLLHVAVSDVNDDVRREAVTALG  891 (988)
Q Consensus       833 nvl~iq~lL~~~~~~~------------lG~alia~g~~~tgn~~---------air~ll~~~~sd~~~~vrraa~~alg  891 (988)
                      -..++|-.+.--...|            .-=++=+.|-+=||+..         ++..|..+ .|.|-+.+|..+.+.++
T Consensus       274 ~~E~i~avld~g~~~RLvElLs~~sa~iqtPalR~vGNIVTG~D~QTqviI~~G~L~a~~~l-Ls~~ke~irKEaCWTiS  352 (526)
T COG5064         274 PNEKIQAVLDVGIPGRLVELLSHESAKIQTPALRSVGNIVTGSDDQTQVIINCGALKAFRSL-LSSPKENIRKEACWTIS  352 (526)
T ss_pred             cHHHHHHHHhcCCcHHHHHHhcCccccccCHHHHhhcCeeecCccceehheecccHHHHHHH-hcChhhhhhhhhheeec
Confidence            8888887765433221            11122233333344432         23334334 45578899999999999


Q ss_pred             hhhhhhhhhhHhhhh
Q psy6893         892 FILFRKKRTRRKKKK  906 (988)
Q Consensus       892 ~i~~~npeq~pk~~k  906 (988)
                      =|...|.+++..+.+
T Consensus       353 NITAGnteqiqavid  367 (526)
T COG5064         353 NITAGNTEQIQAVID  367 (526)
T ss_pred             ccccCCHHHHHHHHh
Confidence            999999988766543

>PF07946 DUF1682: Protein of unknown function (DUF1682); InterPro: IPR012879 The members of this family are all hypothetical eukaryotic proteins of unknown function

Probab=87.01  E-value=1.1  Score=51.06  Aligned_cols=7  Identities=29%  Similarity=0.477  Sum_probs=2.8

Q ss_pred             HhhcCCC
Q psy6893         613 FMHSGTT  619 (988)
Q Consensus       613 ~~naGt~  619 (988)
                      |-..|++
T Consensus        47 Fa~VG~~   53 (321)
T PF07946_consen   47 FALVGDD   53 (321)
T ss_pred             ccccCCC
Confidence            3334443

One member (Q920S6 from SWISSPROT) is described as being an adipocyte-specific protein, but no evidence of this was found.

>KOG0567|consensus

Probab=86.90  E-value=22  Score=39.54  Aligned_cols=190  Identities=19%  Similarity=0.190  Sum_probs=108.0

Q ss_pred             HHHHHHHHHhhhc-CchhhHHHHHHhhHhhhcCCCCHHHHHHHHHhhccCChhh-HHHHHHHhhcc-------------c
Q psy6893         694 VINDYLLGQVKDA-TNEMVRHGGCLGLGLAAMGSARDDIYEQLKFNLYQDDAVT-GEAAGIAMGLV-------------L  758 (988)
Q Consensus       694 ~~~~~Ll~~l~~s-~~~~ir~gA~LGLGla~~Gs~~~dv~~~L~~~l~~D~~~~-~e~AalAlGLI-------------~  758 (988)
                      +++..|.+.+.+. ..+.+||.|...||-.  |  ++++.+-|.... .|+... .|.-.+|+.-|             +
T Consensus        67 ~Av~~l~~vl~desq~pmvRhEAaealga~--~--~~~~~~~l~k~~-~dp~~~v~ETc~lAi~rle~~~~~~~~~~~~p  141 (289)
T KOG0567|consen   67 DAVPVLVEVLLDESQEPMVRHEAAEALGAI--G--DPESLEILTKYI-KDPCKEVRETCELAIKRLEWKDIIDKIANSSP  141 (289)
T ss_pred             hhhHHHHHHhcccccchHHHHHHHHHHHhh--c--chhhHHHHHHHh-cCCccccchHHHHHHHHHHHhhccccccccCc
Confidence            3566666655433 3467888888888863  4  666777776655 454321 12111121111             1


Q ss_pred             CCCC------CHHHHHHHHHHHHhcccchhhhHHHHHHHHHhcCCchhHHHHHHHHhcccchhhhhhcHHHHHHHHcCCC
Q psy6893         759 LGSK------SESAIQDMVAYAKETQHEKILRGLAVGISFIMYGQLENADDLVRDLCEEKDAILRRSGMYTIAMAYCGSG  832 (988)
Q Consensus       759 vGs~------n~d~i~~ll~~~~etq~e~i~R~lalgLgLi~~Gr~e~a~~li~~L~~~~dp~~r~~~~~~lslAyaGtG  832 (988)
                      .+|-      |..-+..|-..+.+.....+.|..++ ..|=-.|.++++.++++.|..+ -+..|....|+.+  ...  
T Consensus       142 ~~SvdPa~p~~~ssv~~lr~~lld~t~~l~~Ry~am-F~LRn~g~EeaI~al~~~l~~~-SalfrhEvAfVfG--Ql~--  215 (289)
T KOG0567|consen  142 YISVDPAPPANLSSVHELRAELLDETKPLFERYRAM-FYLRNIGTEEAINALIDGLADD-SALFRHEVAFVFG--QLQ--  215 (289)
T ss_pred             cccCCCCCccccccHHHHHHHHHhcchhHHHHHhhh-hHhhccCcHHHHHHHHHhcccc-hHHHHHHHHHHHh--hcc--
Confidence            1111      21123444444444444555566333 2356678899999999999877 5666777666653  222  


Q ss_pred             ChhHHHHH---HHHHHH--hhhhhhhhhhhccCCCchHHHHHhhhhhccCCChhhhhhHHhhhhhhhhhh
Q psy6893         833 SNVATKRL---LHDAIL--RRSGMYTIAMAYCGSGSNVATKRLLHVAVSDVNDDVRREAVTALGFILFRK  897 (988)
Q Consensus       833 nvl~iq~l---L~~~~~--~~lG~alia~g~~~tgn~~air~ll~~~~sd~~~~vrraa~~alg~i~~~n  897 (988)
                      .+-.|+.+   |.++.+  .+.=.|+-++|-+  |++.++.-|-.+ ..|+++-||..+..++....+.|
T Consensus       216 s~~ai~~L~k~L~d~~E~pMVRhEaAeALGaI--a~e~~~~vL~e~-~~D~~~vv~esc~valdm~eyen  282 (289)
T KOG0567|consen  216 SPAAIPSLIKVLLDETEHPMVRHEAAEALGAI--ADEDCVEVLKEY-LGDEERVVRESCEVALDMLEYEN  282 (289)
T ss_pred             chhhhHHHHHHHHhhhcchHHHHHHHHHHHhh--cCHHHHHHHHHH-cCCcHHHHHHHHHHHHHHHHHhc
Confidence            12223333   333332  5666677778874  888888877666 46667777777777776666544

>KOG0163|consensus

Probab=86.74  E-value=1.9  Score=52.96  Aligned_cols=39  Identities=21%  Similarity=0.382  Sum_probs=22.9

Q ss_pred             hccCCcccccccchhH-----------HHhhccchhhHHhhhccceecCChH
Q psy6893         253 HSGTTSDQFLRDNLEW-----------LARATNWAKLTATASLGVIHRGHET  293 (988)
Q Consensus       253 naG~~~D~fl~~n~~W-----------l~k~~~~~~~sAtASLG~Ih~~~~~  293 (988)
                      .+|+.+|.++.+..++           +...-....||.+|  |++|+||++
T Consensus       302 ~~~~~kD~iidD~~dF~rl~~Al~~~Glsd~Ekl~i~s~vA--~vLHLGNie  351 (1259)
T KOG0163|consen  302 QKGSLKDPIIDDYQDFHRLEKALKLLGLSDTEKLFIWSTVA--AVLHLGNIE  351 (1259)
T ss_pred             ccCcccCcccccHHHHHHHHHHHHhcCCChHHHHHHHHHHH--HHHHccccc
Confidence            4577788887765432           12222344556665  467888775

>KOG2171|consensus

Probab=86.15  E-value=4.1  Score=52.61  Aligned_cols=63  Identities=22%  Similarity=0.153  Sum_probs=49.2

Q ss_pred             HHHHHhcccCCCCCCCCCccchhHHHHHhhhccCCCCc---hhHHHHHHhhhhcCCCchhHHHHHHHHHH
Q psy6893         295 ALAHMQSYLPRETGPTSGYYEGGGLYALGLIHANHGAV---INDYLLGQVKDATNEDDAVTGEAAGIAMG  361 (988)
Q Consensus       295 gl~~l~~yL~s~~~~~~~y~~~GaL~alGli~~g~~~~---~~d~l~~lL~~~~~~d~~~~~~aA~lglG  361 (988)
                      .++.+..+|.|    .+.+-+=-||+||+.|.-|-.+.   ..+.++..+-..++...+.+|-||..++|
T Consensus       349 ~~~~l~~~l~S----~~w~~R~AaL~Als~i~EGc~~~m~~~l~~Il~~Vl~~l~DphprVr~AA~naig  414 (1075)
T KOG2171|consen  349 LFEALEAMLQS----TEWKERHAALLALSVIAEGCSDVMIGNLPKILPIVLNGLNDPHPRVRYAALNAIG  414 (1075)
T ss_pred             HHHHHHHHhcC----CCHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHhhcCCCCHHHHHHHHHHHH
Confidence            45666777776    58899999999999999887642   44556666666666678999999999998

>COG5064 SRP1 Karyopherin (importin) alpha [Intracellular trafficking and secretion]

Probab=85.33  E-value=38  Score=39.01  Aligned_cols=72  Identities=22%  Similarity=0.148  Sum_probs=42.5

Q ss_pred             HHHHHHHhccCCCchhhHHHHHHHHHHhhcCccccccccCCCCchhHHhhccchhhhhhHhhHHHhhhhccc
Q psy6893         474 TKRLLHVAVSDVNDDVRREAVTALGFILFRTLFYVAPACTRSPWPGVISLLDDPMIELKEFSLKKLNDIVDD  545 (988)
Q Consensus       474 Iq~LLhi~~s~~~~dvrr~AV~~lg~I~~~~~~~~g~~~~~~~~p~ai~lL~~~~~~~~~~~~~~l~~~~~~  545 (988)
                      |-++..+.-++..+=.+-.|.-+|--|+.|..-|--+..-..+||.-|.||+.+-..-.+..+=-|-+|++|
T Consensus       116 VpRfvefm~~~q~~mlqfEAaWalTNiaSGtt~QTkvVvd~~AVPlfiqlL~s~~~~V~eQavWALGNiAGD  187 (526)
T COG5064         116 VPRFVEFMDEIQRDMLQFEAAWALTNIASGTTQQTKVVVDAGAVPLFIQLLSSTEDDVREQAVWALGNIAGD  187 (526)
T ss_pred             cHHHHHHHHhcchhHHHHHHHHHHhhhccCcccceEEEEeCCchHHHHHHHcCchHHHHHHHHHHhccccCC
Confidence            344555444444444456788888888888765544444457999999999854322111111126677765

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=84.84  E-value=1.6e+02  Score=39.66  Aligned_cols=458  Identities=12%  Similarity=0.006  Sum_probs=0.0

Q ss_pred             hhHHHHHHHHHHHhhccCCChhHHHHHHHhhhhcchHHHHHHHHHHHHHHhcCChhhHHHHHHHHhhcchhhhhccchhH
Q psy6893         350 AVTGEAAGIAMGLVLLGSKSESAIQDMVAYAKETQHEKILRGLAVGISFIMYGQLENADDLVRDLCEEKDAILRRSGMYT  429 (988)
Q Consensus       350 ~~~~~aA~lglGL~~~Gs~~~~~~~~L~~~~~dt~~E~~~r~lalgl~~v~~g~~e~a~~li~~L~~~~d~~lr~~~~~~  429 (988)
                      ++.....-+..+-....+++.|.....+.-+..-+....-.....+...+..|+.+.|...++.+.+........  .-.
T Consensus        24 ~~~~~~~Ll~q~~~~~~~~~~d~a~~~l~kl~~~~p~~p~~~~~~~~~~l~~g~~~~A~~~l~~l~~~~P~~~~~--~~~  101 (1157)
T PRK11447         24 APTAQQQLLEQVRLGEATHREDLVRQSLYRLELIDPNNPDVIAARFRLLLRQGDSDGAQKLLDRLSQLAPDSNAY--RSS  101 (1157)
T ss_pred             cCCHHHHHHHHHHHHHhhCChHHHHHHHHHHHccCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhhCCCChHH--HHH


Q ss_pred             HHH----------Hhhhhhhhcccc-chhhHHh----hccchhHHHHHhhhccC-----CCHHHHHHHHHHhccCCCchh
Q psy6893         430 IAM----------AYCVSYLYFDLF-SDLTYRI----VKNRSGMYTIAMAYCGS-----GSNVATKRLLHVAVSDVNDDV  489 (988)
Q Consensus       430 ~~l----------~l~Lgll~~g~~-~e~~l~~----~~~~~~~~~~~~AYaGT-----GN~~~Iq~LLhi~~s~~~~dv  489 (988)
                      ...          .+.+|.++...+ .+..++.    ++..-.....++.|.++     |+...-.+.|.-+.....++.
T Consensus       102 ~~~~~~~~~~~~~~l~~A~ll~~~g~~~eA~~~~~~~l~~~p~~~~la~~y~~~~~~~~g~~~~A~~~L~~ll~~~P~~~  181 (1157)
T PRK11447        102 RTTMLLSTPEGRQALQQARLLATTGRTEEALASYDKLFNGAPPELDLAVEYWRLVAKLPAQRPEAINQLQRLNADYPGNT  181 (1157)
T ss_pred             HHHHHhcCCchhhHHHHHHHHHhCCCHHHHHHHHHHHccCCCCChHHHHHHHHHHhhCCccHHHHHHHHHHHHHhCCCCH


Q ss_pred             hHHHHHHHHHHhhcCccccccccCCCCchhHHhhccchhhhhhHhhHHHhhhhcccCCCCchhhHHHHHHHHHhhhccCC
Q psy6893         490 RREAVTALGFILFRTLFYVAPACTRSPWPGVISLLDDPMIELKEFSLKKLNDIVDDFWPENEKEKQLQARITKLSKILSG  569 (988)
Q Consensus       490 rr~AV~~lg~I~~~~~~~~g~~~~~~~~p~ai~lL~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~Il~g  569 (988)
                      +..-.++.-+...++.            ..|+..|.+...........                  ...-.+++...-..
T Consensus       182 ~~~~~LA~ll~~~g~~------------~eAl~~l~~~~~~~~~~~~a------------------a~~~~~~l~~~~~~  231 (1157)
T PRK11447        182 GLRNTLALLLFSSGRR------------DEGFAVLEQMAKSPAGRDAA------------------AQLWYGQIKDMPVS  231 (1157)
T ss_pred             HHHHHHHHHHHccCCH------------HHHHHHHHHHhhCCCchHHH------------------HHHHHHHHhccCCC


Q ss_pred             chhHHHHHHHHHhcCCchHHHHHhhhhhhhhhhhhhHHHHHHHHhhcCCCchhhhcchhHHHHhhcccchhhhhhhhccc
Q psy6893         570 EVSIDLHLQFLIRSNKTDMLILKNTKESIRVSICHTATIIANAFMHSGTTSDQFLRDNLEWLARATNWAKLTATASLGVI  649 (988)
Q Consensus       570 ~~~~~l~l~fL~~~n~tD~~il~~~kds~r~s~~h~A~~~ana~~naGt~~D~flr~~~~wl~k~~~w~kfsA~ASLG~I  649 (988)
                      ......+..|+.+....+..                               +........=.....+..-..-.-.+-.+
T Consensus       232 ~~~~~~l~~~l~~~p~~~~~-------------------------------~~A~~~L~~~~~~~~dp~~~~~~~G~~~~  280 (1157)
T PRK11447        232 DASVAALQKYLQVFSDGDSV-------------------------------AAARSQLAEQQKQLADPAFRARAQGLAAV  280 (1157)
T ss_pred             hhhHHHHHHHHHHCCCchHH-------------------------------HHHHHHHHHHHHhccCcchHHHHHHHHHH


Q ss_pred             ccCChHHHHHHHhhcCCCCCCCCCccchhhHHHHHhhhccCCchHHHHHHHHHhhhcCchhh-----------HHHHHHh
Q psy6893         650 HRGHETEALAHMQSYLPRETGPTSGYYEGGGLYALGLIHANHGAVINDYLLGQVKDATNEMV-----------RHGGCLG  718 (988)
Q Consensus       650 h~gn~~~~l~~L~~yL~~~~~s~~~~~k~GAL~AlGlI~ag~~~~~~~~Ll~~l~~s~~~~i-----------r~gA~LG  718 (988)
                      ..|+.++|+..++..+.    ....+...=..+|.-....|...+++.++..-+...++...           ++-..+.
T Consensus       281 ~~g~~~~A~~~l~~aL~----~~P~~~~a~~~Lg~~~~~~g~~~eA~~~l~~Al~~~p~~~~~~~~~~ll~~~~~~~~~~  356 (1157)
T PRK11447        281 DSGQGGKAIPELQQAVR----ANPKDSEALGALGQAYSQQGDRARAVAQFEKALALDPHSSNRDKWESLLKVNRYWLLIQ  356 (1157)
T ss_pred             HCCCHHHHHHHHHHHHH----hCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccchhHHHHHHHhhhHHHHHH


Q ss_pred             hHhhhcCCCC-HHHHHHHHHhhccCChhhHHHHHHHhhcccCCCCCHHHHHHHHHHHHhcccchhhhHHHHHHHHHhcCC
Q psy6893         719 LGLAAMGSAR-DDIYEQLKFNLYQDDAVTGEAAGIAMGLVLLGSKSESAIQDMVAYAKETQHEKILRGLAVGISFIMYGQ  797 (988)
Q Consensus       719 LGla~~Gs~~-~dv~~~L~~~l~~D~~~~~e~AalAlGLI~vGs~n~d~i~~ll~~~~etq~e~i~R~lalgLgLi~~Gr  797 (988)
                      +|-+++..++ ++....+...+..++...  .+-+.+|.+....++.+-.....+-+.....+...-...++. +...++
T Consensus       357 ~g~~~~~~g~~~eA~~~~~~Al~~~P~~~--~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~p~~~~a~~~L~~-l~~~~~  433 (1157)
T PRK11447        357 QGDAALKANNLAQAERLYQQARQVDNTDS--YAVLGLGDVAMARKDYAAAERYYQQALRMDPGNTNAVRGLAN-LYRQQS  433 (1157)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhCCCCH--HHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHH-HHHhcC


Q ss_pred             chhHHHHHHHHhccc-------chhhhhhcHHHHHHHHcCCCChhHHHHHHHHHHH---------hhhhhhhhhhhccCC
Q psy6893         798 LENADDLVRDLCEEK-------DAILRRSGMYTIAMAYCGSGSNVATKRLLHDAIL---------RRSGMYTIAMAYCGS  861 (988)
Q Consensus       798 ~e~a~~li~~L~~~~-------dp~~r~~~~~~lslAyaGtGnvl~iq~lL~~~~~---------~~lG~alia~g~~~t  861 (988)
                      .+++...++.+....       ............+..|...|+.....+.+.....         ..+|.++...|+.  
T Consensus       434 ~~~A~~~l~~l~~~~~~~~~~~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~~P~~~~~~~~LA~~~~~~G~~--  511 (1157)
T PRK11447        434 PEKALAFIASLSASQRRSIDDIERSLQNDRLAQQAEALENQGKWAQAAELQRQRLALDPGSVWLTYRLAQDLRQAGQR--  511 (1157)
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCH--


Q ss_pred             CchHHHHHhhhhhccCCChh
Q psy6893         862 GSNVATKRLLHVAVSDVNDD  881 (988)
Q Consensus       862 gn~~air~ll~~~~sd~~~~  881 (988)
                        ..|+..+-.++..+|++.
T Consensus       512 --~~A~~~l~~al~~~P~~~  529 (1157)
T PRK11447        512 --SQADALMRRLAQQKPNDP  529 (1157)
T ss_pred             --HHHHHHHHHHHHcCCCCH

>PTZ00429 beta-adaptin; Provisional

Probab=84.76  E-value=1.3e+02  Score=38.60  Aligned_cols=359  Identities=14%  Similarity=0.069  Sum_probs=170.6

Q ss_pred             hhHHHHHHhhhhcCCCchhHHHHHHHHHHHhhccCCChhHHHHHHHhhhhcchHHHHHHHHHHHHHHhcCChhhHHHHHH
Q psy6893         333 INDYLLGQVKDATNEDDAVTGEAAGIAMGLVLLGSKSESAIQDMVAYAKETQHEKILRGLAVGISFIMYGQLENADDLVR  412 (988)
Q Consensus       333 ~~d~l~~lL~~~~~~d~~~~~~aA~lglGL~~~Gs~~~~~~~~L~~~~~dt~~E~~~r~lalgl~~v~~g~~e~a~~li~  412 (988)
                      +...+...|...   +...-..+.---+.+...|-.-....-+.+..+..+ .-.+.|-+-+.+..++..++|.+--.+.
T Consensus        33 e~~ELr~~L~s~---~~~~kk~alKkvIa~mt~G~DvS~LF~dVvk~~~S~-d~elKKLvYLYL~~ya~~~pelalLaIN  108 (746)
T PTZ00429         33 EGAELQNDLNGT---DSYRKKAAVKRIIANMTMGRDVSYLFVDVVKLAPST-DLELKKLVYLYVLSTARLQPEKALLAVN  108 (746)
T ss_pred             hHHHHHHHHHCC---CHHHHHHHHHHHHHHHHCCCCchHHHHHHHHHhCCC-CHHHHHHHHHHHHHHcccChHHHHHHHH
Confidence            555566666432   222333333333444455632222333334433333 3336666666666677777887777777


Q ss_pred             HHhhc---chhhhhccchhHHHHHhhhhhhhccccchhhHHhhccchhHHHHHhhhccCCCH-HHHHHHHHHhccCCCch
Q psy6893         413 DLCEE---KDAILRRSGMYTIAMAYCVSYLYFDLFSDLTYRIVKNRSGMYTIAMAYCGSGSN-VATKRLLHVAVSDVNDD  488 (988)
Q Consensus       413 ~L~~~---~d~~lr~~~~~~~~l~l~Lgll~~g~~~e~~l~~~~~~~~~~~~~~AYaGTGN~-~~Iq~LLhi~~s~~~~d  488 (988)
                      .|..+   ++|.+|.       +|+                          -.|+.+..-+. ..+-.-+.-|.+|.++-
T Consensus       109 tl~KDl~d~Np~IRa-------LAL--------------------------RtLs~Ir~~~i~e~l~~~lkk~L~D~~pY  155 (746)
T PTZ00429        109 TFLQDTTNSSPVVRA-------LAV--------------------------RTMMCIRVSSVLEYTLEPLRRAVADPDPY  155 (746)
T ss_pred             HHHHHcCCCCHHHHH-------HHH--------------------------HHHHcCCcHHHHHHHHHHHHHHhcCCCHH
Confidence            77654   3444443       322                          22233322221 11222244466788899


Q ss_pred             hhHHHHHHHHHHhhcCccccccccCCCCchhHHhhccchhhhhhHhhHHHhhhhcccCCCCchhhHHHHHHHHHhhhccC
Q psy6893         489 VRREAVTALGFILFRTLFYVAPACTRSPWPGVISLLDDPMIELKEFSLKKLNDIVDDFWPENEKEKQLQARITKLSKILS  568 (988)
Q Consensus       489 vrr~AV~~lg~I~~~~~~~~g~~~~~~~~p~ai~lL~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~Il~  568 (988)
                      ||+.|++++.-|.-.+|-..   ....=.+....+|.+.-..-...-+.-|..+..+ .+.. . .-....+.++...+.
T Consensus       156 VRKtAalai~Kly~~~pelv---~~~~~~~~L~~LL~D~dp~Vv~nAl~aL~eI~~~-~~~~-l-~l~~~~~~~Ll~~L~  229 (746)
T PTZ00429        156 VRKTAAMGLGKLFHDDMQLF---YQQDFKKDLVELLNDNNPVVASNAAAIVCEVNDY-GSEK-I-ESSNEWVNRLVYHLP  229 (746)
T ss_pred             HHHHHHHHHHHHHhhCcccc---cccchHHHHHHHhcCCCccHHHHHHHHHHHHHHh-Cchh-h-HHHHHHHHHHHHHhh
Confidence            99999999999975544100   0111234455555441111111111123333221 1110 1 112233455555554


Q ss_pred             --CchhHHHHHHHHHhcCCchH----HHHHhhhhhhhhhhhhhHH--HHHHHHhhcCCCc-hhhhcchhH-------HHH
Q psy6893         569 --GEVSIDLHLQFLIRSNKTDM----LILKNTKESIRVSICHTAT--IIANAFMHSGTTS-DQFLRDNLE-------WLA  632 (988)
Q Consensus       569 --g~~~~~l~l~fL~~~n~tD~----~il~~~kds~r~s~~h~A~--~~ana~~naGt~~-D~flr~~~~-------wl~  632 (988)
                        ++-..-.-+++|.+.++.|-    .||+.+..-.+++  ..|+  ..++.|++..... +.+++.-..       -+.
T Consensus       230 e~~EW~Qi~IL~lL~~y~P~~~~e~~~il~~l~~~Lq~~--N~AVVl~Aik~il~l~~~~~~~~~~~~~~rl~~pLv~L~  307 (746)
T PTZ00429        230 ECNEWGQLYILELLAAQRPSDKESAETLLTRVLPRMSHQ--NPAVVMGAIKVVANLASRCSQELIERCTVRVNTALLTLS  307 (746)
T ss_pred             cCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHHhcCC--CHHHHHHHHHHHHHhcCcCCHHHHHHHHHHHHHHHHHhh
Confidence              24334455666666554432    3444444322221  1133  3356677666542 233332111       122


Q ss_pred             hhcccchhhhhhhhcccccCChHHHHHHHhhcCCCCCCCCCccchhhHHHHHhhh-ccCCchHHHHHHHHHhhhcCchhh
Q psy6893         633 RATNWAKLTATASLGVIHRGHETEALAHMQSYLPRETGPTSGYYEGGGLYALGLI-HANHGAVINDYLLGQVKDATNEMV  711 (988)
Q Consensus       633 k~~~w~kfsA~ASLG~Ih~gn~~~~l~~L~~yL~~~~~s~~~~~k~GAL~AlGlI-~ag~~~~~~~~Ll~~l~~s~~~~i  711 (988)
                      ....-.+|.+--.+-.|-..++.--...++.|+.  .+++..|+|--.|--|-.+ +..+-..++.-|.+... ..+..+
T Consensus       308 ss~~eiqyvaLr~I~~i~~~~P~lf~~~~~~Ff~--~~~Dp~yIK~~KLeIL~~Lane~Nv~~IL~EL~eYa~-d~D~ef  384 (746)
T PTZ00429        308 RRDAETQYIVCKNIHALLVIFPNLLRTNLDSFYV--RYSDPPFVKLEKLRLLLKLVTPSVAPEILKELAEYAS-GVDMVF  384 (746)
T ss_pred             CCCccHHHHHHHHHHHHHHHCHHHHHHHHHhhhc--ccCCcHHHHHHHHHHHHHHcCcccHHHHHHHHHHHhh-cCCHHH
Confidence            2233567777777777766555422223333332  1355567776666555444 11222234544544332 345578


Q ss_pred             HHHHHHhhHhhhcCC--CCHHHHHHHHHhh
Q psy6893         712 RHGGCLGLGLAAMGS--ARDDIYEQLKFNL  739 (988)
Q Consensus       712 r~gA~LGLGla~~Gs--~~~dv~~~L~~~l  739 (988)
                      +.-++-.+|.++.--  .-+.+.+.|+.++
T Consensus       385 ~r~aIrAIg~lA~k~~~~a~~cV~~Ll~ll  414 (746)
T PTZ00429        385 VVEVVRAIASLAIKVDSVAPDCANLLLQIV  414 (746)
T ss_pred             HHHHHHHHHHHHHhChHHHHHHHHHHHHHh
Confidence            888899988876532  2234455666655

>PF08208 RNA_polI_A34: DNA-directed RNA polymerase I subunit RPA34

Probab=84.38  E-value=0.3  Score=51.73  Aligned_cols=9  Identities=33%  Similarity=0.722  Sum_probs=2.9

Q ss_pred             HHHHhhhhh
Q psy6893         866 ATKRLLHVA  874 (988)
Q Consensus       866 air~ll~~~  874 (988)
                      .+.+++|+.
T Consensus        78 ~~~~~~~I~   86 (198)
T PF08208_consen   78 PFDRFLHIS   86 (198)
T ss_dssp             --SEEEEEE
T ss_pred             CcceEEEEE
Confidence            344444443

5; InterPro: IPR013240 This is a family of proteins conserved from yeasts to human. Subunit A34.5 of RNA polymerase I is a non-essential subunit which is thought to help Pol I overcome topological constraints imposed on ribosomal DNA during the process of transcription [].; PDB: 3NFG_N.

>PF01347 Vitellogenin_N: Lipoprotein amino terminal region; InterPro: IPR001747 This entry represents a conserved region found in several lipid transport proteins, including vitellogenin, microsomal triglyceride transfer protein and apolipoprotein B-100 []

Probab=84.02  E-value=80  Score=39.05  Aligned_cols=96  Identities=18%  Similarity=0.270  Sum_probs=53.3

Q ss_pred             cchhhhhhhhcccccCChHHHHHHHhhcCCCCCCCCCccchhhHHHHHhhhccCCchHHHHHHHHHhhhcC-chhhHHHH
Q psy6893         637 WAKLTATASLGVIHRGHETEALAHMQSYLPRETGPTSGYYEGGGLYALGLIHANHGAVINDYLLGQVKDAT-NEMVRHGG  715 (988)
Q Consensus       637 w~kfsA~ASLG~Ih~gn~~~~l~~L~~yL~~~~~s~~~~~k~GAL~AlGlI~ag~~~~~~~~Ll~~l~~s~-~~~ir~gA  715 (988)
                      +.+..+.-+||-+.  ++ ..+..|.+|+.... ..+.++|--|++||.-+...+...+...|+..+.+.. +..+|+.|
T Consensus       505 ~~~~~~LkaLgN~g--~~-~~i~~l~~~i~~~~-~~~~~~R~~Ai~Alr~~~~~~~~~v~~~l~~I~~n~~e~~EvRiaA  580 (618)
T PF01347_consen  505 EEKIVYLKALGNLG--HP-ESIPVLLPYIEGKE-EVPHFIRVAAIQALRRLAKHCPEKVREILLPIFMNTTEDPEVRIAA  580 (618)
T ss_dssp             HHHHHHHHHHHHHT---G-GGHHHHHTTSTTSS--S-HHHHHHHHHTTTTGGGT-HHHHHHHHHHHHH-TTS-HHHHHHH
T ss_pred             HHHHHHHHHhhccC--Cc-hhhHHHHhHhhhcc-ccchHHHHHHHHHHHHHhhcCcHHHHHHHHHHhcCCCCChhHHHHH
Confidence            56666666777553  33 47777778876321 3355777777777775544444455666666555543 34677777


Q ss_pred             HHhhHhhhcCC-CCHHHHHHHHHhhc
Q psy6893         716 CLGLGLAAMGS-ARDDIYEQLKFNLY  740 (988)
Q Consensus       716 ~LGLGla~~Gs-~~~dv~~~L~~~l~  740 (988)
                      .+.|    |-+ -...++..+...+.
T Consensus       581 ~~~l----m~~~P~~~~l~~i~~~l~  602 (618)
T PF01347_consen  581 YLIL----MRCNPSPSVLQRIAQSLW  602 (618)
T ss_dssp             HHHH----HHT---HHHHHHHHHHHT
T ss_pred             HHHH----HhcCCCHHHHHHHHHHHh
Confidence            7655    223 34555566655553

Vitellinogen precursors provide the major egg yolk proteins that are a source of nutrients during early development of oviparous vertebrates and invertebrates. Vitellinogen precursors are multi-domain apolipoproteins that are cleaved into distinct yolk proteins. Different vitellinogen precursors exist, which are composed of variable combinations of yolk protein components; however, the cleavage sites are conserved. In vertebrates, a complete vitellinogen is composed of an N-terminal signal peptide for export, followed by four regions that can be cleaved into yolk proteins: lipovitellin-1, phosvitin, lipovitellin-2, and a von Willebrand factor type D domain (YGP40) [, ]. Microsomal triglyceride transfer protein (MTTP) is an endoplasmic reticulum lipid transfer protein involved in the biosynthesis and lipid loading of apolipoprotein B. MTTP is also involved in the late stage of CD1d trafficking in the lysosomal compartment, CD1d being the MHC I-like lipid antigen presenting molecule []. Apolipoprotein B can exist in two forms: B-100 and B-48. Apoliporotein B-100 is present on several lipoproteins, including very low-density lipoproteins (VLDL), intermediate density lipoproteins (IDL) and low density lipoproteins (LDL), and can assemble VLDL particles in the liver []. Apolipoprotein B-100 has been linked to the development of atherosclerosis.; GO: 0005319 lipid transporter activity, 0006869 lipid transport; PDB: 1LSH_A.

>KOG3809|consensus

Probab=83.72  E-value=0.47  Score=54.78  Aligned_cols=6  Identities=0%  Similarity=-0.036  Sum_probs=2.3

Q ss_pred             hhhhHH
Q psy6893         882 VRREAV  887 (988)
Q Consensus       882 vrraa~  887 (988)
                      +-|.|.
T Consensus       124 iVdqV~  129 (583)
T KOG3809|consen  124 IVDQVG  129 (583)
T ss_pred             HHHHhh
Confidence            333343

>KOG1029|consensus

Probab=82.97  E-value=4.5  Score=50.10  Aligned_cols=10  Identities=50%  Similarity=0.537  Sum_probs=4.4

Q ss_pred             HHHHHHHHcC
Q psy6893         821 MYTIAMAYCG  830 (988)
Q Consensus       821 ~~~lslAyaG  830 (988)
                      |+.+-||..|
T Consensus       255 m~liema~sG  264 (1118)
T KOG1029|consen  255 MHLIEMAKSG  264 (1118)
T ss_pred             HHHHHHHhcC
Confidence            3444444444

>COG5181 HSH155 U2 snRNP spliceosome subunit [RNA processing and modification]

Probab=82.41  E-value=12  Score=45.82  Aligned_cols=148  Identities=18%  Similarity=0.241  Sum_probs=91.5

Q ss_pred             ccchhhHHHHHhhhccCCch-----H---HHHHHHHHhhhcCchhhHHHHHHhhHhhhcCCCCHHHHHHHHHhhccCChh
Q psy6893         674 GYYEGGGLYALGLIHANHGA-----V---INDYLLGQVKDATNEMVRHGGCLGLGLAAMGSARDDIYEQLKFNLYQDDAV  745 (988)
Q Consensus       674 ~~~k~GAL~AlGlI~ag~~~-----~---~~~~Ll~~l~~s~~~~ir~gA~LGLGla~~Gs~~~dv~~~L~~~l~~D~~~  745 (988)
                      .-+....+--+|+|..+...     +   +-.-|++.|+. .+..+|..|.-.+|.+.=.-+-.|+++.|+.-|...+..
T Consensus       702 ~Kv~~nti~lvg~I~~~~peyi~~rEWMRIcfeLvd~Lks-~nKeiRR~A~~tfG~Is~aiGPqdvL~~LlnnLkvqeRq  780 (975)
T COG5181         702 QKVVANTIALVGTICMNSPEYIGVREWMRICFELVDSLKS-WNKEIRRNATETFGCISRAIGPQDVLDILLNNLKVQERQ  780 (975)
T ss_pred             HHHhhhHHHHHHHHHhcCcccCCHHHHHHHHHHHHHHHHH-hhHHHHHhhhhhhhhHHhhcCHHHHHHHHHhcchHHHHH
Confidence            44556666678888766542     2   44556666644 467899999999999865556788999998888533222


Q ss_pred             hHHHHHHHhhcccCCCCCHHHHHHHHHHHHhcccchhhhHHHHHHHHHh--cCCch-----hHHHHHHHHhcccchhhhh
Q psy6893         746 TGEAAGIAMGLVLLGSKSESAIQDMVAYAKETQHEKILRGLAVGISFIM--YGQLE-----NADDLVRDLCEEKDAILRR  818 (988)
Q Consensus       746 ~~e~AalAlGLI~vGs~n~d~i~~ll~~~~etq~e~i~R~lalgLgLi~--~Gr~e-----~a~~li~~L~~~~dp~~r~  818 (988)
                      -.-..++|+|.|-==-|-..++-+++. .-+|..-+...++.=+++.+|  .|++.     .+-++++.-.++.||.-|.
T Consensus       781 ~RvctsvaI~iVae~cgpfsVlP~lm~-dY~TPe~nVQnGvLkam~fmFeyig~~s~dYvy~itPlleDAltDrD~vhRq  859 (975)
T COG5181         781 QRVCTSVAISIVAEYCGPFSVLPTLMS-DYETPEANVQNGVLKAMCFMFEYIGQASLDYVYSITPLLEDALTDRDPVHRQ  859 (975)
T ss_pred             hhhhhhhhhhhhHhhcCchhhHHHHHh-cccCchhHHHHhHHHHHHHHHHHHHHHHHHHHHHhhHHHHhhhcccchHHHH
Confidence            222344555544211223445444443 123555666677766665554  34442     2677888888999999888


Q ss_pred             hcHHH
Q psy6893         819 SGMYT  823 (988)
Q Consensus       819 ~~~~~  823 (988)
                      .++-+
T Consensus       860 ta~nv  864 (975)
T COG5181         860 TAMNV  864 (975)
T ss_pred             HHHHH
Confidence            76543

>PF07946 DUF1682: Protein of unknown function (DUF1682); InterPro: IPR012879 The members of this family are all hypothetical eukaryotic proteins of unknown function

Probab=82.22  E-value=2.9  Score=47.74  Aligned_cols=7  Identities=29%  Similarity=0.449  Sum_probs=2.6

Q ss_pred             HHHhhhh
Q psy6893         867 TKRLLHV  873 (988)
Q Consensus       867 ir~ll~~  873 (988)
                      +..|+.+
T Consensus       233 ~~~l~~~  239 (321)
T PF07946_consen  233 LEPLLKL  239 (321)
T ss_pred             HHHHHHH
Confidence            3333333

One member (Q920S6 from SWISSPROT) is described as being an adipocyte-specific protein, but no evidence of this was found.

>KOG0112|consensus

Probab=81.10  E-value=0.83  Score=57.07  Aligned_cols=11  Identities=27%  Similarity=0.398  Sum_probs=6.9

Q ss_pred             HhhhccCCccc
Q psy6893         250 AFMHSGTTSDQ  260 (988)
Q Consensus       250 af~naG~~~D~  260 (988)
                      +|+|-|+..|.
T Consensus       219 ~~r~~rs~qdl  229 (975)
T KOG0112|consen  219 AYRNSRSPQDL  229 (975)
T ss_pred             hhhccCCcchh
Confidence            45677776663

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	988
4b4t_N	945	Near-Atomic Resolution Structural Model Of The Yeas		4e-61
4ady_A	963	Crystal Structure Of 26s Proteasome Subunit Rpn2 Le		5e-52

>pdb|4B4T|N Chain N, Near-Atomic Resolution Structural Model Of The Yeast 26s Proteasome Length = 945

Iteration: 1
 Score =  233 bits (594), Expect = 4e-61,   Method: Compositional matrix adjust.
 Identities = 157/444 (35%), Positives = 220/444 (49%), Gaps = 61/444 (13%)
Query: 477 LLHVAVSDVNDDVRREAVTALGFILFRTLFYVAPACTRSPWPGVISLLDDPMIELKEFS- 535
           LL +A++ V +   R ++    F     +    P C       V+  L+D  + L+ F  
Sbjct: 189 LLTLAITTVTNSKFRSSILRKSFDFLMNM----PNCDYLTLNKVVVNLNDAGLALQLFKK 244
Query: 536 LKKLND------IVDDFWPENEKEKQLQARITKLS---------KILSGEVSIDLHLQFL 580
           LK+ ND      I  D    +  ++ L+  +T+L+          ILSG  + D +  FL
Sbjct: 245 LKEENDEGLSAQIAFDLV-SSASQQLLEILVTELTAQGYDPALLNILSGLPTCDYYNTFL 303
Query: 581 IRSNKTDMLILKNTKESI--RVSICHTATIIANAFMHSGTTSDQFLRDNLEWLARATNWA 638
           + +   D+ +L  +K S+  + S+ HTA  +AN FMH+GTT + F++ NL WL +A NWA
Sbjct: 304 LNNKNIDIGLLNKSKSSLDGKFSLFHTAVSVANGFMHAGTTDNSFIKANLPWLGKAQNWA 363
Query: 639 KLTATASLGVIHRGHETEALAHMQSYLPRETGPTSXXXXXXXXXXXXXIHANHGAVINDY 698
           K TATASLGVIH+G+  E    M  YLP     +S             I+A  G    DY
Sbjct: 364 KFTATASLGVIHKGNLLEGKKVMAPYLPGSRA-SSRFIKGGSLYGLGLIYAGFGRDTTDY 422
Query: 699 LL-------GQVKDATNEMVRHXXXXXXXXXXXXXXRDDIYEQLKFNLYQDDAVTGEAAG 751
           L        G   D   +++ H                ++YE LK  LY D A +GEAA 
Sbjct: 423 LKNIIVENSGTSGDEDVDVLLHGASLGIGLAAMGSANIEVYEALKEVLYNDSATSGEAAA 482
Query: 752 IAMGLVLLGSKSESAIQDMVAYAKETQHEKILRGLAVGISFIMYGQLENADDLVRDLCEE 811
           + MGL +LG+    AI DM  Y++ETQH  I RGLAVG++ I YG+ E ADDL+  +   
Sbjct: 483 LGMGLCMLGTGKPEAIHDMFTYSQETQHGNITRGLAVGLALINYGRQELADDLITKMLAS 542
Query: 812 KDAILRRSGMYTIAMAYCGSGSNVATKRLLHDAILRRSGMYTIAMAYCGSGSNVATKRLL 871
            +++LR  G +TIA+AY G+G+N A KR                              LL
Sbjct: 543 DESLLRYGGAFTIALAYAGTGNNSAVKR------------------------------LL 572
Query: 872 HVAVSDVNDDVRREAVTALGFILF 895
           HVAVSD NDDVRR AV ALGF+L 
Sbjct: 573 HVAVSDSNDDVRRAAVIALGFVLL 596

>pdb|4ADY|A Chain A, Crystal Structure Of 26s Proteasome Subunit Rpn2 Length = 963

Iteration: 1
 Score =  203 bits (516), Expect = 5e-52,   Method: Compositional matrix adjust.
 Identities = 154/444 (34%), Positives = 214/444 (48%), Gaps = 61/444 (13%)
Query: 477 LLHVAVSDVNDDVRREAVTALGFILFRTLFYVAPACTRSPWPGVISLLDDPMIELKEFS- 535
           LL +A++ V +   R ++    F          P C       V+  L+D  + L+ F  
Sbjct: 200 LLTLAITTVTNSKFRSSILRKSFDFLXN----XPNCDYLTLNKVVVNLNDAGLALQLFKK 255
Query: 536 LKKLND------IVDDFWPENEKEKQLQARITKLS---------KILSGEVSIDLHLQFL 580
           LK+ ND      I  D    +  ++ L+  +T+L+          ILSG  + D +  FL
Sbjct: 256 LKEENDEGLSAQIAFDLV-SSASQQLLEILVTELTAQGYDPALLNILSGLPTCDYYNTFL 314
Query: 581 IRSNKTDMLILKNTKESI--RVSICHTATIIANAFMHSGTTSDQFLRDNLEWLARATNWA 638
           + +   D+ +L  +K S+  + S+ HTA  +AN F H+GTT + F++ NL WL +A NWA
Sbjct: 315 LNNKNIDIGLLNKSKSSLDGKFSLFHTAVSVANGFXHAGTTDNSFIKANLPWLGKAQNWA 374
Query: 639 KLTATASLGVIHRGHETEALAHMQSYLPRETGPTSXXXXXXXXXXXXXIHANHGAVINDY 698
           K TATASLGVIH+G+  E       YLP     +S             I+A  G    DY
Sbjct: 375 KFTATASLGVIHKGNLLEGKKVXAPYLPGSRA-SSRFIKGGSLYGLGLIYAGFGRDTTDY 433
Query: 699 LL-------GQVKDATNEMVRHXXXXXXXXXXXXXXRDDIYEQLKFNLYQDDAVTGEAAG 751
           L        G   D   +++ H                ++YE LK  LY D A +GEAA 
Sbjct: 434 LKNIIVENSGTSGDEDVDVLLHGASLGIGLAAXGSANIEVYEALKEVLYNDSATSGEAAA 493
Query: 752 IAMGLVLLGSKSESAIQDMVAYAKETQHEKILRGLAVGISFIMYGQLENADDLVRDLCEE 811
           +  GL  LG+    AI D   Y++ETQH  I RGLAVG++ I YG+ E ADDL+      
Sbjct: 494 LGXGLCXLGTGKPEAIHDXFTYSQETQHGNITRGLAVGLALINYGRQELADDLITKXLAS 553
Query: 812 KDAILRRSGMYTIAMAYCGSGSNVATKRLLHDAILRRSGMYTIAMAYCGSGSNVATKRLL 871
            +++LR  G +TIA+AY G+G+N A KR                              LL
Sbjct: 554 DESLLRYGGAFTIALAYAGTGNNSAVKR------------------------------LL 583
Query: 872 HVAVSDVNDDVRREAVTALGFILF 895
           HVAVSD NDDVRR AV ALGF+L 
Sbjct: 584 HVAVSDSNDDVRRAAVIALGFVLL 607

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	988
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	4e-88
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	2e-75
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	4e-10
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	1e-04
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-14
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-05
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-05
3lvg_D	190	LCB, clathrin light chain B; SELF assembly, coated	3e-10
3lvg_D	190	LCB, clathrin light chain B; SELF assembly, coated	4e-08
2zkr_c	421	60S ribosomal protein L4; protein-RNA complex, 60S	3e-09
2zkr_c	421	60S ribosomal protein L4; protein-RNA complex, 60S	2e-08
2zkr_c	421	60S ribosomal protein L4; protein-RNA complex, 60S	4e-08
2zkr_c	421	60S ribosomal protein L4; protein-RNA complex, 60S	4e-08
2zkr_c	421	60S ribosomal protein L4; protein-RNA complex, 60S	2e-07
2xzm_Y	293	RPS6E; ribosome, translation; 3.93A {Tetrahymena t	3e-08
2zkr_u	157	60S ribosomal protein L24; protein-RNA complex, 60	1e-07
2zkr_u	157	60S ribosomal protein L24; protein-RNA complex, 60	2e-07
2zkr_u	157	60S ribosomal protein L24; protein-RNA complex, 60	6e-04
2zkr_w	270	60S ribosomal protein L7; protein-RNA complex, 60S	2e-07
2zkr_w	270	60S ribosomal protein L7; protein-RNA complex, 60S	2e-05
2zkr_w	270	60S ribosomal protein L7; protein-RNA complex, 60S	2e-04
1a31_A	591	Protein (topoisomerase I); topoisomerase I/DNA, DN	2e-07
1a31_A	591	Protein (topoisomerase I); topoisomerase I/DNA, DN	6e-05
1a31_A	591	Protein (topoisomerase I); topoisomerase I/DNA, DN	8e-04
4a17_T	158	RPL24, 60S ribosomal protein L21; eukaryotic ribos	2e-07
4a17_T	158	RPL24, 60S ribosomal protein L21; eukaryotic ribos	3e-06
1b6a_A	478	Methionine aminopeptidase; angiogenesis inhibitor;	4e-07
1b6a_A	478	Methionine aminopeptidase; angiogenesis inhibitor;	6e-07
1b6a_A	478	Methionine aminopeptidase; angiogenesis inhibitor;	5e-06
1b6a_A	478	Methionine aminopeptidase; angiogenesis inhibitor;	2e-04
4a17_C	410	RPL4, ribosomal protein L3; eukaryotic ribosome, r	6e-07
4a17_C	410	RPL4, ribosomal protein L3; eukaryotic ribosome, r	8e-07
4a17_C	410	RPL4, ribosomal protein L3; eukaryotic ribosome, r	3e-06
4a17_C	410	RPL4, ribosomal protein L3; eukaryotic ribosome, r	2e-04
3iz5_Z	162	60S ribosomal protein L24 (L24E); eukaryotic ribos	6e-07
3iz5_Z	162	60S ribosomal protein L24 (L24E); eukaryotic ribos	5e-06
3iz5_Z	162	60S ribosomal protein L24 (L24E); eukaryotic ribos	4e-04
2dfs_A	1080	Myosin-5A; myosin-V, inhibited state, cryoelectron	9e-07
2dfs_A	1080	Myosin-5A; myosin-V, inhibited state, cryoelectron	5e-06
2dfs_A	1080	Myosin-5A; myosin-V, inhibited state, cryoelectron	1e-04
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	2e-06
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	5e-06
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	3e-05
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	2e-04
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	2e-04
3kio_B	332	Ribonuclease H2 subunit B; aicardi-goutieres syndr	2e-06
3kio_B	332	Ribonuclease H2 subunit B; aicardi-goutieres syndr	9e-05
3kio_B	332	Ribonuclease H2 subunit B; aicardi-goutieres syndr	6e-04
3kio_B	332	Ribonuclease H2 subunit B; aicardi-goutieres syndr	9e-04
2y9y_A	374	Imitation switch protein 1 (DEL_ATPase); transcrip	3e-06
3izc_Z	155	60S ribosomal protein RPL24 (L24E); eukaryotic rib	5e-06
3izc_Z	155	60S ribosomal protein RPL24 (L24E); eukaryotic rib	9e-05
3izc_Z	155	60S ribosomal protein RPL24 (L24E); eukaryotic rib	4e-04
4f61_I	240	Stathmin-like domain R4; alpha-tubulin, beta-tubul	6e-06
4f61_I	240	Stathmin-like domain R4; alpha-tubulin, beta-tubul	6e-05
3iz5_e	244	60S ribosomal protein L7 (L30P); eukaryotic riboso	2e-05
3iz5_e	244	60S ribosomal protein L7 (L30P); eukaryotic riboso	8e-05
4a17_V	239	RPL7, 60S ribosomal protein L7; eukaryotic ribosom	2e-05
4a17_V	239	RPL7, 60S ribosomal protein L7; eukaryotic ribosom	6e-05
4a17_V	239	RPL7, 60S ribosomal protein L7; eukaryotic ribosom	1e-04
3vkg_A	3245	Dynein heavy chain, cytoplasmic; AAA+ protein, mol	3e-05
3vkg_A	3245	Dynein heavy chain, cytoplasmic; AAA+ protein, mol	7e-05
1jad_A	251	PLC-beta, phospholipase C beta; alpha helical coil	5e-05
3izc_e	244	60S ribosomal protein RPL7 (L30P); eukaryotic ribo	7e-05
3izc_e	244	60S ribosomal protein RPL7 (L30P); eukaryotic ribo	1e-04
2qag_B	427	Septin-6, protein NEDD5; cell cycle, cell division	1e-04
3iz5_D	405	60S ribosomal protein L4 (L4P); eukaryotic ribosom	1e-04
2ycu_A	995	Non muscle myosin 2C, alpha-actinin; motor protein	2e-04
2ycu_A	995	Non muscle myosin 2C, alpha-actinin; motor protein	8e-04
4dyl_A	406	Tyrosine-protein kinase FES/FPS; structural genomi	2e-04
3ryc_E	143	Stathmin-4; alpha-tubulin, beta-tubulin, GTPase, m	2e-04
1c1g_A	284	Tropomyosin; contractIle protein; 7.00A {Sus scrof	3e-04
3qwe_A	279	GMIP, GEM-interacting protein; structural genomics	3e-04
3lvh_D	205	LCB, clathrin light chain B; SELF assembly, coated	4e-04
1kxf_A	264	Sindbis virus capsid protein; chymotrypsin-like se	4e-04
1kxf_A	264	Sindbis virus capsid protein; chymotrypsin-like se	8e-04
2a9u_A	144	Ubiquitin carboxyl-terminal hydrolase 8; coil-COIL	5e-04

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} Length = 963

 Score =  302 bits (774), Expect = 4e-88
 Identities = 146/365 (40%), Positives = 205/365 (56%), Gaps = 18/365 (4%)

Query: 544 DDFWPENEKEKQLQARITKLSKILSGEVSIDLHLQFLIRSNKTDMLILKNTKESI--RVS 601
                    E   Q     L  ILSG  + D +  FL+ +   D+ +L  +K S+  + S
Sbjct: 278 QQLLEILVTELTAQGYDPALLNILSGLPTCDYYNTFLLNNKNIDIGLLNKSKSSLDGKFS 337

Query: 602 ICHTATIIANAFMHSGTTSDQFLRDNLEWLARATNWAKLTATASLGVIHRGHETEALAHM 661
           + HTA  +AN FMH+GTT + F++ NL WL +A NWAK TATASLGVIH+G+  E    M
Sbjct: 338 LFHTAVSVANGFMHAGTTDNSFIKANLPWLGKAQNWAKFTATASLGVIHKGNLLEGKKVM 397

Query: 662 QSYLPRETGPTSGYYEGGGLYALGLIHANHGAVINDYLLGQVKDAT-------NEMVRHG 714
             YLP  +  +S + +GG LY LGLI+A  G    DYL   + + +        +++ HG
Sbjct: 398 APYLP-GSRASSRFIKGGSLYGLGLIYAGFGRDTTDYLKNIIVENSGTSGDEDVDVLLHG 456

Query: 715 GCLGLGLAAMGSARDDIYEQLKFNLYQDDAVTGEAAGIAMGLVLLGSKSESAIQDMVAYA 774
             LG+GLAAMGSA  ++YE LK  LY D A +GEAA + MGL +LG+    AI DM  Y+
Sbjct: 457 ASLGIGLAAMGSANIEVYEALKEVLYNDSATSGEAAALGMGLCMLGTGKPEAIHDMFTYS 516

Query: 775 KETQHEKILRGLAVGISFIMYGQLENADDLVRDLCEEKDAILRRSGMYTIAMAYCGSGSN 834
           +ETQH  I RGLAVG++ I YG+ E ADDL+  +    +++LR  G +TIA+AY G+G+N
Sbjct: 517 QETQHGNITRGLAVGLALINYGRQELADDLITKMLASDESLLRYGGAFTIALAYAGTGNN 576

Query: 835 VATKRLLHDAI------LRRSGMYTIAMAYCGSGSNVATKRLLHVAVSDVNDDVRREAVT 888
            A KRLLH A+      +RR+ +  +        +     R++ +     N  VR     
Sbjct: 577 SAVKRLLHVAVSDSNDDVRRAAVIALGFVLLRDYT--TVPRIVQLLSKSHNAHVRCGTAF 634

Query: 889 ALGFI 893
           ALG  
Sbjct: 635 ALGIA 639

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} Length = 963

 Score =  266 bits (681), Expect = 2e-75
 Identities = 160/544 (29%), Positives = 233/544 (42%), Gaps = 150/544 (27%)

Query: 1   MDVFEAAIKQMTPPRSFTTRSRWPCPPFSRVHSALKSCVPWCLAMSSIQSRSFRAQILRT 60
           +D+ E+A+K      S +   +            +   +   LA++++ +  FR+ ILR 
Sbjct: 174 LDIIESALKSKLDQDSTSENVKI-----------INYLLT--LAITTVTNSKFRSSILRK 220

Query: 61  LVRLYHSLSVPDYVNMAQCWIYLDDPRSVANLLGKLVAGSADDDLMAAQIGFDLYESATQ 120
                 ++   DY+ + +  + L+D                    +A Q+   L E   +
Sbjct: 221 SFDFLMNMPNCDYLTLNKVVVNLNDAG------------------LALQLFKKLKEENDE 262

Query: 121 AFLASVLQELKTCAPIPDATHVVVKVPVEGAPTPATPDTEAPTPAPGTESGPSSTTPGPE 180
              A +  +L + A       +                                      
Sbjct: 263 GLSAQIAFDLVSSASQQLLEIL-------------------------------------- 284

Query: 181 TKTLESLNEKEKQLQARITKLSKILSGEVSIDLHLQFLIRSNKTDMLILKNTKESI--RV 238
                     E   Q     L  ILSG  + D +  FL+ +   D+ +L  +K S+  + 
Sbjct: 285 --------VTELTAQGYDPALLNILSGLPTCDYYNTFLLNNKNIDIGLLNKSKSSLDGKF 336

Query: 239 SICHTATIIANAFMHSGTTSDQFLRDNLEWLARATNWAKLTATASLGVIHRGHETEALAH 298
           S+ HTA  +AN FMH+GTT + F++ NL WL +A NWAK TATASLGVIH+G+  E    
Sbjct: 337 SLFHTAVSVANGFMHAGTTDNSFIKANLPWLGKAQNWAKFTATASLGVIHKGNLLEGKKV 396

Query: 299 MQSYLPRETGPTSGYYEGGGLYALGLIHANHGAVINDYLLGQVKDATNE----------- 347
           M  YLP  +  +S + +GG LY LGLI+A  G    DYL   + + +             
Sbjct: 397 MAPYLP-GSRASSRFIKGGSLYGLGLIYAGFGRDTTDYLKNIIVENSGTSGDEDVDVLLH 455

Query: 348 ----------------------------DDAVTGEAAGIAMGLVLLGSKSESAIQDMVAY 379
                                       D A +GEAA + MGL +LG+    AI DM  Y
Sbjct: 456 GASLGIGLAAMGSANIEVYEALKEVLYNDSATSGEAAALGMGLCMLGTGKPEAIHDMFTY 515

Query: 380 AKETQHEKILRGLAVGISFIMYGQLENADDLVRDLCEEKDAILRRSGMYTIAMAYCVSYL 439
           ++ETQH  I RGLAVG++ I YG+ E ADDL+  +    +++LR                
Sbjct: 516 SQETQHGNITRGLAVGLALINYGRQELADDLITKMLASDESLLR---------------- 559

Query: 440 YFDLFSDLTYRIVKNRSGMYTIAMAYCGSGSNVATKRLLHVAVSDVNDDVRREAVTALGF 499
                            G +TIA+AY G+G+N A KRLLHVAVSD NDDVRR AV ALGF
Sbjct: 560 ---------------YGGAFTIALAYAGTGNNSAVKRLLHVAVSDSNDDVRRAAVIALGF 604

Query: 500 ILFR 503
           +L R
Sbjct: 605 VLLR 608

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} Length = 963

 Score = 62.9 bits (152), Expect = 4e-10
 Identities = 32/234 (13%), Positives = 72/234 (30%), Gaps = 16/234 (6%)

Query: 681 LYALGLIHANHGAVINDYLLGQVKDATNEMVRHGGCLGLGLAAMGSARDDIYEQLKFNLY 740
            Y   L++  +  +          D    +      +  G    G+  +   +     L 
Sbjct: 309 YYNTFLLNNKNIDIGLLNKSKSSLDGKFSLFHTAVSVANGFMHAGTTDNSFIKANLPWLG 368

Query: 741 QDDAVTGEAAGIAMGLVLLGSKSESAIQDMVAYAKETQHEK--ILRGLAVGISFIMYGQL 798
           +        A  ++G++  G+  E   + M  Y   ++     I  G   G+  I  G  
Sbjct: 369 KAQNWAKFTATASLGVIHKGNLLE-GKKVMAPYLPGSRASSRFIKGGSLYGLGLIYAGFG 427

Query: 799 ENADDLVRDLCEE--------KDAILRRSGMYTIAMAYCGSGSNVATKRLLH-----DAI 845
            +  D ++++  E           +L       I +A  GS +    + L        A 
Sbjct: 428 RDTTDYLKNIIVENSGTSGDEDVDVLLHGASLGIGLAAMGSANIEVYEALKEVLYNDSAT 487

Query: 846 LRRSGMYTIAMAYCGSGSNVATKRLLHVAVSDVNDDVRREAVTALGFILFRKKR 899
              +    + +   G+G   A   +   +    + ++ R     L  I + ++ 
Sbjct: 488 SGEAAALGMGLCMLGTGKPEAIHDMFTYSQETQHGNITRGLAVGLALINYGRQE 541

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} Length = 963

 Score = 45.2 bits (106), Expect = 1e-04
 Identities = 9/31 (29%), Positives = 20/31 (64%)

Query: 519 GVISLLDDPMIELKEFSLKKLNDIVDDFWPE 549
            +++LL +    +K ++L+ +N++VD  W E
Sbjct: 19  PLLALLRENQDSVKTYALESINNVVDQLWSE 49

>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 = 78.0 bits (191), Expect = 1e-14
 Identities = 102/611 (16%), Positives = 180/611 (29%), Gaps = 195/611 (31%)

Query: 298 HMQSYLPRETGPTSGYYEGGGLYALGLIHANHGAVINDYLLGQVKDA-----TNED-DAV 351
           H   ++  ETG     Y+        ++     A ++++    V+D      + E+ D +
Sbjct: 2   HHHHHMDFETGEHQYQYKD-------ILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHI 54

Query: 352 TGEAAGIAMGLVLLG---SKSESAIQDMVAYAKETQHEKILRGLAVGISFIMYGQLENAD 408
                 ++  L L     SK E  +Q  V        E++LR        I Y  L +  
Sbjct: 55  IMSKDAVSGTLRLFWTLLSKQEEMVQKFV--------EEVLR--------INYKFLMSP- 97

Query: 409 DLVRDLCEEKDAILRRSGMYTIAMAYCVSYLYFD--LFSDLT-YRI-----VKN-----R 455
             ++    +   + R   MY          LY D  +F+     R+     ++      R
Sbjct: 98  --IKTEQRQPSMMTR---MYI----EQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELR 148

Query: 456 SGMYTI--AMAYCGSGSNVATKRLLHVAVSDVNDDVRREAVTALGFILFRTLFYVAPACT 513
                +   +   GSG     K  +     DV    + +    + F +F           
Sbjct: 149 PAKNVLIDGVL--GSG-----KTWV---ALDVCLSYKVQ--CKMDFKIF----------- 185

Query: 514 RSPWPGVISL--LDDPMIELKEFSLKKLNDIVDDFWPENEKEKQLQARITKLSKILSGEV 571
              W   ++L   + P   L+   L+KL   +D             +R    S I     
Sbjct: 186 ---W---LNLKNCNSPETVLEM--LQKLLYQID---------PNWTSRSDHSSNIKLRIH 228

Query: 572 SIDLHLQFLI--RSNKTDMLILKNTKESIRVSICHTATIIANAFMHS----GTTSDQFLR 625
           SI   L+ L+  +  +  +L+L N        + +      NAF  S     TT  + + 
Sbjct: 229 SIQAELRRLLKSKPYENCLLVLLN--------VQNAKAW--NAFNLSCKILLTTRFKQVT 278

Query: 626 DNLEWLARATNWAKLTATASLGVIHRG-HETEALAHMQSY-------LPRETGPTSGYYE 677
           D L         A  T   SL          E  + +  Y       LPRE         
Sbjct: 279 DFLS--------AATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREV-------L 323

Query: 678 GGGLYALGLIHANHGAVINDYLLGQVKDATNEMVRHGGCLGLGLAAMGSARDDIYEQLKF 737
                 L +I       I D L      AT +  +H     +    + +  +     L+ 
Sbjct: 324 TTNPRRLSII----AESIRDGL------ATWDNWKH-----VNCDKLTTIIESSLNVLEP 368

Query: 738 N----LYQDDAVTGEAAGIAMG-LVLL-GSKSESAIQDMVAYAKETQHEKILRGLAVGIS 791
                ++   +V   +A I    L L+     +S +  +V                    
Sbjct: 369 AEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVV-------------------- 408

Query: 792 FIMYGQLENADDLVRDLCEEKDAILRRSGMYTIAMAYCGSGSNVATKRLLHDAILRRSGM 851
                     + L +    EK        + +I +       N      LH +I+     
Sbjct: 409 ----------NKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYA---LHRSIVDH--- 452

Query: 852 YTIAMAYCGSG 862
           Y I   +    
Sbjct: 453 YNIPKTFDSDD 463

>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 = 48.7 bits (115), Expect = 1e-05
 Identities = 55/389 (14%), Positives = 99/389 (25%), Gaps = 138/389 (35%)

Query: 530 ELKEFSLKKLNDIVDDFWPENEKEKQLQARITKLSKILSGEVSIDLHLQFLIRSNKTDML 589
           E  E   +   DI+  F          +        ILS E  ID             ++
Sbjct: 10  ETGEHQYQY-KDILSVFEDAFVDNFDCKDVQDMPKSILSKEE-ID------------HII 55

Query: 590 ILKNTKESIRV---SICHTATIIANAFMHSGTTSDQFLRDNLEWLARATNWAKLTATASL 646
           + K+          ++      +   F+      ++ LR N ++L      + +      
Sbjct: 56  MSKDAVSGTLRLFWTLLSKQEEMVQKFV------EEVLRINYKFL-----MSPI------ 98

Query: 647 GVIHRGHETEALAHMQSYLPRETGPTSGY-YEGGGLYALGLIHANHGAVINDYLLGQVKD 705
                          +   P  +  T  Y  +   LY       N   V   Y    V  
Sbjct: 99  -------------KTEQRQP--SMMTRMYIEQRDRLY-------NDNQVFAKY---NVS- 132

Query: 706 ATNEMVRHGGCLGLGLAAMGSARDDIYEQLKFNLYQDDAVTGEAAGIA---MGLVLLGS- 761
                                 R   Y +L+  L +       A  +    +     GS 
Sbjct: 133 ----------------------RLQPYLKLRQALLELR----PAKNVLIDGVL----GSG 162

Query: 762 KSESAIQDMVAYAKETQHEKILRGLAVGISFIMYGQLENADDLVR---DLCEEKDAILRR 818
           K+  A+   V         K+   +   I ++      + + ++     L          
Sbjct: 163 KTWVALD--VC-----LSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLL--------- 206

Query: 819 SGMYTIAMAYCGSGSNVATKRLLHDAILRRSGMYTIAMAYCGSGSNVATKRLLHVAVSDV 878
              Y I   +     + +  +L   +I         +  Y           LL      V
Sbjct: 207 ---YQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENC--------LL------V 249

Query: 879 NDDVR-REAVTALGF---ILFRKKRTRRK 903
             +V+  +A  A      IL     TR K
Sbjct: 250 LLNVQNAKAWNAFNLSCKILL---TTRFK 275

>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 = 47.9 bits (113), Expect = 2e-05
 Identities = 69/579 (11%), Positives = 152/579 (26%), Gaps = 182/579 (31%)

Query: 1   MDVFEAAIKQM-TPPRSFTTRSRWPCPPFSRVHSALKSCVP--------------WCLAM 45
             ++     ++    + F   +     P+ ++  AL    P                +A+
Sbjct: 109 TRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVAL 168

Query: 46  SSIQSRSFRAQILRTLVRLYHSLSVPD---YVNMAQCWIYLDDPRSVANLLGKLVA---- 98
               S   + ++                  ++N+  C    + P +V  +L KL+     
Sbjct: 169 DVCLSYKVQCKM-------------DFKIFWLNLKNC----NSPETVLEMLQKLLYQIDP 211

Query: 99  --GSADDDLMAAQIGFDLYESATQAFLASVLQELKTCAPIPDATHV----VV-------K 145
              S  D     ++     ++  +  L S  +  + C  +    +V             K
Sbjct: 212 NWTSRSDHSSNIKLRIHSIQAELRRLLKS--KPYENCLLVLL--NVQNAKAWNAFNLSCK 267

Query: 146 VPVEGAPTPATPDTE-------APTPAPGTESGPSSTTPGPETKTL--ESLNEKEKQLQA 196
           + +    T  T   +       A T     +    + TP  E K+L  + L+ + + L  
Sbjct: 268 ILL----T--TRFKQVTDFLSAATTTHISLDHHSMTLTP-DEVKSLLLKYLDCRPQDLPR 320

Query: 197 RITKLSKILSGEVSIDLHLQFLIRSNKTDMLILKNTKESIRVSICHTATIIANAFMHSGT 256
            +   +      ++  +    L   +    +        I  S+           +    
Sbjct: 321 EVLTTNPRRLSIIAESIR-DGLATWDNWKHVNCDKLTTIIESSL---------NVLEPAE 370

Query: 257 TSDQF-----LRDN-------LEWLARATNWAKLTATASLGVIHRGHETEA-LAHMQSYL 303
               F        +       L  +     W  +  +          +    +  +  Y 
Sbjct: 371 YRKMFDRLSVFPPSAHIPTILLSLI-----WFDVIKS----------DVMVVVNKLHKYS 415

Query: 304 PRETGPTSGYYEGGGLYALGLIHAN-----HGAVINDYLLGQVKDATNEDDAVTGEAAGI 358
             E  P         +Y    +        H ++++ Y    +    + DD +       
Sbjct: 416 LVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHY---NIPKTFDSDDLIPPYL--- 469

Query: 359 AMGLVLLGSKSESAIQDMVAYAKETQHEKILRGLAVGISFIMY--GQLENAD--DLVRDL 414
                           D   Y                 S I +    +E+ +   L R +
Sbjct: 470 ----------------DQYFY-----------------SHIGHHLKNIEHPERMTLFRMV 496

Query: 415 ------CEEKDAILRRSGMYTIAMAYCVSYLYFDLFSDL-TYR--IVKNRSGMYTIAMAY 465
                  E+K   +R         A+  S    +    L  Y+  I  N      +  A 
Sbjct: 497 FLDFRFLEQK---IRHDST-----AWNASGSILNTLQQLKFYKPYICDNDPKYERLVNAI 548

Query: 466 C----GSGSNVAT---KRLLHVAVSDVNDDVRREAVTAL 497
                    N+       LL +A+   ++ +  EA   +
Sbjct: 549 LDFLPKIEENLICSKYTDLLRIALMAEDEAIFEEAHKQV 587

>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} Length = 190

 Score = 59.8 bits (144), Expect = 3e-10
 Identities = 14/82 (17%), Positives = 38/82 (46%), Gaps = 11/82 (13%)

Query: 911 IRKKKKKKKEAEKMRKKKGAEKMKK--KKKDAEKMKKKGAEKIGKKKKKK-----KKKKK 963
           I +  +  +E E +RK +  E+ +K  ++ DA     +  ++  +K KK      +++ +
Sbjct: 74  IAQADRLTQEPESIRKWR--EEQRKRLQELDAASKVME--QEWREKAKKDLEEWNQRQSE 129

Query: 964 KKKKKKKKKKKEAEKMKKKTEE 985
           + +K K   +   +   ++ + 
Sbjct: 130 QVEKNKINNRIADKAFYQQPDA 151

>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} Length = 190

 Score = 53.6 bits (128), Expect = 4e-08
 Identities = 13/72 (18%), Positives = 42/72 (58%), Gaps = 7/72 (9%)

Query: 920 EAEKMRKKKGAEKMKK-KKKDAEKMKKKGAEKIGKKKKKKKKKKKKKKKKK--KKKKKEA 976
           +A+++ ++   E ++K +++  +++++  A    K  +++ ++K KK  ++  +++ ++ 
Sbjct: 76  QADRLTQE--PESIRKWREEQRKRLQELDAA--SKVMEQEWREKAKKDLEEWNQRQSEQV 131

Query: 977 EKMKKKTEEAEK 988
           EK K     A+K
Sbjct: 132 EKNKINNRIADK 143

>2zkr_c 60S ribosomal protein L4; protein-RNA complex, 60S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris} Length = 421

 Score = 59.1 bits (142), Expect = 3e-09
 Identities = 26/87 (29%), Positives = 33/87 (37%), Gaps = 3/87 (3%)

Query: 899 RTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKK 958
           +T R+     +    K +  K A    + K  EK    KK   K  KK      KK KK 
Sbjct: 333 KTMRRNTILRQAKNHKLRMDKAAAA-LEAKSEEKGVPGKKPRRKKGKKTVGV--KKPKKP 389

Query: 959 KKKKKKKKKKKKKKKKEAEKMKKKTEE 985
              KK    KK    K+  + K  TEE
Sbjct: 390 VVGKKAAATKKPAADKKPAEKKPTTEE 416

>2zkr_c 60S ribosomal protein L4; protein-RNA complex, 60S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris} Length = 421

 Score = 56.8 bits (136), Expect = 2e-08
 Identities = 21/85 (24%), Positives = 33/85 (38%)

Query: 896 RKKRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKK 955
             +R    ++    K+R  K       K  +K    K  ++KK  + +  K  +K    K
Sbjct: 334 TMRRNTILRQAKNHKLRMDKAAAALEAKSEEKGVPGKKPRRKKGKKTVGVKKPKKPVVGK 393

Query: 956 KKKKKKKKKKKKKKKKKKKEAEKMK 980
           K    KK    KK  +KK   E+ K
Sbjct: 394 KAAATKKPAADKKPAEKKPTTEEKK 418

>2zkr_c 60S ribosomal protein L4; protein-RNA complex, 60S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris} Length = 421

 Score = 55.6 bits (133), Expect = 4e-08
 Identities = 23/84 (27%), Positives = 37/84 (44%), Gaps = 3/84 (3%)

Query: 893 ILFRKKRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIG 952
           IL + K  + +  K A  +  K ++K    K  ++K  +K    KK  + +  K   K  
Sbjct: 340 ILRQAKNHKLRMDKAAAALEAKSEEKGVPGKKPRRKKGKKTVGVKKPKKPVVGK---KAA 396

Query: 953 KKKKKKKKKKKKKKKKKKKKKKEA 976
             KK    KK  +KK   ++KK A
Sbjct: 397 ATKKPAADKKPAEKKPTTEEKKPA 420

>2zkr_c 60S ribosomal protein L4; protein-RNA complex, 60S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris} Length = 421

 Score = 55.6 bits (133), Expect = 4e-08
 Identities = 21/84 (25%), Positives = 34/84 (40%)

Query: 895 FRKKRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKK 954
            R+    R+ K    ++ K     +   + +   G +  +KK K    +KK     +GKK
Sbjct: 335 MRRNTILRQAKNHKLRMDKAAAALEAKSEEKGVPGKKPRRKKGKKTVGVKKPKKPVVGKK 394

Query: 955 KKKKKKKKKKKKKKKKKKKKEAEK 978
               KK    KK  +KK   E +K
Sbjct: 395 AAATKKPAADKKPAEKKPTTEEKK 418

>2zkr_c 60S ribosomal protein L4; protein-RNA complex, 60S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris} Length = 421

 Score = 53.7 bits (128), Expect = 2e-07
 Identities = 18/91 (19%), Positives = 31/91 (34%)

Query: 895 FRKKRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKK 954
            +  R   K    A+ +R+    ++      +   A    + K + + +  K   +   K
Sbjct: 319 LKNLRIMLKLNPYAKTMRRNTILRQAKNHKLRMDKAAAALEAKSEEKGVPGKKPRRKKGK 378

Query: 955 KKKKKKKKKKKKKKKKKKKKEAEKMKKKTEE 985
           K    KK KK    KK    +     KK  E
Sbjct: 379 KTVGVKKPKKPVVGKKAAATKKPAADKKPAE 409

>2xzm_Y RPS6E; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB: 2xzn_Y Length = 293

 Score = 55.6 bits (133), Expect = 3e-08
 Identities = 21/95 (22%), Positives = 29/95 (30%)

Query: 894 LFRKKRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGK 953
           L   +R  RKK   AEK ++  K     E+  K     K ++  K               
Sbjct: 182 LITPERILRKKVYKAEKTQRYVKTNAAKEEYEKFLSEWKKQRAAKAHAASAPVVEAPKKV 241

Query: 954 KKKKKKKKKKKKKKKKKKKKKEAEKMKKKTEEAEK 988
           +  KK   K  K      K   A        +A K
Sbjct: 242 EAPKKVDPKAAKTTPAATKATPAATKVAPKTQAAK 276

>2zkr_u 60S ribosomal protein L24; protein-RNA complex, 60S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris} Length = 157

 Score = 51.2 bits (122), Expect = 1e-07
 Identities = 26/89 (29%), Positives = 38/89 (42%), Gaps = 8/89 (8%)

Query: 897 KKRTRRKKK-------KGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAE 949
           KKRTRR  K            I  K+ +K E  K ++++ A +  K+ K A++  KK A 
Sbjct: 69  KKRTRRAVKFQRAITGASLADIMAKRNQKPEVRKAQREQ-AIRAAKEAKKAKQASKKTAM 127

Query: 950 KIGKKKKKKKKKKKKKKKKKKKKKKEAEK 978
              K   K   K+K  K  K    +   K
Sbjct: 128 AAAKAPTKAAPKQKIVKPVKVSAPRVGGK 156

>2zkr_u 60S ribosomal protein L24; protein-RNA complex, 60S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris} Length = 157

 Score = 50.8 bits (121), Expect = 2e-07
 Identities = 19/107 (17%), Positives = 38/107 (35%), Gaps = 12/107 (11%)

Query: 894 LFRKKRTRRKKK--KGAEKIRKKKKKKKEAEKMRKK----------KGAEKMKKKKKDAE 941
            F  KR  R+        +  KK + ++  +K  ++               +  K+    
Sbjct: 39  AFLSKRNPRQINWTVLYRRKHKKGQSEEIQKKRTRRAVKFQRAITGASLADIMAKRNQKP 98

Query: 942 KMKKKGAEKIGKKKKKKKKKKKKKKKKKKKKKKEAEKMKKKTEEAEK 988
           +++K   E+  +  K+ KK K+  KK      K   K   K +  + 
Sbjct: 99  EVRKAQREQAIRAAKEAKKAKQASKKTAMAAAKAPTKAAPKQKIVKP 145

>2zkr_u 60S ribosomal protein L24; protein-RNA complex, 60S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris} Length = 157

 Score = 40.4 bits (94), Expect = 6e-04
 Identities = 11/59 (18%), Positives = 22/59 (37%)

Query: 897 KKRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKK 955
           + R  ++++        KK K+   +       A      K+   K  K  A ++G K+
Sbjct: 99  EVRKAQREQAIRAAKEAKKAKQASKKTAMAAAKAPTKAAPKQKIVKPVKVSAPRVGGKR 157

>2zkr_w 60S ribosomal protein L7; protein-RNA complex, 60S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris} Length = 270

 Score = 52.6 bits (125), Expect = 2e-07
 Identities = 25/90 (27%), Positives = 42/90 (46%), Gaps = 10/90 (11%)

Query: 902 RKKKKGAEKIRKKKKKKKEAEKMRKKKGA---EKMKKKKKDAEKMKKKGAEKIGKKKKKK 958
            KKKK A      KKK     K  KKK     E +KKK+++  ++K K       + +KK
Sbjct: 6   EKKKKVATVPGTLKKKVPAGPKTLKKKVPAVPETLKKKRRNFAELKVK-------RLRKK 58

Query: 959 KKKKKKKKKKKKKKKKEAEKMKKKTEEAEK 988
              K  +K ++K   ++A+   K+  +  +
Sbjct: 59  FALKTLRKARRKLIYEKAKHYHKEYRQMYR 88

>2zkr_w 60S ribosomal protein L7; protein-RNA complex, 60S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris} Length = 270

 Score = 46.8 bits (110), Expect = 2e-05
 Identities = 14/86 (16%), Positives = 37/86 (43%)

Query: 897 KKRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKK 956
             +T +KK     +  KKK++     K+++ +    +K  +K   K+  + A+   K+ +
Sbjct: 25  GPKTLKKKVPAVPETLKKKRRNFAELKVKRLRKKFALKTLRKARRKLIYEKAKHYHKEYR 84

Query: 957 KKKKKKKKKKKKKKKKKKEAEKMKKK 982
           +  + + +  +  +K        + K
Sbjct: 85  QMYRTEIRMARMARKAGNFYVPAEPK 110

>2zkr_w 60S ribosomal protein L7; protein-RNA complex, 60S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris} Length = 270

 Score = 43.7 bits (102), Expect = 2e-04
 Identities = 18/83 (21%), Positives = 38/83 (45%), Gaps = 5/83 (6%)

Query: 900 TRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKKK 959
           T +KK     K  KKK         +K++   ++K      ++++KK A K  +K ++K 
Sbjct: 17  TLKKKVPAGPKTLKKKVPAVPETLKKKRRNFAELK-----VKRLRKKFALKTLRKARRKL 71

Query: 960 KKKKKKKKKKKKKKKEAEKMKKK 982
             +K K   K+ ++    +++  
Sbjct: 72  IYEKAKHYHKEYRQMYRTEIRMA 94

>1a31_A Protein (topoisomerase I); topoisomerase I/DNA, DNA, isomerase/DNA complex; HET: DNA 5IU PTR; 2.10A {Homo sapiens} SCOP: d.163.1.2 e.15.1.1 PDB: 1k4t_A* 1k4s_A* 1sc7_A* 1t8i_A* 1tl8_A* 1seu_A* 1a35_A* 1a36_A* 1r49_A* 1rrj_A* 1nh3_A* 1lpq_A* 1rr8_C* 1ej9_A* Length = 591

 Score = 53.6 bits (128), Expect = 2e-07
 Identities = 14/103 (13%), Positives = 36/103 (34%)

Query: 878 VNDDVRREAVTALGFILFRKKRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKK 937
             +   R             K   +       KI  KK++  +A +  K   A+    K 
Sbjct: 444 SYNRANRAVAILCNHQRAPPKTFEKSMMNLQTKIDAKKEQLADARRDLKSAKADAKVMKD 503

Query: 938 KDAEKMKKKGAEKIGKKKKKKKKKKKKKKKKKKKKKKEAEKMK 980
              +K+ +   + + + +++  K + +   +++ K+      K
Sbjct: 504 AKTKKVVESKKKAVQRLEEQLMKLEVQATDREENKQIALGTSK 546

>1a31_A Protein (topoisomerase I); topoisomerase I/DNA, DNA, isomerase/DNA complex; HET: DNA 5IU PTR; 2.10A {Homo sapiens} SCOP: d.163.1.2 e.15.1.1 PDB: 1k4t_A* 1k4s_A* 1sc7_A* 1t8i_A* 1tl8_A* 1seu_A* 1a35_A* 1a36_A* 1r49_A* 1rrj_A* 1nh3_A* 1lpq_A* 1rr8_C* 1ej9_A* Length = 591

 Score = 45.9 bits (108), Expect = 6e-05
 Identities = 27/129 (20%), Positives = 44/129 (34%), Gaps = 13/129 (10%)

Query: 873 VAVSDVNDDVRR--EAVTALGFILFRKKRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGA 930
           +    +N  ++   E +TA  F  +    T +++ K      +    K  +     +  A
Sbjct: 394 LNTGILNKHLQDLMEGLTAKVFRTYNASITLQQQLKELTAPDENIPAKILSYNRANRAVA 453

Query: 931 EKM---KKKKKDAEKMKKKGAEKIGKKKKK--------KKKKKKKKKKKKKKKKKEAEKM 979
                 +   K  EK       KI  KK++        K  K   K  K  K KK  E  
Sbjct: 454 ILCNHQRAPPKTFEKSMMNLQTKIDAKKEQLADARRDLKSAKADAKVMKDAKTKKVVESK 513

Query: 980 KKKTEEAEK 988
           KK  +  E+
Sbjct: 514 KKAVQRLEE 522

>1a31_A Protein (topoisomerase I); topoisomerase I/DNA, DNA, isomerase/DNA complex; HET: DNA 5IU PTR; 2.10A {Homo sapiens} SCOP: d.163.1.2 e.15.1.1 PDB: 1k4t_A* 1k4s_A* 1sc7_A* 1t8i_A* 1tl8_A* 1seu_A* 1a35_A* 1a36_A* 1r49_A* 1rrj_A* 1nh3_A* 1lpq_A* 1rr8_C* 1ej9_A* Length = 591

 Score = 42.4 bits (99), Expect = 8e-04
 Identities = 19/77 (24%), Positives = 32/77 (41%), Gaps = 2/77 (2%)

Query: 912 RKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKKKKKKKKKKKKKKK 971
           ++   K  E   M  +   +  K++  DA +  K    K   K  K  K KK  + KKK 
Sbjct: 459 QRAPPKTFEKSMMNLQTKIDAKKEQLADARRDLKS--AKADAKVMKDAKTKKVVESKKKA 516

Query: 972 KKKEAEKMKKKTEEAEK 988
            ++  E++ K   +A  
Sbjct: 517 VQRLEEQLMKLEVQATD 533

>4a17_T RPL24, 60S ribosomal protein L21; eukaryotic ribosome, ribosome, eukaryotic initiation factor 60S, translation, large ribosomal subunit; 3.52A {Tetrahymena thermophila} PDB: 4a1a_T 4a1c_T 4a1e_T Length = 158

 Score = 50.5 bits (120), Expect = 2e-07
 Identities = 21/95 (22%), Positives = 38/95 (40%), Gaps = 12/95 (12%)

Query: 895 FRKKRTRRKKK-------KGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKG 947
             +K+ +R             E+I ++K      +K   +K   ++K+KK          
Sbjct: 69  IAQKKKKRNVTVARAIVGISLEEINRRKNLDASHKKAEAEKAVRELKQKKA-----NDIE 123

Query: 948 AEKIGKKKKKKKKKKKKKKKKKKKKKKEAEKMKKK 982
            ++  +K + K  K  KK + KK K+    K  KK
Sbjct: 124 KKRADRKLQGKDVKAAKKAETKKTKQPVGAKGGKK 158

>4a17_T RPL24, 60S ribosomal protein L21; eukaryotic ribosome, ribosome, eukaryotic initiation factor 60S, translation, large ribosomal subunit; 3.52A {Tetrahymena thermophila} PDB: 4a1a_T 4a1c_T 4a1e_T Length = 158

 Score = 47.5 bits (112), Expect = 3e-06
 Identities = 21/110 (19%), Positives = 45/110 (40%), Gaps = 15/110 (13%)

Query: 894 LFRKKRTRRKKK--KGAEKIRKKKKKKKEAEKMRKK----------KGAEKMKKK---KK 938
           L  +K   +K        ++ KK K    A+K +K+             E++ ++     
Sbjct: 41  LSLRKVKAQKITWTIARRRLWKKVKATDIAQKKKKRNVTVARAIVGISLEEINRRKNLDA 100

Query: 939 DAEKMKKKGAEKIGKKKKKKKKKKKKKKKKKKKKKKEAEKMKKKTEEAEK 988
             +K + + A +  K+KK    +KK+  +K + K  +A K  +  +  + 
Sbjct: 101 SHKKAEAEKAVRELKQKKANDIEKKRADRKLQGKDVKAAKKAETKKTKQP 150

>1b6a_A Methionine aminopeptidase; angiogenesis inhibitor; HET: TN4; 1.60A {Homo sapiens} SCOP: a.4.5.25 d.127.1.1 PDB: 1qzy_A* 1boa_A* 1kq0_A 1kq9_A 1bn5_A* 1b59_A* 1yw9_A* 1r5g_A* 1r5h_A* 1r58_A* 1yw8_A* 1yw7_A* 2adu_A* 2ea2_A* 2ea4_A* 2ga2_A* 2oaz_A* Length = 478

 Score = 52.6 bits (126), Expect = 4e-07
 Identities = 25/99 (25%), Positives = 44/99 (44%), Gaps = 1/99 (1%)

Query: 877 DVNDDVRREAVTALGFILFRKKRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKK 936
           D++ D R E   +      +KKR ++KK KG      +++  KE+     +   +  +  
Sbjct: 17  DLDPDDREEGAASTAEEAAKKKRRKKKKSKGPSA-AGEQEPDKESGASVDEVARQLERSA 75

Query: 937 KKDAEKMKKKGAEKIGKKKKKKKKKKKKKKKKKKKKKKE 975
            +D E+ +              KKKKKKKKK+  K + +
Sbjct: 76  LEDKERDEDDEDGDGDGDGATGKKKKKKKKKRGPKVQTD 114

>1b6a_A Methionine aminopeptidase; angiogenesis inhibitor; HET: TN4; 1.60A {Homo sapiens} SCOP: a.4.5.25 d.127.1.1 PDB: 1qzy_A* 1boa_A* 1kq0_A 1kq9_A 1bn5_A* 1b59_A* 1yw9_A* 1r5g_A* 1r5h_A* 1r58_A* 1yw8_A* 1yw7_A* 2adu_A* 2ea2_A* 2ea4_A* 2ga2_A* 2oaz_A* Length = 478

 Score = 52.2 bits (125), Expect = 6e-07
 Identities = 17/76 (22%), Positives = 32/76 (42%)

Query: 903 KKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKKKKKK 962
           KKK+  +K  K      E E  ++   +     ++ +   ++ K  ++  +         
Sbjct: 36  KKKRRKKKKSKGPSAAGEQEPDKESGASVDEVARQLERSALEDKERDEDDEDGDGDGDGA 95

Query: 963 KKKKKKKKKKKKEAEK 978
             KKKKKKKKK+  + 
Sbjct: 96  TGKKKKKKKKKRGPKV 111

>1b6a_A Methionine aminopeptidase; angiogenesis inhibitor; HET: TN4; 1.60A {Homo sapiens} SCOP: a.4.5.25 d.127.1.1 PDB: 1qzy_A* 1boa_A* 1kq0_A 1kq9_A 1bn5_A* 1b59_A* 1yw9_A* 1r5g_A* 1r5h_A* 1r58_A* 1yw8_A* 1yw7_A* 2adu_A* 2ea2_A* 2ea4_A* 2ga2_A* 2oaz_A* Length = 478

 Score = 49.1 bits (117), Expect = 5e-06
 Identities = 19/92 (20%), Positives = 41/92 (44%), Gaps = 3/92 (3%)

Query: 896 RKKRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGA---EKIG 952
           R++      ++ A+K R+KKKK K      +++  ++      +  +  ++ A   ++  
Sbjct: 23  REEGAASTAEEAAKKKRRKKKKSKGPSAAGEQEPDKESGASVDEVARQLERSALEDKERD 82

Query: 953 KKKKKKKKKKKKKKKKKKKKKKEAEKMKKKTE 984
           +  +           KKKKKKK+    K +T+
Sbjct: 83  EDDEDGDGDGDGATGKKKKKKKKKRGPKVQTD 114

>1b6a_A Methionine aminopeptidase; angiogenesis inhibitor; HET: TN4; 1.60A {Homo sapiens} SCOP: a.4.5.25 d.127.1.1 PDB: 1qzy_A* 1boa_A* 1kq0_A 1kq9_A 1bn5_A* 1b59_A* 1yw9_A* 1r5g_A* 1r5h_A* 1r58_A* 1yw8_A* 1yw7_A* 2adu_A* 2ea2_A* 2ea4_A* 2ga2_A* 2oaz_A* Length = 478

 Score = 44.1 bits (104), Expect = 2e-04
 Identities = 15/89 (16%), Positives = 36/89 (40%), Gaps = 5/89 (5%)

Query: 903 KKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKKKKK- 961
           +++  A    +  KKK+  +K  K   A   ++  K++     + A ++ +   + K++ 
Sbjct: 23  REEGAASTAEEAAKKKRRKKKKSKGPSAAGEQEPDKESGASVDEVARQLERSALEDKERD 82

Query: 962 ----KKKKKKKKKKKKKEAEKMKKKTEEA 986
                          KK+ +K KK+  + 
Sbjct: 83  EDDEDGDGDGDGATGKKKKKKKKKRGPKV 111

>4a17_C RPL4, ribosomal protein L3; eukaryotic ribosome, ribosome, eukaryotic initiation factor 60S, translation, large ribosomal subunit; 3.52A {Tetrahymena thermophila} PDB: 4a1a_C 4a1c_C 4a1e_C Length = 410

 Score = 52.1 bits (124), Expect = 6e-07
 Identities = 18/89 (20%), Positives = 36/89 (40%), Gaps = 3/89 (3%)

Query: 896 RKKRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKK 955
                  K    A+ ++++ KK  EA    K K    +K  +K A+  KK     I    
Sbjct: 325 TNNNALFKLNPAAKIVKEQAKKAAEA---SKAKRQATLKANRKAAKTHKKGSQAWIAAFN 381

Query: 956 KKKKKKKKKKKKKKKKKKKEAEKMKKKTE 984
           K  ++   K +++      + +++K+  E
Sbjct: 382 KANEEAIAKARQEDADFIAQGQEIKEGDE 410

>4a17_C RPL4, ribosomal protein L3; eukaryotic ribosome, ribosome, eukaryotic initiation factor 60S, translation, large ribosomal subunit; 3.52A {Tetrahymena thermophila} PDB: 4a1a_C 4a1c_C 4a1e_C Length = 410

 Score = 51.4 bits (122), Expect = 8e-07
 Identities = 18/93 (19%), Positives = 30/93 (32%), Gaps = 1/93 (1%)

Query: 896 RKKRTRRKKKKGAEKIRKKKKKKKEAEKMRK-KKGAEKMKKKKKDAEKMKKKGAEKIGKK 954
               T  +KK          K    A+ +++  K A +  K K+ A     + A K  KK
Sbjct: 312 GTTETHERKKNPLTNNNALFKLNPAAKIVKEQAKKAAEASKAKRQATLKANRKAAKTHKK 371

Query: 955 KKKKKKKKKKKKKKKKKKKKEAEKMKKKTEEAE 987
             +       K  ++   K   E      +  E
Sbjct: 372 GSQAWIAAFNKANEEAIAKARQEDADFIAQGQE 404

>4a17_C RPL4, ribosomal protein L3; eukaryotic ribosome, ribosome, eukaryotic initiation factor 60S, translation, large ribosomal subunit; 3.52A {Tetrahymena thermophila} PDB: 4a1a_C 4a1c_C 4a1e_C Length = 410

 Score = 49.8 bits (118), Expect = 3e-06
 Identities = 18/88 (20%), Positives = 29/88 (32%), Gaps = 1/88 (1%)

Query: 902 RKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKK-KKKDAEKMKKKGAEKIGKKKKKKKK 960
           +         RKK          +    A+ +K+  KK AE  K K    +   +K  K 
Sbjct: 309 KVAGTTETHERKKNPLTNNNALFKLNPAAKIVKEQAKKAAEASKAKRQATLKANRKAAKT 368

Query: 961 KKKKKKKKKKKKKKEAEKMKKKTEEAEK 988
            KK  +       K  E+   K  + + 
Sbjct: 369 HKKGSQAWIAAFNKANEEAIAKARQEDA 396

>4a17_C RPL4, ribosomal protein L3; eukaryotic ribosome, ribosome, eukaryotic initiation factor 60S, translation, large ribosomal subunit; 3.52A {Tetrahymena thermophila} PDB: 4a1a_C 4a1c_C 4a1e_C Length = 410

 Score = 44.4 bits (104), Expect = 2e-04
 Identities = 12/78 (15%), Positives = 28/78 (35%)

Query: 911 IRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKKKKKKKKKKKKKK 970
           ++     +    K         + K    A+ +K++  +     K K++   K  +K  K
Sbjct: 308 VKVAGTTETHERKKNPLTNNNALFKLNPAAKIVKEQAKKAAEASKAKRQATLKANRKAAK 367

Query: 971 KKKKEAEKMKKKTEEAEK 988
             KK ++       +A +
Sbjct: 368 THKKGSQAWIAAFNKANE 385

>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp contractIle protein-transport protein complex; 24.00A {Gallus gallus} Length = 1080

 Score = 52.0 bits (125), Expect = 9e-07
 Identities = 25/107 (23%), Positives = 38/107 (35%), Gaps = 11/107 (10%)

Query: 882 VRREAVTALGFILFRKKRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAE 941
            R      L  I++ +   RR   K     R+ KK K EA         E+ KK     E
Sbjct: 879 ARVHYHRTLKAIVYLQCCYRRMMAK-----RELKKLKIEARS------VERYKKLHIGLE 927

Query: 942 KMKKKGAEKIGKKKKKKKKKKKKKKKKKKKKKKEAEKMKKKTEEAEK 988
               +   KI ++ K+ K   +K    +     E EK++   E    
Sbjct: 928 NKIMQLQRKIDEQNKEYKSLLEKMNNLEITYSTETEKLRSDVERLRM 974

>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp contractIle protein-transport protein complex; 24.00A {Gallus gallus} Length = 1080

 Score = 49.3 bits (118), Expect = 5e-06
 Identities = 15/109 (13%), Positives = 37/109 (33%), Gaps = 3/109 (2%)

Query: 883 RREAVTALGFILFRKKRTRRKKKKGAEKIR---KKKKKKKEAEKMRKKKGAEKMKKKKKD 939
            +  V           +   KK K   +     KK     E + M+ ++  ++  K+ K 
Sbjct: 887 LKAIVYLQCCYRRMMAKRELKKLKIEARSVERYKKLHIGLENKIMQLQRKIDEQNKEYKS 946

Query: 940 AEKMKKKGAEKIGKKKKKKKKKKKKKKKKKKKKKKEAEKMKKKTEEAEK 988
             +           + +K +   ++ +  +++ K    ++    EE  K
Sbjct: 947 LLEKMNNLEITYSTETEKLRSDVERLRMSEEEAKNATNRVLSLQEEIAK 995

>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp contractIle protein-transport protein complex; 24.00A {Gallus gallus} Length = 1080

 Score = 45.1 bits (107), Expect = 1e-04
 Identities = 15/101 (14%), Positives = 38/101 (37%), Gaps = 8/101 (7%)

Query: 896  RKKRTRRKKKKGAEKIRKKKKKKKEAEKMRK--KKGAEKMKKKKKDAEKMKKKGAEKIGK 953
             K    +          + +K + + E++R   ++      +     E++ K   E    
Sbjct: 944  YKSLLEKMNNLEITYSTETEKLRSDVERLRMSEEEAKNATNRVLSLQEEIAKLRKELHQT 1003

Query: 954  KKKKKKKKKKKKKKKKKKKKKEAE------KMKKKTEEAEK 988
            + +KK  ++   K K + ++  +E       +K + EE  +
Sbjct: 1004 QTEKKTIEEWADKYKHETEQLVSELKEQNTLLKTEKEELNR 1044

>1i84_S Smooth muscle myosin heavy chain; muscle protein, myosin subfragment 2, heavy meromyosin, essential light chain, motor protein; HET: MLY; 20.00A {Gallus gallus} SCOP: i.15.1.1 PDB: 3j04_A 3dtp_B 3dtp_A Length = 1184

 Score = 51.4 bits (123), Expect = 2e-06
 Identities = 21/106 (19%), Positives = 54/106 (50%)

Query: 883 RREAVTALGFILFRKKRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEK 942
           +++A   L  +  +  +   +K    EK++ + +   EAE+MR +  A+K + ++   E 
Sbjct: 873 QQKAEAELKELEQKHTQLCEEKNLLQEKLQAETELYAEAEEMRVRLAAKKQELEEILHEM 932

Query: 943 MKKKGAEKIGKKKKKKKKKKKKKKKKKKKKKKEAEKMKKKTEEAEK 988
             +   E+   ++ + +KKK +++    +++ E E+  ++  + EK
Sbjct: 933 EARIEEEEERSQQLQAEKKKMQQQMLDLEEQLEEEEAARQKLQLEK 978

>1i84_S Smooth muscle myosin heavy chain; muscle protein, myosin subfragment 2, heavy meromyosin, essential light chain, motor protein; HET: MLY; 20.00A {Gallus gallus} SCOP: i.15.1.1 PDB: 3j04_A 3dtp_B 3dtp_A Length = 1184

 Score = 49.8 bits (119), Expect = 5e-06
 Identities = 17/93 (18%), Positives = 46/93 (49%), Gaps = 5/93 (5%)

Query: 896  RKKRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKK 955
             + R   KK++  E + + + + +E E+  ++  AEK KK ++    +++    ++ +++
Sbjct: 914  MRVRLAAKKQELEEILHEMEARIEEEEERSQQLQAEK-KKMQQQMLDLEE----QLEEEE 968

Query: 956  KKKKKKKKKKKKKKKKKKKEAEKMKKKTEEAEK 988
              ++K + +K     K KK  + +    ++  K
Sbjct: 969  AARQKLQLEKVTADGKIKKMEDDILIMEDQNNK 1001

>1i84_S Smooth muscle myosin heavy chain; muscle protein, myosin subfragment 2, heavy meromyosin, essential light chain, motor protein; HET: MLY; 20.00A {Gallus gallus} SCOP: i.15.1.1 PDB: 3j04_A 3dtp_B 3dtp_A Length = 1184

 Score = 47.1 bits (112), Expect = 3e-05
 Identities = 11/93 (11%), Positives = 43/93 (46%), Gaps = 3/93 (3%)

Query: 896 RKKRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKK 955
            +     ++ +     +K++ ++   E   + +  E+  ++ +     KKK  +++   +
Sbjct: 905 TELYAEAEEMRVRLAAKKQELEEILHEMEARIEEEEERSQQLQAE---KKKMQQQMLDLE 961

Query: 956 KKKKKKKKKKKKKKKKKKKEAEKMKKKTEEAEK 988
           ++ ++++  ++K + +K     K+KK  ++   
Sbjct: 962 EQLEEEEAARQKLQLEKVTADGKIKKMEDDILI 994

>1i84_S Smooth muscle myosin heavy chain; muscle protein, myosin subfragment 2, heavy meromyosin, essential light chain, motor protein; HET: MLY; 20.00A {Gallus gallus} SCOP: i.15.1.1 PDB: 3j04_A 3dtp_B 3dtp_A Length = 1184

 Score = 44.1 bits (104), Expect = 2e-04
 Identities = 14/88 (15%), Positives = 37/88 (42%), Gaps = 3/88 (3%)

Query: 898  KRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKK 957
             R   ++++  +   +KKK +++   + ++   E+ +  ++  +  K     KI KK + 
Sbjct: 934  ARIEEEEERSQQLQAEKKKMQQQMLDLEEQL--EEEEAARQKLQLEKVTADGKI-KKMED 990

Query: 958  KKKKKKKKKKKKKKKKKEAEKMKKKTEE 985
                 + +  K  K++K  E+       
Sbjct: 991  DILIMEDQNNKLTKERKLLEERVSDLTT 1018

>1i84_S Smooth muscle myosin heavy chain; muscle protein, myosin subfragment 2, heavy meromyosin, essential light chain, motor protein; HET: MLY; 20.00A {Gallus gallus} SCOP: i.15.1.1 PDB: 3j04_A 3dtp_B 3dtp_A Length = 1184

 Score = 44.1 bits (104), Expect = 2e-04
 Identities = 22/95 (23%), Positives = 44/95 (46%), Gaps = 2/95 (2%)

Query: 896  RKKRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMK--KKKKDAEKMKKKGAEKIGK 953
            R ++ + +KKK  +++   +++ +E E  R+K   EK+    K K  E       ++  K
Sbjct: 942  RSQQLQAEKKKMQQQMLDLEEQLEEEEAARQKLQLEKVTADGKIKKMEDDILIMEDQNNK 1001

Query: 954  KKKKKKKKKKKKKKKKKKKKKEAEKMKKKTEEAEK 988
              K++K  +++         +E EK K  T+   K
Sbjct: 1002 LTKERKLLEERVSDLTTNLAEEEEKAKNLTKLKNK 1036

>3kio_B Ribonuclease H2 subunit B; aicardi-goutieres syndrome, RNAse H2, protein complex, autoimmune disease, endonuclease, hydrolase, metal-binding; 2.90A {Mus musculus} PDB: 3p5j_B 3puf_B 3p56_B Length = 332

 Score = 50.2 bits (119), Expect = 2e-06
 Identities = 15/80 (18%), Positives = 23/80 (28%), Gaps = 5/80 (6%)

Query: 901 RRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKKKK 960
             K  +    +     KK +      +   +  K   KD +  KK       +K   K  
Sbjct: 252 FLKLPEPPASLPNPPSKKLKLSDEPVEAKEDYTKFNTKDLKTGKKNSKMTAAQKALAKVD 311

Query: 961 KKKKKK-----KKKKKKKKE 975
           K   K        K KK  +
Sbjct: 312 KSGMKSIDAFFGAKNKKTGK 331

>3kio_B Ribonuclease H2 subunit B; aicardi-goutieres syndrome, RNAse H2, protein complex, autoimmune disease, endonuclease, hydrolase, metal-binding; 2.90A {Mus musculus} PDB: 3p5j_B 3puf_B 3p56_B Length = 332

 Score = 44.8 bits (105), Expect = 9e-05
 Identities = 17/68 (25%), Positives = 20/68 (29%), Gaps = 1/68 (1%)

Query: 915 KKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKKKKKKKKKKKKKKK-KK 973
            K  K  E           K K  D     K+   K   K  K  KK  K    +K   K
Sbjct: 250 SKFLKLPEPPASLPNPPSKKLKLSDEPVEAKEDYTKFNTKDLKTGKKNSKMTAAQKALAK 309

Query: 974 KEAEKMKK 981
            +   MK 
Sbjct: 310 VDKSGMKS 317

>3kio_B Ribonuclease H2 subunit B; aicardi-goutieres syndrome, RNAse H2, protein complex, autoimmune disease, endonuclease, hydrolase, metal-binding; 2.90A {Mus musculus} PDB: 3p5j_B 3puf_B 3p56_B Length = 332

 Score = 42.1 bits (98), Expect = 6e-04
 Identities = 22/136 (16%), Positives = 43/136 (31%), Gaps = 5/136 (3%)

Query: 837 TKRLLHDAILRRSGMYTIAMAYCGSGSNVATKRLLHVAVSDVNDDVRREAVTALGFILFR 896
              L  + +   + + + A    G  S    +  +  A   ++D + +E    L   L  
Sbjct: 196 VVALKANNVNVGARVQSSAYFSGGQVSRDKEEDYVRYAHGLISDYIPKELSDDLSKFLKL 255

Query: 897 KKRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKK 956
            +         ++K++   +  +  E   K    +    KK       +K   K+ K   
Sbjct: 256 PEPPASLPNPPSKKLKLSDEPVEAKEDYTKFNTKDLKTGKKNSKMTAAQKALAKVDKSGM 315

Query: 957 KK-----KKKKKKKKK 967
           K        K KK  K
Sbjct: 316 KSIDAFFGAKNKKTGK 331

>3kio_B Ribonuclease H2 subunit B; aicardi-goutieres syndrome, RNAse H2, protein complex, autoimmune disease, endonuclease, hydrolase, metal-binding; 2.90A {Mus musculus} PDB: 3p5j_B 3puf_B 3p56_B Length = 332

 Score = 41.7 bits (97), Expect = 9e-04
 Identities = 14/89 (15%), Positives = 25/89 (28%), Gaps = 7/89 (7%)

Query: 904 KKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKKKKKKK 963
               ++ ++  +          KK        + K+          K GKK  K    +K
Sbjct: 246 SDDLSKFLKLPEPPASLPNPPSKKLKLSDEPVEAKEDYTKFNTKDLKTGKKNSKMTAAQK 305

Query: 964 KKKKKKKKKKKEAEKM----KKKTEEAEK 988
              K  K   K    +      K ++  K
Sbjct: 306 ALAKVDKSGMK---SIDAFFGAKNKKTGK 331

>2y9y_A Imitation switch protein 1 (DEL_ATPase); transcription, nuclear protein complex, chromatin remodeling nucleosome remodeling; 3.25A {Saccharomyces cerevisiae} PDB: 2y9z_A Length = 374

 Score = 49.8 bits (118), Expect = 3e-06
 Identities = 13/97 (13%), Positives = 43/97 (44%)

Query: 892 FILFRKKRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKI 951
              + + RT  +  +    + +  +K+  A  +      ++MKK+ ++ ++++++ A++ 
Sbjct: 269 LDFYFRSRTPVELARRGNTLLQCLEKEFNAGIVLDDATKDRMKKEDENGKRIREEFADQT 328

Query: 952 GKKKKKKKKKKKKKKKKKKKKKKEAEKMKKKTEEAEK 988
             +K+     + KK K +       E++  +     +
Sbjct: 329 ANEKENVDGVESKKAKIEDTSNVGTEQLVAEKIPENE 365

>4f61_I Stathmin-like domain R4; alpha-tubulin, beta-tubulin, GTPase, microtubule, RB3, stath tubulin, cell cycle; HET: GTP GDP; 4.17A {Artificial gene} Length = 240

 Score = 47.7 bits (112), Expect = 6e-06
 Identities = 21/94 (22%), Positives = 46/94 (48%), Gaps = 1/94 (1%)

Query: 896 RKKRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKK 955
             K    K++   E I++  ++     KM K+K A+KM+  K++ E       E++ +K 
Sbjct: 65  LLKHLAEKREHEREVIQRAIEENNNWIKMAKEKLAQKMESNKENREAHFAAMLERLQEKD 124

Query: 956 KKKKKKKKKKKKKKKKKKKE-AEKMKKKTEEAEK 988
           K  ++ +++  ++     K   EK+ +K E  ++
Sbjct: 125 KHAEEVRQRAIEENNNWIKMAKEKLAQKMESNKE 158

>4f61_I Stathmin-like domain R4; alpha-tubulin, beta-tubulin, GTPase, microtubule, RB3, stath tubulin, cell cycle; HET: GTP GDP; 4.17A {Artificial gene} Length = 240

 Score = 45.0 bits (105), Expect = 6e-05
 Identities = 21/113 (18%), Positives = 50/113 (44%), Gaps = 5/113 (4%)

Query: 880 DDVRREAVTALGFILFRKKRTRRKKKKGAEKIRKK-----KKKKKEAEKMRKKKGAEKMK 934
           ++VR+ A+      +   K    +K +  ++ RK       K   E  +  ++     ++
Sbjct: 128 EEVRQRAIEENNNWIKMAKEKLAQKMESNKENRKYQEAELLKHLAEKREHEREVIQRAIE 187

Query: 935 KKKKDAEKMKKKGAEKIGKKKKKKKKKKKKKKKKKKKKKKEAEKMKKKTEEAE 987
           +     +  K+K A+K+   K+ ++       ++ ++K K AE+++K  E  E
Sbjct: 188 ENNNWIKMAKEKLAQKMESNKENREAHFAAMLERLQEKDKHAEEVRKNKELKE 240

>4a17_V RPL7, 60S ribosomal protein L7; eukaryotic ribosome, ribosome, eukaryotic initiation factor 60S, translation, large ribosomal subunit; 3.52A {Tetrahymena thermophila} PDB: 4a1a_V 4a1c_V 4a1e_V Length = 239

 Score = 46.3 bits (109), Expect = 2e-05
 Identities = 13/69 (18%), Positives = 27/69 (39%)

Query: 914 KKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKKKKKKKKKKKKKKKKK 973
           KK  + E  +  K +  +    + K  +      A+K   + +  +KK   +K+K +K  
Sbjct: 11  KKLARDEKLRKAKAEQRKASSAQMKQRKAEWISKAQKYAAEYEAAEKKIVDEKRKARKTG 70

Query: 974 KEAEKMKKK 982
                 + K
Sbjct: 71  AFYVPAEAK 79

>4a17_V RPL7, 60S ribosomal protein L7; eukaryotic ribosome, ribosome, eukaryotic initiation factor 60S, translation, large ribosomal subunit; 3.52A {Tetrahymena thermophila} PDB: 4a1a_V 4a1c_V 4a1e_V Length = 239

 Score = 44.8 bits (105), Expect = 6e-05
 Identities = 17/57 (29%), Positives = 28/57 (49%)

Query: 926 KKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKKKKKKKKKKKKKKKKKKEAEKMKKK 982
            K   E ++KK    EK++K  AE+      + K++K +   K +K   E E  +KK
Sbjct: 2   SKFVPENVQKKLARDEKLRKAKAEQRKASSAQMKQRKAEWISKAQKYAAEYEAAEKK 58

>4a17_V RPL7, 60S ribosomal protein L7; eukaryotic ribosome, ribosome, eukaryotic initiation factor 60S, translation, large ribosomal subunit; 3.52A {Tetrahymena thermophila} PDB: 4a1a_V 4a1c_V 4a1e_V Length = 239

 Score = 44.0 bits (103), Expect = 1e-04
 Identities = 13/69 (18%), Positives = 33/69 (47%)

Query: 902 RKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKKKKK 961
           +K  +  +  + K +++K +    K++ AE + K +K A + +    + + +K+K +K  
Sbjct: 11  KKLARDEKLRKAKAEQRKASSAQMKQRKAEWISKAQKYAAEYEAAEKKIVDEKRKARKTG 70

Query: 962 KKKKKKKKK 970
                 + K
Sbjct: 71  AFYVPAEAK 79

>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor, microtubles, motor protein; HET: ADP SPM; 2.81A {Dictyostelium discoideum} PDB: 3vkh_A* 3vkh_C* Length = 3245

 Score = 47.6 bits (113), Expect = 3e-05
 Identities = 14/83 (16%), Positives = 39/83 (46%), Gaps = 1/83 (1%)

Query: 906  KGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKKKKKKKKK 965
                 +  +K+ + E E++    G +K++  +   + ++   A+K  ++   K ++  +K
Sbjct: 1902 NQVVLLINEKRDQLEEEQLHLNIGLKKLRDTEAQVKDLQVSLAQKN-RELDVKNEQANQK 1960

Query: 966  KKKKKKKKKEAEKMKKKTEEAEK 988
             K+  + ++ AE  +K   E + 
Sbjct: 1961 LKQMVQDQQAAEIKQKDARELQV 1983

>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor, microtubles, motor protein; HET: ADP SPM; 2.81A {Dictyostelium discoideum} PDB: 3vkh_A* 3vkh_C* Length = 3245

 Score = 46.0 bits (109), Expect = 7e-05
 Identities = 23/135 (17%), Positives = 55/135 (40%), Gaps = 23/135 (17%)

Query: 872  HVAVSDVNDD-----VRREAVTA---LGFI-----LFRKKRT-----RRKKKKGAEKIRK 913
            H  + + N        R+  VT    L FI     L  +KR      +     G +K+R 
Sbjct: 1872 HQTIGEANIRLLKRQGRQNYVTPRHYLDFINQVVLLINEKRDQLEEEQLHLNIGLKKLRD 1931

Query: 914  KKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKKKKKKKKKKKKKKKKK 973
             + + K+ +    +K  E   K ++  +K+K     ++ + ++  + K+K  ++ + +  
Sbjct: 1932 TEAQVKDLQVSLAQKNRELDVKNEQANQKLK-----QMVQDQQAAEIKQKDARELQVQLD 1986

Query: 974  KEAEKMKKKTEEAEK 988
               +++  +  +A  
Sbjct: 1987 VRNKEIAVQKVKAYA 2001

>1jad_A PLC-beta, phospholipase C beta; alpha helical coiled coil, hydrolase; 2.40A {Meleagris gallopavo} SCOP: h.4.10.1 Length = 251

 Score = 44.8 bits (105), Expect = 5e-05
 Identities = 16/92 (17%), Positives = 44/92 (47%), Gaps = 8/92 (8%)

Query: 902 RKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKK--------KGAEKIGK 953
           +  K+ +E   K  KKK EA+++ + +   +    K   E++KK        +  + I  
Sbjct: 126 KALKESSESNIKDIKKKLEAKRLDRIQVMMRSTSDKAAQERLKKEINNSHIQEVVQTIKL 185

Query: 954 KKKKKKKKKKKKKKKKKKKKKEAEKMKKKTEE 985
             +K  + ++K ++K+ +  +  ++ + + ++
Sbjct: 186 LTEKTARYQQKLEEKQAENLRAIQEKEGQLQQ 217

>2qag_B Septin-6, protein NEDD5; cell cycle, cell division, GTP-binding, nucleotide-binding, phosphorylation, acetylation, alternative splicing, coiled coil; HET: GDP GTP; 4.00A {Homo sapiens} Length = 427

 Score = 44.7 bits (105), Expect = 1e-04
 Identities = 20/96 (20%), Positives = 45/96 (46%), Gaps = 1/96 (1%)

Query: 893 ILFRKKRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIG 952
             +   R  + ++ G +      K     E    K+     + +KK+ E M++   +++ 
Sbjct: 293 RHYELYRRCKLEEMGFKDTDPDSKPFSLQETYEAKRNEFLGELQKKEEE-MRQMFVQRVK 351

Query: 953 KKKKKKKKKKKKKKKKKKKKKKEAEKMKKKTEEAEK 988
           +K+ + K+ +K+  +K  + KK  +  KKK E+ +K
Sbjct: 352 EKEAELKEAEKELHEKFDRLKKLHQDEKKKLEDKKK 387

>2ycu_A Non muscle myosin 2C, alpha-actinin; motor protein; HET: AOV; 2.25A {Homo sapiens} PDB: 1br1_A* 1br4_A* 1br2_A* Length = 995

 Score = 44.7 bits (106), Expect = 2e-04
 Identities = 12/95 (12%), Positives = 33/95 (34%)

Query: 894 LFRKKRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGK 953
              KK  +  K +   ++       +   ++ K++          +         EK  +
Sbjct: 801 KEYKKTEKPPKGQEVSELEAIYNSLQTKLRLIKREPFVAPAGLTPNEIDSTWSALEKAEQ 860

Query: 954 KKKKKKKKKKKKKKKKKKKKKEAEKMKKKTEEAEK 988
           +  +  + + K++KK     ++  ++ KK E    
Sbjct: 861 EHAEALRIELKRQKKIAVLLQKYNRILKKLENWAT 895

>2ycu_A Non muscle myosin 2C, alpha-actinin; motor protein; HET: AOV; 2.25A {Homo sapiens} PDB: 1br1_A* 1br4_A* 1br2_A* Length = 995

 Score = 42.3 bits (100), Expect = 8e-04
 Identities = 12/103 (11%), Positives = 33/103 (32%), Gaps = 5/103 (4%)

Query: 891 GFILFRKKRTRRKKKKGAEKIRK---KKKKKKEAEKMRKKKGAEKMKK--KKKDAEKMKK 945
                +     R      E ++      K+ K+ EK  K +   +++        +    
Sbjct: 773 WINDKQASLESRDFGDSIESVQSFMNAHKEYKKTEKPPKGQEVSELEAIYNSLQTKLRLI 832

Query: 946 KGAEKIGKKKKKKKKKKKKKKKKKKKKKKEAEKMKKKTEEAEK 988
           K    +        +        +K +++ AE ++ + +  +K
Sbjct: 833 KREPFVAPAGLTPNEIDSTWSALEKAEQEHAEALRIELKRQKK 875

>4dyl_A Tyrosine-protein kinase FES/FPS; structural genomics, structural genomics consortium, BCR, CR associated substrate, transferase; 2.18A {Homo sapiens} Length = 406

 Score = 44.0 bits (103), Expect = 2e-04
 Identities = 12/117 (10%), Positives = 46/117 (39%), Gaps = 8/117 (6%)

Query: 871 LHVAVSDVNDDVRREAVTALGFILFRKKRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGA 930
           L    ++   D+    ++ L  ++  +++ R+   +  ++++++  K    +  + K   
Sbjct: 87  LLRQHAE---DLNSGPLSKLSLLIRERQQLRKTYSEQWQQLQQELTKTHSQDIEKLKSQY 143

Query: 931 EKMKKKKKDAEKMKKKGAEKIGKKKKKKKKKKKKKKKKKKKKK-----KEAEKMKKK 982
             + +    A++  ++ ++   + K K K  +   K      +     + A+   + 
Sbjct: 144 RALARDSAQAKRKYQEASKDKDRDKAKDKYVRSLWKLFAHHNRYVLGVRAAQLHHQH 200

>3ryc_E Stathmin-4; alpha-tubulin, beta-tubulin, GTPase, microtubule, tubulin, cell cycle; HET: GTP GDP; 2.10A {Rattus norvegicus} PDB: 3ryf_E* 3ryh_E* 3ryi_E* 1sa0_E* 1sa1_E* 1z2b_E* 3du7_E* 3e22_E* 3hkb_E* 3hkc_E* 3hkd_E* 3hke_E* 3n2g_E* 3n2k_E* Length = 143

 Score = 41.6 bits (97), Expect = 2e-04
 Identities = 25/101 (24%), Positives = 48/101 (47%), Gaps = 11/101 (10%)

Query: 896 RKKRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKK 955
                 R++    E+I   +KK + AE+ RK + AE +K   +  E  ++   + I +  
Sbjct: 33  FNASLPRRRDPSLEEI---QKKLEAAEERRKYQEAELLKHLAEKREHEREVIQKAIEENN 89

Query: 956 KKKKKKKKKKKKK--KKKKKKEA------EKMKKKTEEAEK 988
              K  K+K  +K    K+ +EA      E++++K + AE+
Sbjct: 90  NFIKMAKEKLAQKMESNKENREAHLAAMLERLQEKDKHAEE 130

>1c1g_A Tropomyosin; contractIle protein; 7.00A {Sus scrofa} SCOP: h.1.5.1 PDB: 2tma_A 2w49_A 2w4u_A Length = 284

 Score = 42.7 bits (100), Expect = 3e-04
 Identities = 19/81 (23%), Positives = 39/81 (48%), Gaps = 3/81 (3%)

Query: 909 EKIRKK-KKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKKKKKKKKKKK 967
           + I+KK +  K + E    +  A++ +  KK AE   K+  +++   +KK K  + +  K
Sbjct: 2   DAIKKKMQMLKLDKENALDR--ADEAEADKKAAEDRSKQLEDELVSLQKKLKATEDELDK 59

Query: 968 KKKKKKKEAEKMKKKTEEAEK 988
             +  K   EK++   ++A  
Sbjct: 60  YSEALKDAQEKLELAEKKATD 80

>3qwe_A GMIP, GEM-interacting protein; structural genomics consortium, SGC, protein binding; 2.40A {Homo sapiens} Length = 279

 Score = 42.5 bits (99), Expect = 3e-04
 Identities = 16/99 (16%), Positives = 49/99 (49%), Gaps = 8/99 (8%)

Query: 896 RKKRTRRKKKKGAEKIRKKKKKKKEAEK-MRKKKGAEKMKKKKKDAEKMK----KKGAEK 950
           ++    + +K+  E+  K++K+  EA + +R+ +   +  ++ +D         +  A +
Sbjct: 106 KRTEIEKWRKEFKEQWMKEQKRMNEAVQALRRAQ--LQYVQRSEDLRARSQGSPEDSAPQ 163

Query: 951 IGKKKKKKKKKKKKKKKKKKKKKKEAEKM-KKKTEEAEK 988
                 K+++++++ +++ + K +EAE + +    EA  
Sbjct: 164 ASPGPSKQQERRRRSREEAQAKAQEAEALYQACVREANA 202

>3lvh_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 9.00A {Bos taurus} Length = 205

 Score = 41.8 bits (97), Expect = 4e-04
 Identities = 12/66 (18%), Positives = 37/66 (56%), Gaps = 2/66 (3%)

Query: 915 KKKKKEAEKMRK--KKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKKKKKKKKKKKKKKKK 972
            +  +E E +RK  ++  +++++    ++ M+++  EK  K  ++  +++ ++ +K K  
Sbjct: 93  DRLTQEPESIRKWREEQRKRLQELDAASKVMEQEWREKAKKDLEEWNQRQSEQVEKNKIN 152

Query: 973 KKEAEK 978
            + A+K
Sbjct: 153 NRIADK 158

>1kxf_A Sindbis virus capsid protein; chymotrypsin-like serine proteinase, wild type, viral protein; 2.38A {Sindbis virus} SCOP: b.47.1.3 PDB: 1ld4_A 3j0f_A Length = 264

 Score = 42.5 bits (99), Expect = 4e-04
 Identities = 14/56 (25%), Positives = 26/56 (46%), Gaps = 5/56 (8%)

Query: 925 RKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKKKKKKKKKKKKKKKKKKEAEKMK 980
           R +    +   ++K     K+   +    KK K ++KKKK+  K K  K++   +K
Sbjct: 59  RPQNPRPRPPPRQK-----KQAPKQPPKPKKPKPQEKKKKQPAKTKPGKRQRMALK 109

>1kxf_A Sindbis virus capsid protein; chymotrypsin-like serine proteinase, wild type, viral protein; 2.38A {Sindbis virus} SCOP: b.47.1.3 PDB: 1ld4_A 3j0f_A Length = 264

 Score = 41.3 bits (96), Expect = 8e-04
 Identities = 13/82 (15%), Positives = 32/82 (39%)

Query: 899 RTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKK 958
           R RR+      +     + ++    +      +  + +        ++  +   +  K K
Sbjct: 24  RRRRQAAPMPARNGLASQIQQLTTAVSALVIGQATRPQNPRPRPPPRQKKQAPKQPPKPK 83

Query: 959 KKKKKKKKKKKKKKKKEAEKMK 980
           K K ++KKKK+  K K  ++ +
Sbjct: 84  KPKPQEKKKKQPAKTKPGKRQR 105

>2a9u_A Ubiquitin carboxyl-terminal hydrolase 8; coil-COIL, protease, SH3-binding, thiol protease, UBL conjugation pathway, structural genomics; 2.10A {Homo sapiens} SCOP: a.118.23.1 Length = 144

 Score = 40.5 bits (94), Expect = 5e-04
 Identities = 19/117 (16%), Positives = 57/117 (48%), Gaps = 8/117 (6%)

Query: 864 NVATKRLLHVAVSDVN--DDVRREAVTALGFILFRKKRTRRKKKKGAEKIRKKKKKKKEA 921
            ++TK  +H A+      ++ R +      ++L+ K  T          I+K+   K++ 
Sbjct: 32  KISTKSYVHSALKIFKTAEECRLDRDEERAYVLYMKYVTV------YNLIKKRPDFKQQQ 85

Query: 922 EKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKKKKKKKKKKKKKKKKKKEAEK 978
           +      G   +KK  ++AE++ +    +  + + +KK ++K ++++ ++ +++ ++
Sbjct: 86  DYFHSILGPGNIKKAVEEAERLSESLKLRYEEAEVRKKLEEKDRQEEAQRLQQKRQE 142

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	988
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	100.0
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	100.0
1oyz_A	280	Hypothetical protein YIBA; structural genomics, PS	98.32
1b3u_A	588	Protein (protein phosphatase PP2A); scaffold prote	98.2
1oyz_A	280	Hypothetical protein YIBA; structural genomics, PS	98.17
1b3u_A	588	Protein (protein phosphatase PP2A); scaffold prote	98.06
3ltm_A	211	Alpha-REP4; protein engineering, heat-like repeat,	98.0
2vgl_B	591	AP-2 complex subunit beta-1; cytoplasmic vesicle,	97.85
3ltj_A	201	Alpharep-4; protein engineering, heat-like repeat,	97.79
1w63_A	618	Adapter-related protein complex 1 gamma 1 subunit;	97.71
2z6g_A	780	B-catenin; FULL-length, beta-catenin, cell adhesio	97.7
2jdq_A	450	Importin alpha-1 subunit; transport, PB2 subunit,	97.6
2vgl_B	591	AP-2 complex subunit beta-1; cytoplasmic vesicle,	97.54
4b8j_A	528	Importin subunit alpha-1A; transport protein, nucl	97.33
1wa5_B	530	Importin alpha subunit; nuclear transport/complex,	97.31
3ltm_A	211	Alpha-REP4; protein engineering, heat-like repeat,	97.23
3ltj_A	201	Alpharep-4; protein engineering, heat-like repeat,	97.22
1jdh_A	529	Beta-catenin; beta-catenin, protein-protein comple	97.17
3now_A	810	UNC-45 protein, SD10334P; armadillo repeat, HSP90,	97.11
2z6h_A	644	Catenin beta-1, beta-catenin; C-terminal domain, a	97.04
4fdd_A	852	Transportin-1; heat repeats, karyopherin, nuclear	96.96
1u6g_C	1230	TIP120 protein, CAND1; cullin repeat, heat repeat,	96.74
4b8j_A	528	Importin subunit alpha-1A; transport protein, nucl	96.64
1u6g_C	1230	TIP120 protein, CAND1; cullin repeat, heat repeat,	96.61
2jdq_A	450	Importin alpha-1 subunit; transport, PB2 subunit,	96.55
1qgr_A	876	Protein (importin beta subunit); transport recepto	96.35
3now_A	810	UNC-45 protein, SD10334P; armadillo repeat, HSP90,	96.32
4hxt_A	252	De novo protein OR329; structural genomics, PSI-bi	96.3
3ul1_B	510	Importin subunit alpha-2; arm repeat, armadillo re	96.07
1w63_A	618	Adapter-related protein complex 1 gamma 1 subunit;	96.03
3ul1_B	510	Importin subunit alpha-2; arm repeat, armadillo re	95.99
2z6g_A	780	B-catenin; FULL-length, beta-catenin, cell adhesio	95.95
4db8_A	252	Armadillo-repeat protein; solenoid repeat, de novo	95.82
4fdd_A	852	Transportin-1; heat repeats, karyopherin, nuclear	95.67
1wa5_B	530	Importin alpha subunit; nuclear transport/complex,	95.67
3tpo_A	529	Importin subunit alpha-2; nuclear import, protein	95.5
1te4_A	131	Conserved protein MTH187; methanobacterium thermoa	95.44
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	95.32
1te4_A	131	Conserved protein MTH187; methanobacterium thermoa	95.26
2z6h_A	644	Catenin beta-1, beta-catenin; C-terminal domain, a	95.23
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	95.18
4db6_A	210	Armadillo repeat protein; solenoid repeat, armadil	95.18
4hxt_A	252	De novo protein OR329; structural genomics, PSI-bi	95.15
4db6_A	210	Armadillo repeat protein; solenoid repeat, armadil	94.79
2vgl_A	621	Adaptor protein complex AP-2, alpha 2 subunit; cyt	94.36
2bpt_A	861	Importin beta-1 subunit; nuclear transport, nucleo	94.23
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	94.16
3tpo_A	529	Importin subunit alpha-2; nuclear import, protein	93.89
1jdh_A	529	Beta-catenin; beta-catenin, protein-protein comple	93.55
4db8_A	252	Armadillo-repeat protein; solenoid repeat, de novo	92.69
2bpt_A	861	Importin beta-1 subunit; nuclear transport, nucleo	92.27
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	91.91
3l6x_A	584	Catenin delta-1; catenin, armadillo, ARM, JMD, CE	91.57
1qgr_A	876	Protein (importin beta subunit); transport recepto	90.88
1xm9_A	457	Plakophilin 1; armadillo repeat, cell adhesion; 2.	89.85
3nmw_A	354	APC variant protein; ARMADIILO repeats domain, cel	89.42
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	89.16
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	89.15
3opb_A	778	SWI5-dependent HO expression protein 4; heat and a	88.82
3nmz_A	458	APC variant protein; protein-protein complex, arma	87.63
3nmz_A	458	APC variant protein; protein-protein complex, arma	87.25
3u4t_A	272	TPR repeat-containing protein; structural genomics	86.07
3l9t_A	240	Putative uncharacterized protein SMU.31; hypotheti	85.98
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	85.22
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	85.15
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	85.11
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	84.99
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	84.93
2gw1_A	514	Mitochondrial precursor proteins import receptor;	84.78
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	84.5
2qk2_A	242	LP04448P; mini spindles, MSPS, XMAP215, DIS1, STU2	84.4
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	83.88
3l9t_A	240	Putative uncharacterized protein SMU.31; hypotheti	83.73
1xqr_A	296	HSPBP1 protein; armadillo repeat, superhelical twi	83.06
3l6x_A	584	Catenin delta-1; catenin, armadillo, ARM, JMD, CE	82.73
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	81.74
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	80.83
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	80.72

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=100.00  E-value=5.1e-94  Score=879.59  Aligned_cols=533  Identities=30%  Similarity=0.459  Sum_probs=450.7

Q ss_pred             hHHHHHHHhcCCCC-Cc-----cccCCC--CCCCC-------CChhhhhhhhhhhhhhcccccChHHHHHHHHHHHHHHh
Q psy6893           2 DVFEAAIKQMTPPR-SF-----TTRSRW--PCPPF-------SRVHSALKSCVPWCLAMSSIQSRSFRAQILRTLVRLYH   66 (988)
Q Consensus         2 ~~~~~~~~~~~~~~-~~-----~~~~~~--~~~~~-------~~~~~~L~y~~~~~~~~~~v~~~~fR~~vL~lL~~ly~   66 (988)
                      .||++|++ .+..+ ++     ++|+|+  +++.=       ++...+|.|++.  +|++++++++||++|||+++++|+
T Consensus       150 ~iv~~cl~-hnae~~AvdLalE~erLD~Le~~vd~~~~~~~~~n~~rvclYlls--~v~~lv~p~~fr~~vLr~l~~Iy~  226 (963)
T 4ady_A          150 RMIEKCLK-ASELKLALGIALEGYRLDIIESALKSKLDQDSTSENVKIINYLLT--LAITTVTNSKFRSSILRKSFDFLM  226 (963)
T ss_dssp             HHHHHHHH-HTCHHHHHHHHHHTTCHHHHHHHHHHHCCC-CHHHHHHHHHHHHH--HHHHTCCCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHh-CCCHHHHHHHHHHHhhHHHHHHHHHhhccccccccHHHHHHHHHH--HhhccCCChHHHHHHHHHHHHHHH
Confidence            58889998 67766 33     999998  43321       456799999999  559999999999999999999999


Q ss_pred             cCCcccHHHHHHHHHHcCChHHHHHHHHHhhcCCCCchhHHHHHHHhhcccccHHHHHHHHHhhcccCCCCCCCcccccc
Q psy6893          67 SLSVPDYVNMAQCWIYLDDPRSVANLLGKLVAGSADDDLMAAQIGFDLYESATQAFLASVLQELKTCAPIPDATHVVVKV  146 (988)
Q Consensus        67 ~~~~pDy~~~~qc~~~Lnd~~~va~il~~L~~~~~~~~l~ayQiaFdL~~~~~Q~fl~~v~~~l~~~~~~~~~~~~~~~~  146 (988)
                      +++.|||+++|||+++|||++.|+++|.+|+.  .++.+|||||||||+++++|.||..|++.|+...            
T Consensus       227 k~~~~dy~~a~~~ai~LnD~~li~~if~~l~~--~~d~l~ayQiAFdL~~~~~Q~fL~~v~~~l~~~e------------  292 (963)
T 4ady_A          227 NMPNCDYLTLNKVVVNLNDAGLALQLFKKLKE--ENDEGLSAQIAFDLVSSASQQLLEILVTELTAQG------------  292 (963)
T ss_dssp             HSSSCCHHHHHHHHHHHTCHHHHHHHHHHHHT--TCCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHTT------------
T ss_pred             hCCchhHHHHHHHHHHcCCHHHHHHHHHHHHh--cccHHHHHHHHHHHhcccchHHHHHHHHhccccc------------
Confidence            99999999999999999999999999999985  3678999999999999999999999999886410            


Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCcccchhhHHHHHHHHHHHHhhhcccCccchhhHHHHhhhcccchH
Q psy6893         147 PVEGAPTPATPDTEAPTPAPGTESGPSSTTPGPETKTLESLNEKEKQLQARITKLSKILSGEVSIDLHLQFLIRSNKTDM  226 (988)
Q Consensus       147 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~IL~g~~~~~l~~~fL~~~n~~d~  226 (988)
                                                                        .++++++||+|+.++++|++||+++|++|+
T Consensus       293 --------------------------------------------------~~~kL~~ILsg~~~~~Lyl~FL~~~n~~d~  322 (963)
T 4ady_A          293 --------------------------------------------------YDPALLNILSGLPTCDYYNTFLLNNKNIDI  322 (963)
T ss_dssp             --------------------------------------------------CCHHHHHHTTSHHHHHHHHHHHHHHCCCCH
T ss_pred             --------------------------------------------------hhHHHHHHhCCCChHHHHHHHHHhccccch
Confidence                                                              025899999999999999999999999999


Q ss_pred             HhHHhhhhhh--hhhhhhhHHHHHHHhhhccCCcccccccchhHHHhhccchhhHHhhhccceecCChHHHHHHHhcccC
Q psy6893         227 LILKNTKESI--RVSICHTATIIANAFMHSGTTSDQFLRDNLEWLARATNWAKLTATASLGVIHRGHETEALAHMQSYLP  304 (988)
Q Consensus       227 ~iL~~~k~s~--r~s~~~~A~~~~Naf~naG~~~D~fl~~n~~Wl~k~~~~~~~sAtASLG~Ih~~~~~~gl~~l~~yL~  304 (988)
                      .+|+++|+++  |+|++|+|++|||||||||||+|+|||+|.+|++|+++|+||+|+||||+||+||+++|+++|++|||
T Consensus       323 ~~l~~~K~~ld~r~s~~~~A~~f~Naf~naG~~~D~~l~~~~~Wl~k~~~~~k~sA~aSLGlIh~g~~~~gl~~L~~yL~  402 (963)
T 4ady_A          323 GLLNKSKSSLDGKFSLFHTAVSVANGFMHAGTTDNSFIKANLPWLGKAQNWAKFTATASLGVIHKGNLLEGKKVMAPYLP  402 (963)
T ss_dssp             HHHHHHHHHSCTTSHHHHHHHHHHHHHHTTTTCCCHHHHHCHHHHHHCCTHHHHHHHHHHHHHTSSCTTTHHHHHTTTST
T ss_pred             hhHHHHHhhhcchhhHHHHHHHHHHHHHhCCCCcchhhhcchhhhhccchHHHHHHHHHhhhhccCchHHHHHHHHHhcc
Confidence            9999999998  88999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCCCCCccchhHHHHHhhhccCCCCchhHHHHHHhhhhcCCCc--------hhHHHHHHHHHHHhhccCCChhHHHHH
Q psy6893         305 RETGPTSGYYEGGGLYALGLIHANHGAVINDYLLGQVKDATNEDD--------AVTGEAAGIAMGLVLLGSKSESAIQDM  376 (988)
Q Consensus       305 s~~~~~~~y~~~GaL~alGli~~g~~~~~~d~l~~lL~~~~~~d~--------~~~~~aA~lglGL~~~Gs~~~~~~~~L  376 (988)
                      ++ +++++|+++|||||||+|++|+++..    +++|.+++.+++        ..++.+|++|||++|+||+++++++.|
T Consensus       403 ~~-~s~~~~ik~GAllaLGli~ag~~~~~----~~lL~~~L~~~~~~~~~~~~~~ir~gAaLGLGla~~GS~~eev~e~L  477 (963)
T 4ady_A          403 GS-RASSRFIKGGSLYGLGLIYAGFGRDT----TDYLKNIIVENSGTSGDEDVDVLLHGASLGIGLAAMGSANIEVYEAL  477 (963)
T ss_dssp             TS-CCSCHHHHHHHHHHHHHHTTTTTHHH----HHHHHHHHHHHSSCCSCHHHHHHHHHHHHHHHHHSTTCCCHHHHHHH
T ss_pred             cc-CCCcHHHHHHHHHHHHHhcCCCcHHH----HHHHHHHHcCccccccccccHHHHHHHHHHHHHHhcCCCCHHHHHHH
Confidence            42 12578999999999999999998633    455555443333        678899999999999999999999999


Q ss_pred             HHhhhhcchHH-HHHHHHHHHHHHhcCChhhHHHHHHHHhhcchhhhhccchhHHHHHhhhhhhhcccc--chhhHHh--
Q psy6893         377 VAYAKETQHEK-ILRGLAVGISFIMYGQLENADDLVRDLCEEKDAILRRSGMYTIAMAYCVSYLYFDLF--SDLTYRI--  451 (988)
Q Consensus       377 ~~~~~dt~~E~-~~r~lalgl~~v~~g~~e~a~~li~~L~~~~d~~lr~~~~~~~~l~l~Lgll~~g~~--~e~~l~~--  451 (988)
                      +|++.+++... ..+++++|++|+|+||.++++.|++.++++.+.      .+.|++++|||++++|++  ++.+++.  
T Consensus       478 ~~~L~dd~~~~~~~AalALGli~vGTgn~~ai~~LL~~~~e~~~e------~vrR~aalgLGll~~g~~e~~~~li~~L~  551 (963)
T 4ady_A          478 KEVLYNDSATSGEAAALGMGLCMLGTGKPEAIHDMFTYSQETQHG------NITRGLAVGLALINYGRQELADDLITKML  551 (963)
T ss_dssp             HHHHHTCCHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHCSCH------HHHHHHHHHHHHHTTTCGGGGHHHHHHHH
T ss_pred             HHHHhcCCHHHHHHHHHHHhhhhcccCCHHHHHHHHHHHhccCcH------HHHHHHHHHHHhhhCCChHHHHHHHHHHH
Confidence            99999777433 578999999999999999999999999876532      466789999999999999  8888887  


Q ss_pred             -hccchh----HHHHHhhhccCCCHHHHHHHHHHhccCCCchhhHHHHHHHHHHhhcCccccccccCCCCchhHHhhccc
Q psy6893         452 -VKNRSG----MYTIAMAYCGSGSNVATKRLLHVAVSDVNDDVRREAVTALGFILFRTLFYVAPACTRSPWPGVISLLDD  526 (988)
Q Consensus       452 -~~~~~~----~~~~~~AYaGTGN~~~Iq~LLhi~~s~~~~dvrr~AV~~lg~I~~~~~~~~g~~~~~~~~p~ai~lL~~  526 (988)
                       .++|..    +++++||||||||+++||+|||+|++|.++||||.||++||||++++|         ..+|..+.+|  
T Consensus       552 ~~~dp~vRygaa~alglAyaGTGn~~aIq~LL~~~~~d~~d~VRraAViaLGlI~~g~~---------e~v~rlv~~L--  620 (963)
T 4ady_A          552 ASDESLLRYGGAFTIALAYAGTGNNSAVKRLLHVAVSDSNDDVRRAAVIALGFVLLRDY---------TTVPRIVQLL--  620 (963)
T ss_dssp             HCSCHHHHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHCSCHHHHHHHHHHHHHHTSSSC---------SSHHHHTTTG--
T ss_pred             hCCCHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHhccCCcHHHHHHHHHHHHhhccCCH---------HHHHHHHHHH--
Confidence             355544    449999999999999999999999999999999999999999999876         1111111100  


Q ss_pred             hhhhhhHhhHHHhhhhcccCCCCchhhHHHHHHHHHhhhccCCchhHHHHHHHHHhcCCchHHHHHhhhhhhhhhhhhhH
Q psy6893         527 PMIELKEFSLKKLNDIVDDFWPENEKEKQLQARITKLSKILSGEVSIDLHLQFLIRSNKTDMLILKNTKESIRVSICHTA  606 (988)
Q Consensus       527 ~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~Il~g~~~~~l~l~fL~~~n~tD~~il~~~kds~r~s~~h~A  606 (988)
                                                                                                      
T Consensus       621 --------------------------------------------------------------------------------  620 (963)
T 4ady_A          621 --------------------------------------------------------------------------------  620 (963)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             --------------------------------------------------------------------------------
Confidence                                                                                            


Q ss_pred             HHHHHHHhhcCCCchhhhcchhHHHHhhcccchhhhhhhhcccccCChHHHHHHHhhcCCCCCCCCCccchhhHHHHHhh
Q psy6893         607 TIIANAFMHSGTTSDQFLRDNLEWLARATNWAKLTATASLGVIHRGHETEALAHMQSYLPRETGPTSGYYEGGGLYALGL  686 (988)
Q Consensus       607 ~~~ana~~naGt~~D~flr~~~~wl~k~~~w~kfsA~ASLG~Ih~gn~~~~l~~L~~yL~~~~~s~~~~~k~GAL~AlGl  686 (988)
                                                                                +.    +.++++|.||.+|||+
T Consensus       621 ----------------------------------------------------------~~----~~d~~VR~gAalALGl  638 (963)
T 4ady_A          621 ----------------------------------------------------------SK----SHNAHVRCGTAFALGI  638 (963)
T ss_dssp             ----------------------------------------------------------GG----CSCHHHHHHHHHHHHH
T ss_pred             ----------------------------------------------------------Hh----cCCHHHHHHHHHHHHH
Confidence                                                                      00    2357889999999999


Q ss_pred             hccCCchH-HHHHHHHHhhhcCchhhHHHHHHhhHhhhcCCCCH---HHHHHHHHhh--ccC---ChhhHHHHHHHhhcc
Q psy6893         687 IHANHGAV-INDYLLGQVKDATNEMVRHGGCLGLGLAAMGSARD---DIYEQLKFNL--YQD---DAVTGEAAGIAMGLV  757 (988)
Q Consensus       687 I~ag~~~~-~~~~Ll~~l~~s~~~~ir~gA~LGLGla~~Gs~~~---dv~~~L~~~l--~~D---~~~~~e~AalAlGLI  757 (988)
                      +++|.+.. +++.| ..+.+.++..||.+|+++||++.+|+.+.   .+-..+..+.  +.|   +......+.+|+|+|
T Consensus       639 i~aGn~~~~aid~L-~~L~~D~d~~Vrq~Ai~ALG~Ig~gtnna~~~rva~~l~~L~~~~~dk~~d~~~~fga~iAqGll  717 (963)
T 4ady_A          639 ACAGKGLQSAIDVL-DPLTKDPVDFVRQAAMIALSMILIQQTEKLNPQVADINKNFLSVITNKHQEGLAKFGACVAQGIM  717 (963)
T ss_dssp             HTSSSCCHHHHHHH-HHHHTCSSHHHHHHHHHHHHHHSTTCCTTTCTTHHHHHHHHHHHHHCSSSCHHHHHHHHHHHHHH
T ss_pred             hccCCCcHHHHHHH-HHHccCCCHHHHHHHHHHHHHHhcCCccccchHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHH
Confidence            99998864 66644 56656667899999999999999999887   5555444333  234   233445799999999


Q ss_pred             cCCCCCHHH
Q psy6893         758 LLGSKSESA  766 (988)
Q Consensus       758 ~vGs~n~d~  766 (988)
                      .+|-+|..+
T Consensus       718 ~aG~~n~ti  726 (963)
T 4ady_A          718 NAGGRNVTI  726 (963)
T ss_dssp             TTGGGTEEE
T ss_pred             hcCCCceEE
Confidence            999888655

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=100.00  E-value=7.2e-66  Score=631.23  Aligned_cols=339  Identities=44%  Similarity=0.698  Sum_probs=309.2

Q ss_pred             HHHhhhccCCchhHHHHHHHHHhcCCchHHHHHhhhhhh--hhhhhhhHHHHHHHHhhcCCCchhhhcchhHHHHhhccc
Q psy6893         560 ITKLSKILSGEVSIDLHLQFLIRSNKTDMLILKNTKESI--RVSICHTATIIANAFMHSGTTSDQFLRDNLEWLARATNW  637 (988)
Q Consensus       560 ~~~l~~Il~g~~~~~l~l~fL~~~n~tD~~il~~~kds~--r~s~~h~A~~~ana~~naGt~~D~flr~~~~wl~k~~~w  637 (988)
                      .+++..||+|+.++++|++||+++|++|+.+|+++|++.  |++++|+|++||||||||||++|+|||++.+|++|+++|
T Consensus       294 ~~kL~~ILsg~~~~~Lyl~FL~~~n~~d~~~l~~~K~~ld~r~s~~~~A~~f~Naf~naG~~~D~~l~~~~~Wl~k~~~~  373 (963)
T 4ady_A          294 DPALLNILSGLPTCDYYNTFLLNNKNIDIGLLNKSKSSLDGKFSLFHTAVSVANGFMHAGTTDNSFIKANLPWLGKAQNW  373 (963)
T ss_dssp             CHHHHHHTTSHHHHHHHHHHHHHHCCCCHHHHHHHHHHSCTTSHHHHHHHHHHHHHHTTTTCCCHHHHHCHHHHHHCCTH
T ss_pred             hHHHHHHhCCCChHHHHHHHHHhccccchhhHHHHHhhhcchhhHHHHHHHHHHHHHhCCCCcchhhhcchhhhhccchH
Confidence            578999999999999999999999999999999999986  889999999999999999999999999999999999999


Q ss_pred             chhhhhhhhcccccCChHHHHHHHhhcCCCCCCCCCccchhhHHHHHhhhccCCchHHHHHHHHHhhhcC-------chh
Q psy6893         638 AKLTATASLGVIHRGHETEALAHMQSYLPRETGPTSGYYEGGGLYALGLIHANHGAVINDYLLGQVKDAT-------NEM  710 (988)
Q Consensus       638 ~kfsA~ASLG~Ih~gn~~~~l~~L~~yL~~~~~s~~~~~k~GAL~AlGlI~ag~~~~~~~~Ll~~l~~s~-------~~~  710 (988)
                      +||+|+||||+||.||+++|+++|++|||++ .++++|+++||+||||+|++|+++++..+|.+.+.+++       ++.
T Consensus       374 ~k~sA~aSLGlIh~g~~~~gl~~L~~yL~~~-~s~~~~ik~GAllaLGli~ag~~~~~~~lL~~~L~~~~~~~~~~~~~~  452 (963)
T 4ady_A          374 AKFTATASLGVIHKGNLLEGKKVMAPYLPGS-RASSRFIKGGSLYGLGLIYAGFGRDTTDYLKNIIVENSGTSGDEDVDV  452 (963)
T ss_dssp             HHHHHHHHHHHHTSSCTTTHHHHHTTTSTTS-CCSCHHHHHHHHHHHHHHTTTTTHHHHHHHHHHHHHHSSCCSCHHHHH
T ss_pred             HHHHHHHHhhhhccCchHHHHHHHHHhcccc-CCCcHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHcCccccccccccHH
Confidence            9999999999999999999999999999842 25688999999999999999999888888888887655       479


Q ss_pred             hHHHHHHhhHhhhcCCCCHHHHHHHHHhhccCChhhHHHHHHHhhcccCCCCCHHHHHHHHHHHHhcccchhhhHHHHHH
Q psy6893         711 VRHGGCLGLGLAAMGSARDDIYEQLKFNLYQDDAVTGEAAGIAMGLVLLGSKSESAIQDMVAYAKETQHEKILRGLAVGI  790 (988)
Q Consensus       711 ir~gA~LGLGla~~Gs~~~dv~~~L~~~l~~D~~~~~e~AalAlGLI~vGs~n~d~i~~ll~~~~etq~e~i~R~lalgL  790 (988)
                      +|||||||||++|+||+|+++++.|+++++.|+.+.++.||+|||+||+||||.++++.|++++.++++++++|++++||
T Consensus       453 ir~gAaLGLGla~~GS~~eev~e~L~~~L~dd~~~~~~~AalALGli~vGTgn~~ai~~LL~~~~e~~~e~vrR~aalgL  532 (963)
T 4ady_A          453 LLHGASLGIGLAAMGSANIEVYEALKEVLYNDSATSGEAAALGMGLCMLGTGKPEAIHDMFTYSQETQHGNITRGLAVGL  532 (963)
T ss_dssp             HHHHHHHHHHHHSTTCCCHHHHHHHHHHHHTCCHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHCSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCCCHHHHHHHHHHHhcCCHHHHHHHHHHHhhhhcccCCHHHHHHHHHHHhccCcHHHHHHHHHHH
Confidence            99999999999999999999999999999878878888999999999999999999999999999999999999999999


Q ss_pred             HHHhcCCchhHHHHHHHHhcccchhhhhhcHHHHHHHHcCCCChhHHHHHHHHHHH---------hhhhhhhhhhhcc--
Q psy6893         791 SFIMYGQLENADDLVRDLCEEKDAILRRSGMYTIAMAYCGSGSNVATKRLLHDAIL---------RRSGMYTIAMAYC--  859 (988)
Q Consensus       791 gLi~~Gr~e~a~~li~~L~~~~dp~~r~~~~~~lslAyaGtGnvl~iq~lL~~~~~---------~~lG~alia~g~~--  859 (988)
                      |++++|++++++.+++.|..+.||+.||+++++++||||||||+++||+|||.|..         +++|+++|++|+.  
T Consensus       533 Gll~~g~~e~~~~li~~L~~~~dp~vRygaa~alglAyaGTGn~~aIq~LL~~~~~d~~d~VRraAViaLGlI~~g~~e~  612 (963)
T 4ady_A          533 ALINYGRQELADDLITKMLASDESLLRYGGAFTIALAYAGTGNNSAVKRLLHVAVSDSNDDVRRAAVIALGFVLLRDYTT  612 (963)
T ss_dssp             HHHTTTCGGGGHHHHHHHHHCSCHHHHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHCSCHHHHHHHHHHHHHHTSSSCSS
T ss_pred             HhhhCCChHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHhccCCcHHHHHHHHHHHHhhccCCHHH
Confidence            99999999999999999999999999999999999999999999999999999985         6777777766653  


Q ss_pred             -----------------------------CCCchHHHHHhhhhhccCCChhhhhhHHhhhhhhhhhhhhh
Q psy6893         860 -----------------------------GSGSNVATKRLLHVAVSDVNDDVRREAVTALGFILFRKKRT  900 (988)
Q Consensus       860 -----------------------------~tgn~~air~ll~~~~sd~~~~vrraa~~alg~i~~~npeq  900 (988)
                                                   |+|++.+|. +|+.+.+|++++||++|.+|||+|+..+.+.
T Consensus       613 v~rlv~~L~~~~d~~VR~gAalALGli~aGn~~~~aid-~L~~L~~D~d~~Vrq~Ai~ALG~Ig~gtnna  681 (963)
T 4ady_A          613 VPRIVQLLSKSHNAHVRCGTAFALGIACAGKGLQSAID-VLDPLTKDPVDFVRQAAMIALSMILIQQTEK  681 (963)
T ss_dssp             HHHHTTTGGGCSCHHHHHHHHHHHHHHTSSSCCHHHHH-HHHHHHTCSSHHHHHHHHHHHHHHSTTCCTT
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHhccCCCcHHHHH-HHHHHccCCCHHHHHHHHHHHHHHhcCCccc
Confidence                                         345555666 3344467788888888888888888765543

>1oyz_A Hypothetical protein YIBA; structural genomics, PSI, protein structure initiative, northeast structural genomics consortium, NESG; 2.10A {Escherichia coli} SCOP: a.118.1.16

Probab=98.32  E-value=1.9e-05  Score=84.24  Aligned_cols=140  Identities=13%  Similarity=0.090  Sum_probs=86.5

Q ss_pred             HHHHHHhhcCCCCCCCCCccchhhHHHHHhhhccCCchHHHHHHHHHhhhcCchhhHHHHHHhhHhhhcCCCCHHHHHHH
Q psy6893         656 EALAHMQSYLPRETGPTSGYYEGGGLYALGLIHANHGAVINDYLLGQVKDATNEMVRHGGCLGLGLAAMGSARDDIYEQL  735 (988)
Q Consensus       656 ~~l~~L~~yL~~~~~s~~~~~k~GAL~AlGlI~ag~~~~~~~~Ll~~l~~s~~~~ir~gA~LGLGla~~Gs~~~dv~~~L  735 (988)
                      ..+..|...+.    +.++.+|..|+.+||.+..   ..++..|...+ .+++..+|..|+.+||..  |...+++...|
T Consensus       128 ~~~~~L~~~l~----d~~~~vR~~a~~aL~~~~~---~~~~~~L~~~l-~d~~~~vr~~a~~aL~~~--~~~~~~~~~~L  197 (280)
T 1oyz_A          128 KIVEQSQITAF----DKSTNVRRATAFAISVIND---KATIPLLINLL-KDPNGDVRNWAAFAININ--KYDNSDIRDCF  197 (280)
T ss_dssp             HHHHHHHHHTT----CSCHHHHHHHHHHHHTC------CCHHHHHHHH-TCSSHHHHHHHHHHHHHH--TCCCHHHHHHH
T ss_pred             HHHHHHHHHhh----CCCHHHHHHHHHHHHhcCC---HHHHHHHHHHH-cCCCHHHHHHHHHHHHhh--ccCcHHHHHHH
Confidence            45555666664    4567788888888887632   12455555544 345567888888888764  66677788888


Q ss_pred             HHhhccCChhhHHHHHHHhhcccCCCCCHHHHHHHHHHHHhcccchhhhHHHHHHHHHhcCCchhHHHHHHHHhcccch
Q psy6893         736 KFNLYQDDAVTGEAAGIAMGLVLLGSKSESAIQDMVAYAKETQHEKILRGLAVGISFIMYGQLENADDLVRDLCEEKDA  814 (988)
Q Consensus       736 ~~~l~~D~~~~~e~AalAlGLI~vGs~n~d~i~~ll~~~~etq~e~i~R~lalgLgLi~~Gr~e~a~~li~~L~~~~dp  814 (988)
                      ...+..++......|+.++|.+  |  +..++..++..+.+.   .+.+..+.+||-+  |..+....+.+.+...+++
T Consensus       198 ~~~l~d~~~~vR~~A~~aL~~~--~--~~~~~~~L~~~l~d~---~vr~~a~~aL~~i--~~~~~~~~L~~~l~~~~~~  267 (280)
T 1oyz_A          198 VEMLQDKNEEVRIEAIIGLSYR--K--DKRVLSVLCDELKKN---TVYDDIIEAAGEL--GDKTLLPVLDTMLYKFDDN  267 (280)
T ss_dssp             HHHTTCSCHHHHHHHHHHHHHT--T--CGGGHHHHHHHHTSS---SCCHHHHHHHHHH--CCGGGHHHHHHHHTTSSCC
T ss_pred             HHHhcCCCHHHHHHHHHHHHHh--C--CHhhHHHHHHHhcCc---cHHHHHHHHHHhc--CchhhhHHHHHHHhcCCCc
Confidence            8777433333445677777775  3  567777777776432   2444455555544  5566777777777655544

>1b3u_A Protein (protein phosphatase PP2A); scaffold protein, phosphorylation, heat repeat; 2.30A {Homo sapiens} SCOP: a.118.1.2 PDB: 2ie4_A* 2ie3_A* 2npp_A* 3k7v_A* 3k7w_A* 3fga_A* 2pf4_A 2iae_A 2nym_A* 2nyl_A* 3dw8_A* 2pkg_A 3c5w_A

Probab=98.20  E-value=0.00018  Score=83.67  Aligned_cols=132  Identities=13%  Similarity=0.019  Sum_probs=73.4

Q ss_pred             hhhhhhhhccccc--CCh---HHHHHHHhhcCCCCCCCCCccchhhHHHHHhhhccCCchH-----HHHHHHHHhhhcCc
Q psy6893         639 KLTATASLGVIHR--GHE---TEALAHMQSYLPRETGPTSGYYEGGGLYALGLIHANHGAV-----INDYLLGQVKDATN  708 (988)
Q Consensus       639 kfsA~ASLG~Ih~--gn~---~~~l~~L~~yL~~~~~s~~~~~k~GAL~AlGlI~ag~~~~-----~~~~Ll~~l~~s~~  708 (988)
                      +..++.+||.+..  |..   ...+..+...+.    ..++.+|..++.+++.+....+.+     ++..|...+ ++.+
T Consensus       341 R~~a~~~l~~l~~~~~~~~~~~~l~p~l~~~l~----d~~~~Vr~~a~~~l~~l~~~~~~~~~~~~~lp~l~~~~-~d~~  415 (588)
T 1b3u_A          341 KSALASVIMGLSPILGKDNTIEHLLPLFLAQLK----DECPEVRLNIISNLDCVNEVIGIRQLSQSLLPAIVELA-EDAK  415 (588)
T ss_dssp             HHHHHTTGGGGHHHHCHHHHHHHTHHHHHHHHT----CSCHHHHHHHHTTCHHHHHHSCHHHHHHHHHHHHHHHH-TCSS
T ss_pred             HHHHHHHHHHHHHHhhHhHHHHHHHHHHHHHhC----CCchHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHh-cCCC
Confidence            3455556665543  111   122334444553    345789999999999886655432     344554443 4455


Q ss_pred             hhhHHHHHHhhHhhh--cCCC--CHHHHHHHHHhhccCChhhHHHHHHHhhcccCCCCCHHHHHHHHHHHH
Q psy6893         709 EMVRHGGCLGLGLAA--MGSA--RDDIYEQLKFNLYQDDAVTGEAAGIAMGLVLLGSKSESAIQDMVAYAK  775 (988)
Q Consensus       709 ~~ir~gA~LGLGla~--~Gs~--~~dv~~~L~~~l~~D~~~~~e~AalAlGLI~vGs~n~d~i~~ll~~~~  775 (988)
                      ..+|..++-.||...  .|..  .+.++..|...+..++....+.|..++|.+.-.-++......++..+.
T Consensus       416 ~~vr~~~~~~l~~l~~~~~~~~~~~~l~~~l~~~l~d~~~~Vr~~a~~~l~~l~~~~~~~~~~~~llp~l~  486 (588)
T 1b3u_A          416 WRVRLAIIEYMPLLAGQLGVEFFDEKLNSLCMAWLVDHVYAIREAATSNLKKLVEKFGKEWAHATIIPKVL  486 (588)
T ss_dssp             HHHHHHHHHHHHHHHHHHCGGGCCHHHHHHHHHGGGCSSHHHHHHHHHHHHHHHHHHCHHHHHHHTHHHHH
T ss_pred             chHHHHHHHHHHHHHHHcCHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHHhCchhHHHHHHHHHH
Confidence            678888888877643  2322  345666666666333333456677777776443333334455555543

>1oyz_A Hypothetical protein YIBA; structural genomics, PSI, protein structure initiative, northeast structural genomics consortium, NESG; 2.10A {Escherichia coli} SCOP: a.118.1.16

Probab=98.17  E-value=2.8e-05  Score=82.91  Aligned_cols=215  Identities=14%  Similarity=0.137  Sum_probs=118.8

Q ss_pred             chhhhhhhhcccccCChHHHHHHHhhcCCCCCCCCCccchhhHHHHHhhhccCCch--HHHHHHHHHhhhcCchhhHHHH
Q psy6893         638 AKLTATASLGVIHRGHETEALAHMQSYLPRETGPTSGYYEGGGLYALGLIHANHGA--VINDYLLGQVKDATNEMVRHGG  715 (988)
Q Consensus       638 ~kfsA~ASLG~Ih~gn~~~~l~~L~~yL~~~~~s~~~~~k~GAL~AlGlI~ag~~~--~~~~~Ll~~l~~s~~~~ir~gA  715 (988)
                      -+..|+..||.+.  + ..++..|..++.    +.++.+|..|+.+||-+......  .++..|.+.+.+.++..+|..|
T Consensus        39 vr~~A~~~L~~~~--~-~~~~~~L~~~l~----d~~~~vR~~A~~aL~~l~~~~~~~~~l~~~L~~~~~~d~~~~vr~~a  111 (280)
T 1oyz_A           39 KRISSARVLQLRG--G-QDAVRLAIEFCS----DKNYIRRDIGAFILGQIKICKKCEDNVFNILNNMALNDKSACVRATA  111 (280)
T ss_dssp             HHHHHHHHHHHHC--C-HHHHHHHHHHHT----CSSHHHHHHHHHHHHHSCCCTTTHHHHHHHHHHHHHHCSCHHHHHHH
T ss_pred             HHHHHHHHHHccC--C-chHHHHHHHHHc----CCCHHHHHHHHHHHHHhccccccchHHHHHHHHHHhcCCCHHHHHHH
Confidence            3456666666654  3 246666766774    45667888888888877422111  1233333333455566788888


Q ss_pred             HHhhHhhhcCC--CCHHHHHHHHHhhccCChhhHHHHHHHhhcccCCCCCHHHHHHHHHHHHhcccchhhhHHHHHHHHH
Q psy6893         716 CLGLGLAAMGS--ARDDIYEQLKFNLYQDDAVTGEAAGIAMGLVLLGSKSESAIQDMVAYAKETQHEKILRGLAVGISFI  793 (988)
Q Consensus       716 ~LGLGla~~Gs--~~~dv~~~L~~~l~~D~~~~~e~AalAlGLI~vGs~n~d~i~~ll~~~~etq~e~i~R~lalgLgLi  793 (988)
                      +.+||-...+.  ..+.+...|...+..++......|+.++|-+  |  +.+++..++..+.+. +..+.+..+.+||.+
T Consensus       112 ~~aL~~l~~~~~~~~~~~~~~L~~~l~d~~~~vR~~a~~aL~~~--~--~~~~~~~L~~~l~d~-~~~vr~~a~~aL~~~  186 (280)
T 1oyz_A          112 IESTAQRCKKNPIYSPKIVEQSQITAFDKSTNVRRATAFAISVI--N--DKATIPLLINLLKDP-NGDVRNWAAFAININ  186 (280)
T ss_dssp             HHHHHHHHHHCGGGHHHHHHHHHHHTTCSCHHHHHHHHHHHHTC-------CCHHHHHHHHTCS-SHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhccCCcccHHHHHHHHHHhhCCCHHHHHHHHHHHHhc--C--CHHHHHHHHHHHcCC-CHHHHHHHHHHHHhh
Confidence            88887653221  2455666666666433333344666777764  3  344666666665332 233444556667666


Q ss_pred             hcCCchhHHHHHHHHhcccchhhhhhcHHHHHHHHcCCCChhHHHHHHHHHHHhhhhhhhhhhhccCCCchHHHHHhhhh
Q psy6893         794 MYGQLENADDLVRDLCEEKDAILRRSGMYTIAMAYCGSGSNVATKRLLHDAILRRSGMYTIAMAYCGSGSNVATKRLLHV  873 (988)
Q Consensus       794 ~~Gr~e~a~~li~~L~~~~dp~~r~~~~~~lslAyaGtGnvl~iq~lL~~~~~~~lG~alia~g~~~tgn~~air~ll~~  873 (988)
                      +....+....+++.|. ++++..|...+.+  ++.                                .|++.++..|+..
T Consensus       187 ~~~~~~~~~~L~~~l~-d~~~~vR~~A~~a--L~~--------------------------------~~~~~~~~~L~~~  231 (280)
T 1oyz_A          187 KYDNSDIRDCFVEMLQ-DKNEEVRIEAIIG--LSY--------------------------------RKDKRVLSVLCDE  231 (280)
T ss_dssp             TCCCHHHHHHHHHHTT-CSCHHHHHHHHHH--HHH--------------------------------TTCGGGHHHHHHH
T ss_pred             ccCcHHHHHHHHHHhc-CCCHHHHHHHHHH--HHH--------------------------------hCCHhhHHHHHHH
Confidence            5555666666666553 4566666654332  222                                2455666666666


Q ss_pred             hccCCChhhhhhHHhhhhhhhhhhhhhhHhh
Q psy6893         874 AVSDVNDDVRREAVTALGFILFRKKRTRRKK  904 (988)
Q Consensus       874 ~~sd~~~~vrraa~~alg~i~~~npeq~pk~  904 (988)
                      +.. +  +||+.++.++|.+..  ++..|..
T Consensus       232 l~d-~--~vr~~a~~aL~~i~~--~~~~~~L  257 (280)
T 1oyz_A          232 LKK-N--TVYDDIIEAAGELGD--KTLLPVL  257 (280)
T ss_dssp             HTS-S--SCCHHHHHHHHHHCC--GGGHHHH
T ss_pred             hcC-c--cHHHHHHHHHHhcCc--hhhhHHH
Confidence            532 2  477777777776644  4444433

>1b3u_A Protein (protein phosphatase PP2A); scaffold protein, phosphorylation, heat repeat; 2.30A {Homo sapiens} SCOP: a.118.1.2 PDB: 2ie4_A* 2ie3_A* 2npp_A* 3k7v_A* 3k7w_A* 3fga_A* 2pf4_A 2iae_A 2nym_A* 2nyl_A* 3dw8_A* 2pkg_A 3c5w_A

Probab=98.06  E-value=0.00027  Score=82.21  Aligned_cols=173  Identities=16%  Similarity=0.047  Sum_probs=87.4

Q ss_pred             HHHHHhcccCCCCCCCCCccchhHHHHHhhhccCCCC-chhHHHHHHhhhhcCCCchhHHHHHHHHHHHhhccCCChhHH
Q psy6893         295 ALAHMQSYLPRETGPTSGYYEGGGLYALGLIHANHGA-VINDYLLGQVKDATNEDDAVTGEAAGIAMGLVLLGSKSESAI  373 (988)
Q Consensus       295 gl~~l~~yL~s~~~~~~~y~~~GaL~alGli~~g~~~-~~~d~l~~lL~~~~~~d~~~~~~aA~lglGL~~~Gs~~~~~~  373 (988)
                      .+..+-.+|-+    ++...+--|+.+++-+....+. .....++..|.+.. .++..++..++-.||-..---+..+..
T Consensus        11 ~i~~l~~~l~s----~~~~~R~~A~~~l~~i~~~~~~~~~~~~l~~~L~~~~-d~~~~vr~~~~~~L~~~~~~~~~~~~~   85 (588)
T 1b3u_A           11 PIAVLIDELRN----EDVQLRLNSIKKLSTIALALGVERTRSELLPFLTDTI-YDEDEVLLALAEQLGTFTTLVGGPEYV   85 (588)
T ss_dssp             HHHHHHHHTTC----SCHHHHHHHHHTHHHHHHHSCHHHHHHTHHHHHHHTC-CCCHHHHHHHHHHHTTCSGGGTSGGGG
T ss_pred             cHHHHHHHhhc----ccHHHHHHHHHhHHHHHHHhCHHHHHHHHHHHHHHhc-CCcHHHHHHHHHHHHHHHhccCcHHHH
Confidence            35556667765    4677888888888765432221 12344555666655 456677788888887322111122333


Q ss_pred             HHHHHhh----hhcchHHHHHHHHHHHHHHhcCCh-h----hHHHHHHHHhhcchhhhhccchhHHHHHhhhhhhhcccc
Q psy6893         374 QDMVAYA----KETQHEKILRGLAVGISFIMYGQL-E----NADDLVRDLCEEKDAILRRSGMYTIAMAYCVSYLYFDLF  444 (988)
Q Consensus       374 ~~L~~~~----~dt~~E~~~r~lalgl~~v~~g~~-e----~a~~li~~L~~~~d~~lr~~~~~~~~l~l~Lgll~~g~~  444 (988)
                      ..++|.+    .+. ...++.....++.-++.... +    ..-.++..+..++++..|..+      +..+|.+     
T Consensus        86 ~~ll~~L~~l~~~~-~~~vR~~a~~~L~~l~~~~~~~~~~~~l~~~l~~l~~~~~~~~R~~a------~~~l~~~-----  153 (588)
T 1b3u_A           86 HCLLPPLESLATVE-ETVVRDKAVESLRAISHEHSPSDLEAHFVPLVKRLAGGDWFTSRTSA------CGLFSVC-----  153 (588)
T ss_dssp             GGGHHHHHHHTTSS-CHHHHHHHHHHHHHHHTTSCHHHHHHTHHHHHHHHHTCSSHHHHHHH------GGGHHHH-----
T ss_pred             HHHHHHHHHHHhCc-hHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHhcCCCcHHHHHH------HHHHHHH-----
Confidence            4444443    333 23344444455555543322 1    122334444444444444421      1111111     


Q ss_pred             chhhHHhhccchhHHHHHhhhccCCCHHHHHHHHHHhccCCCchhhHHHHHHHHHHhh
Q psy6893         445 SDLTYRIVKNRSGMYTIAMAYCGSGSNVATKRLLHVAVSDVNDDVRREAVTALGFILF  502 (988)
Q Consensus       445 ~e~~l~~~~~~~~~~~~~~AYaGTGN~~~Iq~LLhi~~s~~~~dvrr~AV~~lg~I~~  502 (988)
                                        ..+++......+-.+|.-+..|.++.||+.|+.+||-++-
T Consensus       154 ------------------~~~~~~~~~~~l~~~l~~l~~d~~~~VR~~a~~~l~~l~~  193 (588)
T 1b3u_A          154 ------------------YPRVSSAVKAELRQYFRNLCSDDTPMVRRAAASKLGEFAK  193 (588)
T ss_dssp             ------------------TTTSCHHHHHHHHHHHHHHHTCSCHHHHHHHHHHHHHHHH
T ss_pred             ------------------HHhcCHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHH
Confidence                              1122221222333334334467788999999999999874

>3ltm_A Alpha-REP4; protein engineering, heat-like repeat, protein binding; HET: 1PE 12P; 2.15A {Synthetic}

Probab=98.00  E-value=0.0001  Score=75.02  Aligned_cols=189  Identities=22%  Similarity=0.268  Sum_probs=127.6

Q ss_pred             HHHHHHhhcCCCCCCCCCccchhhHHHHHhhhccCCchHHHHHHHHHhhhcCchhhHHHHHHhhHhhhcCCCCHHHHHHH
Q psy6893         656 EALAHMQSYLPRETGPTSGYYEGGGLYALGLIHANHGAVINDYLLGQVKDATNEMVRHGGCLGLGLAAMGSARDDIYEQL  735 (988)
Q Consensus       656 ~~l~~L~~yL~~~~~s~~~~~k~GAL~AlGlI~ag~~~~~~~~Ll~~l~~s~~~~ir~gA~LGLGla~~Gs~~~dv~~~L  735 (988)
                      +++..|...|.    +.++.+|..|+.+||-+..   .+++..|...+. +++..+|..|+..||-.  |  +++.+..|
T Consensus        19 ~~~~~L~~~L~----~~~~~vR~~A~~~L~~~~~---~~~~~~L~~~l~-~~~~~vr~~a~~aL~~~--~--~~~~~~~L   86 (211)
T 3ltm_A           19 EKVEMYIKNLQ----DDSYYVRRAAAYALGKIGD---ERAVEPLIKALK-DEDAWVRRAAADALGQI--G--DERAVEPL   86 (211)
T ss_dssp             GGHHHHHHHTT----CSSHHHHHHHHHHHHHHCC---GGGHHHHHHHTT-CSCHHHHHHHHHHHHHH--C--CGGGHHHH
T ss_pred             hHHHHHHHHHc----CCCHHHHHHHHHHHHHhCC---ccHHHHHHHHHc-CCCHHHHHHHHHHHHhh--C--CHHHHHHH
Confidence            57778888885    5678999999999998833   235677776664 45788999999999874  3  56778888


Q ss_pred             HHhhccCChhhHHHHHHHhhcccCCCCCHHHHHHHHHHHHhcccchhhhHHHHHHHHHhcCCchhHHHHHHHHhcccchh
Q psy6893         736 KFNLYQDDAVTGEAAGIAMGLVLLGSKSESAIQDMVAYAKETQHEKILRGLAVGISFIMYGQLENADDLVRDLCEEKDAI  815 (988)
Q Consensus       736 ~~~l~~D~~~~~e~AalAlGLI~vGs~n~d~i~~ll~~~~etq~e~i~R~lalgLgLi~~Gr~e~a~~li~~L~~~~dp~  815 (988)
                      ...+..++......|..++|-+  |  +.+++..+++++.+ .+..+....+.+||-+  |..+.+..+++.| .++++.
T Consensus        87 ~~~l~~~~~~vr~~a~~aL~~~--~--~~~~~~~L~~~l~d-~~~~vr~~a~~aL~~~--~~~~~~~~L~~~l-~d~~~~  158 (211)
T 3ltm_A           87 IKALKDEDGWVRQSAAVALGQI--G--DERAVEPLIKALKD-EDWFVRIAAAFALGEI--GDERAVEPLIKAL-KDEDGW  158 (211)
T ss_dssp             HHHTTCSSHHHHHHHHHHHHHH--C--CGGGHHHHHHHTTC-SSHHHHHHHHHHHHHH--CCGGGHHHHHHHT-TCSSHH
T ss_pred             HHHHcCCCHHHHHHHHHHHHHh--C--cHHHHHHHHHHHhC-CCHHHHHHHHHHHHHc--CCHHHHHHHHHHH-cCCCHH
Confidence            8888544444455777788775  4  56778888887632 2333444555566554  6677777777766 567777


Q ss_pred             hhhhcHHHHHHHHcCCCChhHHHHHHHHHHHhhhhhhhhhhhccCCCchHHHHHhhhhhccCCChhhhhhHHhhhhhhhh
Q psy6893         816 LRRSGMYTIAMAYCGSGSNVATKRLLHDAILRRSGMYTIAMAYCGSGSNVATKRLLHVAVSDVNDDVRREAVTALGFILF  895 (988)
Q Consensus       816 ~r~~~~~~lslAyaGtGnvl~iq~lL~~~~~~~lG~alia~g~~~tgn~~air~ll~~~~sd~~~~vrraa~~alg~i~~  895 (988)
                      .|...+.  +++.                                .|.+.++..|..++. |+++.||++|..+|+.+..
T Consensus       159 vr~~a~~--aL~~--------------------------------~~~~~~~~~L~~~l~-d~~~~vr~~A~~aL~~~~~  203 (211)
T 3ltm_A          159 VRQSAAD--ALGE--------------------------------IGGERVRAAMEKLAE-TGTGFARKVAVNYLETHKS  203 (211)
T ss_dssp             HHHHHHH--HHHH--------------------------------HCSHHHHHHHHHHHH-HCCHHHHHHHHHHHHC---
T ss_pred             HHHHHHH--HHHH--------------------------------hCchhHHHHHHHHHh-CCCHHHHHHHHHHHHhcCC
Confidence            7776433  3332                                245778888877764 5789999999999988777


Q ss_pred             hhhh
Q psy6893         896 RKKR  899 (988)
Q Consensus       896 ~npe  899 (988)
                      +.+.
T Consensus       204 ~~~~  207 (211)
T 3ltm_A          204 FNHH  207 (211)
T ss_dssp             ----
T ss_pred             CCCC
Confidence            6544

>2vgl_B AP-2 complex subunit beta-1; cytoplasmic vesicle, alternative splicing, endocytosis, lipid-binding, golgi apparatus, adaptor, membrane, transport; HET: IHP; 2.59A {Homo sapiens} SCOP: i.23.1.1 PDB: 2jkt_B 2jkr_B* 2xa7_B 1w63_B

Probab=97.85  E-value=0.0048  Score=73.49  Aligned_cols=101  Identities=9%  Similarity=-0.002  Sum_probs=53.0

Q ss_pred             cchhhhhhhhcccccCChHHHHHHHhhcCCCCCCCCCccchhhHHHHHhhhccCC-chHHHHHHHHHhhhcCchhhHHHH
Q psy6893         637 WAKLTATASLGVIHRGHETEALAHMQSYLPRETGPTSGYYEGGGLYALGLIHANH-GAVINDYLLGQVKDATNEMVRHGG  715 (988)
Q Consensus       637 w~kfsA~ASLG~Ih~gn~~~~l~~L~~yL~~~~~s~~~~~k~GAL~AlGlI~ag~-~~~~~~~Ll~~l~~s~~~~ir~gA  715 (988)
                      .-++.|..+|+.|...+++.....+..++..  .+++.++|.-|+-.++.+.... -..++..|...+.+ .+..+|..+
T Consensus       297 ~vr~~aL~~l~~i~~~~p~~~~~~~~~~~~~--~~d~~~Ir~~al~~L~~l~~~~nv~~iv~~L~~~l~~-~d~~~r~~~  373 (591)
T 2vgl_B          297 EVQYVALRNINLIVQKRPEILKQEIKVFFVK--YNDPIYVKLEKLDIMIRLASQANIAQVLAELKEYATE-VDVDFVRKA  373 (591)
T ss_dssp             HHHHHHHHHHHHHHHHCCSTTTTCTTTTSCC--TTSCHHHHHHHHHHHHHTCCSSTHHHHHHHHHHHTTS-SCHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHhChHHHHHHHHhheec--cCChHHHHHHHHHHHHHHCChhhHHHHHHHHHHHHhc-CCHHHHHHH
Confidence            4567777777777655543222223332221  1334677777777766653221 12355555555533 355677777


Q ss_pred             HHhhHhhhcCCC--CHHHHHHHHHhhc
Q psy6893         716 CLGLGLAAMGSA--RDDIYEQLKFNLY  740 (988)
Q Consensus       716 ~LGLGla~~Gs~--~~dv~~~L~~~l~  740 (988)
                      +-.+|..+....  .+.+++.|..++.
T Consensus       374 v~aI~~la~~~~~~~~~~v~~Ll~ll~  400 (591)
T 2vgl_B          374 VRAIGRCAIKVEQSAERCVSTLLDLIQ  400 (591)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhChhHHHHHHHHHHHHHc
Confidence            777777544322  2344556666553

>3ltj_A Alpharep-4; protein engineering, heat-like repeat, protein binding; 1.80A {Synthetic}

Probab=97.79  E-value=0.00037  Score=70.31  Aligned_cols=183  Identities=22%  Similarity=0.283  Sum_probs=122.2

Q ss_pred             HHHHHHhhcCCCCCCCCCccchhhHHHHHhhhccCCchHHHHHHHHHhhhcCchhhHHHHHHhhHhhhcCCCCHHHHHHH
Q psy6893         656 EALAHMQSYLPRETGPTSGYYEGGGLYALGLIHANHGAVINDYLLGQVKDATNEMVRHGGCLGLGLAAMGSARDDIYEQL  735 (988)
Q Consensus       656 ~~l~~L~~yL~~~~~s~~~~~k~GAL~AlGlI~ag~~~~~~~~Ll~~l~~s~~~~ir~gA~LGLGla~~Gs~~~dv~~~L  735 (988)
                      .....+-.+|.    +.++.+|..|+.+||.+..   ..++..|+..+ .+++..+|..|+..||..  |  +++.+..|
T Consensus        14 ~~~~~~i~~L~----~~~~~vr~~A~~~L~~~~~---~~~~~~L~~~l-~~~~~~vr~~a~~~L~~~--~--~~~~~~~L   81 (201)
T 3ltj_A           14 EKVEMYIKNLQ----DDSYYVRRAAAYALGKIGD---ERAVEPLIKAL-KDEDAWVRRAAADALGQI--G--DERAVEPL   81 (201)
T ss_dssp             HHHHHHHHHTT----CSCHHHHHHHHHHHHHHCC---GGGHHHHHHHT-TCSSHHHHHHHHHHHHHH--C--CGGGHHHH
T ss_pred             cchHHHHHHhc----CCCHHHHHHHHHHHHhcCC---hhHHHHHHHHH-cCCCHHHHHHHHHHHHhh--C--CHHHHHHH
Confidence            35556666775    6678999999999998732   23566676666 455678999999999874  3  45678888


Q ss_pred             HHhhccCChhhHHHHHHHhhcccCCCCCHHHHHHHHHHHHhcccchhhhHHHHHHHHHhcCCchhHHHHHHHHhcccchh
Q psy6893         736 KFNLYQDDAVTGEAAGIAMGLVLLGSKSESAIQDMVAYAKETQHEKILRGLAVGISFIMYGQLENADDLVRDLCEEKDAI  815 (988)
Q Consensus       736 ~~~l~~D~~~~~e~AalAlGLI~vGs~n~d~i~~ll~~~~etq~e~i~R~lalgLgLi~~Gr~e~a~~li~~L~~~~dp~  815 (988)
                      ...+..++......|..++|.+  |  +.+++..++..+.+ .+..+...++.+||-+  |..+.+..+++.| .++++.
T Consensus        82 ~~~l~d~~~~vr~~a~~aL~~~--~--~~~~~~~L~~~l~d-~~~~vr~~a~~aL~~~--~~~~~~~~L~~~l-~d~~~~  153 (201)
T 3ltj_A           82 IKALKDEDGWVRQSAAVALGQI--G--DERAVEPLIKALKD-EDWFVRIAAAFALGEI--GDERAVEPLIKAL-KDEDGW  153 (201)
T ss_dssp             HHHTTCSSHHHHHHHHHHHHHH--C--CGGGHHHHHHHTTC-SSHHHHHHHHHHHHHH--TCGGGHHHHHHHT-TCSSHH
T ss_pred             HHHHcCCCHHHHHHHHHHHHHh--C--cHHHHHHHHHHHcC-CCHHHHHHHHHHHHHh--CCHHHHHHHHHHH-cCCCHH
Confidence            8877443334445677777775  4  56677888877632 2333334555556544  5667777777665 456777


Q ss_pred             hhhhcHHHHHHHHcCCCChhHHHHHHHHHHHhhhhhhhhhhhccCCCchHHHHHhhhhhccCCChhhhhhHHhhhhhh
Q psy6893         816 LRRSGMYTIAMAYCGSGSNVATKRLLHDAILRRSGMYTIAMAYCGSGSNVATKRLLHVAVSDVNDDVRREAVTALGFI  893 (988)
Q Consensus       816 ~r~~~~~~lslAyaGtGnvl~iq~lL~~~~~~~lG~alia~g~~~tgn~~air~ll~~~~sd~~~~vrraa~~alg~i  893 (988)
                      .|...+.++  +.                                .|.+.++..|..++ .|+++.||++|..+|+-+
T Consensus       154 vr~~A~~aL--~~--------------------------------~~~~~~~~~L~~~l-~d~~~~vr~~A~~aL~~l  196 (201)
T 3ltj_A          154 VRQSAADAL--GE--------------------------------IGGERVRAAMEKLA-ETGTGFARKVAVNYLETH  196 (201)
T ss_dssp             HHHHHHHHH--HH--------------------------------HCSHHHHHHHHHHH-HHCCHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHH--HH--------------------------------hCchhHHHHHHHHH-hCCCHHHHHHHHHHHHHH
Confidence            776644332  22                                25677888888876 457899999999888654

>1w63_A Adapter-related protein complex 1 gamma 1 subunit; endocytosis, clathrin adaptor, transport, coated PITS; 4.0A {Mus musculus} SCOP: i.23.1.1

Probab=97.71  E-value=0.093  Score=62.86  Aligned_cols=111  Identities=9%  Similarity=0.079  Sum_probs=62.2

Q ss_pred             HHHhhccCCChhHHHHHHHhhhhcchHHHHHHHHHHHHHHhcCChhhHHHHHHHHhhc---chhhhhccchhHHHHHhhh
Q psy6893         360 MGLVLLGSKSESAIQDMVAYAKETQHEKILRGLAVGISFIMYGQLENADDLVRDLCEE---KDAILRRSGMYTIAMAYCV  436 (988)
Q Consensus       360 lGL~~~Gs~~~~~~~~L~~~~~dt~~E~~~r~lalgl~~v~~g~~e~a~~li~~L~~~---~d~~lr~~~~~~~~l~l~L  436 (988)
                      +-+.+.|-.-....-+.+.++.+.+++ ..|-.-+++......++|.+--+++.|..+   +++..|.       +|   
T Consensus        59 i~~~~~G~d~~~~~~~vik~~~s~~~~-~Krl~Yl~~~~~~~~~~e~~~l~in~l~kDL~~~n~~vr~-------lA---  127 (618)
T 1w63_A           59 LYMHMLGYPAHFGQLECLKLIASQKFT-DKRIGYLGAMLLLDERQDVHLLMTNCIKNDLNHSTQFVQG-------LA---  127 (618)
T ss_dssp             HHHHHTTCCCGGGHHHHHHHHHSSSHH-HHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHSCSSSHHHH-------HH---
T ss_pred             HHHHHcCCCCcchHHHHHHHHcCCchH-HHHHHHHHHHHHhCCCcHHHHHHHHHHHHhcCCCCHhHHH-------HH---
Confidence            334456654444445556666655543 334444566666667778766666666543   3333332       22   


Q ss_pred             hhhhccccchhhHHhhccchhHHHHHhhhccCCCH--HHHHHHHHHhccCCCchhhHHHHHHHHHHhhcCc
Q psy6893         437 SYLYFDLFSDLTYRIVKNRSGMYTIAMAYCGSGSN--VATKRLLHVAVSDVNDDVRREAVTALGFILFRTL  505 (988)
Q Consensus       437 gll~~g~~~e~~l~~~~~~~~~~~~~~AYaGTGN~--~~Iq~LLhi~~s~~~~dvrr~AV~~lg~I~~~~~  505 (988)
                                             +.+++.+|+.+.  ..+..+.. +..|.++-||+.|+++++-|.-..|
T Consensus       128 -----------------------L~~L~~i~~~~~~~~l~~~l~~-~L~~~~~~VRk~A~~al~~l~~~~p  174 (618)
T 1w63_A          128 -----------------------LCTLGCMGSSEMCRDLAGEVEK-LLKTSNSYLRKKAALCAVHVIRKVP  174 (618)
T ss_dssp             -----------------------HHHHHHHCCHHHHHHHHHHHHH-HHHSCCHHHHHHHHHHHHHHHHHCG
T ss_pred             -----------------------HHHHHhcCCHHHHHHHHHHHHH-HHcCCCHHHHHHHHHHHHHHHHHCh
Confidence                                   233444443211  11333333 3457788999999999999997665

>2z6g_A B-catenin; FULL-length, beta-catenin, cell adhesion; 3.40A {Danio rerio}

Probab=97.70  E-value=0.0046  Score=76.33  Aligned_cols=117  Identities=13%  Similarity=-0.066  Sum_probs=74.2

Q ss_pred             HHHHHHHhhcCCCCCCCCCccchhhHHHHHhhhccCCch--------HHHHHHHHHhhhcCc-hhhHHHHHHhhHhhhcC
Q psy6893         655 TEALAHMQSYLPRETGPTSGYYEGGGLYALGLIHANHGA--------VINDYLLGQVKDATN-EMVRHGGCLGLGLAAMG  725 (988)
Q Consensus       655 ~~~l~~L~~yL~~~~~s~~~~~k~GAL~AlGlI~ag~~~--------~~~~~Ll~~l~~s~~-~~ir~gA~LGLGla~~G  725 (988)
                      ..++..|-..|.    +.++.++.-|+.+|+-+..+...        ..+..|+..+.++.+ +.++..|+..||-...+
T Consensus       398 ~~~i~~Lv~lL~----~~d~~vr~~A~~aL~~L~~~~~~~~~~i~~~g~i~~Lv~lL~~~~~~~~v~~~Al~aL~nL~~~  473 (780)
T 2z6g_A          398 EGLLGTLVQLLG----SDDINVVTCAAGILSNLTCNNYKNKMMVCQVGGIEALVRTVLRAGDREDITEPAICALRHLTSR  473 (780)
T ss_dssp             HHHHHHHHHHTT----CSCHHHHHHHHHHHHHHTSSCHHHHHHHHTTTHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSS
T ss_pred             hhHHHHHHHHHc----CCCHHHHHHHHHHHHHHHhCCHHHHHHHHHCCCHHHHHHHHHccCCHHHHHHHHHHHHHHHHhc
Confidence            457778888885    56778999999999999776531        246667776665433 47899999999877544


Q ss_pred             CCCH----------HHHHHHHHhhccCCh-hhHHHHHHHhhcccCCCCCH------HHHHHHHHHHH
Q psy6893         726 SARD----------DIYEQLKFNLYQDDA-VTGEAAGIAMGLVLLGSKSE------SAIQDMVAYAK  775 (988)
Q Consensus       726 s~~~----------dv~~~L~~~l~~D~~-~~~e~AalAlGLI~vGs~n~------d~i~~ll~~~~  775 (988)
                      ....          .++..|..++..++. ...+.|+.+++-+..++.+.      .++..|++++.
T Consensus       474 ~~~~~~~~~~v~~~~~l~~L~~lL~~~~~~~v~~~A~~aL~nLa~~~~~~~~i~~~g~i~~Lv~lL~  540 (780)
T 2z6g_A          474 HQDAEMAQNAVRLHYGLPVVVKLLHPPSHWPLIKATVGLIRNLALCPANHAPLREQGAIPRLVQLLV  540 (780)
T ss_dssp             STTHHHHHHHHHHTTCHHHHHHTTSTTCCHHHHHHHHHHHHHHHSSHHHHHHHHHTTHHHHHHHHHH
T ss_pred             CchHHHHHHHHHHcCCHHHHHHHhcCCChHHHHHHHHHHHHHHhcCHHHHHHHHHCCCHHHHHHHHH
Confidence            3331          124566666654433 33456777777776553322      24455566554

>2jdq_A Importin alpha-1 subunit; transport, PB2 subunit, nuclear protein, protein transport, armadillo repeats; 2.2A {Homo sapiens} PDB: 3tj3_A

Probab=97.60  E-value=0.0053  Score=68.87  Aligned_cols=96  Identities=16%  Similarity=0.097  Sum_probs=59.3

Q ss_pred             HHHHHhhcCCCCCCCCCccchhhHHHHHhhhccCCch--------HHHHHHHHHhhhcCchhhHHHHHHhhHhhhcCCCC
Q psy6893         657 ALAHMQSYLPRETGPTSGYYEGGGLYALGLIHANHGA--------VINDYLLGQVKDATNEMVRHGGCLGLGLAAMGSAR  728 (988)
Q Consensus       657 ~l~~L~~yL~~~~~s~~~~~k~GAL~AlGlI~ag~~~--------~~~~~Ll~~l~~s~~~~ir~gA~LGLGla~~Gs~~  728 (988)
                      ++..|-+++.    +.++.++..|+.+||-+..+...        .++..|+..+.+ .+..+|..|+..|+-...+...
T Consensus       277 ~l~~L~~ll~----~~~~~vr~~a~~~L~~l~~~~~~~~~~~~~~~~l~~L~~~l~~-~~~~v~~~a~~~L~~l~~~~~~  351 (450)
T 2jdq_A          277 ALQSLLHLLS----SPKESIKKEACWTISNITAGNRAQIQTVIDANIFPALISILQT-AEFRTRKEAAWAITNATSGGSA  351 (450)
T ss_dssp             HHHHHHHHTT----CSSHHHHHHHHHHHHHHTTSCHHHHHHHHHTTHHHHHHHHHHH-SCHHHHHHHHHHHHHHHHHCCH
T ss_pred             cHHHHHHHHc----CCCHHHHHHHHHHHHHHHcCCHHHHHHHHHCCCHHHHHHHHhc-CCHHHHHHHHHHHHHHHcCCCH
Confidence            6667777775    45678999999999999776532        144556655544 4677999999999877654221


Q ss_pred             H--------HHHHHHHHhhccCChhhHHHHHHHhhcc
Q psy6893         729 D--------DIYEQLKFNLYQDDAVTGEAAGIAMGLV  757 (988)
Q Consensus       729 ~--------dv~~~L~~~l~~D~~~~~e~AalAlGLI  757 (988)
                      +        .++..|..++...+....+.|..+++.+
T Consensus       352 ~~~~~l~~~~~i~~L~~ll~~~~~~v~~~a~~aL~~l  388 (450)
T 2jdq_A          352 EQIKYLVELGCIKPLCDLLTVMDSKIVQVALNGLENI  388 (450)
T ss_dssp             HHHHHHHHHTCHHHHHHGGGSSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHhcCCCHHHHHHHHHHHHHH
Confidence            1        2344555555333333344455555443

>2vgl_B AP-2 complex subunit beta-1; cytoplasmic vesicle, alternative splicing, endocytosis, lipid-binding, golgi apparatus, adaptor, membrane, transport; HET: IHP; 2.59A {Homo sapiens} SCOP: i.23.1.1 PDB: 2jkt_B 2jkr_B* 2xa7_B 1w63_B

Probab=97.54  E-value=0.068  Score=63.57  Aligned_cols=81  Identities=15%  Similarity=0.224  Sum_probs=43.7

Q ss_pred             HHhhhccceecCChHHH-HHHHhcccCCCCCCCCCccchhHHHHHhhhccCCCCchh-HHHHHHhhhhcCCCchhHHHHH
Q psy6893         279 TATASLGVIHRGHETEA-LAHMQSYLPRETGPTSGYYEGGGLYALGLIHANHGAVIN-DYLLGQVKDATNEDDAVTGEAA  356 (988)
Q Consensus       279 sAtASLG~Ih~~~~~~g-l~~l~~yL~s~~~~~~~y~~~GaL~alGli~~g~~~~~~-d~l~~lL~~~~~~d~~~~~~aA  356 (988)
                      .|.-+||-|..-+..+. ...+.+.|-+    +++|++-.|.++++-++...++... ..+...|...+...++.++.+|
T Consensus       105 ~AL~~L~~i~~~~~~~~l~~~l~~~L~d----~~~~VRk~A~~al~~i~~~~p~~~~~~~~~~~l~~lL~d~d~~V~~~A  180 (591)
T 2vgl_B          105 LAVRTMGCIRVDKITEYLCEPLRKCLKD----EDPYVRKTAAVCVAKLHDINAQMVEDQGFLDSLRDLIADSNPMVVANA  180 (591)
T ss_dssp             HHHHHHHTCCSGGGHHHHHHHHHHHSSC----SCHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHTTSCSCHHHHHHH
T ss_pred             HHHHHHHcCChHHHHHHHHHHHHHHcCC----CChHHHHHHHHHHHHHHhhChhhcccccHHHHHHHHhCCCChhHHHHH
Confidence            34445555543332222 2224444443    4678888888888777664443222 1345555555555566677777


Q ss_pred             HHHHHHh
Q psy6893         357 GIAMGLV  363 (988)
Q Consensus       357 ~lglGL~  363 (988)
                      +.+|+-+
T Consensus       181 ~~aL~~i  187 (591)
T 2vgl_B          181 VAALSEI  187 (591)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            7777643

>4b8j_A Importin subunit alpha-1A; transport protein, nuclear localization signal; 2.00A {Oryza sativa japonica group} PDB: 4b8o_A 2yns_A 4b8p_A

Probab=97.33  E-value=0.0052  Score=71.34  Aligned_cols=144  Identities=16%  Similarity=0.091  Sum_probs=84.3

Q ss_pred             hhHHHHHHhhhhcCCCchhHHHHHHHHHHHhhccCCCh--------hHHHHHHHhhhhcchHHHHHHHHHHHHHHhcCCh
Q psy6893         333 INDYLLGQVKDATNEDDAVTGEAAGIAMGLVLLGSKSE--------SAIQDMVAYAKETQHEKILRGLAVGISFIMYGQL  404 (988)
Q Consensus       333 ~~d~l~~lL~~~~~~d~~~~~~aA~lglGL~~~Gs~~~--------~~~~~L~~~~~dt~~E~~~r~lalgl~~v~~g~~  404 (988)
                      ....++..|.    +++...+..|+.+|+-+..+..++        .++..|+.++.+.+...+....+..|..+..++.
T Consensus        75 ~l~~lv~~L~----s~~~~~~~~A~~~L~~l~s~~~~~~~~~~~~~g~v~~Lv~lL~~~~~~~v~~~A~~~L~~l~~~~~  150 (528)
T 4b8j_A           75 SLPAMIGGVY----SDDNNLQLEATTQFRKLLSIERSPPIEEVIQSGVVPRFVQFLTREDFPQLQFEAAWALTNIASGTS  150 (528)
T ss_dssp             CHHHHHHHHT----SSCHHHHHHHHHHHHHHHTCSSSCCHHHHHHTTCHHHHHHHHTCTTCHHHHHHHHHHHHHHHTSCH
T ss_pred             HHHHHHHHHc----CCCHHHHHHHHHHHHHHhcCCCCchHHHHHHCCCHHHHHHHhCCCCCHHHHHHHHHHHHHHhCCCH
Confidence            3455555553    456778888888887776665422        3567788877766545566666777778888766


Q ss_pred             hh---------HHHHHHHHhhcchhhhhccchhHHHHHhhhhhhhccccchhhHHhhccchhHHHHHhhhccCCCHHHHH
Q psy6893         405 EN---------ADDLVRDLCEEKDAILRRSGMYTIAMAYCVSYLYFDLFSDLTYRIVKNRSGMYTIAMAYCGSGSNVATK  475 (988)
Q Consensus       405 e~---------a~~li~~L~~~~d~~lr~~~~~~~~l~l~Lgll~~g~~~e~~l~~~~~~~~~~~~~~AYaGTGN~~~Iq  475 (988)
                      +.         +..+++. +.+.++.+|..+.      .+|+-+..+          .++....+.   -     ...|.
T Consensus       151 ~~~~~~~~~g~i~~L~~l-L~~~~~~v~~~a~------~aL~~l~~~----------~~~~~~~i~---~-----~g~l~  205 (528)
T 4b8j_A          151 ENTKVVIDHGAVPIFVKL-LGSSSDDVREQAV------WALGNVAGD----------SPKCRDLVL---A-----NGALL  205 (528)
T ss_dssp             HHHHHHHHTTHHHHHHHH-TTCSCHHHHHHHH------HHHHHHHHT----------CHHHHHHHH---H-----TTCHH
T ss_pred             HHHHHHHhCCcHHHHHHH-hcCCCHHHHHHHH------HHHHHHhCC----------ChhhHHHHH---H-----CCcHH
Confidence            54         3334443 3344555555321      122211100          000001110   0     12578


Q ss_pred             HHHHHhccCCCchhhHHHHHHHHHHhhcCc
Q psy6893         476 RLLHVAVSDVNDDVRREAVTALGFILFRTL  505 (988)
Q Consensus       476 ~LLhi~~s~~~~dvrr~AV~~lg~I~~~~~  505 (988)
                      .|++++..+.+..+|+.|+.+|+.++...|
T Consensus       206 ~Ll~lL~~~~~~~v~~~a~~~L~~L~~~~~  235 (528)
T 4b8j_A          206 PLLAQLNEHTKLSMLRNATWTLSNFCRGKP  235 (528)
T ss_dssp             HHHHTCCTTCCHHHHHHHHHHHHHHHCSSS
T ss_pred             HHHHHHhcCCCHHHHHHHHHHHHHHHcCCC
Confidence            889888777788899999999999987643

>1wa5_B Importin alpha subunit; nuclear transport/complex, nuclear transport, exportin, RAN GTPase, protein transport; HET: GTP; 2.0A {Saccharomyces cerevisiae} SCOP: a.118.1.1 PDB: 1un0_A 2c1t_A 1bk5_A 1ee5_A 1bk6_A 1ee4_A

Probab=97.31  E-value=0.0086  Score=69.72  Aligned_cols=141  Identities=15%  Similarity=0.136  Sum_probs=76.3

Q ss_pred             hHHHHHHhhhhcCCCchhHHHHHHHHHHHhhccCCCh--------hHHHHHHHhhhhcchHHHHHHHHHHHHHHhcCChh
Q psy6893         334 NDYLLGQVKDATNEDDAVTGEAAGIAMGLVLLGSKSE--------SAIQDMVAYAKETQHEKILRGLAVGISFIMYGQLE  405 (988)
Q Consensus       334 ~d~l~~lL~~~~~~d~~~~~~aA~lglGL~~~Gs~~~--------~~~~~L~~~~~dt~~E~~~r~lalgl~~v~~g~~e  405 (988)
                      ...+...|.    +++...+..|+..|+-+.....+.        .++..|+.++.+.+...+....+-.|.-+..+..+
T Consensus        89 i~~lv~~L~----s~~~~~~~~A~~~L~~ll~~~~~~~~~~~~~~g~i~~Lv~~L~~~~~~~v~~~A~~~L~~l~~~~~~  164 (530)
T 1wa5_B           89 LPQMTQQLN----SDDMQEQLSATVKFRQILSREHRPPIDVVIQAGVVPRLVEFMRENQPEMLQLEAAWALTNIASGTSA  164 (530)
T ss_dssp             HHHHHHHHS----CSSHHHHHHHHHHHHHHTCCSSSCSHHHHHHTTCHHHHHHTTSTTSCHHHHHHHHHHHHHHTTSCHH
T ss_pred             HHHHHHHHc----CCCHHHHHHHHHHHHHHhCCCCCccHHHHHHCCCHHHHHHHhCCCCCHHHHHHHHHHHHHHhCCCHH
Confidence            444554443    455677777877777554433222        35677777777654444555556667777776543


Q ss_pred             h---------HHHHHHHHhhcchhhhhccchhHHHHHhhhhhhhccccchhhHHhhccchhHHHHHhhhccCCCHHHHHH
Q psy6893         406 N---------ADDLVRDLCEEKDAILRRSGMYTIAMAYCVSYLYFDLFSDLTYRIVKNRSGMYTIAMAYCGSGSNVATKR  476 (988)
Q Consensus       406 ~---------a~~li~~L~~~~d~~lr~~~~~~~~l~l~Lgll~~g~~~e~~l~~~~~~~~~~~~~~AYaGTGN~~~Iq~  476 (988)
                      .         +..+++.|. +.++.+|..+.      .+|+-+..+.          +.....+.   -     ...|..
T Consensus       165 ~~~~~~~~g~i~~Lv~lL~-~~~~~vr~~A~------~aL~~l~~~~----------~~~~~~~~---~-----~~~l~~  219 (530)
T 1wa5_B          165 QTKVVVDADAVPLFIQLLY-TGSVEVKEQAI------WALGNVAGDS----------TDYRDYVL---Q-----CNAMEP  219 (530)
T ss_dssp             HHHHHHHTTCHHHHHHHHH-HCCHHHHHHHH------HHHHHHHTTC----------HHHHHHHH---H-----TTCHHH
T ss_pred             HHHHHHHCCCHHHHHHHHc-CCCHHHHHHHH------HHHHHHhCCC----------ccchHHHH---H-----cCcHHH
Confidence            3         344555443 34555555321      1222111000          00000010   0     124667


Q ss_pred             HHHHhccCCCchhhHHHHHHHHHHhhcC
Q psy6893         477 LLHVAVSDVNDDVRREAVTALGFILFRT  504 (988)
Q Consensus       477 LLhi~~s~~~~dvrr~AV~~lg~I~~~~  504 (988)
                      |++++.+ .+.++|+.|+.+|+-++.+.
T Consensus       220 L~~ll~~-~~~~v~~~a~~~L~~L~~~~  246 (530)
T 1wa5_B          220 ILGLFNS-NKPSLIRTATWTLSNLCRGK  246 (530)
T ss_dssp             HHHGGGS-CCHHHHHHHHHHHHHHHCCS
T ss_pred             HHHHhcc-CCHHHHHHHHHHHHHHhCCC
Confidence            7777755 66789999999999998654

>3ltm_A Alpha-REP4; protein engineering, heat-like repeat, protein binding; HET: 1PE 12P; 2.15A {Synthetic}

Probab=97.23  E-value=0.0027  Score=64.43  Aligned_cols=169  Identities=19%  Similarity=0.225  Sum_probs=112.2

Q ss_pred             cchhhhhhhhcccccCChHHHHHHHhhcCCCCCCCCCccchhhHHHHHhhhccCCchHHHHHHHHHhhhcCchhhHHHHH
Q psy6893         637 WAKLTATASLGVIHRGHETEALAHMQSYLPRETGPTSGYYEGGGLYALGLIHANHGAVINDYLLGQVKDATNEMVRHGGC  716 (988)
Q Consensus       637 w~kfsA~ASLG~Ih~gn~~~~l~~L~~yL~~~~~s~~~~~k~GAL~AlGlI~ag~~~~~~~~Ll~~l~~s~~~~ir~gA~  716 (988)
                      +-+..|+..||.+..   ..++..|..++.    +.++.+|..|+.+||.+..   .+.+..|...+ ++++..+|..|+
T Consensus        34 ~vR~~A~~~L~~~~~---~~~~~~L~~~l~----~~~~~vr~~a~~aL~~~~~---~~~~~~L~~~l-~~~~~~vr~~a~  102 (211)
T 3ltm_A           34 YVRRAAAYALGKIGD---ERAVEPLIKALK----DEDAWVRRAAADALGQIGD---ERAVEPLIKAL-KDEDGWVRQSAA  102 (211)
T ss_dssp             HHHHHHHHHHHHHCC---GGGHHHHHHHTT----CSCHHHHHHHHHHHHHHCC---GGGHHHHHHHT-TCSSHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCC---ccHHHHHHHHHc----CCCHHHHHHHHHHHHhhCC---HHHHHHHHHHH-cCCCHHHHHHHH
Confidence            356777778877653   357778888885    5578999999999999842   23566666665 456778999999


Q ss_pred             HhhHhhhcCCCCHHHHHHHHHhhccCChhhHHHHHHHhhcccCCCCCHHHHHHHHHHHHhcccchhhhHHHHHHHHHhcC
Q psy6893         717 LGLGLAAMGSARDDIYEQLKFNLYQDDAVTGEAAGIAMGLVLLGSKSESAIQDMVAYAKETQHEKILRGLAVGISFIMYG  796 (988)
Q Consensus       717 LGLGla~~Gs~~~dv~~~L~~~l~~D~~~~~e~AalAlGLI~vGs~n~d~i~~ll~~~~etq~e~i~R~lalgLgLi~~G  796 (988)
                      .+||-.  |  +++.+..|...+..++......|+.++|.+  |  +.+++..+++++.+. +..+....+.+|+-  ++
T Consensus       103 ~aL~~~--~--~~~~~~~L~~~l~d~~~~vr~~a~~aL~~~--~--~~~~~~~L~~~l~d~-~~~vr~~a~~aL~~--~~  171 (211)
T 3ltm_A          103 VALGQI--G--DERAVEPLIKALKDEDWFVRIAAAFALGEI--G--DERAVEPLIKALKDE-DGWVRQSAADALGE--IG  171 (211)
T ss_dssp             HHHHHH--C--CGGGHHHHHHHTTCSSHHHHHHHHHHHHHH--C--CGGGHHHHHHHTTCS-SHHHHHHHHHHHHH--HC
T ss_pred             HHHHHh--C--cHHHHHHHHHHHhCCCHHHHHHHHHHHHHc--C--CHHHHHHHHHHHcCC-CHHHHHHHHHHHHH--hC
Confidence            999874  3  566788888888444444455778888886  4  567888888877322 23333344445554  45


Q ss_pred             CchhHHHHHHHHhcccchhhhhhcHHHHHHHHcC
Q psy6893         797 QLENADDLVRDLCEEKDAILRRSGMYTIAMAYCG  830 (988)
Q Consensus       797 r~e~a~~li~~L~~~~dp~~r~~~~~~lslAyaG  830 (988)
                      ..+....+.+.+ .+++|..|...  ..++..++
T Consensus       172 ~~~~~~~L~~~l-~d~~~~vr~~A--~~aL~~~~  202 (211)
T 3ltm_A          172 GERVRAAMEKLA-ETGTGFARKVA--VNYLETHK  202 (211)
T ss_dssp             SHHHHHHHHHHH-HHCCHHHHHHH--HHHHHC--
T ss_pred             chhHHHHHHHHH-hCCCHHHHHHH--HHHHHhcC
Confidence            666666666655 46778777774  34444444

>3ltj_A Alpharep-4; protein engineering, heat-like repeat, protein binding; 1.80A {Synthetic}

Probab=97.22  E-value=0.0028  Score=63.80  Aligned_cols=161  Identities=20%  Similarity=0.254  Sum_probs=109.8

Q ss_pred             chhhhhhhhcccccCChHHHHHHHhhcCCCCCCCCCccchhhHHHHHhhhccCCchHHHHHHHHHhhhcCchhhHHHHHH
Q psy6893         638 AKLTATASLGVIHRGHETEALAHMQSYLPRETGPTSGYYEGGGLYALGLIHANHGAVINDYLLGQVKDATNEMVRHGGCL  717 (988)
Q Consensus       638 ~kfsA~ASLG~Ih~gn~~~~l~~L~~yL~~~~~s~~~~~k~GAL~AlGlI~ag~~~~~~~~Ll~~l~~s~~~~ir~gA~L  717 (988)
                      -+..|+..||.+..   ..++..|..+|.    +.++.+|..|+.+||.+..   .+++..|...+ ++++..+|..|+.
T Consensus        30 vr~~A~~~L~~~~~---~~~~~~L~~~l~----~~~~~vr~~a~~~L~~~~~---~~~~~~L~~~l-~d~~~~vr~~a~~   98 (201)
T 3ltj_A           30 VRRAAAYALGKIGD---ERAVEPLIKALK----DEDAWVRRAAADALGQIGD---ERAVEPLIKAL-KDEDGWVRQSAAV   98 (201)
T ss_dssp             HHHHHHHHHHHHCC---GGGHHHHHHHTT----CSSHHHHHHHHHHHHHHCC---GGGHHHHHHHT-TCSSHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCC---hhHHHHHHHHHc----CCCHHHHHHHHHHHHhhCC---HHHHHHHHHHH-cCCCHHHHHHHHH
Confidence            46677777776653   256777777885    5678999999999998832   23566676666 4467889999999


Q ss_pred             hhHhhhcCCCCHHHHHHHHHhhccCChhhHHHHHHHhhcccCCCCCHHHHHHHHHHHHhcccchhhhHHHHHHHHHhcCC
Q psy6893         718 GLGLAAMGSARDDIYEQLKFNLYQDDAVTGEAAGIAMGLVLLGSKSESAIQDMVAYAKETQHEKILRGLAVGISFIMYGQ  797 (988)
Q Consensus       718 GLGla~~Gs~~~dv~~~L~~~l~~D~~~~~e~AalAlGLI~vGs~n~d~i~~ll~~~~etq~e~i~R~lalgLgLi~~Gr  797 (988)
                      +||-.  |  +++++..|...+..++......|+.++|.+  |  +.+++..+++++.+. +..+.+.++.+|+-+  |.
T Consensus        99 aL~~~--~--~~~~~~~L~~~l~d~~~~vr~~a~~aL~~~--~--~~~~~~~L~~~l~d~-~~~vr~~A~~aL~~~--~~  167 (201)
T 3ltj_A           99 ALGQI--G--DERAVEPLIKALKDEDWFVRIAAAFALGEI--G--DERAVEPLIKALKDE-DGWVRQSAADALGEI--GG  167 (201)
T ss_dssp             HHHHH--C--CGGGHHHHHHHTTCSSHHHHHHHHHHHHHH--T--CGGGHHHHHHHTTCS-SHHHHHHHHHHHHHH--CS
T ss_pred             HHHHh--C--cHHHHHHHHHHHcCCCHHHHHHHHHHHHHh--C--CHHHHHHHHHHHcCC-CHHHHHHHHHHHHHh--Cc
Confidence            99873  3  566788888888544444455778888876  4  567888888877432 333334455555544  66


Q ss_pred             chhHHHHHHHHhcccchhhhhhcH
Q psy6893         798 LENADDLVRDLCEEKDAILRRSGM  821 (988)
Q Consensus       798 ~e~a~~li~~L~~~~dp~~r~~~~  821 (988)
                      .+....+.+.+ .++++..|...+
T Consensus       168 ~~~~~~L~~~l-~d~~~~vr~~A~  190 (201)
T 3ltj_A          168 ERVRAAMEKLA-ETGTGFARKVAV  190 (201)
T ss_dssp             HHHHHHHHHHH-HHCCHHHHHHHH
T ss_pred             hhHHHHHHHHH-hCCCHHHHHHHH
Confidence            77766666665 557777777643

>1jdh_A Beta-catenin; beta-catenin, protein-protein complex, transcription; 1.90A {Homo sapiens} SCOP: a.118.1.1 PDB: 1qz7_A 1g3j_A 1th1_A* 1i7w_A* 1i7x_A 1jpp_A 1m1e_A 1v18_A* 3oux_A 3ouw_A 1jpw_A 3tx7_A* 2gl7_A 1t08_A 1luj_A 2bct_A 3bct_A* 3ifq_A* 3sla_A 3sl9_A

Probab=97.17  E-value=0.036  Score=63.61  Aligned_cols=103  Identities=12%  Similarity=-0.112  Sum_probs=63.5

Q ss_pred             HHHHHHHhhcCCCCCCCCCccchhhHHHHHhhhccCCch--------HHHHHHHHHhhhcC-chhhHHHHHHhhHhhhcC
Q psy6893         655 TEALAHMQSYLPRETGPTSGYYEGGGLYALGLIHANHGA--------VINDYLLGQVKDAT-NEMVRHGGCLGLGLAAMG  725 (988)
Q Consensus       655 ~~~l~~L~~yL~~~~~s~~~~~k~GAL~AlGlI~ag~~~--------~~~~~Ll~~l~~s~-~~~ir~gA~LGLGla~~G  725 (988)
                      ..++..|-.++.    +.++.++.-|+.+|+-+..+...        ..+..|...+.+++ ++.++..|+..||-...+
T Consensus       265 ~~~i~~L~~ll~----~~~~~v~~~a~~~L~~L~~~~~~~~~~~~~~~~v~~L~~ll~~~~~~~~v~~~a~~~L~nl~~~  340 (529)
T 1jdh_A          265 EGLLGTLVQLLG----SDDINVVTCAAGILSNLTCNNYKNKMMVCQVGGIEALVRTVLRAGDREDITEPAICALRHLTSR  340 (529)
T ss_dssp             HHHHHHHHHHTT----CSCHHHHHHHHHHHHHHTTTCHHHHHHHHHTTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSS
T ss_pred             HhHHHHHHHHHc----CCCHHHHHHHHHHHHHHhcCCHHHHHHHHHcCChHHHHHHHHccCCHHHHHHHHHHHHHHHHcC
Confidence            468888888885    56778888899999988665421        14556666665533 367888888888876544


Q ss_pred             CCCH----------HHHHHHHHhhccCCh-hhHHHHHHHhhcccCCC
Q psy6893         726 SARD----------DIYEQLKFNLYQDDA-VTGEAAGIAMGLVLLGS  761 (988)
Q Consensus       726 s~~~----------dv~~~L~~~l~~D~~-~~~e~AalAlGLI~vGs  761 (988)
                      ....          ..+..|..++..++. .....+..+++-+..|+
T Consensus       341 ~~~~~~~~~~i~~~~~i~~L~~lL~~~~~~~v~~~a~~~l~nl~~~~  387 (529)
T 1jdh_A          341 HQEAEMAQNAVRLHYGLPVVVKLLHPPSHWPLIKATVGLIRNLALCP  387 (529)
T ss_dssp             STTHHHHHHHHHHTTCHHHHHHTTSTTCCHHHHHHHHHHHHHHTTSG
T ss_pred             CchHHHHHHHHHHcCChhHHHHHhccccchHHHHHHHHHHHHHhcCh
Confidence            3221          123455555543332 33345556666665543

>3now_A UNC-45 protein, SD10334P; armadillo repeat, HSP90, myosin, tetra-tricopeptide repeat, binding protein required for myosin function; 2.99A {Drosophila melanogaster}

Probab=97.11  E-value=0.23  Score=61.56  Aligned_cols=203  Identities=14%  Similarity=0.108  Sum_probs=102.7

Q ss_pred             CCCccchhHHHHHhhhccCCCC-chhHHHHHHhhhh----cCCCchhHHHHHHHHHHHhhccCC--------ChhHHHHH
Q psy6893         310 TSGYYEGGGLYALGLIHANHGA-VINDYLLGQVKDA----TNEDDAVTGEAAGIAMGLVLLGSK--------SESAIQDM  376 (988)
Q Consensus       310 ~~~y~~~GaL~alGli~~g~~~-~~~d~l~~lL~~~----~~~d~~~~~~aA~lglGL~~~Gs~--------~~~~~~~L  376 (988)
                      -.+.++..+-.++.-++-.-+. ...+....++.++    +...+.....-|.-++..++.|.-        .+.+++.|
T Consensus       216 ~~~~~r~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~alt~i~~g~~~~~~~~~~~~G~v~~l  295 (810)
T 3now_A          216 ITGSSSTIASVCLARIYENMYYDEAKARFTDQIDEYIKDKLLAPDMESKVRVTVAITALLNGPLDVGNQVVAREGILQMI  295 (810)
T ss_dssp             CCTTHHHHHHHHHHHHHHTCCSHHHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHSSSHHHHHHHHHTTTHHHHH
T ss_pred             CChhHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHHhccCChHhHHHHHHHHHHHhcCCHHHHHHHHhccchHHHH
Confidence            3567899999999888766541 1112222222222    233344445556667777777774        34566778


Q ss_pred             HHhhhhcchHHHHHHHHHHHHHHhcCChhhHHHHHH-------HHhhcchhhhhccchhHHHHHhhhhhhhccccchhhH
Q psy6893         377 VAYAKETQHEKILRGLAVGISFIMYGQLENADDLVR-------DLCEEKDAILRRSGMYTIAMAYCVSYLYFDLFSDLTY  449 (988)
Q Consensus       377 ~~~~~dt~~E~~~r~lalgl~~v~~g~~e~a~~li~-------~L~~~~d~~lr~~~~~~~~l~l~Lgll~~g~~~e~~l  449 (988)
                      ++.+...+ +...+.....++....+ .+..+.+++       .|+..+++.+|.-      -+.+|..           
T Consensus       296 i~Ll~s~~-~~~q~~A~~al~~aa~~-~~~R~~I~~~gv~~L~~Ll~s~~~~vr~~------Al~~L~k-----------  356 (810)
T 3now_A          296 LAMATTDD-ELQQRVACECLIAASSK-KDKAKALCEQGVDILKRLYHSKNDGIRVR------ALVGLCK-----------  356 (810)
T ss_dssp             HHHHHSSC-HHHHHHHHHHHHHHTTS-HHHHHTTHHHHHHHHHHHTTCSCHHHHHH------HHHHHHH-----------
T ss_pred             HHHhCCCC-HHHHHHHHHHHHHHcCC-cHHHHHHHHcCcHHHHHHHcCCCHHHHHH------HHHHHHH-----------
Confidence            88776543 33333334444444333 444443332       2333333333221      1111111           


Q ss_pred             HhhccchhHHHHHhhhcc----------CCCH-HHHHHHHHHhccC-CCchhhHHHHHHHHHHhhcCccccccccCCCCc
Q psy6893         450 RIVKNRSGMYTIAMAYCG----------SGSN-VATKRLLHVAVSD-VNDDVRREAVTALGFILFRTLFYVAPACTRSPW  517 (988)
Q Consensus       450 ~~~~~~~~~~~~~~AYaG----------TGN~-~~Iq~LLhi~~s~-~~~dvrr~AV~~lg~I~~~~~~~~g~~~~~~~~  517 (988)
                                   ++..|          .|.+ ..+..|.+++.++ .++|+|+.||-+|+.+....+.+--+..-..++
T Consensus       357 -------------l~s~~~~d~~~~~~~~g~i~~Lv~~l~~lL~~~~~d~~v~~~AveaLayLS~~~~vk~~lv~d~g~I  423 (810)
T 3now_A          357 -------------LGSYGGQDAAIRPFGDGAALKLAEACRRFLIKPGKDKDIRRWAADGLAYLTLDAECKEKLIEDKASI  423 (810)
T ss_dssp             -------------HHTTTTTTTSCCSSTTTHHHHHHHHHHHHHHCSSCCSSHHHHHHHHHHHHTTSHHHHHHHHHCHHHH
T ss_pred             -------------hccccccCccccchhhccHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHhCCcHHHHHHHHccchH
Confidence                         11111          1222 2244555555554 377899999999999987654321111112457


Q ss_pred             hhHHhhccchhhhhhHhh-HHHhhhhccc
Q psy6893         518 PGVISLLDDPMIELKEFS-LKKLNDIVDD  545 (988)
Q Consensus       518 p~ai~lL~~~~~~~~~~~-~~~l~~~~~~  545 (988)
                      |.-+.+|..+..+ .-|. ..-|.+++..
T Consensus       424 p~LV~LL~s~d~~-i~~~al~~L~NLt~~  451 (810)
T 3now_A          424 HALMDLARGGNQS-CLYGVVTTFVNLCNA  451 (810)
T ss_dssp             HHHHHHHHTTCGG-GHHHHHHHHHHHTTC
T ss_pred             HHHHHHhCCCChH-HHHHHHHHHHHHcCC
Confidence            7777777642211 1122 2346677764

>2z6h_A Catenin beta-1, beta-catenin; C-terminal domain, activator, alternative splicing, cell adhesion, cytoplasm, cytoskeleton, disease mutation, nucleus; 2.20A {Homo sapiens}

Probab=97.04  E-value=0.39  Score=57.39  Aligned_cols=116  Identities=13%  Similarity=-0.072  Sum_probs=66.7

Q ss_pred             HHHHHHhhcCCCCCCCCCccchhhHHHHHhhhccCCch--------HHHHHHHHHhhhcCc-hhhHHHHHHhhHhhhcCC
Q psy6893         656 EALAHMQSYLPRETGPTSGYYEGGGLYALGLIHANHGA--------VINDYLLGQVKDATN-EMVRHGGCLGLGLAAMGS  726 (988)
Q Consensus       656 ~~l~~L~~yL~~~~~s~~~~~k~GAL~AlGlI~ag~~~--------~~~~~Ll~~l~~s~~-~~ir~gA~LGLGla~~Gs  726 (988)
                      .++..|-..+.    +.++.++.-|+.+|+-+..+...        ..+..|+..+.++++ +.++..|+..||-.....
T Consensus       263 ~~i~~Lv~lL~----~~d~~v~~~a~~aL~~L~~~~~~~~~~v~~~g~v~~Lv~lL~~~~~~~~v~~~a~~aL~nL~~~~  338 (644)
T 2z6h_A          263 GLLGTLVQLLG----SDDINVVTCAAGILSNLTCNNYKNKMMVCQVGGIEALVRTVLRAGDREDITEPAICALRHLTSRH  338 (644)
T ss_dssp             HHHHHHHHHTT----CSCHHHHHHHHHHHHHHHTTCHHHHHHHHHTTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSSS
T ss_pred             hHHHHHHHHHc----CCCHHHHHHHHHHHHHHHcCCHHHHHHHHHcCCHHHHHHHHHccCCcHHHHHHHHHHHHHHhcCC
Confidence            56666777775    45677788888888877665421        145566666655433 578888888887764432


Q ss_pred             CCH----------HHHHHHHHhhccCC-hhhHHHHHHHhhcccCCCCCH------HHHHHHHHHHH
Q psy6893         727 ARD----------DIYEQLKFNLYQDD-AVTGEAAGIAMGLVLLGSKSE------SAIQDMVAYAK  775 (988)
Q Consensus       727 ~~~----------dv~~~L~~~l~~D~-~~~~e~AalAlGLI~vGs~n~------d~i~~ll~~~~  775 (988)
                      ...          ..+..|..+|..++ ....+.|+-+++-+..++.+.      .++..+++++.
T Consensus       339 ~~~~~~q~~v~~~~~l~~L~~lL~~~~~~~v~~~a~~~L~nLa~~~~~~~~i~~~~~i~~Lv~lL~  404 (644)
T 2z6h_A          339 QEAEMAQNAVRLHYGLPVVVKLLHPPSHWPLIKATVGLIRNLALCPANHAPLREQGAIPRLVQLLV  404 (644)
T ss_dssp             TTHHHHHHHHHHTTHHHHHHHTTSTTCCHHHHHHHHHHHHHHTTSGGGHHHHHHTTHHHHHHHHHH
T ss_pred             chHHHHHHHHHHccChHHHHHHhCccCchHHHHHHHHHHHHHccCHHHHHHHHHcCCHHHHHHHHh
Confidence            221          24456666664332 233445666667665554332      24445555554

>4fdd_A Transportin-1; heat repeats, karyopherin, nuclear import, protein transport importin, transportin, transport protein; 2.30A {Homo sapiens} PDB: 2ot8_A 2h4m_A 2z5k_A 2z5j_A 2qmr_A 2z5m_A 2z5n_A 2z5o_A 1qbk_B*

Probab=96.96  E-value=0.16  Score=62.57  Aligned_cols=53  Identities=15%  Similarity=-0.043  Sum_probs=34.0

Q ss_pred             CCCccchhHHHHHhhhccC----CCCchhHHHHHHhhhhcCCCchhHHHHHHHHHHHhhcc
Q psy6893         310 TSGYYEGGGLYALGLIHAN----HGAVINDYLLGQVKDATNEDDAVTGEAAGIAMGLVLLG  366 (988)
Q Consensus       310 ~~~y~~~GaL~alGli~~g----~~~~~~d~l~~lL~~~~~~d~~~~~~aA~lglGL~~~G  366 (988)
                      .++.++.-+..+++.|...    ......+.+..    .+.+++...+++|...||-+.--
T Consensus       102 ~~~~vr~~~a~~i~~ia~~~~~~~wp~ll~~L~~----~l~~~~~~~r~~al~~L~~i~~~  158 (852)
T 4fdd_A          102 SSPLIRATVGILITTIASKGELQNWPDLLPKLCS----LLDSEDYNTCEGAFGALQKICED  158 (852)
T ss_dssp             SSHHHHHHHHHHHHHHHHHTTTTTCTTHHHHHHH----HHSCSSHHHHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHHhcCccccHHHHHHHHH----HHcCCCHHHHHHHHHHHHHHHHH
Confidence            4568888888888877432    22223344444    44455678899999988876543

>1u6g_C TIP120 protein, CAND1; cullin repeat, heat repeat, ring finger, ligase; 3.10A {Homo sapiens} SCOP: a.118.1.2 PDB: 4a0c_A

Probab=96.74  E-value=1.1  Score=57.39  Aligned_cols=230  Identities=11%  Similarity=0.081  Sum_probs=109.0

Q ss_pred             hhhhhhhcccccCChHHHHHHHhhcCCCCC-CCCCccchhhHHHHHhhhcc--CCc--hHHHHHHHHHhhhcCchhhHHH
Q psy6893         640 LTATASLGVIHRGHETEALAHMQSYLPRET-GPTSGYYEGGGLYALGLIHA--NHG--AVINDYLLGQVKDATNEMVRHG  714 (988)
Q Consensus       640 fsA~ASLG~Ih~gn~~~~l~~L~~yL~~~~-~s~~~~~k~GAL~AlGlI~a--g~~--~~~~~~Ll~~l~~s~~~~ir~g  714 (988)
                      ..++..+|.+..-..+.....+..|+..-. ...++..+..+++++|.+..  ...  .+....+...+. +.++.+|..
T Consensus       797 ~~~a~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~g~~~~~~~~~~l~~~~~~~l~-~~~~~Vr~a  875 (1230)
T 1u6g_C          797 YSIAKCVAALTRACPKEGPAVVGQFIQDVKNSRSTDSIRLLALLSLGEVGHHIDLSGQLELKSVILEAFS-SPSEEVKSA  875 (1230)
T ss_dssp             HHHHHHHHHHHHHSCCCSHHHHTTTTTTTTTTTCCHHHHHHHHHHHHHHHHHSCCCSCTHHHHHHHHGGG-CSCHHHHHH
T ss_pred             HHHHHHHHHHHHhcchhhHHHHHHHHHHhCCCCccHHHHHHHHHHHHHhcccCCCcccccHHHHHHHHhC-CCCHHHHHH
Confidence            344555555533111111255666664211 11344556778788776621  111  234556665553 457788999


Q ss_pred             HHHhhHhhhcCCCCHHHHHHHHHhhccCChhhHHHHHHHhhcccCC---CCCHHHHHHHHHHHHhc---ccchhhhHHHH
Q psy6893         715 GCLGLGLAAMGSARDDIYEQLKFNLYQDDAVTGEAAGIAMGLVLLG---SKSESAIQDMVAYAKET---QHEKILRGLAV  788 (988)
Q Consensus       715 A~LGLGla~~Gs~~~dv~~~L~~~l~~D~~~~~e~AalAlGLI~vG---s~n~d~i~~ll~~~~et---q~e~i~R~lal  788 (988)
                      |..+||..+.|.- ......|+..+.. .....+...-|++-+.-.   ..-...+..+...+...   .++.+..-++-
T Consensus       876 Aa~aLg~l~~~~~-~~~lp~ll~~l~~-~~~~~~~~l~al~e~i~~~~~~~~~~~~~~i~~~L~~~~~~~~~~~r~~~a~  953 (1230)
T 1u6g_C          876 ASYALGSISVGNL-PEYLPFVLQEITS-QPKRQYLLLHSLKEIISSASVVGLKPYVENIWALLLKHCECAEEGTRNVVAE  953 (1230)
T ss_dssp             HHHHHHHHHHHTH-HHHHHHHHHHHHS-CGGGHHHHHHHHHHHHHSSCSTTTHHHHHHHHHHHTTCCCCSSTTHHHHHHH
T ss_pred             HHHHhHHHhccCH-HHHHHHHHHHHhc-cchhhHHHHHHHHHHHhcCChhhHHhhHHHHHHHHHHHhcCcchhhHHHHHH
Confidence            9999988765532 1233344444422 222222222233333211   11122234444444321   12333335566


Q ss_pred             HHHHHhcCCchhHHHHHHHHhcccchhhhhhcHHHHHHHHcCCCChhHHHHHHHHHHHhhhhhhhhhhhccCCCchHHHH
Q psy6893         789 GISFIMYGQLENADDLVRDLCEEKDAILRRSGMYTIAMAYCGSGSNVATKRLLHDAILRRSGMYTIAMAYCGSGSNVATK  868 (988)
Q Consensus       789 gLgLi~~Gr~e~a~~li~~L~~~~dp~~r~~~~~~lslAyaGtGnvl~iq~lL~~~~~~~lG~alia~g~~~tgn~~air  868 (988)
                      ++|.+..-..+..-+.+.....+.++..|..  ++.++.|+=                          ...+.....-++
T Consensus       954 ~lg~l~~~~~~~l~p~l~~~l~~~~~~~R~~--~~~~l~~~~--------------------------~~~~~~~~~~l~ 1005 (1230)
T 1u6g_C          954 CLGKLTLIDPETLLPRLKGYLISGSSYARSS--VVTAVKFTI--------------------------SDHPQPIDPLLK 1005 (1230)
T ss_dssp             HHHHHHHSSGGGTHHHHTTTSSSSCHHHHHH--HHHHTGGGC--------------------------CSSCCTHHHHHH
T ss_pred             HHhhhhccChHHHHHHHHHHhcCCCHHHHHH--HHHHHHHHH--------------------------ccCchhhHHHHH
Confidence            6776665444443333333334556665643  222333321                          111111122233


Q ss_pred             Hhhhhh---ccCCChhhhhhHHhhhhhhhhhhhhh
Q psy6893         869 RLLHVA---VSDVNDDVRREAVTALGFILFRKKRT  900 (988)
Q Consensus       869 ~ll~~~---~sd~~~~vrraa~~alg~i~~~npeq  900 (988)
                      .++..+   ..|++.+||+++..+++-+....|..
T Consensus      1006 ~~~~~ll~~l~d~~~~vr~~a~~~l~~~~~~~~~~ 1040 (1230)
T 1u6g_C         1006 NCIGDFLKTLEDPDLNVRRVALVTFNSAAHNKPSL 1040 (1230)
T ss_dssp             HHSTTTHHHHSSSSTHHHHHHHHHHHHHHHHCGGG
T ss_pred             HHHHHHHHhcCCCcHHHHHHHHHHHHHHHhcChHh
Confidence            333222   36788899999999998877776664

>4b8j_A Importin subunit alpha-1A; transport protein, nuclear localization signal; 2.00A {Oryza sativa japonica group} PDB: 4b8o_A 2yns_A 4b8p_A

Probab=96.64  E-value=0.017  Score=66.98  Aligned_cols=36  Identities=19%  Similarity=0.234  Sum_probs=27.3

Q ss_pred             HHHHhhhhhccCCChhhhhhHHhhhhhhhhhhhhhh
Q psy6893         866 ATKRLLHVAVSDVNDDVRREAVTALGFILFRKKRTR  901 (988)
Q Consensus       866 air~ll~~~~sd~~~~vrraa~~alg~i~~~npeq~  901 (988)
                      ++..|++++.+..++.+|+.|+.+++-+...+++..
T Consensus       329 ~l~~L~~lL~~~~~~~v~~~A~~~L~nl~~~~~~~~  364 (528)
T 4b8j_A          329 ALPCLLSLLTQNLKKSIKKEACWTISNITAGNKDQI  364 (528)
T ss_dssp             HHHHHHHHHHSCCCHHHHHHHHHHHHHHHTSCHHHH
T ss_pred             hHHHHHHHHcCCCcHHHHHHHHHHHHHHHCCCHHHH
Confidence            466677777654488999999999999887666544

>1u6g_C TIP120 protein, CAND1; cullin repeat, heat repeat, ring finger, ligase; 3.10A {Homo sapiens} SCOP: a.118.1.2 PDB: 4a0c_A

Probab=96.61  E-value=1.5  Score=56.27  Aligned_cols=71  Identities=10%  Similarity=0.093  Sum_probs=49.3

Q ss_pred             HHHHHHhcccCCCCCCCCCccchhHHHHHhhhccCCCCchhHHHHHHhhhhcCCCchhHHHHHHHHHHHhhccCC
Q psy6893         294 EALAHMQSYLPRETGPTSGYYEGGGLYALGLIHANHGAVINDYLLGQVKDATNEDDAVTGEAAGIAMGLVLLGSK  368 (988)
Q Consensus       294 ~gl~~l~~yL~s~~~~~~~y~~~GaL~alGli~~g~~~~~~d~l~~lL~~~~~~d~~~~~~aA~lglGL~~~Gs~  368 (988)
                      .-+..+-++|..    .++.++..|+.++|-+..+.+....++++..|-+.+.+++...|.+|+.+||-+....+
T Consensus        48 ~il~~Ll~~L~d----~~~~vR~~A~~~L~~l~~~~~~~~~~~i~~~Ll~~l~d~~~~vR~~a~~~L~~i~~~l~  118 (1230)
T 1u6g_C           48 KVVKMILKLLED----KNGEVQNLAVKCLGPLVSKVKEYQVETIVDTLCTNMLSDKEQLRDISSIGLKTVIGELP  118 (1230)
T ss_dssp             HHHHHHHHHTTC----SSHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHTTCSSSHHHHHHHHHHHHHHHHCC
T ss_pred             HHHHHHHHHhcC----CCHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHhCC
Confidence            445556667764    47889999999998887665543456666666666555566779999999987764444

>2jdq_A Importin alpha-1 subunit; transport, PB2 subunit, nuclear protein, protein transport, armadillo repeats; 2.2A {Homo sapiens} PDB: 3tj3_A

Probab=96.55  E-value=0.015  Score=65.19  Aligned_cols=35  Identities=23%  Similarity=0.306  Sum_probs=27.1

Q ss_pred             HHHHhhhhhccCCChhhhhhHHhhhhhhhhhhhhhh
Q psy6893         866 ATKRLLHVAVSDVNDDVRREAVTALGFILFRKKRTR  901 (988)
Q Consensus       866 air~ll~~~~sd~~~~vrraa~~alg~i~~~npeq~  901 (988)
                      ++..|..++.+ +++.+|+.+..+++-+...+++..
T Consensus       277 ~l~~L~~ll~~-~~~~vr~~a~~~L~~l~~~~~~~~  311 (450)
T 2jdq_A          277 ALQSLLHLLSS-PKESIKKEACWTISNITAGNRAQI  311 (450)
T ss_dssp             HHHHHHHHTTC-SSHHHHHHHHHHHHHHTTSCHHHH
T ss_pred             cHHHHHHHHcC-CCHHHHHHHHHHHHHHHcCCHHHH
Confidence            66677777654 688999999999999987666544

>1qgr_A Protein (importin beta subunit); transport receptor, nuclear import, heat motif, NLS-binding; 2.30A {Homo sapiens} SCOP: a.118.1.1 PDB: 1qgk_A 2p8q_A 2q5d_A 3lww_A 1ukl_A 2qna_A

Probab=96.35  E-value=2.2  Score=51.89  Aligned_cols=88  Identities=18%  Similarity=0.124  Sum_probs=56.8

Q ss_pred             CCccchhHHHHHhhhccCCCCchhHHHHHHhhhhcCCCchhHHHHHHHHHHHhhccCCCh-------hHHHHHHHhhhhc
Q psy6893         311 SGYYEGGGLYALGLIHANHGAVINDYLLGQVKDATNEDDAVTGEAAGIAMGLVLLGSKSE-------SAIQDMVAYAKET  383 (988)
Q Consensus       311 ~~y~~~GaL~alGli~~g~~~~~~d~l~~lL~~~~~~d~~~~~~aA~lglGL~~~Gs~~~-------~~~~~L~~~~~dt  383 (988)
                      +..++-.|..+++.+....+....+.++..|...+.+.++..+.+|..++|.+.-|...+       .++..|++.+.|.
T Consensus       341 ~~~~r~~a~~~l~~l~~~~~~~~~~~~l~~l~~~l~~~~~~~r~~a~~~l~~i~~~~~~~~~~~~~~~~l~~l~~~l~d~  420 (876)
T 1qgr_A          341 DWNPCKAAGVCLMLLATCCEDDIVPHVLPFIKEHIKNPDWRYRDAAVMAFGCILEGPEPSQLKPLVIQAMPTLIELMKDP  420 (876)
T ss_dssp             CCCHHHHHHHHHHHHHHHHGGGGHHHHHHHHHHHTTCSSHHHHHHHHHHHHHTSSSSCHHHHHHHHHHHHHHHHHHHTCS
T ss_pred             ccHHHHHHHHHHHHHHHHCcHhhHHHHHHHHHHHccCCChHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHhCCC
Confidence            456778888888887665554456677777777776778999999999999877666522       2334444444444


Q ss_pred             chHHHHHHHHHHHHHH
Q psy6893         384 QHEKILRGLAVGISFI  399 (988)
Q Consensus       384 ~~E~~~r~lalgl~~v  399 (988)
                      . ..++...+..++-+
T Consensus       421 ~-~~vr~~a~~~l~~~  435 (876)
T 1qgr_A          421 S-VVVRDTAAWTVGRI  435 (876)
T ss_dssp             S-HHHHHHHHHHHHHH
T ss_pred             C-HHHHHHHHHHHHHH
Confidence            3 33444444444444

>3now_A UNC-45 protein, SD10334P; armadillo repeat, HSP90, myosin, tetra-tricopeptide repeat, binding protein required for myosin function; 2.99A {Drosophila melanogaster}

Probab=96.32  E-value=0.14  Score=63.55  Aligned_cols=198  Identities=16%  Similarity=0.110  Sum_probs=106.9

Q ss_pred             hhhhhHHHHHHHhhhccCCc--ccccc---cc-hhHHHhhccchhhHHhhhccceecCChHHHHHHHhcccCCCCCCCCC
Q psy6893         239 SICHTATIIANAFMHSGTTS--DQFLR---DN-LEWLARATNWAKLTATASLGVIHRGHETEALAHMQSYLPRETGPTSG  312 (988)
Q Consensus       239 s~~~~A~~~~Naf~naG~~~--D~fl~---~n-~~Wl~k~~~~~~~sAtASLG~Ih~~~~~~gl~~l~~yL~s~~~~~~~  312 (988)
                      .+.|.+...+--+=+.++-.  |.|-.   +. ..|+.+...-++.-|+..+..|..+.++.+-.++..           
T Consensus       220 ~r~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~alt~i~~g~~~~~~~~~~~-----------  288 (810)
T 3now_A          220 SSTIASVCLARIYENMYYDEAKARFTDQIDEYIKDKLLAPDMESKVRVTVAITALLNGPLDVGNQVVAR-----------  288 (810)
T ss_dssp             HHHHHHHHHHHHHHTCCSHHHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHSSSHHHHHHHHHT-----------
T ss_pred             HHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHHhccCChHhHHHHHHHHHHHhcCCHHHHHHHHhc-----------
Confidence            44566655555555554311  22211   01 148888888889999999999998888877666521           


Q ss_pred             ccchhHHHHHhhhccCCCCchhHHHHHHhhhhcCCCchhHHHHHHHHHHHhhccCCChh-HH----HHHHHhhhhcchHH
Q psy6893         313 YYEGGGLYALGLIHANHGAVINDYLLGQVKDATNEDDAVTGEAAGIAMGLVLLGSKSES-AI----QDMVAYAKETQHEK  387 (988)
Q Consensus       313 y~~~GaL~alGli~~g~~~~~~d~l~~lL~~~~~~d~~~~~~aA~lglGL~~~Gs~~~~-~~----~~L~~~~~dt~~E~  387 (988)
                         .|               ..+.++.++.    +++...++.|.-++|.+-.+..+.+ ++    ..|..++.+ +.+.
T Consensus       289 ---~G---------------~v~~li~Ll~----s~~~~~q~~A~~al~~aa~~~~~R~~I~~~gv~~L~~Ll~s-~~~~  345 (810)
T 3now_A          289 ---EG---------------ILQMILAMAT----TDDELQQRVACECLIAASSKKDKAKALCEQGVDILKRLYHS-KNDG  345 (810)
T ss_dssp             ---TT---------------HHHHHHHHHH----SSCHHHHHHHHHHHHHHTTSHHHHHTTHHHHHHHHHHHTTC-SCHH
T ss_pred             ---cc---------------hHHHHHHHhC----CCCHHHHHHHHHHHHHHcCCcHHHHHHHHcCcHHHHHHHcC-CCHH
Confidence               11               3344445443    3456777777777776322211111 11    334444442 2233


Q ss_pred             HHHHHHHHHHHHhc--C-C-----------hhhHHHHHHHHhhcc-hhhhhccchhHHHHHhhhhhhhccccchhhHHhh
Q psy6893         388 ILRGLAVGISFIMY--G-Q-----------LENADDLVRDLCEEK-DAILRRSGMYTIAMAYCVSYLYFDLFSDLTYRIV  452 (988)
Q Consensus       388 ~~r~lalgl~~v~~--g-~-----------~e~a~~li~~L~~~~-d~~lr~~~~~~~~l~l~Lgll~~g~~~e~~l~~~  452 (988)
                      +..-.+.+|..++.  + +           ++.+..++..|.... |+..+.-+                          
T Consensus       346 vr~~Al~~L~kl~s~~~~d~~~~~~~~g~i~~Lv~~l~~lL~~~~~d~~v~~~A--------------------------  399 (810)
T 3now_A          346 IRVRALVGLCKLGSYGGQDAAIRPFGDGAALKLAEACRRFLIKPGKDKDIRRWA--------------------------  399 (810)
T ss_dssp             HHHHHHHHHHHHHTTTTTTTSCCSSTTTHHHHHHHHHHHHHHCSSCCSSHHHHH--------------------------
T ss_pred             HHHHHHHHHHHhccccccCccccchhhccHHHHHHHHHHHhcCCCCCHHHHHHH--------------------------
Confidence            33333446666653  1 1           122334444444331 33333311                          


Q ss_pred             ccchhHHHHHhhhccCC---------CHHHHHHHHHHhccCCCchhhHHHHHHHHHHhhcC
Q psy6893         453 KNRSGMYTIAMAYCGSG---------SNVATKRLLHVAVSDVNDDVRREAVTALGFILFRT  504 (988)
Q Consensus       453 ~~~~~~~~~~~AYaGTG---------N~~~Iq~LLhi~~s~~~~dvrr~AV~~lg~I~~~~  504 (988)
                             +++++|.-.+         +...|+.|+.++.+ .+..++..|+..|+-|.-+.
T Consensus       400 -------veaLayLS~~~~vk~~lv~d~g~Ip~LV~LL~s-~d~~i~~~al~~L~NLt~~~  452 (810)
T 3now_A          400 -------ADGLAYLTLDAECKEKLIEDKASIHALMDLARG-GNQSCLYGVVTTFVNLCNAY  452 (810)
T ss_dssp             -------HHHHHHHTTSHHHHHHHHHCHHHHHHHHHHHHT-TCGGGHHHHHHHHHHHTTCS
T ss_pred             -------HHHHHHHhCCcHHHHHHHHccchHHHHHHHhCC-CChHHHHHHHHHHHHHcCCc
Confidence                   3333443322         34578888888865 45678889999999998754

>4hxt_A De novo protein OR329; structural genomics, PSI-biology, protein structure initiati northeast structural genomics consortium, NESG; 1.95A {Artificial gene}

Probab=96.30  E-value=0.099  Score=53.36  Aligned_cols=209  Identities=19%  Similarity=0.163  Sum_probs=115.4

Q ss_pred             HHHHHhhcCCCCCCCCCccchhhHHHHHhhhccCCch--------HHHHHHHHHhhhcCchhhHHHHHHhhHhhhcCCCC
Q psy6893         657 ALAHMQSYLPRETGPTSGYYEGGGLYALGLIHANHGA--------VINDYLLGQVKDATNEMVRHGGCLGLGLAAMGSAR  728 (988)
Q Consensus       657 ~l~~L~~yL~~~~~s~~~~~k~GAL~AlGlI~ag~~~--------~~~~~Ll~~l~~s~~~~ir~gA~LGLGla~~Gs~~  728 (988)
                      ++..|-.+|.    ++++.++.-|+.+|+.+..+...        .++..|...+. +++..++..|+..|+-...+  +
T Consensus         3 ~i~~L~~~L~----~~~~~~~~~a~~~L~~l~~~~~~~~~~~~~~g~i~~L~~ll~-~~~~~v~~~a~~~L~~l~~~--~   75 (252)
T 4hxt_A            3 DVEKLVKLLT----STDSETQKEAARDLAEIASGPASAIKAIVDAGGVEVLVKLLT-STDSEVQKEAARALANIASG--P   75 (252)
T ss_dssp             HHHHHHHHTT----CSCHHHHHHHHHHHHHHHTSCHHHHHHHHHTTHHHHHHHHTT-CSCHHHHHHHHHHHHHHTTS--C
T ss_pred             cHHHHHHHHc----CCCHHHHHHHHHHHHHHhcCCcHHHHHHHHCCCHHHHHHHHh-CCCHHHHHHHHHHHHHHHcC--C
Confidence            3455556664    34567777888888877665531        14566665554 34567788888888765333  2


Q ss_pred             HH---------HHHHHHHhhccCChhhHHHHHHHhhcccCCCCCHH---------HHHHHHHHHHhcccchhhhHHHHHH
Q psy6893         729 DD---------IYEQLKFNLYQDDAVTGEAAGIAMGLVLLGSKSES---------AIQDMVAYAKETQHEKILRGLAVGI  790 (988)
Q Consensus       729 ~d---------v~~~L~~~l~~D~~~~~e~AalAlGLI~vGs~n~d---------~i~~ll~~~~etq~e~i~R~lalgL  790 (988)
                      ++         ++..|..++..++....+.|+.+++-+..  .+.+         ++..+++++.+ .+..+.+..+-.|
T Consensus        76 ~~~~~~~~~~~~i~~l~~ll~~~~~~v~~~a~~~L~~l~~--~~~~~~~~~~~~~~i~~L~~~l~~-~~~~~~~~a~~~L  152 (252)
T 4hxt_A           76 DEAIKAIVDAGGVEVLVKLLTSTDSEVQKEAARALANIAS--GPDEAIKAIVDAGGVEVLVKLLTS-TDSEVQKEAARAL  152 (252)
T ss_dssp             HHHHHHHHHTTHHHHHHHHTTCSSHHHHHHHHHHHHHHTT--SCHHHHHHHHHTTHHHHHHHHTTC-SCHHHHHHHHHHH
T ss_pred             hHHHHHHHHCCCHHHHHHHHcCCCHHHHHHHHHHHHHHHc--CCHHHHHHHHHCCCHHHHHHHHcC-CCHHHHHHHHHHH
Confidence            22         45566666654444445566667666633  2333         34555555532 2344555555566


Q ss_pred             HHHhcCCchh---------HHHHHHHHhcccchhhhhhcHHHHHHHHcCCCChhHHHHHHHHHHHhhhhhhhhhhhccCC
Q psy6893         791 SFIMYGQLEN---------ADDLVRDLCEEKDAILRRSGMYTIAMAYCGSGSNVATKRLLHDAILRRSGMYTIAMAYCGS  861 (988)
Q Consensus       791 gLi~~Gr~e~---------a~~li~~L~~~~dp~~r~~~~~~lslAyaGtGnvl~iq~lL~~~~~~~lG~alia~g~~~t  861 (988)
                      +-+..+..+.         +..+++.|. ++++..|...+.+++  -+..++....+.+                     
T Consensus       153 ~~l~~~~~~~~~~~~~~~~i~~L~~ll~-~~~~~v~~~a~~~L~--~l~~~~~~~~~~l---------------------  208 (252)
T 4hxt_A          153 ANIASGPDEAIKAIVDAGGVEVLVKLLT-STDSEVQKEAARALA--NIASGPTSAIKAI---------------------  208 (252)
T ss_dssp             HHHTTSCHHHHHHHHHTTHHHHHHHHTT-CSCHHHHHHHHHHHH--HHTTSBHHHHHHH---------------------
T ss_pred             HHHHcCCHHHHHHHHHCcCHHHHHHHHC-CCCHHHHHHHHHHHH--HHHcCCHHHHHHH---------------------
Confidence            6565554432         344444444 344444444333222  2222222111111                     


Q ss_pred             CchHHHHHhhhhhccCCChhhhhhHHhhhhhhhhhhhhh
Q psy6893         862 GSNVATKRLLHVAVSDVNDDVRREAVTALGFILFRKKRT  900 (988)
Q Consensus       862 gn~~air~ll~~~~sd~~~~vrraa~~alg~i~~~npeq  900 (988)
                      ....++..|++++.+ +++++|+.|..+++-+....+..
T Consensus       209 ~~~~~i~~L~~ll~~-~~~~v~~~a~~~L~~l~~~~~~~  246 (252)
T 4hxt_A          209 VDAGGVEVLQKLLTS-TDSEVQKEAQRALENIKSGGWLE  246 (252)
T ss_dssp             HHTTHHHHHHHGGGC-SCHHHHHHHHHHHHHHHHTCBCC
T ss_pred             HHCCCHHHHHHHHCC-CcHHHHHHHHHHHHHHHcCCCcc
Confidence            113367778777754 58899999999998888766543

>3ul1_B Importin subunit alpha-2; arm repeat, armadillo repeat, nuclear transport, nuclear LOC signal binding, importin beta binding; 1.90A {Mus musculus} PDB: 3ukx_B 3uky_B 3ukz_B 3ukw_B 3ul0_B 3oqs_A 3rz9_A 3rzx_A 3uvu_A 1q1s_C 1q1t_C 3knd_A 1ejy_I 1iq1_C 1ejl_I 1pjn_B 1pjm_B 3q5u_A 3fey_C 3fex_C ...

Probab=96.07  E-value=0.3  Score=56.87  Aligned_cols=213  Identities=15%  Similarity=0.124  Sum_probs=115.1

Q ss_pred             HHHHHhhcCCCCCCCCCccchhhHHHHHhhhccCCch--------HHHHHHHHHhhhcCch----hhHHHHHHhhHhhhc
Q psy6893         657 ALAHMQSYLPRETGPTSGYYEGGGLYALGLIHANHGA--------VINDYLLGQVKDATNE----MVRHGGCLGLGLAAM  724 (988)
Q Consensus       657 ~l~~L~~yL~~~~~s~~~~~k~GAL~AlGlI~ag~~~--------~~~~~Ll~~l~~s~~~----~ir~gA~LGLGla~~  724 (988)
                      ++..|-.+|.    +.++.++--|+.+||-|......        .++..|+..+.....+    .+...++..|.-...
T Consensus       144 aIp~Lv~lL~----s~~~~v~e~A~~aL~nLa~d~~~~r~~v~~~G~i~~Ll~lL~~~~~~~~~~~~~~~a~~~L~nl~~  219 (510)
T 3ul1_B          144 AIPAFISLLA----SPHAHISEQAVWALGNIAGDGSAFRDLVIKHGAIDPLLALLAVPDLSTLACGYLRNLTWTLSNLCR  219 (510)
T ss_dssp             HHHHHHHHTT----CSCHHHHHHHHHHHHHHHTTCHHHHHHHHHTTCHHHHHHHTCSSCGGGSCHHHHHHHHHHHHHHHC
T ss_pred             CHHHHHHHHc----CCCHHHHHHHHHHHHHHHhCCHHHHHHHHHcCChHHHHHHHHhccchhhhHHHHHHHHHHHHHHhh
Confidence            5667777885    56788999999999988654321        1345566665443221    233344555544444


Q ss_pred             CCCC-------HHHHHHHHHhhccCChhhHHHHHHHhhcccCCCCCHHH---------HHHHHHHHHhcccchhhhHHHH
Q psy6893         725 GSAR-------DDIYEQLKFNLYQDDAVTGEAAGIAMGLVLLGSKSESA---------IQDMVAYAKETQHEKILRGLAV  788 (988)
Q Consensus       725 Gs~~-------~dv~~~L~~~l~~D~~~~~e~AalAlGLI~vGs~n~d~---------i~~ll~~~~etq~e~i~R~lal  788 (988)
                      +...       ..++..|..++.+++......|+.+++-+--+  +.+.         +..+++++. ..+..+.+..+.
T Consensus       220 ~~~~~~~~~~~~~~lp~L~~LL~~~~~~v~~~A~~aL~~L~~~--~~~~~~~i~~~g~i~~Lv~lL~-~~~~~v~~~al~  296 (510)
T 3ul1_B          220 NKNPAPPLDAVEQILPTLVRLLHHNDPEVLADSCWAISYLTDG--PNERIEMVVKKGVVPQLVKLLG-ATELPIVTPALR  296 (510)
T ss_dssp             CCSSCCCHHHHHHHHHHHHHHTTCSCHHHHHHHHHHHHHHTSS--CHHHHHHHHTTTCHHHHHHHHT-CSCHHHHHHHHH
T ss_pred             cccchhHHHHHHhHHHHHHHHHhcCCHHHHHHHHHHHHHHhhc--hhhhHHHHHhcccchhhhhhhc-CCChhhhhHHHH
Confidence            3321       12344455555444444445566666655333  3332         344555553 334556677777


Q ss_pred             HHHHHhcCCchhHHHHHH--------HHhcccchhhhhhcHHHHHHHHcCCCChhHHHHHHHHHHHhhhhhhhhhhhccC
Q psy6893         789 GISFIMYGQLENADDLVR--------DLCEEKDAILRRSGMYTIAMAYCGSGSNVATKRLLHDAILRRSGMYTIAMAYCG  860 (988)
Q Consensus       789 gLgLi~~Gr~e~a~~li~--------~L~~~~dp~~r~~~~~~lslAyaGtGnvl~iq~lL~~~~~~~lG~alia~g~~~  860 (988)
                      .|+-+..+..+....+++        .|...+++-.|..++++  ++.+..|+...++.+.                   
T Consensus       297 aL~nl~~~~~~~~~~i~~~g~l~~L~~LL~~~~~~v~~~A~~a--L~nl~a~~~~~~~~v~-------------------  355 (510)
T 3ul1_B          297 AIGNIVTGTDEQTQKVIDAGALAVFPSLLTNPKTNIQKEATWT--MSNITAGRQDQIQQVV-------------------  355 (510)
T ss_dssp             HHHHHTTSCHHHHHHHHHTTGGGGCC-CTTCSSHHHHHHHHHH--HHHHTTSCHHHHHHHH-------------------
T ss_pred             HHHHhhcCCHHHHHHHhhccchHHHHHHhcCCCHHHHHHHHHH--HHHHHcCcHHHHHHHH-------------------
Confidence            787777777666555554        12233344444443333  3333334432222111                   


Q ss_pred             CCchHHHHHhhhhhccCCChhhhhhHHhhhhhhhhh-hhhh
Q psy6893         861 SGSNVATKRLLHVAVSDVNDDVRREAVTALGFILFR-KKRT  900 (988)
Q Consensus       861 tgn~~air~ll~~~~sd~~~~vrraa~~alg~i~~~-npeq  900 (988)
                        +..++..|++++.+ .+.++|+.|+.+++-+... ++++
T Consensus       356 --~~g~i~~Lv~lL~~-~~~~v~~~Aa~aL~Nl~~~~~~~~  393 (510)
T 3ul1_B          356 --NHGLVPFLVGVLSK-ADFKTQKEAAWAITNYTSGGTVEQ  393 (510)
T ss_dssp             --HTTHHHHHHHHHHS-SCHHHHHHHHHHHHHHHHHCCHHH
T ss_pred             --hcCCHHHHHHHHcC-CCHHHHHHHHHHHHHHHccCCHHH
Confidence              12356677777655 5889999999888765543 4443

>1w63_A Adapter-related protein complex 1 gamma 1 subunit; endocytosis, clathrin adaptor, transport, coated PITS; 4.0A {Mus musculus} SCOP: i.23.1.1

Probab=96.03  E-value=0.96  Score=54.05  Aligned_cols=86  Identities=12%  Similarity=0.125  Sum_probs=47.1

Q ss_pred             hHHhhhccceecCCh-HHHHHHHhcccCCCCCCCCCccchhHHHHHhhhccCCCCchhHHHHHHhhhhcCCCchhHHHHH
Q psy6893         278 LTATASLGVIHRGHE-TEALAHMQSYLPRETGPTSGYYEGGGLYALGLIHANHGAVINDYLLGQVKDATNEDDAVTGEAA  356 (988)
Q Consensus       278 ~sAtASLG~Ih~~~~-~~gl~~l~~yL~s~~~~~~~y~~~GaL~alGli~~g~~~~~~d~l~~lL~~~~~~d~~~~~~aA  356 (988)
                      -.|.-+||.|.--+. +.-+..+.++|-+    +++|++--|+++++-++...+. ....++..|.+.+...++.+..+|
T Consensus       125 ~lAL~~L~~i~~~~~~~~l~~~l~~~L~~----~~~~VRk~A~~al~~l~~~~p~-~v~~~~~~l~~lL~D~d~~V~~~A  199 (618)
T 1w63_A          125 GLALCTLGCMGSSEMCRDLAGEVEKLLKT----SNSYLRKKAALCAVHVIRKVPE-LMEMFLPATKNLLNEKNHGVLHTS  199 (618)
T ss_dssp             HHHHHHHHHHCCHHHHHHHHHHHHHHHHS----CCHHHHHHHHHHHHHHHHHCGG-GGGGGGGGTTTSTTCCCHHHHHHH
T ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHHHcC----CCHHHHHHHHHHHHHHHHHChH-HHHHHHHHHHHHhCCCCHhHHHHH
Confidence            345555555542111 1124555566654    4678888888888777765554 333444555555554556666666


Q ss_pred             HHHHHHhhccCCCh
Q psy6893         357 GIAMGLVLLGSKSE  370 (988)
Q Consensus       357 ~lglGL~~~Gs~~~  370 (988)
                      ..+|+-  ++..+.
T Consensus       200 l~~L~~--i~~~~~  211 (618)
T 1w63_A          200 VVLLTE--MCERSP  211 (618)
T ss_dssp             HHHHHH--HCCSHH
T ss_pred             HHHHHH--HHHhCh
Confidence            666653  344443

>3ul1_B Importin subunit alpha-2; arm repeat, armadillo repeat, nuclear transport, nuclear LOC signal binding, importin beta binding; 1.90A {Mus musculus} PDB: 3ukx_B 3uky_B 3ukz_B 3ukw_B 3ul0_B 3oqs_A 3rz9_A 3rzx_A 3uvu_A 1q1s_C 1q1t_C 3knd_A 1ejy_I 1iq1_C 1ejl_I 1pjn_B 1pjm_B 3q5u_A 3fey_C 3fex_C ...

Probab=95.99  E-value=1.5  Score=50.94  Aligned_cols=54  Identities=19%  Similarity=0.186  Sum_probs=34.4

Q ss_pred             HHHHHHHHhccCCCchhhHHHHHHHHHHhhcCccccccccCCCCchhHHhhccch
Q psy6893         473 ATKRLLHVAVSDVNDDVRREAVTALGFILFRTLFYVAPACTRSPWPGVISLLDDP  527 (988)
Q Consensus       473 ~Iq~LLhi~~s~~~~dvrr~AV~~lg~I~~~~~~~~g~~~~~~~~p~ai~lL~~~  527 (988)
                      +|..|++++. +.++++|..|+-+||-|+...+-.--......++|..+.+|..+
T Consensus       144 aIp~Lv~lL~-s~~~~v~e~A~~aL~nLa~d~~~~r~~v~~~G~i~~Ll~lL~~~  197 (510)
T 3ul1_B          144 AIPAFISLLA-SPHAHISEQAVWALGNIAGDGSAFRDLVIKHGAIDPLLALLAVP  197 (510)
T ss_dssp             HHHHHHHHTT-CSCHHHHHHHHHHHHHHHTTCHHHHHHHHHTTCHHHHHHHTCSS
T ss_pred             CHHHHHHHHc-CCCHHHHHHHHHHHHHHHhCCHHHHHHHHHcCChHHHHHHHHhc
Confidence            4667777765 46778999999999999875431000001123567777777654

>2z6g_A B-catenin; FULL-length, beta-catenin, cell adhesion; 3.40A {Danio rerio}

Probab=95.95  E-value=0.26  Score=60.64  Aligned_cols=216  Identities=11%  Similarity=0.036  Sum_probs=102.8

Q ss_pred             HHHHHhhcCCCCCCCCCccchhhHHHHHhhhccCCch--------HHHHHHHHHhhhcCchhhHHHHHHhhHhhhcCCCC
Q psy6893         657 ALAHMQSYLPRETGPTSGYYEGGGLYALGLIHANHGA--------VINDYLLGQVKDATNEMVRHGGCLGLGLAAMGSAR  728 (988)
Q Consensus       657 ~l~~L~~yL~~~~~s~~~~~k~GAL~AlGlI~ag~~~--------~~~~~Ll~~l~~s~~~~ir~gA~LGLGla~~Gs~~  728 (988)
                      ++..|-..+.    +++...+.-++.+|..+..++..        ..+..|...+.+...+..+..++-.|........+
T Consensus       277 ~v~~Lv~lL~----~~~~~v~~~a~~aL~~La~~~~e~~~~i~~~~~i~~Lv~lL~~~~~~~~~~~a~~aL~~Ls~~~~~  352 (780)
T 2z6g_A          277 GLQKMVALLN----KTNVKFLAITTDCLQILAYGNQESKLIILASGGPQALVNIMRTYTYEKLLWTTSRVLKVLSVCSSN  352 (780)
T ss_dssp             HHHHHHHGGG----CCCHHHHHHHHHHHHHHHTTCHHHHHHHHTTTHHHHHHHHHTTCCCHHHHHHHHHHHHHHHTSTTH
T ss_pred             CHHHHHHHHh----cCCHHHHHHHHHHHHHHhcCChHHHHHHHHcCCHHHHHHHHhcCCHHHHHHHHHHHHHHhhcChHH
Confidence            5555666664    23444555565566655443311        23555666665554444444444444333322222


Q ss_pred             HH------HHHHHHHhhccCChhhHHHHHHHhhcccCCC----CCHHHHHHHHHHHHhcccchhhhHHHHHHHHHhcCCc
Q psy6893         729 DD------IYEQLKFNLYQDDAVTGEAAGIAMGLVLLGS----KSESAIQDMVAYAKETQHEKILRGLAVGISFIMYGQL  798 (988)
Q Consensus       729 ~d------v~~~L~~~l~~D~~~~~e~AalAlGLI~vGs----~n~d~i~~ll~~~~etq~e~i~R~lalgLgLi~~Gr~  798 (988)
                      ..      ++..|..++...+....+.|+.+++-+.-+.    +...++..+++++.. .+..+.+.++..|+-+..+..
T Consensus       353 ~~~i~~~g~l~~Ll~lL~~~~~~~~~~a~~~L~~L~~~~~~~~~~~~~i~~Lv~lL~~-~d~~vr~~A~~aL~~L~~~~~  431 (780)
T 2z6g_A          353 KPAIVEAGGMQALGLHLTDPSQRLVQNCLWTLRNLSDAATKQEGMEGLLGTLVQLLGS-DDINVVTCAAGILSNLTCNNY  431 (780)
T ss_dssp             HHHHHHTTHHHHHGGGTTCSCHHHHHHHHHHHHHHHTTCTTCSCCHHHHHHHHHHTTC-SCHHHHHHHHHHHHHHTSSCH
T ss_pred             HHHHHHhchHHHHHHHHcCCchHHHHHHHHHHHHHhccchhhhhhhhHHHHHHHHHcC-CCHHHHHHHHHHHHHHHhCCH
Confidence            22      2345555553333223333444444332221    234567777776643 334444555556665655543


Q ss_pred             ---------hhHHHHHHHHhcccch-hhhhhcHHHHHHHHcCCCChhH--HHHHHHHHHHhhhhhhhhhhhccCCCchHH
Q psy6893         799 ---------ENADDLVRDLCEEKDA-ILRRSGMYTIAMAYCGSGSNVA--TKRLLHDAILRRSGMYTIAMAYCGSGSNVA  866 (988)
Q Consensus       799 ---------e~a~~li~~L~~~~dp-~~r~~~~~~lslAyaGtGnvl~--iq~lL~~~~~~~lG~alia~g~~~tgn~~a  866 (988)
                               ..+..+++.|....++ -.+...+.  +++.+..++...  .|..+                    ....+
T Consensus       432 ~~~~~i~~~g~i~~Lv~lL~~~~~~~~v~~~Al~--aL~nL~~~~~~~~~~~~~v--------------------~~~~~  489 (780)
T 2z6g_A          432 KNKMMVCQVGGIEALVRTVLRAGDREDITEPAIC--ALRHLTSRHQDAEMAQNAV--------------------RLHYG  489 (780)
T ss_dssp             HHHHHHHTTTHHHHHHHHHHHHTTCHHHHHHHHH--HHHHTTSSSTTHHHHHHHH--------------------HHTTC
T ss_pred             HHHHHHHHCCCHHHHHHHHHccCCHHHHHHHHHH--HHHHHHhcCchHHHHHHHH--------------------HHcCC
Confidence                     2355566665543332 33333222  222222221100  00000                    01224


Q ss_pred             HHHhhhhhccCCChhhhhhHHhhhhhhhhhhhh
Q psy6893         867 TKRLLHVAVSDVNDDVRREAVTALGFILFRKKR  899 (988)
Q Consensus       867 ir~ll~~~~sd~~~~vrraa~~alg~i~~~npe  899 (988)
                      +..|+.++.++.++.+|++++.+++-+...++.
T Consensus       490 l~~L~~lL~~~~~~~v~~~A~~aL~nLa~~~~~  522 (780)
T 2z6g_A          490 LPVVVKLLHPPSHWPLIKATVGLIRNLALCPAN  522 (780)
T ss_dssp             HHHHHHTTSTTCCHHHHHHHHHHHHHHHSSHHH
T ss_pred             HHHHHHHhcCCChHHHHHHHHHHHHHHhcCHHH
Confidence            667777776654458999999999888764433

>4db8_A Armadillo-repeat protein; solenoid repeat, de novo protein; 2.50A {Synthetic construct}

Probab=95.82  E-value=0.087  Score=54.32  Aligned_cols=197  Identities=17%  Similarity=0.158  Sum_probs=103.9

Q ss_pred             CCCccchhhHHHHHhhhccCCch--------HHHHHHHHHhhhcCchhhHHHHHHhhHhhhcCCCC-------HHHHHHH
Q psy6893         671 PTSGYYEGGGLYALGLIHANHGA--------VINDYLLGQVKDATNEMVRHGGCLGLGLAAMGSAR-------DDIYEQL  735 (988)
Q Consensus       671 s~~~~~k~GAL~AlGlI~ag~~~--------~~~~~Ll~~l~~s~~~~ir~gA~LGLGla~~Gs~~-------~dv~~~L  735 (988)
                      ++++.++.-|+.+|.-+-+....        .++..|...+.+ ++..++..|+..|+-...++..       ..++..|
T Consensus        23 s~~~~~~~~a~~~L~~~l~~~~~~~~~~~~~g~i~~L~~lL~~-~~~~v~~~a~~~L~~l~~~~~~~~~~i~~~g~i~~L  101 (252)
T 4db8_A           23 SDDMQEQLSATRKFSQILSDGNEQIQAVIDAGALPALVQLLSS-PNEQILQEALWALSNIASGGNEQIQAVIDAGALPAL  101 (252)
T ss_dssp             SSCSSHHHHHHHHHHHHHHHHHHHHHHHHHTTHHHHHHHGGGC-SCHHHHHHHHHHHHHHTTSCHHHHHHHHHTTHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHHcCCCchHHHHHHcCcHHHHHHHHcC-CCHHHHHHHHHHHHHHhcCCHHHHHHHHHcCCHHHH
Confidence            45566677777777432222110        145566655543 4467788888888765443211       1145666


Q ss_pred             HHhhccCChhhHHHHHHHhhcccCCCCCH-------HHHHHHHHHHHhcccchhhhHHHHHHHHHhcCCch---------
Q psy6893         736 KFNLYQDDAVTGEAAGIAMGLVLLGSKSE-------SAIQDMVAYAKETQHEKILRGLAVGISFIMYGQLE---------  799 (988)
Q Consensus       736 ~~~l~~D~~~~~e~AalAlGLI~vGs~n~-------d~i~~ll~~~~etq~e~i~R~lalgLgLi~~Gr~e---------  799 (988)
                      ..++..++....+.|+.+++-+-.+..+.       .++..+++++.+ .+..+.+..+..|+-+..+..+         
T Consensus       102 ~~lL~~~~~~v~~~a~~~L~~l~~~~~~~~~~~~~~~~i~~L~~lL~~-~~~~v~~~a~~~L~~l~~~~~~~~~~~~~~~  180 (252)
T 4db8_A          102 VQLLSSPNEQILQEALWALSNIASGGNEQIQAVIDAGALPALVQLLSS-PNEQILQEALWALSNIASGGNEQIQAVIDAG  180 (252)
T ss_dssp             HHGGGCSCHHHHHHHHHHHHHHTTSCHHHHHHHHHTTHHHHHHHGGGC-SCHHHHHHHHHHHHHHTTSCHHHHHHHHHTT
T ss_pred             HHHHcCCCHHHHHHHHHHHHHhhcCCchHHHHHHHCCCHHHHHHHHhC-CCHHHHHHHHHHHHHHHcCChHHHHHHHHCC
Confidence            66665544444556777777765443332       234555555532 2344445555566666554433         


Q ss_pred             hHHHHHHHHhcccchhhhhhcHHHHHHHHcCCCChhHHHHHHHHHHHhhhhhhhhhhhccCCCchHHHHHhhhhhccCCC
Q psy6893         800 NADDLVRDLCEEKDAILRRSGMYTIAMAYCGSGSNVATKRLLHDAILRRSGMYTIAMAYCGSGSNVATKRLLHVAVSDVN  879 (988)
Q Consensus       800 ~a~~li~~L~~~~dp~~r~~~~~~lslAyaGtGnvl~iq~lL~~~~~~~lG~alia~g~~~tgn~~air~ll~~~~sd~~  879 (988)
                      .+..+++.|.. +++..+...+.++  ..+..+++...+.+                     ....++..|.+++.+ ++
T Consensus       181 ~i~~L~~ll~~-~~~~v~~~a~~~L--~~l~~~~~~~~~~~---------------------~~~g~i~~L~~ll~~-~~  235 (252)
T 4db8_A          181 ALPALVQLLSS-PNEQILQEALWAL--SNIASGGNEQKQAV---------------------KEAGALEKLEQLQSH-EN  235 (252)
T ss_dssp             CHHHHHHGGGC-SSHHHHHHHHHHH--HHHTTSCHHHHHHH---------------------HHTTHHHHHHTTTTC-SS
T ss_pred             CHHHHHHHHCC-CCHHHHHHHHHHH--HHHhcCCHHHHHHH---------------------HHCCcHHHHHHHhCC-CC
Confidence            24455555543 3444444433322  22222332111111                     112367778887755 58


Q ss_pred             hhhhhhHHhhhhhhh
Q psy6893         880 DDVRREAVTALGFIL  894 (988)
Q Consensus       880 ~~vrraa~~alg~i~  894 (988)
                      +++|+.|..+|+-+.
T Consensus       236 ~~v~~~A~~~L~~l~  250 (252)
T 4db8_A          236 EKIQKEAQEALEKLQ  250 (252)
T ss_dssp             SHHHHTHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHHh
Confidence            899999998887654

>4fdd_A Transportin-1; heat repeats, karyopherin, nuclear import, protein transport importin, transportin, transport protein; 2.30A {Homo sapiens} PDB: 2ot8_A 2h4m_A 2z5k_A 2z5j_A 2qmr_A 2z5m_A 2z5n_A 2z5o_A 1qbk_B*

Probab=95.67  E-value=3.7  Score=50.40  Aligned_cols=210  Identities=13%  Similarity=0.090  Sum_probs=105.0

Q ss_pred             HHHHHHhhcCCCCCCCCCccchhhHHHHHhhhccCCch-------HHHHHHHHHhhhcCchhhHHHHHHhhHhhhc----
Q psy6893         656 EALAHMQSYLPRETGPTSGYYEGGGLYALGLIHANHGA-------VINDYLLGQVKDATNEMVRHGGCLGLGLAAM----  724 (988)
Q Consensus       656 ~~l~~L~~yL~~~~~s~~~~~k~GAL~AlGlI~ag~~~-------~~~~~Ll~~l~~s~~~~ir~gA~LGLGla~~----  724 (988)
                      ..+..|-..+.    ..++.+|..|+-+|+.+....+.       .++.+++..+ .+.++.+|..|+..+.-..-    
T Consensus       215 ~~l~~l~~~~~----d~~~~vr~~a~~~L~~l~~~~~~~~~~~l~~l~~~l~~~~-~~~~~~vr~~a~e~l~~l~~~~~~  289 (852)
T 4fdd_A          215 SFIENLFALAG----DEEPEVRKNVCRALVMLLEVRMDRLLPHMHNIVEYMLQRT-QDQDENVALEACEFWLTLAEQPIC  289 (852)
T ss_dssp             HHHHHHHHHHT----CCCHHHHHHHHHHHHHHHHHCHHHHGGGHHHHHHHHHHHH-TCSSHHHHHHHHHHHHHHTTSTTH
T ss_pred             HHHHHHHHHcC----CCCHHHHHHHHHHHHHHHHhCHHHHHHHHHHHHHHHHHHc-cCCcHHHHHHHHHHHHHHhcchhH
Confidence            34444444443    45678899999999887554432       2455555444 34567889988877654321    


Q ss_pred             ----CCCCHHHHHHHHHhhc----------cC-----------Ch-hhHHHHHHHhhcccCCCCCHHHHHHHHHHHHhc-
Q psy6893         725 ----GSARDDIYEQLKFNLY----------QD-----------DA-VTGEAAGIAMGLVLLGSKSESAIQDMVAYAKET-  777 (988)
Q Consensus       725 ----Gs~~~dv~~~L~~~l~----------~D-----------~~-~~~e~AalAlGLI~vGs~n~d~i~~ll~~~~et-  777 (988)
                          ...-..++..|++.+.          .|           +. .....|+-+++.+.-.-+ .+++..+++++.+. 
T Consensus       290 ~~~~~~~~~~l~p~ll~~l~~~e~d~~~~~~d~~ed~~~dd~~~~~~vr~~a~~~L~~la~~~~-~~~~~~l~~~l~~~l  368 (852)
T 4fdd_A          290 KDVLVRHLPKLIPVLVNGMKYSDIDIILLKGDVEGGSGGDDTISDWNLRKCSAAALDVLANVYR-DELLPHILPLLKELL  368 (852)
T ss_dssp             HHHHTTTHHHHHHHHHHHTSCCHHHHHHHHC------------CCCCHHHHHHHHHHHHHHHHG-GGGHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHcCCcHhHHHHhcCCcccccccccccccchHHHHHHHHHHHHHHhcc-HHHHHHHHHHHHHHh
Confidence                1111233334444331          22           00 113345555554432222 35556666655432 


Q ss_pred             --ccchhhhHHHHHHHHHhcCCchhH----HHHH---HHHhcccchhhhhhcHHHHHHHHcCCCChhHHHHHHHHHHHhh
Q psy6893         778 --QHEKILRGLAVGISFIMYGQLENA----DDLV---RDLCEEKDAILRRSGMYTIAMAYCGSGSNVATKRLLHDAILRR  848 (988)
Q Consensus       778 --q~e~i~R~lalgLgLi~~Gr~e~a----~~li---~~L~~~~dp~~r~~~~~~lslAyaGtGnvl~iq~lL~~~~~~~  848 (988)
                        .+.......+.+||-+.-|..+..    ..++   -.+..+++|..|...+++++  .++                  
T Consensus       369 ~~~~~~~R~aa~~alg~i~~~~~~~~~~~l~~~l~~l~~~l~d~~~~Vr~~a~~~l~--~l~------------------  428 (852)
T 4fdd_A          369 FHHEWVVKESGILVLGAIAEGCMQGMIPYLPELIPHLIQCLSDKKALVRSITCWTLS--RYA------------------  428 (852)
T ss_dssp             TCSSHHHHHHHHHHHHHTTTTTHHHHGGGHHHHHHHHHHHTTCSSHHHHHHHHHHHH--HTH------------------
T ss_pred             cCCCHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHH--HHH------------------
Confidence              222233345556776665554321    1122   22224556666665554443  111                  


Q ss_pred             hhhhhhhhhcc--CCCchHHHHHhhhhhccCCChhhhhhHHhhhhhhhhhh
Q psy6893         849 SGMYTIAMAYC--GSGSNVATKRLLHVAVSDVNDDVRREAVTALGFILFRK  897 (988)
Q Consensus       849 lG~alia~g~~--~tgn~~air~ll~~~~sd~~~~vrraa~~alg~i~~~n  897 (988)
                           -.++..  ..--...+..|++.+. |.+..||.+++.+++.+....
T Consensus       429 -----~~~~~~~~~~~~~~ll~~L~~~L~-d~~~~vr~~a~~aL~~l~~~~  473 (852)
T 4fdd_A          429 -----HWVVSQPPDTYLKPLMTELLKRIL-DSNKRVQEAACSAFATLEEEA  473 (852)
T ss_dssp             -----HHHHHSCTTTTHHHHHHHHHHHHT-CSSHHHHHHHHHHHHHHHHHH
T ss_pred             -----HHhccchHHHHHHHHHHHHHHHHh-CCCHHHHHHHHHHHHHHHHHh
Confidence                 001110  0122345666666543 568899999999998877543

>1wa5_B Importin alpha subunit; nuclear transport/complex, nuclear transport, exportin, RAN GTPase, protein transport; HET: GTP; 2.0A {Saccharomyces cerevisiae} SCOP: a.118.1.1 PDB: 1un0_A 2c1t_A 1bk5_A 1ee5_A 1bk6_A 1ee4_A

Probab=95.67  E-value=0.051  Score=63.17  Aligned_cols=35  Identities=14%  Similarity=0.128  Sum_probs=26.2

Q ss_pred             HHHHhhhhhccCCChhhhhhHHhhhhhhhhhhhhhh
Q psy6893         866 ATKRLLHVAVSDVNDDVRREAVTALGFILFRKKRTR  901 (988)
Q Consensus       866 air~ll~~~~sd~~~~vrraa~~alg~i~~~npeq~  901 (988)
                      ++..|+.++.+ ++..+|..|+.+++-+...+++..
T Consensus       342 ~l~~L~~lL~~-~~~~vr~~A~~aL~~l~~~~~~~~  376 (530)
T 1wa5_B          342 VLPALRLLLSS-PKENIKKEACWTISNITAGNTEQI  376 (530)
T ss_dssp             HHHHHHHHTTC-SCHHHHHHHHHHHHHHTTSCHHHH
T ss_pred             hHHHHHHHHcC-CCHHHHHHHHHHHHHHHcCCHHHH
Confidence            56667677655 478999999999999887666544

>3tpo_A Importin subunit alpha-2; nuclear import, protein transport; 2.10A {Mus musculus} PDB: 1qgk_B 1qgr_B

Probab=95.50  E-value=0.44  Score=55.57  Aligned_cols=129  Identities=12%  Similarity=0.095  Sum_probs=74.4

Q ss_pred             HHHHHHHhhcCCCCCCCCCccchhhHHHHHhhhccCCch--------HHHHHHHHHhhhcCchhhHHHHHHhhHhhhcCC
Q psy6893         655 TEALAHMQSYLPRETGPTSGYYEGGGLYALGLIHANHGA--------VINDYLLGQVKDATNEMVRHGGCLGLGLAAMGS  726 (988)
Q Consensus       655 ~~~l~~L~~yL~~~~~s~~~~~k~GAL~AlGlI~ag~~~--------~~~~~Ll~~l~~s~~~~ir~gA~LGLGla~~Gs  726 (988)
                      ..++..|..++.    ++++.++.-|+.+|+-+..+...        .++..|...+ .+.+..++..|+-.||-...|+
T Consensus       250 ~~~lp~L~~LL~----~~~~~v~~~a~~aL~~l~~~~~~~~~~v~~~g~i~~Lv~lL-~~~~~~v~~~a~~aL~nl~~~~  324 (529)
T 3tpo_A          250 EQILPTLVRLLH----HNDPEVLADSCWAISYLTDGPNERIEMVVKKGVVPQLVKLL-GATELPIVTPALRAIGNIVTGT  324 (529)
T ss_dssp             HHHHHHHHHHTT----SSCHHHHHHHHHHHHHHHSSCHHHHHHHHTTTCHHHHHHHH-TCSCHHHHHHHHHHHHHHTTSC
T ss_pred             hhHHHHHHHHhc----CCcHHHHHHHHHHHHHhhhhhhhhHHHHHhccchHHHHHHh-cCCChhHHHHHHHHHHHHHccc
Confidence            356677777775    56677888888888877665432        1244555544 4556778888888888665443


Q ss_pred             CCH-------HHHHHHHHhhccCChhhHHHHHHHhhcccCCCCCHHH---------HHHHHHHHHhcccchhhhHHHHHH
Q psy6893         727 ARD-------DIYEQLKFNLYQDDAVTGEAAGIAMGLVLLGSKSESA---------IQDMVAYAKETQHEKILRGLAVGI  790 (988)
Q Consensus       727 ~~~-------dv~~~L~~~l~~D~~~~~e~AalAlGLI~vGs~n~d~---------i~~ll~~~~etq~e~i~R~lalgL  790 (988)
                      ...       .++..|..++.+.+....+.|+.+++-+..|  +.+.         +..++.++. +.+..+.+..+.+|
T Consensus       325 ~~~~~~i~~~g~l~~L~~LL~~~~~~i~~~a~~aL~nl~~~--~~~~~~~v~~~g~i~~Lv~lL~-~~~~~v~~~A~~aL  401 (529)
T 3tpo_A          325 DEQTQKVIDAGALAVFPSLLTNPKTNIQKEATWTMSNITAG--RQDQIQQVVNHGLVPFLVGVLS-KADFKTQKAAAWAI  401 (529)
T ss_dssp             HHHHHHHHHTTGGGGHHHHTTCSSHHHHHHHHHHHHHHHTS--CHHHHHHHHHTTHHHHHHHHHH-SSCHHHHHHHHHHH
T ss_pred             hHHHHHHhhcccHHHHHHHHcCCCHHHHHHHHHHHHHHhcc--cHHHHHHHHhcCcHHHHHHHhc-CCCHHHHHHHHHHH
Confidence            211       1223455556444444455678888877555  4443         333444443 23344445555555


Q ss_pred             H
Q psy6893         791 S  791 (988)
Q Consensus       791 g  791 (988)
                      +
T Consensus       402 ~  402 (529)
T 3tpo_A          402 T  402 (529)
T ss_dssp             H
T ss_pred             H
Confidence            4

>1te4_A Conserved protein MTH187; methanobacterium thermoautotrophicum, structural proteomics, heat-like repeat; NMR {Methanothermobacterthermautotrophicus} SCOP: a.118.1.16

Probab=95.44  E-value=0.0077  Score=57.04  Aligned_cols=111  Identities=14%  Similarity=0.168  Sum_probs=63.5

Q ss_pred             cCCCchhHHHHHHHHHHHhhccCCChhHHHHHHHhhhhcchHHHHHHHHHHHHHHhcCChhhHHHHHHHHhhcchhhhhc
Q psy6893         345 TNEDDAVTGEAAGIAMGLVLLGSKSESAIQDMVAYAKETQHEKILRGLAVGISFIMYGQLENADDLVRDLCEEKDAILRR  424 (988)
Q Consensus       345 ~~~d~~~~~~aA~lglGL~~~Gs~~~~~~~~L~~~~~dt~~E~~~r~lalgl~~v~~g~~e~a~~li~~L~~~~d~~lr~  424 (988)
                      +.++++..+..|+.+||  ..|...   +..|+..+.|.+ ..+++..+.+|+.+  |+.+.+..+++.| .++++..|.
T Consensus        21 L~~~~~~vR~~A~~~L~--~~~~~~---~~~L~~~L~d~~-~~vR~~A~~aL~~~--~~~~a~~~L~~~L-~d~~~~VR~   91 (131)
T 1te4_A           21 MADENKWVRRDVSTALS--RMGDEA---FEPLLESLSNED-WRIRGAAAWIIGNF--QDERAVEPLIKLL-EDDSGFVRS   91 (131)
T ss_dssp             CCSSCCCSSSSCCSSTT--SCSSTT---HHHHHHGGGCSC-HHHHHHHHHHHGGG--CSHHHHHHHHHHH-HHCCTHHHH
T ss_pred             hcCCCHHHHHHHHHHHH--HhCchH---HHHHHHHHcCCC-HHHHHHHHHHHHhc--CCHHHHHHHHHHH-cCCCHHHHH
Confidence            33445556666665555  334332   466666666533 23333334444433  3566666777655 556666666


Q ss_pred             cchhHHHHHhhhhhhhccccchhhHHhhccchhHHHHHhhhccCCCHHHHHHHHHHhccCCCchhhHHHHHHHHHH
Q psy6893         425 SGMYTIAMAYCVSYLYFDLFSDLTYRIVKNRSGMYTIAMAYCGSGSNVATKRLLHVAVSDVNDDVRREAVTALGFI  500 (988)
Q Consensus       425 ~~~~~~~l~l~Lgll~~g~~~e~~l~~~~~~~~~~~~~~AYaGTGN~~~Iq~LLhi~~s~~~~dvrr~AV~~lg~I  500 (988)
                      .+                                 +.+++..|  +..++..|+..+ .+.+..||..|+.+|+-|
T Consensus        92 ~A---------------------------------~~aL~~~~--~~~a~~~L~~~l-~d~~~~vr~~A~~aL~~i  131 (131)
T 1te4_A           92 GA---------------------------------ARSLEQIG--GERVRAAMEKLA-ETGTGFARKVAVNYLETH  131 (131)
T ss_dssp             HH---------------------------------HHHHHHHC--SHHHHHHHHHHT-TSCCTHHHHHHHHHGGGC
T ss_pred             HH---------------------------------HHHHHHhC--cHHHHHHHHHHH-hCCCHHHHHHHHHHHHhC
Confidence            32                                 34444444  567777777766 466777888888887643

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=95.32  E-value=5.4  Score=45.61  Aligned_cols=217  Identities=9%  Similarity=0.001  Sum_probs=102.0

Q ss_pred             ccccCChHHHHHHHhhcCCCCCCCCCccchhhHHHHHhhh--ccCCchHHHHHHHHHhhhcCchhhHHHHHHhhHhhhcC
Q psy6893         648 VIHRGHETEALAHMQSYLPRETGPTSGYYEGGGLYALGLI--HANHGAVINDYLLGQVKDATNEMVRHGGCLGLGLAAMG  725 (988)
Q Consensus       648 ~Ih~gn~~~~l~~L~~yL~~~~~s~~~~~k~GAL~AlGlI--~ag~~~~~~~~Ll~~l~~s~~~~ir~gA~LGLGla~~G  725 (988)
                      ....|+.++++..+...+..    .....  -+.+.+|.+  ..|...++...+...+...++. ..  +...+|.+|.-
T Consensus       349 ~~~~g~~~~A~~~~~~~~~~----~~~~~--~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~-~~--~~~~l~~~~~~  419 (597)
T 2xpi_A          349 LHESGEKNKLYLISNDLVDR----HPEKA--VTWLAVGIYYLCVNKISEARRYFSKSSTMDPQF-GP--AWIGFAHSFAI  419 (597)
T ss_dssp             HHHHTCHHHHHHHHHHHHHH----CTTSH--HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTC-HH--HHHHHHHHHHH
T ss_pred             HHHhCCHHHHHHHHHHHHhh----CcccH--HHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCC-HH--HHHHHHHHHHH
Confidence            34567777788777766521    11122  233333333  3344444555554333222221 11  22233333333


Q ss_pred             CCC-HHHHHHHHHhhccCChhhHHHHHHHhhcccCCCCCHHHHHHHHHHHHhcccchhhhHHHHHHHHHhcCCchhHHHH
Q psy6893         726 SAR-DDIYEQLKFNLYQDDAVTGEAAGIAMGLVLLGSKSESAIQDMVAYAKETQHEKILRGLAVGISFIMYGQLENADDL  804 (988)
Q Consensus       726 s~~-~dv~~~L~~~l~~D~~~~~e~AalAlGLI~vGs~n~d~i~~ll~~~~etq~e~i~R~lalgLgLi~~Gr~e~a~~l  804 (988)
                      .++ +++++.+...+..+....  .+-..+|.++.-.|+.+-...+++-+.+...+...-...++..+...|+.+++..+
T Consensus       420 ~g~~~~A~~~~~~~~~~~~~~~--~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  497 (597)
T 2xpi_A          420 EGEHDQAISAYTTAARLFQGTH--LPYLFLGMQHMQLGNILLANEYLQSSYALFQYDPLLLNELGVVAFNKSDMQTAINH  497 (597)
T ss_dssp             HTCHHHHHHHHHHHHHTTTTCS--HHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHhCccch--HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCHHHHHHH
Confidence            333 233444443332222111  12223333333334544444433333222222223344555556667787777777


Q ss_pred             HHHHhccc-----chhhhhhcHHHHHHHHcCCCChhHHHHHHHHHHH---------hhhhhhhhhhhccCCCchHHHHHh
Q psy6893         805 VRDLCEEK-----DAILRRSGMYTIAMAYCGSGSNVATKRLLHDAIL---------RRSGMYTIAMAYCGSGSNVATKRL  870 (988)
Q Consensus       805 i~~L~~~~-----dp~~r~~~~~~lslAyaGtGnvl~iq~lL~~~~~---------~~lG~alia~g~~~tgn~~air~l  870 (988)
                      ++.+....     +|.........++..|+-.|+.....+.+..+..         ..+|.++...|+-    +.|++.+
T Consensus       498 ~~~~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~----~~A~~~~  573 (597)
T 2xpi_A          498 FQNALLLVKKTQSNEKPWAATWANLGHAYRKLKMYDAAIDALNQGLLLSTNDANVHTAIALVYLHKKIP----GLAITHL  573 (597)
T ss_dssp             HHHHHHHHHHSCCCSGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHTTCH----HHHHHHH
T ss_pred             HHHHHHhhhccccchhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCH----HHHHHHH
Confidence            77665431     3332223345666677777787777776666553         3455555555554    5556555


Q ss_pred             hhhhccCCC
Q psy6893         871 LHVAVSDVN  879 (988)
Q Consensus       871 l~~~~sd~~  879 (988)
                      -..+..+|+
T Consensus       574 ~~~l~~~p~  582 (597)
T 2xpi_A          574 HESLAISPN  582 (597)
T ss_dssp             HHHHHHCTT
T ss_pred             HHHHhcCCC
Confidence            555555553

>1te4_A Conserved protein MTH187; methanobacterium thermoautotrophicum, structural proteomics, heat-like repeat; NMR {Methanothermobacterthermautotrophicus} SCOP: a.118.1.16

Probab=95.26  E-value=0.04  Score=52.07  Aligned_cols=103  Identities=13%  Similarity=0.154  Sum_probs=59.2

Q ss_pred             chhhhhhhhcccccCChHHHHHHHhhcCCCCCCCCCccchhhHHHHHhhhccCCchHHHHHHHHHhhhcCchhhHHHHHH
Q psy6893         638 AKLTATASLGVIHRGHETEALAHMQSYLPRETGPTSGYYEGGGLYALGLIHANHGAVINDYLLGQVKDATNEMVRHGGCL  717 (988)
Q Consensus       638 ~kfsA~ASLG~Ih~gn~~~~l~~L~~yL~~~~~s~~~~~k~GAL~AlGlI~ag~~~~~~~~Ll~~l~~s~~~~ir~gA~L  717 (988)
                      -+..|+..||.+..  .  +...|...|.    +.++.+|..|+.+||.+.  . ..++..|...+. +++..+|..|+.
T Consensus        28 vR~~A~~~L~~~~~--~--~~~~L~~~L~----d~~~~vR~~A~~aL~~~~--~-~~a~~~L~~~L~-d~~~~VR~~A~~   95 (131)
T 1te4_A           28 VRRDVSTALSRMGD--E--AFEPLLESLS----NEDWRIRGAAAWIIGNFQ--D-ERAVEPLIKLLE-DDSGFVRSGAAR   95 (131)
T ss_dssp             SSSSCCSSTTSCSS--T--THHHHHHGGG----CSCHHHHHHHHHHHGGGC--S-HHHHHHHHHHHH-HCCTHHHHHHHH
T ss_pred             HHHHHHHHHHHhCc--h--HHHHHHHHHc----CCCHHHHHHHHHHHHhcC--C-HHHHHHHHHHHc-CCCHHHHHHHHH
Confidence            45666666665543  2  2355555664    445677777777777762  2 234555555553 345677777777


Q ss_pred             hhHhhhcCCCCHHHHHHHHHhhccCChhhHHHHHHHhhc
Q psy6893         718 GLGLAAMGSARDDIYEQLKFNLYQDDAVTGEAAGIAMGL  756 (988)
Q Consensus       718 GLGla~~Gs~~~dv~~~L~~~l~~D~~~~~e~AalAlGL  756 (988)
                      +||..  |  ++++...|...+..++......|+.+++.
T Consensus        96 aL~~~--~--~~~a~~~L~~~l~d~~~~vr~~A~~aL~~  130 (131)
T 1te4_A           96 SLEQI--G--GERVRAAMEKLAETGTGFARKVAVNYLET  130 (131)
T ss_dssp             HHHHH--C--SHHHHHHHHHHTTSCCTHHHHHHHHHGGG
T ss_pred             HHHHh--C--cHHHHHHHHHHHhCCCHHHHHHHHHHHHh
Confidence            77763  3  56666777766643233334456666654

>2z6h_A Catenin beta-1, beta-catenin; C-terminal domain, activator, alternative splicing, cell adhesion, cytoplasm, cytoskeleton, disease mutation, nucleus; 2.20A {Homo sapiens}

Probab=95.23  E-value=1.9  Score=51.30  Aligned_cols=33  Identities=3%  Similarity=-0.035  Sum_probs=24.4

Q ss_pred             HHHHhhhhhccCCChhhhhhHHhhhhhhhhhhh
Q psy6893         866 ATKRLLHVAVSDVNDDVRREAVTALGFILFRKK  898 (988)
Q Consensus       866 air~ll~~~~sd~~~~vrraa~~alg~i~~~np  898 (988)
                      ++..|.+++.++.++.++++++.+++-+...+.
T Consensus       353 ~l~~L~~lL~~~~~~~v~~~a~~~L~nLa~~~~  385 (644)
T 2z6h_A          353 GLPVVVKLLHPPSHWPLIKATVGLIRNLALCPA  385 (644)
T ss_dssp             HHHHHHHTTSTTCCHHHHHHHHHHHHHHTTSGG
T ss_pred             ChHHHHHHhCccCchHHHHHHHHHHHHHccCHH
Confidence            577777887765456899999988887776443

>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=95.18  E-value=4.3  Score=43.78  Aligned_cols=87  Identities=10%  Similarity=-0.017  Sum_probs=44.2

Q ss_pred             HHHHHHHHhcCCchhHHHHHHHHhcccchhhhhhcHHHHHHHHcCCCChhHHHHHHHHHHH---------hhhhhhhhhh
Q psy6893         786 LAVGISFIMYGQLENADDLVRDLCEEKDAILRRSGMYTIAMAYCGSGSNVATKRLLHDAIL---------RRSGMYTIAM  856 (988)
Q Consensus       786 lalgLgLi~~Gr~e~a~~li~~L~~~~dp~~r~~~~~~lslAyaGtGnvl~iq~lL~~~~~---------~~lG~alia~  856 (988)
                      ..++..+...|+.+++...++.........  ......++..|...|+.....+.+.....         ..+|.++...
T Consensus       275 ~~l~~~~~~~g~~~~A~~~~~~al~~~p~~--~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~  352 (388)
T 1w3b_A          275 CNLANALKEKGSVAEAEDCYNTALRLCPTH--ADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQ  352 (388)
T ss_dssp             HHHHHHHHHHSCHHHHHHHHHHHHHHCTTC--HHHHHHHHHHHHTTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhhCccc--HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHc
Confidence            344444555566666665555544332111  11234455556666666555555555432         2345555555


Q ss_pred             hccCCCchHHHHHhhhhhccCC
Q psy6893         857 AYCGSGSNVATKRLLHVAVSDV  878 (988)
Q Consensus       857 g~~~tgn~~air~ll~~~~sd~  878 (988)
                      |+.    +.|++.+-..+..+|
T Consensus       353 g~~----~~A~~~~~~a~~~~p  370 (388)
T 1w3b_A          353 GKL----QEALMHYKEAIRISP  370 (388)
T ss_dssp             TCC----HHHHHHHHHHHTTCT
T ss_pred             CCH----HHHHHHHHHHHhhCC
Confidence            554    566666655555555

>4db6_A Armadillo repeat protein; solenoid repeat, armadillo repeat motif, de novo protein; 1.80A {Synthetic construct} PDB: 4db9_A 4dba_A

Probab=95.18  E-value=0.11  Score=52.10  Aligned_cols=179  Identities=18%  Similarity=0.176  Sum_probs=98.7

Q ss_pred             ecCChHHHHHHHhcccCCCCCCCCCccchhHHHHHhhhccCCCC--------chhHHHHHHhhhhcCCCchhHHHHHHHH
Q psy6893         288 HRGHETEALAHMQSYLPRETGPTSGYYEGGGLYALGLIHANHGA--------VINDYLLGQVKDATNEDDAVTGEAAGIA  359 (988)
Q Consensus       288 h~~~~~~gl~~l~~yL~s~~~~~~~y~~~GaL~alGli~~g~~~--------~~~d~l~~lL~~~~~~d~~~~~~aA~lg  359 (988)
                      +..+.+.+...|-+.|.+    +++.++..|+.+|+-+..+...        ....++..+|    .+++...++.|..+
T Consensus         6 ~~~~~~~~~~~l~~LL~s----~~~~v~~~a~~~L~~l~~~~~~~~~~i~~~g~i~~L~~lL----~~~~~~v~~~a~~~   77 (210)
T 4db6_A            6 HHHHHGSELPQMVQQLNS----PDQQELQSALRKLSQIASGGNEQIQAVIDAGALPALVQLL----SSPNEQILQEALWA   77 (210)
T ss_dssp             -------CHHHHHHHTTC----SCHHHHHHHHHHHHHHHTSCHHHHHHHHHTTHHHHHHHHT----TCSCHHHHHHHHHH
T ss_pred             ccccccchhHHHHHHhcC----CCHHHHHHHHHHHHHHHcCCHHHHHHHHHcCCHHHHHHHH----cCCCHHHHHHHHHH
Confidence            334455666777778876    4778899999999988765432        1233444444    44567888899999


Q ss_pred             HHHhhccCCC-------hhHHHHHHHhhhhcchHHHHHHHHHHHHHHhcCChhhHHH---------HHHHHhhcchhhhh
Q psy6893         360 MGLVLLGSKS-------ESAIQDMVAYAKETQHEKILRGLAVGISFIMYGQLENADD---------LVRDLCEEKDAILR  423 (988)
Q Consensus       360 lGL~~~Gs~~-------~~~~~~L~~~~~dt~~E~~~r~lalgl~~v~~g~~e~a~~---------li~~L~~~~d~~lr  423 (988)
                      ||-+-.+...       ..++..|+.++.+.+ ..+.+..+..|..+..++.+....         +++.| .+.++.++
T Consensus        78 L~~l~~~~~~~~~~i~~~g~i~~L~~lL~~~~-~~v~~~a~~~L~~l~~~~~~~~~~~~~~~~i~~L~~ll-~~~~~~v~  155 (210)
T 4db6_A           78 LSNIASGGNEQIQAVIDAGALPALVQLLSSPN-EQILQEALWALSNIASGGNEQIQAVIDAGALPALVQLL-SSPNEQIL  155 (210)
T ss_dssp             HHHHTTSCHHHHHHHHHTTCHHHHHHHTTCSC-HHHHHHHHHHHHHHTTSCHHHHHHHHHTTHHHHHHHHT-TCSCHHHH
T ss_pred             HHHHhcCCcHHHHHHHHCCCHHHHHHHHcCCc-HHHHHHHHHHHHHHHcCCHHHHHHHHHcCcHHHHHHHH-cCCCHHHH
Confidence            8865444321       124567777776654 445555666777777777665433         33332 33344443


Q ss_pred             ccchhHHHHHhhhhhhhccccchhhHHhhccchhHHHHHhhhccCCCHHHHHHHHHHhccCCCchhhHHHHHHHHHHh
Q psy6893         424 RSGMYTIAMAYCVSYLYFDLFSDLTYRIVKNRSGMYTIAMAYCGSGSNVATKRLLHVAVSDVNDDVRREAVTALGFIL  501 (988)
Q Consensus       424 ~~~~~~~~l~l~Lgll~~g~~~e~~l~~~~~~~~~~~~~~AYaGTGN~~~Iq~LLhi~~s~~~~dvrr~AV~~lg~I~  501 (988)
                      ..+      +.+|+-+..+           .+..  ...+.     +...|+.|++++. +.++++|+.|+.+|+-++
T Consensus       156 ~~a------~~aL~~l~~~-----------~~~~--~~~~~-----~~g~i~~L~~ll~-~~~~~v~~~a~~aL~~l~  208 (210)
T 4db6_A          156 QEA------LWALSNIASG-----------GNEQ--KQAVK-----EAGALEKLEQLQS-HENEKIQKEAQEALEKLQ  208 (210)
T ss_dssp             HHH------HHHHHHHHTS-----------CHHH--HHHHH-----HTTHHHHHHHGGG-CSCHHHHHHHHHHHHHHC
T ss_pred             HHH------HHHHHHHHcC-----------CcHH--HHHHH-----HCCCHHHHHHHHh-CCCHHHHHHHHHHHHHHh
Confidence            321      1111111000           0000  00011     1126777888665 567789999999998775

>4hxt_A De novo protein OR329; structural genomics, PSI-biology, protein structure initiati northeast structural genomics consortium, NESG; 1.95A {Artificial gene}

Probab=95.15  E-value=0.39  Score=48.79  Aligned_cols=177  Identities=16%  Similarity=0.140  Sum_probs=102.7

Q ss_pred             HHHHHHhcccCCCCCCCCCccchhHHHHHhhhccCCCC--------chhHHHHHHhhhhcCCCchhHHHHHHHHHHHhhc
Q psy6893         294 EALAHMQSYLPRETGPTSGYYEGGGLYALGLIHANHGA--------VINDYLLGQVKDATNEDDAVTGEAAGIAMGLVLL  365 (988)
Q Consensus       294 ~gl~~l~~yL~s~~~~~~~y~~~GaL~alGli~~g~~~--------~~~d~l~~lL~~~~~~d~~~~~~aA~lglGL~~~  365 (988)
                      .++..|-++|.+    +++.++.-|+.+|+-+..+...        ...+++..+|.    +++...+..|..+|+-+-.
T Consensus        44 g~i~~L~~ll~~----~~~~v~~~a~~~L~~l~~~~~~~~~~~~~~~~i~~l~~ll~----~~~~~v~~~a~~~L~~l~~  115 (252)
T 4hxt_A           44 GGVEVLVKLLTS----TDSEVQKEAARALANIASGPDEAIKAIVDAGGVEVLVKLLT----STDSEVQKEAARALANIAS  115 (252)
T ss_dssp             THHHHHHHHTTC----SCHHHHHHHHHHHHHHTTSCHHHHHHHHHTTHHHHHHHHTT----CSSHHHHHHHHHHHHHHTT
T ss_pred             CCHHHHHHHHhC----CCHHHHHHHHHHHHHHHcCChHHHHHHHHCCCHHHHHHHHc----CCCHHHHHHHHHHHHHHHc
Confidence            466777777775    4678899999999988776331        13344444444    4567888888888875543


Q ss_pred             cCCC-------hhHHHHHHHhhhhcchHHHHHHHHHHHHHHhcCChhhH---------HHHHHHHhhcchhhhhccchhH
Q psy6893         366 GSKS-------ESAIQDMVAYAKETQHEKILRGLAVGISFIMYGQLENA---------DDLVRDLCEEKDAILRRSGMYT  429 (988)
Q Consensus       366 Gs~~-------~~~~~~L~~~~~dt~~E~~~r~lalgl~~v~~g~~e~a---------~~li~~L~~~~d~~lr~~~~~~  429 (988)
                      ++..       ..+++.|+.++.+.+ +.+.+..+-.|..+..++++..         ..+++. +.+.++.+|..+   
T Consensus       116 ~~~~~~~~~~~~~~i~~L~~~l~~~~-~~~~~~a~~~L~~l~~~~~~~~~~~~~~~~i~~L~~l-l~~~~~~v~~~a---  190 (252)
T 4hxt_A          116 GPDEAIKAIVDAGGVEVLVKLLTSTD-SEVQKEAARALANIASGPDEAIKAIVDAGGVEVLVKL-LTSTDSEVQKEA---  190 (252)
T ss_dssp             SCHHHHHHHHHTTHHHHHHHHTTCSC-HHHHHHHHHHHHHHTTSCHHHHHHHHHTTHHHHHHHH-TTCSCHHHHHHH---
T ss_pred             CCHHHHHHHHHCCCHHHHHHHHcCCC-HHHHHHHHHHHHHHHcCCHHHHHHHHHCcCHHHHHHH-HCCCCHHHHHHH---
Confidence            3211       135677888777655 4456666667777777766543         333333 334454444421   


Q ss_pred             HHHHhhhhhhhccccchhhHHhhccchhHHHHHhhhccCCCHHHHHHHHHHhccCCCchhhHHHHHHHHHHhhcCc
Q psy6893         430 IAMAYCVSYLYFDLFSDLTYRIVKNRSGMYTIAMAYCGSGSNVATKRLLHVAVSDVNDDVRREAVTALGFILFRTL  505 (988)
Q Consensus       430 ~~l~l~Lgll~~g~~~e~~l~~~~~~~~~~~~~~AYaGTGN~~~Iq~LLhi~~s~~~~dvrr~AV~~lg~I~~~~~  505 (988)
                         +.+|+-+..+           .|.  ....+.-     ...|+.|++++. +.++++|..|+.+|+-+....+
T Consensus       191 ---~~~L~~l~~~-----------~~~--~~~~l~~-----~~~i~~L~~ll~-~~~~~v~~~a~~~L~~l~~~~~  244 (252)
T 4hxt_A          191 ---ARALANIASG-----------PTS--AIKAIVD-----AGGVEVLQKLLT-STDSEVQKEAQRALENIKSGGW  244 (252)
T ss_dssp             ---HHHHHHHTTS-----------BHH--HHHHHHH-----TTHHHHHHHGGG-CSCHHHHHHHHHHHHHHHHTCB
T ss_pred             ---HHHHHHHHcC-----------CHH--HHHHHHH-----CCCHHHHHHHHC-CCcHHHHHHHHHHHHHHHcCCC
Confidence               1111111100           000  0000000     125677777664 4577899999999999997654

>4db6_A Armadillo repeat protein; solenoid repeat, armadillo repeat motif, de novo protein; 1.80A {Synthetic construct} PDB: 4db9_A 4dba_A

Probab=94.79  E-value=0.29  Score=48.95  Aligned_cols=29  Identities=24%  Similarity=0.287  Sum_probs=22.4

Q ss_pred             HHHHHhhhhhccCCChhhhhhHHhhhhhhh
Q psy6893         865 VATKRLLHVAVSDVNDDVRREAVTALGFIL  894 (988)
Q Consensus       865 ~air~ll~~~~sd~~~~vrraa~~alg~i~  894 (988)
                      .++..|.+++.+ +++.+|+.|..+|+-+.
T Consensus       180 g~i~~L~~ll~~-~~~~v~~~a~~aL~~l~  208 (210)
T 4db6_A          180 GALEKLEQLQSH-ENEKIQKEAQEALEKLQ  208 (210)
T ss_dssp             THHHHHHHGGGC-SCHHHHHHHHHHHHHHC
T ss_pred             CCHHHHHHHHhC-CCHHHHHHHHHHHHHHh
Confidence            467788887764 68999999998886553

>2vgl_A Adaptor protein complex AP-2, alpha 2 subunit; cytoplasmic vesicle, alternative splicing, endocytosis, lipid-binding, golgi apparatus, adaptor, membrane, transport; HET: IHP; 2.59A {Rattus norvegicus} PDB: 2xa7_A 2jkr_A 2jkt_A

Probab=94.36  E-value=12  Score=44.85  Aligned_cols=47  Identities=15%  Similarity=0.069  Sum_probs=30.4

Q ss_pred             HHHHHHHHHHhccCCCchhhHHHHHHHHHHhhcCccccccccCCCCchhHHhhccc
Q psy6893         471 NVATKRLLHVAVSDVNDDVRREAVTALGFILFRTLFYVAPACTRSPWPGVISLLDD  526 (988)
Q Consensus       471 ~~~Iq~LLhi~~s~~~~dvrr~AV~~lg~I~~~~~~~~g~~~~~~~~p~ai~lL~~  526 (988)
                      ...+++||    +|.+..|+..|+..|.-|+..+|..|     ..-+|.++..|..
T Consensus       189 ~~~l~~lL----~d~d~~V~~~a~~~l~~i~~~~~~~~-----~~~~~~~~~~L~~  235 (621)
T 2vgl_A          189 TSRVVHLL----NDQHLGVVTAATSLITTLAQKNPEEF-----KTSVSLAVSRLSR  235 (621)
T ss_dssp             HHHHHHHT----TCSCHHHHHHHHHHHHHHHHHCHHHH-----TTHHHHHHHHHHH
T ss_pred             HHHHHHHh----CCCCccHHHHHHHHHHHHHHhChHHH-----HHHHHHHHHHHHH
Confidence            44555555    56777899999999999987665211     1235556655553

>2bpt_A Importin beta-1 subunit; nuclear transport, nucleocytoplasmic transport, nuclear trafficking, importin- beta, complex; 1.99A {Saccharomyces cerevisiae} SCOP: a.118.1.1 PDB: 2bku_B 3ea5_B* 3nd2_A

Probab=94.23  E-value=12  Score=45.31  Aligned_cols=133  Identities=9%  Similarity=0.078  Sum_probs=72.6

Q ss_pred             HHHHHhhcCCCCCCCCCccchhhHHHHHhhhccCCc-h-------HHHHHHHHHhhhcCchhhHHHHHHhhHhhh--cCC
Q psy6893         657 ALAHMQSYLPRETGPTSGYYEGGGLYALGLIHANHG-A-------VINDYLLGQVKDATNEMVRHGGCLGLGLAA--MGS  726 (988)
Q Consensus       657 ~l~~L~~yL~~~~~s~~~~~k~GAL~AlGlI~ag~~-~-------~~~~~Ll~~l~~s~~~~ir~gA~LGLGla~--~Gs  726 (988)
                      .+..+...+.    +.+...|-+|+.++|.|..+.+ .       .++..|+..+. .++..+|..++..||-..  .+.
T Consensus       370 l~~~l~~~l~----~~~~~~r~~a~~~l~~i~~~~~~~~~~~~l~~il~~l~~~l~-d~~~~vr~~a~~~l~~l~~~~~~  444 (861)
T 2bpt_A          370 VLEFVEQNIT----ADNWRNREAAVMAFGSIMDGPDKVQRTYYVHQALPSILNLMN-DQSLQVKETTAWCIGRIADSVAE  444 (861)
T ss_dssp             HHHHHHHHTT----CSSHHHHHHHHHHHHHTSSSSCHHHHHHHHHHHHHHHHHGGG-CSCHHHHHHHHHHHHHHHHHHGG
T ss_pred             HHHHHHHHcC----CCChhHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHHHHHhhh
Confidence            3444445553    4457789999999999987765 2       13445555553 356789999988888543  121


Q ss_pred             ------CCHHHHHHHHHhhccCChhhHHHHHHHhhcccCCCC----------CHHHHHHHHHHHHhccc-chhhhHHHHH
Q psy6893         727 ------ARDDIYEQLKFNLYQDDAVTGEAAGIAMGLVLLGSK----------SESAIQDMVAYAKETQH-EKILRGLAVG  789 (988)
Q Consensus       727 ------~~~dv~~~L~~~l~~D~~~~~e~AalAlGLI~vGs~----------n~d~i~~ll~~~~etq~-e~i~R~lalg  789 (988)
                            .-+.++..|...+ .|+......|+.+++-+.-+.+          -.+++..+++.+.+.+. ..+...+.-+
T Consensus       445 ~~~~~~~~~~~l~~l~~~l-~~~~~v~~~a~~al~~l~~~~~~~~~~~l~~~~~~il~~L~~~l~~~d~~~~vr~~a~~a  523 (861)
T 2bpt_A          445 SIDPQQHLPGVVQACLIGL-QDHPKVATNCSWTIINLVEQLAEATPSPIYNFYPALVDGLIGAANRIDNEFNARASAFSA  523 (861)
T ss_dssp             GSCTTTTHHHHHHHHHHHH-TSCHHHHHHHHHHHHHHHHHHSSSSSCGGGGGHHHHHHHHHHHHTCSCCGGGHHHHHHHH
T ss_pred             hcCCHHHHHHHHHHHHHHh-ccChHHHHHHHHHHHHHHHhcccccchhhHHHHHHHHHHHHHHHhCcCcchHHHHHHHHH
Confidence                  1234555555555 4543334455666554322211          13455566666543332 3333344445


Q ss_pred             HHHHhc
Q psy6893         790 ISFIMY  795 (988)
Q Consensus       790 LgLi~~  795 (988)
                      |+.+.-
T Consensus       524 l~~l~~  529 (861)
T 2bpt_A          524 LTTMVE  529 (861)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            554443

>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=94.16  E-value=7.5  Score=41.87  Aligned_cols=182  Identities=14%  Similarity=0.002  Sum_probs=81.6

Q ss_pred             cCChHHHHHHHhhcCCCCCCCCCccchhhHHHHHhhhccCCc--hHHHHHHHHHhhhcCchhhHHHHHHhhHhhhcCCCC
Q psy6893         651 RGHETEALAHMQSYLPRETGPTSGYYEGGGLYALGLIHANHG--AVINDYLLGQVKDATNEMVRHGGCLGLGLAAMGSAR  728 (988)
Q Consensus       651 ~gn~~~~l~~L~~yL~~~~~s~~~~~k~GAL~AlGlI~ag~~--~~~~~~Ll~~l~~s~~~~ir~gA~LGLGla~~Gs~~  728 (988)
                      .|+.++++..++.-+..+  +  .  ...+++.+|.+....+  .+++..+...+...++..   .+...+|.++...++
T Consensus       182 ~g~~~~A~~~~~~al~~~--p--~--~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~---~~~~~l~~~~~~~g~  252 (388)
T 1w3b_A          182 QGEIWLAIHHFEKAVTLD--P--N--FLDAYINLGNVLKEARIFDRAVAAYLRALSLSPNHA---VVHGNLACVYYEQGL  252 (388)
T ss_dssp             TTCHHHHHHHHHHHHHHC--T--T--CHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHCTTCH---HHHHHHHHHHHHTTC
T ss_pred             cCCHHHHHHHHHHHHhcC--C--C--cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcCCH---HHHHHHHHHHHHcCC
Confidence            455666666665554210  0  1  1234555555544433  345555444443333221   123345555555555


Q ss_pred             HH-HHHHHHHhhccCChhhHHHHHHHhhcccCCCCCHHHHHHHHHHHHhcccchhhhHHHHHHHHHhcCCchhHHHHHHH
Q psy6893         729 DD-IYEQLKFNLYQDDAVTGEAAGIAMGLVLLGSKSESAIQDMVAYAKETQHEKILRGLAVGISFIMYGQLENADDLVRD  807 (988)
Q Consensus       729 ~d-v~~~L~~~l~~D~~~~~e~AalAlGLI~vGs~n~d~i~~ll~~~~etq~e~i~R~lalgLgLi~~Gr~e~a~~li~~  807 (988)
                      .+ ..+.+...+..++...  .+-..+|.++...|+.+-...+++-+.+...+...-...++..+.-.|+.+++...++.
T Consensus       253 ~~~A~~~~~~al~~~p~~~--~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~  330 (388)
T 1w3b_A          253 IDLAIDTYRRAIELQPHFP--DAYCNLANALKEKGSVAEAEDCYNTALRLCPTHADSLNNLANIKREQGNIEEAVRLYRK  330 (388)
T ss_dssp             HHHHHHHHHHHHHTCSSCH--HHHHHHHHHHHHHSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhCCCCH--HHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcccHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            33 3444444443332221  12223344444444544333333322222222222233444445556777777666666


Q ss_pred             HhcccchhhhhhcHHHHHHHHcCCCChhHHHHHHHHHH
Q psy6893         808 LCEEKDAILRRSGMYTIAMAYCGSGSNVATKRLLHDAI  845 (988)
Q Consensus       808 L~~~~dp~~r~~~~~~lslAyaGtGnvl~iq~lL~~~~  845 (988)
                      ........  ....+.++..|.-.|+.....+.+..+.
T Consensus       331 al~~~p~~--~~~~~~l~~~~~~~g~~~~A~~~~~~a~  366 (388)
T 1w3b_A          331 ALEVFPEF--AAAHSNLASVLQQQGKLQEALMHYKEAI  366 (388)
T ss_dssp             HTTSCTTC--HHHHHHHHHHHHTTTCCHHHHHHHHHHH
T ss_pred             HHhcCCCc--HHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            55432211  1224556667777777766665555544

>3tpo_A Importin subunit alpha-2; nuclear import, protein transport; 2.10A {Mus musculus} PDB: 1qgk_B 1qgr_B

Probab=93.89  E-value=0.65  Score=54.16  Aligned_cols=204  Identities=14%  Similarity=0.122  Sum_probs=103.9

Q ss_pred             HHHHHHHHhhhcCchhhHHHHHHhhHhhhcCCCCHH-------HHHHHHHhhccCChhhHHHHHHHhhcccCCCCCHH--
Q psy6893         695 INDYLLGQVKDATNEMVRHGGCLGLGLAAMGSARDD-------IYEQLKFNLYQDDAVTGEAAGIAMGLVLLGSKSES--  765 (988)
Q Consensus       695 ~~~~Ll~~l~~s~~~~ir~gA~LGLGla~~Gs~~~d-------v~~~L~~~l~~D~~~~~e~AalAlGLI~vGs~n~d--  765 (988)
                      ++..|...+..++++.++..|+..|+-...|+....       ++..|..++.+.+....+.|+.++|-|-..  +.+  
T Consensus       120 ~ip~Lv~lL~~~~~~~~q~~Aa~aL~nia~~~~~~~~~vv~~Gaip~Lv~LL~s~~~~v~e~A~~aL~nLa~~--~~~~r  197 (529)
T 3tpo_A          120 LIPKFVSFLGKTDCSPIQFESAWALTNIASGTSEQTKAVVDGGAIPAFISLLASPHAHISEQAVWALGNIAGA--GSAFR  197 (529)
T ss_dssp             HHHHHHHHHTCTTCHHHHHHHHHHHHHHHTSCHHHHHHHHHTTHHHHHHHHTTCSCHHHHHHHHHHHHHHHTT--CHHHH
T ss_pred             CHHHHHHHHcCCCCHHHHHHHHHHHHHHHcCCHHHHHHHHHCCCHHHHHHHHcCCCHHHHHHHHHHHHHHhcc--CHHHH
Confidence            355566666556667788888887776655543321       344566666555555566777788776322  222  


Q ss_pred             -------HHHHHHHHHHhcc----cchhhhHHHHHHHHHhcCCch-----hHH---HHHHHHhcccchhhhhhcHHHHHH
Q psy6893         766 -------AIQDMVAYAKETQ----HEKILRGLAVGISFIMYGQLE-----NAD---DLVRDLCEEKDAILRRSGMYTIAM  826 (988)
Q Consensus       766 -------~i~~ll~~~~etq----~e~i~R~lalgLgLi~~Gr~e-----~a~---~li~~L~~~~dp~~r~~~~~~lsl  826 (988)
                             ++..++.++....    .....|.++..++-+..+...     ...   +.+-.|..++++-.+...+  .++
T Consensus       198 ~~i~~~g~i~~Ll~lL~~~~~~~~~~~~~~~a~~~L~nl~~~~~~~~~~~~~~~~lp~L~~LL~~~~~~v~~~a~--~aL  275 (529)
T 3tpo_A          198 DLVIKHGAIDPLLALLAVPDLSTLACGYLRNLTWTLSNLCRNKNPAPPLDAVEQILPTLVRLLHHNDPEVLADSC--WAI  275 (529)
T ss_dssp             HHHHHTTCHHHHHHTTCSSCGGGSCHHHHHHHHHHHHHHHCCCTTCCCHHHHHHHHHHHHHHTTSSCHHHHHHHH--HHH
T ss_pred             HHHHHcCCcHHHHHHHhccchhHhHHHHHHHHHHHHHHHHhcccchhhHHHHhhHHHHHHHHhcCCcHHHHHHHH--HHH
Confidence                   2334455443222    122335555555545444321     111   2222233445555554433  344


Q ss_pred             HHcCCCChhHHHHHH--------HHHH----HhhhhhhhhhhhccCCCchH---------HHHHhhhhhccCCChhhhhh
Q psy6893         827 AYCGSGSNVATKRLL--------HDAI----LRRSGMYTIAMAYCGSGSNV---------ATKRLLHVAVSDVNDDVRRE  885 (988)
Q Consensus       827 AyaGtGnvl~iq~lL--------~~~~----~~~lG~alia~g~~~tgn~~---------air~ll~~~~sd~~~~vrra  885 (988)
                      +|+..++...++.+.        ..++    ..+.--++-+++...+|++.         ++..|.+++. ++++++|+.
T Consensus       276 ~~l~~~~~~~~~~v~~~g~i~~Lv~lL~~~~~~v~~~a~~aL~nl~~~~~~~~~~i~~~g~l~~L~~LL~-~~~~~i~~~  354 (529)
T 3tpo_A          276 SYLTDGPNERIEMVVKKGVVPQLVKLLGATELPIVTPALRAIGNIVTGTDEQTQKVIDAGALAVFPSLLT-NPKTNIQKE  354 (529)
T ss_dssp             HHHHSSCHHHHHHHHTTTCHHHHHHHHTCSCHHHHHHHHHHHHHHTTSCHHHHHHHHHTTGGGGHHHHTT-CSSHHHHHH
T ss_pred             HHhhhhhhhhHHHHHhccchHHHHHHhcCCChhHHHHHHHHHHHHHccchHHHHHHhhcccHHHHHHHHc-CCCHHHHHH
Confidence            555554443322211        1111    12222233333333344432         3344555554 478999999


Q ss_pred             HHhhhhhhhhhhhhhhHh
Q psy6893         886 AVTALGFILFRKKRTRRK  903 (988)
Q Consensus       886 a~~alg~i~~~npeq~pk  903 (988)
                      |+.+++-+...++.+...
T Consensus       355 a~~aL~nl~~~~~~~~~~  372 (529)
T 3tpo_A          355 ATWTMSNITAGRQDQIQQ  372 (529)
T ss_dssp             HHHHHHHHHTSCHHHHHH
T ss_pred             HHHHHHHHhcccHHHHHH
Confidence            999999998877775543

>1jdh_A Beta-catenin; beta-catenin, protein-protein complex, transcription; 1.90A {Homo sapiens} SCOP: a.118.1.1 PDB: 1qz7_A 1g3j_A 1th1_A* 1i7w_A* 1i7x_A 1jpp_A 1m1e_A 1v18_A* 3oux_A 3ouw_A 1jpw_A 3tx7_A* 2gl7_A 1t08_A 1luj_A 2bct_A 3bct_A* 3ifq_A* 3sla_A 3sl9_A

Probab=93.55  E-value=1.9  Score=49.02  Aligned_cols=37  Identities=16%  Similarity=0.054  Sum_probs=29.2

Q ss_pred             CchHHHHHhhhhhccCCChhhhhhHHhhhhhhhhhhhh
Q psy6893         862 GSNVATKRLLHVAVSDVNDDVRREAVTALGFILFRKKR  899 (988)
Q Consensus       862 gn~~air~ll~~~~sd~~~~vrraa~~alg~i~~~npe  899 (988)
                      +...++..|++++.+ .++++|..++.+++-+...+++
T Consensus       263 ~~~~~i~~L~~ll~~-~~~~v~~~a~~~L~~L~~~~~~  299 (529)
T 1jdh_A          263 GMEGLLGTLVQLLGS-DDINVVTCAAGILSNLTCNNYK  299 (529)
T ss_dssp             CCHHHHHHHHHHTTC-SCHHHHHHHHHHHHHHTTTCHH
T ss_pred             HHHhHHHHHHHHHcC-CCHHHHHHHHHHHHHHhcCCHH
Confidence            345678888888754 6899999999999988876654

>4db8_A Armadillo-repeat protein; solenoid repeat, de novo protein; 2.50A {Synthetic construct}

Probab=92.69  E-value=0.71  Score=47.35  Aligned_cols=136  Identities=19%  Similarity=0.154  Sum_probs=86.0

Q ss_pred             HHHHHhhcCCCCCCCCCccchhhHHHHHhhhccCCch--------HHHHHHHHHhhhcCchhhHHHHHHhhHhhhcCCCC
Q psy6893         657 ALAHMQSYLPRETGPTSGYYEGGGLYALGLIHANHGA--------VINDYLLGQVKDATNEMVRHGGCLGLGLAAMGSAR  728 (988)
Q Consensus       657 ~l~~L~~yL~~~~~s~~~~~k~GAL~AlGlI~ag~~~--------~~~~~Ll~~l~~s~~~~ir~gA~LGLGla~~Gs~~  728 (988)
                      ++..|-.+|.    ++++.++.-|+.+|+.+..+...        .++..|...+.+ +++.++..|+..|+-...+...
T Consensus        55 ~i~~L~~lL~----~~~~~v~~~a~~~L~~l~~~~~~~~~~i~~~g~i~~L~~lL~~-~~~~v~~~a~~~L~~l~~~~~~  129 (252)
T 4db8_A           55 ALPALVQLLS----SPNEQILQEALWALSNIASGGNEQIQAVIDAGALPALVQLLSS-PNEQILQEALWALSNIASGGNE  129 (252)
T ss_dssp             HHHHHHHGGG----CSCHHHHHHHHHHHHHHTTSCHHHHHHHHHTTHHHHHHHGGGC-SCHHHHHHHHHHHHHHTTSCHH
T ss_pred             cHHHHHHHHc----CCCHHHHHHHHHHHHHHhcCCHHHHHHHHHcCCHHHHHHHHcC-CCHHHHHHHHHHHHHhhcCCch
Confidence            5666777775    44578899999999999765432        146667666644 5678999999999877555443


Q ss_pred             H-------HHHHHHHHhhccCChhhHHHHHHHhhcccCCCCCHHH---------HHHHHHHHHhcccchhhhHHHHHHHH
Q psy6893         729 D-------DIYEQLKFNLYQDDAVTGEAAGIAMGLVLLGSKSESA---------IQDMVAYAKETQHEKILRGLAVGISF  792 (988)
Q Consensus       729 ~-------dv~~~L~~~l~~D~~~~~e~AalAlGLI~vGs~n~d~---------i~~ll~~~~etq~e~i~R~lalgLgL  792 (988)
                      .       .++..|..++..++....+.|+.+++-+-.+  +.+.         +..+++++.+ .+..+....+..|+-
T Consensus       130 ~~~~~~~~~~i~~L~~lL~~~~~~v~~~a~~~L~~l~~~--~~~~~~~~~~~~~i~~L~~ll~~-~~~~v~~~a~~~L~~  206 (252)
T 4db8_A          130 QIQAVIDAGALPALVQLLSSPNEQILQEALWALSNIASG--GNEQIQAVIDAGALPALVQLLSS-PNEQILQEALWALSN  206 (252)
T ss_dssp             HHHHHHHTTHHHHHHHGGGCSCHHHHHHHHHHHHHHTTS--CHHHHHHHHHTTCHHHHHHGGGC-SSHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHhCCCHHHHHHHHHHHHHHHcC--ChHHHHHHHHCCCHHHHHHHHCC-CCHHHHHHHHHHHHH
Confidence            3       2456777777554444455677787776544  3332         4455555533 244555556666666


Q ss_pred             HhcCCchh
Q psy6893         793 IMYGQLEN  800 (988)
Q Consensus       793 i~~Gr~e~  800 (988)
                      +..+..+.
T Consensus       207 l~~~~~~~  214 (252)
T 4db8_A          207 IASGGNEQ  214 (252)
T ss_dssp             HTTSCHHH
T ss_pred             HhcCCHHH
Confidence            65555544

>2bpt_A Importin beta-1 subunit; nuclear transport, nucleocytoplasmic transport, nuclear trafficking, importin- beta, complex; 1.99A {Saccharomyces cerevisiae} SCOP: a.118.1.1 PDB: 2bku_B 3ea5_B* 3nd2_A

Probab=92.27  E-value=25  Score=42.43  Aligned_cols=56  Identities=25%  Similarity=0.223  Sum_probs=39.6

Q ss_pred             ccchhHHHHHhhhccCCCCchhHHHHHHhhhhcCCCchhHHHHHHHHHHHhhccCC
Q psy6893         313 YYEGGGLYALGLIHANHGAVINDYLLGQVKDATNEDDAVTGEAAGIAMGLVLLGSK  368 (988)
Q Consensus       313 y~~~GaL~alGli~~g~~~~~~d~l~~lL~~~~~~d~~~~~~aA~lglGL~~~Gs~  368 (988)
                      ..+-.|.-+++.+....+......++..|...+.+.+...+++|..++|.+.-|..
T Consensus       346 ~~r~~a~~~L~~l~~~~~~~~~~~l~~~l~~~l~~~~~~~r~~a~~~l~~i~~~~~  401 (861)
T 2bpt_A          346 NVSMSAGACLQLFAQNCGNHILEPVLEFVEQNITADNWRNREAAVMAFGSIMDGPD  401 (861)
T ss_dssp             HHHHHHHHHHHHHHHHHGGGGHHHHHHHHHHHTTCSSHHHHHHHHHHHHHTSSSSC
T ss_pred             cHHHHHHHHHHHHHHHccHhHHHHHHHHHHHHcCCCChhHHHHHHHHHHHHHcCCC
Confidence            45556666676665544444566777777777767788999999999998776554

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=91.91  E-value=20  Score=40.71  Aligned_cols=206  Identities=7%  Similarity=-0.058  Sum_probs=101.0

Q ss_pred             eecCChHHHHHHHhcccCCCCCCCCCccchhHHHHHhhhccCCCCchhHHHHHHhhhhcC-CCchhHHHHHHHHHHHhhc
Q psy6893         287 IHRGHETEALAHMQSYLPRETGPTSGYYEGGGLYALGLIHANHGAVINDYLLGQVKDATN-EDDAVTGEAAGIAMGLVLL  365 (988)
Q Consensus       287 Ih~~~~~~gl~~l~~yL~s~~~~~~~y~~~GaL~alGli~~g~~~~~~d~l~~lL~~~~~-~d~~~~~~aA~lglGL~~~  365 (988)
                      +..++.++++..+++.+-..   .+.    -+++.+|.+....+.  .+.++..+..... ..+.    .+...+|.+|.
T Consensus        95 ~~~g~~~~A~~~~~~~~~~~---p~~----~~~~~l~~~~~~~g~--~~~A~~~~~~~~~~~~~~----~~~~~l~~~~~  161 (597)
T 2xpi_A           95 LMQQQYKCAAFVGEKVLDIT---GNP----NDAFWLAQVYCCTGD--YARAKCLLTKEDLYNRSS----ACRYLAAFCLV  161 (597)
T ss_dssp             HHTTCHHHHHHHHHHHHHHH---CCH----HHHHHHHHHHHHTTC--HHHHHHHHHHTCGGGTCH----HHHHHHHHHHH
T ss_pred             HHccCchHHHHHHHHHHhhC---CCc----hHHHHHHHHHHHcCc--HHHHHHHHHHHhccccch----hHHHHHHHHHH
Confidence            34567777777777665211   111    334444444444332  2223333333211 1122    24456666666


Q ss_pred             cCCChhHHHHHHH-hhhhc--------------c-hHHHHHHHHHHHHHHhcCChhhHHHHHHHHhhcchhhhhccchhH
Q psy6893         366 GSKSESAIQDMVA-YAKET--------------Q-HEKILRGLAVGISFIMYGQLENADDLVRDLCEEKDAILRRSGMYT  429 (988)
Q Consensus       366 Gs~~~~~~~~L~~-~~~dt--------------~-~E~~~r~lalgl~~v~~g~~e~a~~li~~L~~~~d~~lr~~~~~~  429 (988)
                      -.++-+-...++. ...+.              . ......-..+|.++...|+.+.|-.+++.+++.. |..     +.
T Consensus       162 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-p~~-----~~  235 (597)
T 2xpi_A          162 KLYDWQGALNLLGETNPFRKDEKNANKLLMQDGGIKLEASMCYLRGQVYTNLSNFDRAKECYKEALMVD-AKC-----YE  235 (597)
T ss_dssp             HTTCHHHHHHHHCSSCTTC----------CCCSSCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTC-----HH
T ss_pred             HHhhHHHHHHHHhccCCccccccccccccccccccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-chh-----hH
Confidence            6666543333322 11111              0 1225556788888889999999999888887642 211     11


Q ss_pred             HHHHhhhhhhhcccc--chhhHHh------hccchh----HH-HHHhhhccCCCHHHHHHHHHHhccCCCchhhHHHHHH
Q psy6893         430 IAMAYCVSYLYFDLF--SDLTYRI------VKNRSG----MY-TIAMAYCGSGSNVATKRLLHVAVSDVNDDVRREAVTA  496 (988)
Q Consensus       430 ~~l~l~Lgll~~g~~--~e~~l~~------~~~~~~----~~-~~~~AYaGTGN~~~Iq~LLhi~~s~~~~dvrr~AV~~  496 (988)
                      .+  ..|+.+++..+  ....+..      .+....    .| ..+..|+..|+...-.+++.-+... .+++...-.++
T Consensus       236 ~~--~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~l~  312 (597)
T 2xpi_A          236 AF--DQLVSNHLLTADEEWDLVLKLNYSTYSKEDAAFLRSLYMLKLNKTSHEDELRRAEDYLSSINGL-EKSSDLLLCKA  312 (597)
T ss_dssp             HH--HHHHHTTCSCHHHHHHHHHHSCTHHHHGGGHHHHHHHHHTTSCTTTTHHHHHHHHHHHHTSTTG-GGCHHHHHHHH
T ss_pred             HH--HHHHHhhcccchhHHHHHHhcCCcccccchHHHHHHHHHHHHHHHcCcchHHHHHHHHHHhhcC-CchHHHHHHHH
Confidence            11  22333343333  1111111      111111    11 3477888888888888888766654 23333333333


Q ss_pred             HHHHhhcCccccccccCCCCchhHHhhccc
Q psy6893         497 LGFILFRTLFYVAPACTRSPWPGVISLLDD  526 (988)
Q Consensus       497 lg~I~~~~~~~~g~~~~~~~~p~ai~lL~~  526 (988)
                      .++...|+            ...|+.++..
T Consensus       313 ~~~~~~g~------------~~~A~~~~~~  330 (597)
T 2xpi_A          313 DTLFVRSR------------FIDVLAITTK  330 (597)
T ss_dssp             HHHHHTTC------------HHHHHHHHHH
T ss_pred             HHHHHhcC------------HHHHHHHHHH
Confidence            33443333            4677777764

>3l6x_A Catenin delta-1; catenin, armadillo, ARM, JMD, CE adhesion, complex, cell-CELL adhesion, ARVCF, delta-catenin DP120, JAC-1, cell membrane, membrane; 2.40A {Homo sapiens} PDB: 3l6y_A

Probab=91.57  E-value=10  Score=45.24  Aligned_cols=73  Identities=10%  Similarity=0.105  Sum_probs=46.6

Q ss_pred             HHHHHHHHhhhcCchhhHHHHHHhhHhhhcCCC-----------CHHHHHHHHHhhccCChhhHHHHHHHhhcccCCCCC
Q psy6893         695 INDYLLGQVKDATNEMVRHGGCLGLGLAAMGSA-----------RDDIYEQLKFNLYQDDAVTGEAAGIAMGLVLLGSKS  763 (988)
Q Consensus       695 ~~~~Ll~~l~~s~~~~ir~gA~LGLGla~~Gs~-----------~~dv~~~L~~~l~~D~~~~~e~AalAlGLI~vGs~n  763 (988)
                      ++..|+..+.++.+..++-.|+-.|.-...|..           .+..+..|..+|.+++....+.|+-+++-+-.++.|
T Consensus       309 ~v~~Ll~LL~~s~~~~v~E~Aa~AL~nL~ag~~~~~~~~~~~v~~~~glp~Lv~LL~s~~~~v~~~A~~aL~nLs~~~~~  388 (584)
T 3l6x_A          309 VVRIYISLLKESKTPAILEASAGAIQNLCAGRWTYGRYIRSALRQEKALSAIADLLTNEHERVVKAASGALRNLAVDARN  388 (584)
T ss_dssp             HHHHHHHHHHHCCCHHHHHHHHHHHHHHHSSCSHHHHHHHHHHTSHHHHHHHHHGGGCSCHHHHHHHHHHHHHHHTTCSC
T ss_pred             HHHHHHHHHccCCCHHHHHHHHHHHHHHHcCCccccHHHHHHHHHcCcHHHHHHHHcCCCHHHHHHHHHHHHHHhCChhH
Confidence            455666777666667777777777766656652           234466677777655555555666677777667666


Q ss_pred             HHHH
Q psy6893         764 ESAI  767 (988)
Q Consensus       764 ~d~i  767 (988)
                      .+++
T Consensus       389 ~~~I  392 (584)
T 3l6x_A          389 KELI  392 (584)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            5554

>1qgr_A Protein (importin beta subunit); transport receptor, nuclear import, heat motif, NLS-binding; 2.30A {Homo sapiens} SCOP: a.118.1.1 PDB: 1qgk_A 2p8q_A 2q5d_A 3lww_A 1ukl_A 2qna_A

Probab=90.88  E-value=34  Score=41.30  Aligned_cols=111  Identities=13%  Similarity=0.085  Sum_probs=64.4

Q ss_pred             hhhhhhhcccccCC----hHHHHHHHhhcCCCCCCCCCccchhhHHHHHhhhccCCchH--------HHHHHHHHhhhcC
Q psy6893         640 LTATASLGVIHRGH----ETEALAHMQSYLPRETGPTSGYYEGGGLYALGLIHANHGAV--------INDYLLGQVKDAT  707 (988)
Q Consensus       640 fsA~ASLG~Ih~gn----~~~~l~~L~~yL~~~~~s~~~~~k~GAL~AlGlI~ag~~~~--------~~~~Ll~~l~~s~  707 (988)
                      ..|...|+.+....    ....+..+..++.    +.+...|.+|+.++|.+..+.+.+        ++..|+..+ +.+
T Consensus       346 ~~a~~~l~~l~~~~~~~~~~~~l~~l~~~l~----~~~~~~r~~a~~~l~~i~~~~~~~~~~~~~~~~l~~l~~~l-~d~  420 (876)
T 1qgr_A          346 KAAGVCLMLLATCCEDDIVPHVLPFIKEHIK----NPDWRYRDAAVMAFGCILEGPEPSQLKPLVIQAMPTLIELM-KDP  420 (876)
T ss_dssp             HHHHHHHHHHHHHHGGGGHHHHHHHHHHHTT----CSSHHHHHHHHHHHHHTSSSSCHHHHHHHHHHHHHHHHHHH-TCS
T ss_pred             HHHHHHHHHHHHHCcHhhHHHHHHHHHHHcc----CCChHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHh-CCC
Confidence            34455555544322    2234445555553    456789999999999998777521        344555555 345


Q ss_pred             chhhHHHHHHhhHhhhcC--------CCCHHHHHHHHHhhccCChhhHHHHHHHhhc
Q psy6893         708 NEMVRHGGCLGLGLAAMG--------SARDDIYEQLKFNLYQDDAVTGEAAGIAMGL  756 (988)
Q Consensus       708 ~~~ir~gA~LGLGla~~G--------s~~~dv~~~L~~~l~~D~~~~~e~AalAlGL  756 (988)
                      +..+|..|+..||-..-.        ..-+.++..|...+ .|+....+.|+.+++-
T Consensus       421 ~~~vr~~a~~~l~~~~~~~~~~~~~~~~l~~~l~~l~~~l-~~~~~v~~~a~~al~~  476 (876)
T 1qgr_A          421 SVVVRDTAAWTVGRICELLPEAAINDVYLAPLLQCLIEGL-SAEPRVASNVCWAFSS  476 (876)
T ss_dssp             SHHHHHHHHHHHHHHHHHCGGGTSSTTTHHHHHHHHHHHT-TSCHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHHHhCchhcccHHHHHHHHHHHHHHH-cCCHHHHHHHHHHHHH
Confidence            678999999999865422        11234555566555 3443333445555444

>1xm9_A Plakophilin 1; armadillo repeat, cell adhesion; 2.80A {Homo sapiens} SCOP: a.118.1.24

Probab=89.85  E-value=31  Score=39.23  Aligned_cols=78  Identities=13%  Similarity=0.011  Sum_probs=49.2

Q ss_pred             ccCChHHHHHHHhhcCCCCCCCCCccchhhHHHHHhhhccCCchH-------------HHHHHHHHhhhcCchhhHHHHH
Q psy6893         650 HRGHETEALAHMQSYLPRETGPTSGYYEGGGLYALGLIHANHGAV-------------INDYLLGQVKDATNEMVRHGGC  716 (988)
Q Consensus       650 h~gn~~~~l~~L~~yL~~~~~s~~~~~k~GAL~AlGlI~ag~~~~-------------~~~~Ll~~l~~s~~~~ir~gA~  716 (988)
                      ..|+. .++..|-.+|.   .+.++.++..|+-+|+-+.+|++..             .+..|.+.+ .+.++.++..|+
T Consensus       278 ~l~~~-~~l~~L~~lL~---~~~~~~~~e~a~~aL~nl~~~~~~~~~~~~~~~v~~~~~l~~Lv~LL-~~~~~~v~~~A~  352 (457)
T 1xm9_A          278 WLYHS-DAIRTYLNLMG---KSKKDATLEACAGALQNLTASKGLMSSGMSQLIGLKEKGLPQIARLL-QSGNSDVVRSGA  352 (457)
T ss_dssp             GGGSH-HHHHHHHHHHH---HCCCHHHHHHHHHHHHHHTTCSSSHHHHHHHHHHTTSCCHHHHHHHT-TCSCHHHHHHHH
T ss_pred             HHhCc-chHHHHHHHHh---hcCCHHHHHHHHHHHHHhccCcCcchHHHHHHHHHHcCCchHHHHHH-hCCCHhHHHHHH
Confidence            34554 35555555664   2445788888999999887765320             234455444 455677888888


Q ss_pred             HhhHhhhcCCCCHHHH
Q psy6893         717 LGLGLAAMGSARDDIY  732 (988)
Q Consensus       717 LGLGla~~Gs~~~dv~  732 (988)
                      -.|.-...++.+.+++
T Consensus       353 ~aL~nls~~~~~~~~i  368 (457)
T 1xm9_A          353 SLLSNMSRHPLLHRVM  368 (457)
T ss_dssp             HHHHHHHTSGGGHHHH
T ss_pred             HHHHHHhcCHHHHHHH
Confidence            8888776666555443

>3nmw_A APC variant protein; ARMADIILO repeats domain, cell adhesion-cell cycle complex; 1.60A {Homo sapiens} PDB: 3nmx_A 3t7u_A 3au3_A 3qhe_A

Probab=89.42  E-value=8.8  Score=42.69  Aligned_cols=210  Identities=11%  Similarity=0.027  Sum_probs=109.6

Q ss_pred             CccchhhHHHHHhhhccCCch-------HHHHHHHHHhhh----------cCchhhHHHHHHhhHhhhcCCC-CHH-H--
Q psy6893         673 SGYYEGGGLYALGLIHANHGA-------VINDYLLGQVKD----------ATNEMVRHGGCLGLGLAAMGSA-RDD-I--  731 (988)
Q Consensus       673 ~~~~k~GAL~AlGlI~ag~~~-------~~~~~Ll~~l~~----------s~~~~ir~gA~LGLGla~~Gs~-~~d-v--  731 (988)
                      ......+|+-+|+.|......       ..+..|...+..          +.+..++..|+..|.-...++. +.. +  
T Consensus        45 ~~~~~~~A~~aL~nls~d~e~R~~i~~~G~l~~Lv~LL~~~~~~~~~~~~~~~~~~q~~Aa~aL~nLa~~~~~~k~~i~~  124 (354)
T 3nmw_A           45 VEHQICPAVCVLMKLSFDEEHRHAMNELGGLQAIAELLQVDCEMYGLTNDHYSITLRRYAGMALTNLTFGDVANKATLCS  124 (354)
T ss_dssp             GGGTHHHHHHHHHHHHTSHHHHHHHHHTTHHHHHHHHHHHHHHHHTTSCCHHHHHHHHHHHHHHHHHTSSCHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHcCCHHHHHHHHHcCCHHHHHHHHhcccccccccCCCCCHHHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            445566899999999655311       135555555521          1235678888888887766654 222 2  


Q ss_pred             ----HHHHHHhhccCChhhHHHHHHHhhcccCCCC--CHH------HHHHHHHHHHhcccchhhhHHHHHHHHHhcCC--
Q psy6893         732 ----YEQLKFNLYQDDAVTGEAAGIAMGLVLLGSK--SES------AIQDMVAYAKETQHEKILRGLAVGISFIMYGQ--  797 (988)
Q Consensus       732 ----~~~L~~~l~~D~~~~~e~AalAlGLI~vGs~--n~d------~i~~ll~~~~etq~e~i~R~lalgLgLi~~Gr--  797 (988)
                          +..|..+|.+++....+.|+-+++-+-.++.  |.+      ++..|++++..+.+....+..+-.|.=+-.+.  
T Consensus       125 ~~GaIp~LV~LL~s~~~~v~~~A~~aL~nLs~~~~~~~k~~i~~~G~Ip~Lv~lL~~~~~~~~~~~A~~aL~nLs~~~~~  204 (354)
T 3nmw_A          125 MKGCMRALVAQLKSESEDLQQVIASVLRNLSWRADVNSKKTLREVGSVKALMECALEVKKESTLKSVLSALWNLSAHCTE  204 (354)
T ss_dssp             CHHHHHHHHHGGGCSCHHHHHHHHHHHHHHHTTCCHHHHHHHHHTTHHHHHHHHHHHCCCHHHHHHHHHHHHHHHTTCHH
T ss_pred             cCCcHHHHHHHHCCCCHHHHHHHHHHHHHHhccCCHHHHHHHHHCCCHHHHHHHHhcCCCHHHHHHHHHHHHHHHccChh
Confidence                4456666655555566678888887755422  111      35566666544444445554444443333322  


Q ss_pred             --------chhHHHHHHHHhcccch----hhhhhcHHHHHHHHcCCCChhHHHHHHHHHHHhhhhhhhhhhhccCCCchH
Q psy6893         798 --------LENADDLVRDLCEEKDA----ILRRSGMYTIAMAYCGSGSNVATKRLLHDAILRRSGMYTIAMAYCGSGSNV  865 (988)
Q Consensus       798 --------~e~a~~li~~L~~~~dp----~~r~~~~~~lslAyaGtGnvl~iq~lL~~~~~~~lG~alia~g~~~tgn~~  865 (988)
                              ...+..+++.|....+.    +.+.+.-..-.++..=+|+....+.                +     ....
T Consensus       205 nk~~i~~~~Gai~~Lv~lL~~~~~~~~~~v~~~A~~aL~nLs~~~a~~~~~~~~----------------i-----~~~g  263 (354)
T 3nmw_A          205 NKADICAVDGALAFLVGTLTYRSQTNTLAIIESGGGILRNVSSLIATNEDHRQI----------------L-----RENN  263 (354)
T ss_dssp             HHHHHHHSTTHHHHHHHHTTCCCSSSCCHHHHHHHHHHHHHHHHHTTCHHHHHH----------------H-----HTTT
T ss_pred             hhHHHHHhcCcHHHHHHHhccCCCcccHHHHHHHHHHHHHHHhhccCCHHHHHH----------------H-----HHcC
Confidence                    12233444444432221    1111111111111000011111110                1     1123


Q ss_pred             HHHHhhhhhccCCChhhhhhHHhhhhhhhhhhhhhhHhh
Q psy6893         866 ATKRLLHVAVSDVNDDVRREAVTALGFILFRKKRTRRKK  904 (988)
Q Consensus       866 air~ll~~~~sd~~~~vrraa~~alg~i~~~npeq~pk~  904 (988)
                      +|..|++++.+ +++.+++.|+.+|+-+..+++++....
T Consensus       264 ~i~~Lv~lL~~-~~~~v~~~A~~aL~nLa~~~~~~~~~i  301 (354)
T 3nmw_A          264 CLQTLLQHLKS-HSLTIVSNACGTLWNLSARNPKDQEAL  301 (354)
T ss_dssp             HHHHHHHHTTC-SCHHHHHHHHHHHHHHTSSCHHHHHHH
T ss_pred             CHHHHHHHHcC-CChHHHHHHHHHHHHHhCCCHHHHHHH
Confidence            57788888765 688899999999988887777765444

>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=89.16  E-value=11  Score=38.62  Aligned_cols=216  Identities=10%  Similarity=0.019  Sum_probs=103.7

Q ss_pred             ccccCChHHHHHHHhhcCCCCCCCCCccchhhHHHHHhhhccCCc---hHHHHHHHHHhhhcCchhhHHHHHHhhHhhhc
Q psy6893         648 VIHRGHETEALAHMQSYLPRETGPTSGYYEGGGLYALGLIHANHG---AVINDYLLGQVKDATNEMVRHGGCLGLGLAAM  724 (988)
Q Consensus       648 ~Ih~gn~~~~l~~L~~yL~~~~~s~~~~~k~GAL~AlGlI~ag~~---~~~~~~Ll~~l~~s~~~~ir~gA~LGLGla~~  724 (988)
                      ....|+.++++..+...+...  +    ....+++.+|.+....+   .+++.++...+...++.   ..+...+|.++.
T Consensus        66 ~~~~~~~~~A~~~~~~~~~~~--~----~~~~~~~~l~~~~~~~~~~~~~A~~~~~~a~~~~~~~---~~~~~~l~~~~~  136 (330)
T 3hym_B           66 LVELNKANELFYLSHKLVDLY--P----SNPVSWFAVGCYYLMVGHKNEHARRYLSKATTLEKTY---GPAWIAYGHSFA  136 (330)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHC--T----TSTHHHHHHHHHHHHSCSCHHHHHHHHHHHHTTCTTC---THHHHHHHHHHH
T ss_pred             HHHhhhHHHHHHHHHHHHHhC--c----CCHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhCCcc---HHHHHHHHHHHH
Confidence            356677777777776666311  1    11334555555544444   23555554444322221   123445555555


Q ss_pred             CCCCH-HHHHHHHHhhccCChhhHHHHHHHhhcccCCCCCHHHHHHHHHHHHhcccchhhhHHHHHHHHHhcCCchhHHH
Q psy6893         725 GSARD-DIYEQLKFNLYQDDAVTGEAAGIAMGLVLLGSKSESAIQDMVAYAKETQHEKILRGLAVGISFIMYGQLENADD  803 (988)
Q Consensus       725 Gs~~~-dv~~~L~~~l~~D~~~~~e~AalAlGLI~vGs~n~d~i~~ll~~~~etq~e~i~R~lalgLgLi~~Gr~e~a~~  803 (988)
                      -.++. +++..+...+..++...  .+-+.+|.++.-.++.+-...+++-+.....+...-...+|..+...|+.+.+..
T Consensus       137 ~~~~~~~A~~~~~~a~~~~~~~~--~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~~~~~~A~~  214 (330)
T 3hym_B          137 VESEHDQAMAAYFTAAQLMKGCH--LPMLYIGLEYGLTNNSKLAERFFSQALSIAPEDPFVMHEVGVVAFQNGEWKTAEK  214 (330)
T ss_dssp             HHTCHHHHHHHHHHHHHHTTTCS--HHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HccCHHHHHHHHHHHHHhccccH--HHHHHHHHHHHHHhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHcccHHHHHH
Confidence            55543 33444444332222111  1222345555555565544444443333322222333444544556677766666


Q ss_pred             HHHHHhccc----ch---hhhhhcHHHHHHHHcCCCChhHHHHHHHHHHH---------hhhhhhhhhhhccCCCchHHH
Q psy6893         804 LVRDLCEEK----DA---ILRRSGMYTIAMAYCGSGSNVATKRLLHDAIL---------RRSGMYTIAMAYCGSGSNVAT  867 (988)
Q Consensus       804 li~~L~~~~----dp---~~r~~~~~~lslAyaGtGnvl~iq~lL~~~~~---------~~lG~alia~g~~~tgn~~ai  867 (988)
                      .++......    ++   -......+.++..|...|+.......+..+..         ..+|.++..+|+.    ..|+
T Consensus       215 ~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~----~~A~  290 (330)
T 3hym_B          215 WFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKYAEALDYHRQALVLIPQNASTYSAIGYIHSLMGNF----ENAV  290 (330)
T ss_dssp             HHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCSHHHHHHHHHHHHHTCH----HHHH
T ss_pred             HHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhCccchHHHHHHHHHHHHhccH----HHHH
Confidence            665554321    00   00112345566666666777666666666554         3456666666654    5556


Q ss_pred             HHhhhhhccCC
Q psy6893         868 KRLLHVAVSDV  878 (988)
Q Consensus       868 r~ll~~~~sd~  878 (988)
                      ..+-..+..+|
T Consensus       291 ~~~~~al~~~p  301 (330)
T 3hym_B          291 DYFHTALGLRR  301 (330)
T ss_dssp             HHHHTTTTTCS
T ss_pred             HHHHHHHccCC
Confidence            55555554454

>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=89.15  E-value=14  Score=37.96  Aligned_cols=183  Identities=15%  Similarity=0.001  Sum_probs=86.9

Q ss_pred             cccC-ChHHHHHHHhhcCCCCCCCCCccchhhHHHHHhhhccC--CchHHHHHHHHHhhhcCchhhHHHHHHhhHhhhcC
Q psy6893         649 IHRG-HETEALAHMQSYLPRETGPTSGYYEGGGLYALGLIHAN--HGAVINDYLLGQVKDATNEMVRHGGCLGLGLAAMG  725 (988)
Q Consensus       649 Ih~g-n~~~~l~~L~~yL~~~~~s~~~~~k~GAL~AlGlI~ag--~~~~~~~~Ll~~l~~s~~~~ir~gA~LGLGla~~G  725 (988)
                      ...| +.++++..+...+...    ..+  .-+++.+|.++..  ...+++..+...+...++.   ..+...+|.++.-
T Consensus       101 ~~~~~~~~~A~~~~~~a~~~~----~~~--~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~---~~~~~~l~~~~~~  171 (330)
T 3hym_B          101 LMVGHKNEHARRYLSKATTLE----KTY--GPAWIAYGHSFAVESEHDQAMAAYFTAAQLMKGC---HLPMLYIGLEYGL  171 (330)
T ss_dssp             HHSCSCHHHHHHHHHHHHTTC----TTC--THHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTC---SHHHHHHHHHHHH
T ss_pred             HHhhhhHHHHHHHHHHHHHhC----Ccc--HHHHHHHHHHHHHccCHHHHHHHHHHHHHhcccc---HHHHHHHHHHHHH
Confidence            3456 7778888887776421    111  2344455544433  3344555555444333221   1123335666666


Q ss_pred             CCCHH-HHHHHHHhhccCChhhHHHHHHHhhcccCCCCCHHHHHHHHHHHHhc----cc----ch-hhhHHHHHHHHHhc
Q psy6893         726 SARDD-IYEQLKFNLYQDDAVTGEAAGIAMGLVLLGSKSESAIQDMVAYAKET----QH----EK-ILRGLAVGISFIMY  795 (988)
Q Consensus       726 s~~~d-v~~~L~~~l~~D~~~~~e~AalAlGLI~vGs~n~d~i~~ll~~~~et----q~----e~-i~R~lalgLgLi~~  795 (988)
                      .++.+ ....+...+..++...  .+-..+|.++.-.++.+-...+++-+.+.    ..    .. ..-...+|..+...
T Consensus       172 ~~~~~~A~~~~~~al~~~~~~~--~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~  249 (330)
T 3hym_B          172 TNNSKLAERFFSQALSIAPEDP--FVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKL  249 (330)
T ss_dssp             TTCHHHHHHHHHHHHTTCTTCH--HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHT
T ss_pred             HhhHHHHHHHHHHHHHhCCCCh--HHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHh
Confidence            66533 4445544443332221  23344555555555655443333322211    10    11 12334555556667


Q ss_pred             CCchhHHHHHHHHhcccchhhhhhcHHHHHHHHcCCCChhHHHHHHHHH
Q psy6893         796 GQLENADDLVRDLCEEKDAILRRSGMYTIAMAYCGSGSNVATKRLLHDA  844 (988)
Q Consensus       796 Gr~e~a~~li~~L~~~~dp~~r~~~~~~lslAyaGtGnvl~iq~lL~~~  844 (988)
                      |+.+.+...++.........  ....+.++..|.-.|+.....+.+..+
T Consensus       250 g~~~~A~~~~~~a~~~~~~~--~~~~~~la~~~~~~g~~~~A~~~~~~a  296 (330)
T 3hym_B          250 KKYAEALDYHRQALVLIPQN--ASTYSAIGYIHSLMGNFENAVDYFHTA  296 (330)
T ss_dssp             TCHHHHHHHHHHHHHHSTTC--SHHHHHHHHHHHHHTCHHHHHHHHHTT
T ss_pred             cCHHHHHHHHHHHHhhCccc--hHHHHHHHHHHHHhccHHHHHHHHHHH
Confidence            77777777666655432111  222345566666666665555444443

>3opb_A SWI5-dependent HO expression protein 4; heat and arm fold, myosin folding and function, myosin bindi protein, protein binding; 2.90A {Saccharomyces cerevisiae}

Probab=88.82  E-value=34  Score=42.07  Aligned_cols=30  Identities=23%  Similarity=0.164  Sum_probs=19.2

Q ss_pred             HHHhhhccCC---------CHHHHHHHHHHhccCCCchh
Q psy6893         460 TIAMAYCGSG---------SNVATKRLLHVAVSDVNDDV  489 (988)
Q Consensus       460 ~~~~AYaGTG---------N~~~Iq~LLhi~~s~~~~dv  489 (988)
                      +++|||.-..         |...+++|+.++.+..+.++
T Consensus       355 vEgLaYLSl~~~VKe~L~~d~~~L~~Lv~llk~~~d~s~  393 (778)
T 3opb_A          355 VEALAYLSLKASVKIMIRSNESFTEILLTMIKSQKMTHC  393 (778)
T ss_dssp             HHHHHHHTTSSHHHHHHHHCHHHHHHHHHHHTTTCCTTH
T ss_pred             HHHHHHHhCCHHHHHHHHhCHHHHHHHHHHHhCCCCchH
Confidence            7778887654         45557888888865333333

>3nmz_A APC variant protein; protein-protein complex, armadillo repeats, cell adhesion-CE complex; 3.01A {Homo sapiens}

Probab=87.63  E-value=19  Score=41.62  Aligned_cols=37  Identities=14%  Similarity=0.039  Sum_probs=28.9

Q ss_pred             hHHHHHhhhhhccCCChhhhhhHHhhhhhhhhhhhhhh
Q psy6893         864 NVATKRLLHVAVSDVNDDVRREAVTALGFILFRKKRTR  901 (988)
Q Consensus       864 ~~air~ll~~~~sd~~~~vrraa~~alg~i~~~npeq~  901 (988)
                      ..+|..|..++.+ .++.+|+.|+.+|.-++.++|...
T Consensus       420 ~G~I~~Lv~LL~s-~~~~v~~~Aa~AL~nL~~~~p~ky  456 (458)
T 3nmz_A          420 MGAVSMLKNLIHS-KHKMIAMGSAAALRNLMANRPAKY  456 (458)
T ss_dssp             HTHHHHHHTTTTC-SSHHHHHHHHHHHHHHHTCCSCC-
T ss_pred             CCCHHHHHHHHhC-CCHHHHHHHHHHHHHHHcCCHhhh
Confidence            3467788888765 588999999999999988887643

>3nmz_A APC variant protein; protein-protein complex, armadillo repeats, cell adhesion-CE complex; 3.01A {Homo sapiens}

Probab=87.25  E-value=10  Score=43.82  Aligned_cols=38  Identities=16%  Similarity=0.072  Sum_probs=28.9

Q ss_pred             HHHHhhhhhccCCChhhhhhHHhhhhhhhhhhhhhhHhh
Q psy6893         866 ATKRLLHVAVSDVNDDVRREAVTALGFILFRKKRTRRKK  904 (988)
Q Consensus       866 air~ll~~~~sd~~~~vrraa~~alg~i~~~npeq~pk~  904 (988)
                      +|..|++++.+ ++..+++.|+.+++-+..+++++....
T Consensus       380 ~i~~Lv~LL~~-~~~~v~~~A~~aL~nLa~~~~~~~~~i  417 (458)
T 3nmz_A          380 CLQTLLQHLKS-HSLTIVSNACGTLWNLSARNPKDQEAL  417 (458)
T ss_dssp             HHHHHHHHSSC-SCHHHHHHHHHHHHHHHSSCHHHHHHH
T ss_pred             cHHHHHHHHcC-CChHHHHHHHHHHHHHHcCCHHHHHHH
Confidence            56777787765 578899999999988887777765444

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=86.07  E-value=15  Score=36.93  Aligned_cols=85  Identities=9%  Similarity=0.038  Sum_probs=48.3

Q ss_pred             cccCChHHHHHHHhhcCCCCCCCCCccchhhHHHHHhhhccCCch--HHHHHHHHHhhhcCchhhHHHHHHhhHhhhcCC
Q psy6893         649 IHRGHETEALAHMQSYLPRETGPTSGYYEGGGLYALGLIHANHGA--VINDYLLGQVKDATNEMVRHGGCLGLGLAAMGS  726 (988)
Q Consensus       649 Ih~gn~~~~l~~L~~yL~~~~~s~~~~~k~GAL~AlGlI~ag~~~--~~~~~Ll~~l~~s~~~~ir~gA~LGLGla~~Gs  726 (988)
                      ...|+.++++..+...+.   .+.++...+-+++.+|.++...+.  +++.++...+...++.   ..+...+|.+|...
T Consensus        48 ~~~~~~~~A~~~~~~a~~---~~~~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~a~~~~~~~---~~~~~~l~~~~~~~  121 (272)
T 3u4t_A           48 YELAKYDLAQKDIETYFS---KVNATKAKSADFEYYGKILMKKGQDSLAIQQYQAAVDRDTTR---LDMYGQIGSYFYNK  121 (272)
T ss_dssp             HHTTCHHHHHHHHHHHHT---TSCTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTC---THHHHHHHHHHHHT
T ss_pred             HHHhhHHHHHHHHHHHHh---ccCchhHHHHHHHHHHHHHHHcccHHHHHHHHHHHHhcCccc---HHHHHHHHHHHHHc
Confidence            356778888888877774   123444556666777766655443  4566555544433321   13556677777666


Q ss_pred             CCHH-HHHHHHHhh
Q psy6893         727 ARDD-IYEQLKFNL  739 (988)
Q Consensus       727 ~~~d-v~~~L~~~l  739 (988)
                      ++.+ ....+...+
T Consensus       122 ~~~~~A~~~~~~al  135 (272)
T 3u4t_A          122 GNFPLAIQYMEKQI  135 (272)
T ss_dssp             TCHHHHHHHHGGGC
T ss_pred             cCHHHHHHHHHHHh
Confidence            6643 444444444

>3l9t_A Putative uncharacterized protein SMU.31; hypothetical protein, unknown function; HET: EPE; 2.21A {Streptococcus mutans}

Probab=85.98  E-value=4.3  Score=43.02  Aligned_cols=133  Identities=14%  Similarity=0.061  Sum_probs=83.0

Q ss_pred             HHHHHHHhhhcCchhhHHHHHHhhHhhhcCCCCHHHHHHHHHhhccCChh-hHHHHHHHhhcccCCCCCHHHHHHHHHHH
Q psy6893         696 NDYLLGQVKDATNEMVRHGGCLGLGLAAMGSARDDIYEQLKFNLYQDDAV-TGEAAGIAMGLVLLGSKSESAIQDMVAYA  774 (988)
Q Consensus       696 ~~~Ll~~l~~s~~~~ir~gA~LGLGla~~Gs~~~dv~~~L~~~l~~D~~~-~~e~AalAlGLI~vGs~n~d~i~~ll~~~  774 (988)
                      +..|...|-+++...+|.-|+.-||..   +..++++..|.+.+..|+.. ..+.++-+.|-+....+...++..|....
T Consensus        72 ~~~la~~L~~~~~deVR~~Av~lLg~~---~~~~~~L~~ir~~va~D~~WrVre~lA~a~~~~~~~~~pe~~l~~~~~W~  148 (240)
T 3l9t_A           72 IKKLAFLAYQSDVYQVRMYAVFLFGYL---SKDKEILIFMRDEVSKDNNWRVQEVLAKAFDEFCKKIEYKKALPIIDEWL  148 (240)
T ss_dssp             HHHHHHHHHTCSSHHHHHHHHHHHHHT---TTSHHHHHHHHHTGGGCSCHHHHHHHHHHHHHHHHHHCTTTTHHHHHHHH
T ss_pred             HHHHHHHHHhCcchHHHHHHHHHHHhc---cCcHHHHHHHHHHhCCCCCccHHHHHHHHHHHHHHhcCHHHHHHHHHHHh
Confidence            334445565667779999999988876   47789999999866566654 45677777776654222223444444433


Q ss_pred             HhcccchhhhHHHHHH---HH--HhcCCchhHHHHHHHHhcccchhhhhhcHHHHHHHHcCCCCh
Q psy6893         775 KETQHEKILRGLAVGI---SF--IMYGQLENADDLVRDLCEEKDAILRRSGMYTIAMAYCGSGSN  834 (988)
Q Consensus       775 ~etq~e~i~R~lalgL---gL--i~~Gr~e~a~~li~~L~~~~dp~~r~~~~~~lslAyaGtGnv  834 (988)
                       ..++..+.|.++.++   +.  -+....+.+-.+++.|..+++++.|.+  ++-.|-=+.+-||
T Consensus       149 -~d~n~~VRR~Ase~~rpW~~~~~~k~dp~~ll~iL~~L~~D~s~yVrKS--Van~LrD~SK~~P  210 (240)
T 3l9t_A          149 -KSSNLHTRRAATEGLRIWTNRPYFKENPNEAIRRIADLKEDVSEYVRKS--VGNALRDISKKFP  210 (240)
T ss_dssp             -HCSSHHHHHHHHHHTCSGGGSTTTTTCHHHHHHHHHTTTTCSCHHHHHH--HHHHHHHHHTTCH
T ss_pred             -cCCCHHHHHHHHHhhHHHhccchhhcCHHHHHHHHHHhcCChHHHHHHH--HHHHHHHHhhhCH
Confidence             222344456666665   11  123445678889999999999988877  4444444443333

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=85.22  E-value=21  Score=35.72  Aligned_cols=217  Identities=16%  Similarity=0.105  Sum_probs=116.7

Q ss_pred             ccCChHHHHHHHhhcCCCCCCCCCccchhhHHHHHhhhccCCch--HHHHHHHHHhhhcCchhhHHHHHHhhHhhhcCCC
Q psy6893         650 HRGHETEALAHMQSYLPRETGPTSGYYEGGGLYALGLIHANHGA--VINDYLLGQVKDATNEMVRHGGCLGLGLAAMGSA  727 (988)
Q Consensus       650 h~gn~~~~l~~L~~yL~~~~~s~~~~~k~GAL~AlGlI~ag~~~--~~~~~Ll~~l~~s~~~~ir~gA~LGLGla~~Gs~  727 (988)
                      ..|+.++++..+...+...  ..++....-+++.+|.++...+.  +++.++...+...++.   ..+...+|.++...+
T Consensus        17 ~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~---~~~~~~la~~~~~~~   91 (275)
T 1xnf_A           17 PTLQQEVILARMEQILASR--ALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIRPDM---PEVFNYLGIYLTQAG   91 (275)
T ss_dssp             CCHHHHHHHHHHHHHHTSS--CCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCC---HHHHHHHHHHHHHTT
T ss_pred             ccchHHHHHHHHHHHHhcc--cccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcCCCc---HHHHHHHHHHHHHcc
Confidence            3478888999888877521  12234567778888877665543  4666665544433321   224566777776666


Q ss_pred             CH-HHHHHHHHhhccCChhhHHHHHHHhhcccCCCCCHHHHHHHHHHHHhcccchhhhHHHHHHHHHhcCCchhHHHHHH
Q psy6893         728 RD-DIYEQLKFNLYQDDAVTGEAAGIAMGLVLLGSKSESAIQDMVAYAKETQHEKILRGLAVGISFIMYGQLENADDLVR  806 (988)
Q Consensus       728 ~~-dv~~~L~~~l~~D~~~~~e~AalAlGLI~vGs~n~d~i~~ll~~~~etq~e~i~R~lalgLgLi~~Gr~e~a~~li~  806 (988)
                      +. +.+..+...+..++...  .+-+.+|.++...++.+-...+++-+.+...+........++. ...|+.+.+...++
T Consensus        92 ~~~~A~~~~~~al~~~~~~~--~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~-~~~~~~~~A~~~~~  168 (275)
T 1xnf_A           92 NFDAAYEAFDSVLELDPTYN--YAHLNRGIALYYGGRDKLAQDDLLAFYQDDPNDPFRSLWLYLA-EQKLDEKQAKEVLK  168 (275)
T ss_dssp             CHHHHHHHHHHHHHHCTTCT--HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH-HHHHCHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHhcCcccc--HHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCChHHHHHHHHH-HHhcCHHHHHHHHH
Confidence            63 34555555553333221  3344556666666666544444433332222222222333332 34477777777774


Q ss_pred             HHhcccchhhhhhcHHHHHHHHcCCCChhHHHHHHHHHH-------------HhhhhhhhhhhhccCCCchHHHHHhhhh
Q psy6893         807 DLCEEKDAILRRSGMYTIAMAYCGSGSNVATKRLLHDAI-------------LRRSGMYTIAMAYCGSGSNVATKRLLHV  873 (988)
Q Consensus       807 ~L~~~~dp~~r~~~~~~lslAyaGtGnvl~iq~lL~~~~-------------~~~lG~alia~g~~~tgn~~air~ll~~  873 (988)
                      .......+.   ...+..+..|.+.++.......+..++             ...+|.++..+|+.    +.|+..+-..
T Consensus       169 ~~~~~~~~~---~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~----~~A~~~~~~a  241 (275)
T 1xnf_A          169 QHFEKSDKE---QWGWNIVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDL----DSATALFKLA  241 (275)
T ss_dssp             HHHHHSCCC---STHHHHHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCH----HHHHHHHHHH
T ss_pred             HHHhcCCcc---hHHHHHHHHHHHhcCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHcCCH----HHHHHHHHHH
Confidence            443322221   223456667778777654444444322             13467777766665    6677777666


Q ss_pred             hccCCChh
Q psy6893         874 AVSDVNDD  881 (988)
Q Consensus       874 ~~sd~~~~  881 (988)
                      +..+|++.
T Consensus       242 l~~~p~~~  249 (275)
T 1xnf_A          242 VANNVHNF  249 (275)
T ss_dssp             HTTCCTTC
T ss_pred             HhCCchhH
Confidence            66666443

>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=85.15  E-value=35  Score=37.07  Aligned_cols=22  Identities=14%  Similarity=0.226  Sum_probs=9.5

Q ss_pred             HHHHHHcCCCChhHHHHHHHHH
Q psy6893         823 TIAMAYCGSGSNVATKRLLHDA  844 (988)
Q Consensus       823 ~lslAyaGtGnvl~iq~lL~~~  844 (988)
                      .++..|.-.|+.......+..+
T Consensus       216 ~l~~~~~~~g~~~~A~~~~~~~  237 (450)
T 2y4t_A          216 KISTLYYQLGDHELSLSEVREC  237 (450)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHH
Confidence            3344444444444444444333

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=85.11  E-value=10  Score=40.23  Aligned_cols=211  Identities=13%  Similarity=0.107  Sum_probs=115.0

Q ss_pred             cccCChHHHHHHHhhcCCCCCCCCCccchhhHHHHHhhhccCCc--hHHHHHHHHHhhhcCchhhHHHHHHhhHhhhcCC
Q psy6893         649 IHRGHETEALAHMQSYLPRETGPTSGYYEGGGLYALGLIHANHG--AVINDYLLGQVKDATNEMVRHGGCLGLGLAAMGS  726 (988)
Q Consensus       649 Ih~gn~~~~l~~L~~yL~~~~~s~~~~~k~GAL~AlGlI~ag~~--~~~~~~Ll~~l~~s~~~~ir~gA~LGLGla~~Gs  726 (988)
                      ...|+.++++..+...+...  +    ...-+++.+|.++...+  .+++..+...+...++.   ..+...+|.+|.-.
T Consensus        76 ~~~g~~~~A~~~~~~al~~~--p----~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~---~~~~~~l~~~~~~~  146 (365)
T 4eqf_A           76 LKEGDLPVTILFMEAAILQD--P----GDAEAWQFLGITQAENENEQAAIVALQRCLELQPNN---LKALMALAVSYTNT  146 (365)
T ss_dssp             HHHTCHHHHHHHHHHHHHHC--T----TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTC---HHHHHHHHHHHHHT
T ss_pred             HHCCCHHHHHHHHHHHHHhC--c----CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCC---HHHHHHHHHHHHcc
Confidence            45678889999988877421  1    12456777777766554  34666665554433322   23566777777666


Q ss_pred             CCHH-HHHHHHHhhccCChhhHHH--------HHHHhhcccCCCCCHHHHHHHHHHHHhcccc--hhhhHHHHHHHHHhc
Q psy6893         727 ARDD-IYEQLKFNLYQDDAVTGEA--------AGIAMGLVLLGSKSESAIQDMVAYAKETQHE--KILRGLAVGISFIMY  795 (988)
Q Consensus       727 ~~~d-v~~~L~~~l~~D~~~~~e~--------AalAlGLI~vGs~n~d~i~~ll~~~~etq~e--~i~R~lalgLgLi~~  795 (988)
                      ++.+ ....+...+..++......        ....+|.++...++.+-...+++-+.....+  ...-...+|..+...
T Consensus       147 g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l~~~~~~~  226 (365)
T 4eqf_A          147 SHQQDACEALKNWIKQNPKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDMIDPDLQTGLGVLFHLS  226 (365)
T ss_dssp             TCHHHHHHHHHHHHHHCHHHHCC-------------------CCHHHHHHHHHHHHHHHHSCSSCCHHHHHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHhCccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCccCHHHHHHHHHHHHHC
Confidence            6643 4444444443222211101        1123466666655555444444433332222  222344556656777


Q ss_pred             CCchhHHHHHHHHhcccchhhhhhcHHHHHHHHcCCCChhHHHHHHHHHHH---------hhhhhhhhhhhccCCCchHH
Q psy6893         796 GQLENADDLVRDLCEEKDAILRRSGMYTIAMAYCGSGSNVATKRLLHDAIL---------RRSGMYTIAMAYCGSGSNVA  866 (988)
Q Consensus       796 Gr~e~a~~li~~L~~~~dp~~r~~~~~~lslAyaGtGnvl~iq~lL~~~~~---------~~lG~alia~g~~~tgn~~a  866 (988)
                      |+.+.+...++.........  ....+.++..|.-.|+.......+..+..         ..+|.++..+|+-    ..|
T Consensus       227 g~~~~A~~~~~~al~~~p~~--~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~----~~A  300 (365)
T 4eqf_A          227 GEFNRAIDAFNAALTVRPED--YSLWNRLGATLANGDRSEEAVEAYTRALEIQPGFIRSRYNLGISCINLGAY----REA  300 (365)
T ss_dssp             TCHHHHHHHHHHHHHHCTTC--HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCC----HHH
T ss_pred             CCHHHHHHHHHHHHHhCCCC--HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHCCCH----HHH
Confidence            88888887777765443221  22346677888888898887777777664         4577777777775    555


Q ss_pred             HHHhhhhh
Q psy6893         867 TKRLLHVA  874 (988)
Q Consensus       867 ir~ll~~~  874 (988)
                      +..+-..+
T Consensus       301 ~~~~~~al  308 (365)
T 4eqf_A          301 VSNFLTAL  308 (365)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            55555444

>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=84.99  E-value=16  Score=38.40  Aligned_cols=210  Identities=11%  Similarity=0.075  Sum_probs=106.2

Q ss_pred             cccCChHHHHHHHhhcCCCCCCCCCccchhhHHHHHhhhccCCc--hHHHHHHHHHhhhcCchhhHHHHHHhhHhhhcCC
Q psy6893         649 IHRGHETEALAHMQSYLPRETGPTSGYYEGGGLYALGLIHANHG--AVINDYLLGQVKDATNEMVRHGGCLGLGLAAMGS  726 (988)
Q Consensus       649 Ih~gn~~~~l~~L~~yL~~~~~s~~~~~k~GAL~AlGlI~ag~~--~~~~~~Ll~~l~~s~~~~ir~gA~LGLGla~~Gs  726 (988)
                      ...|+.++++..+...+...    ..  ...+++.+|.++...+  .+++..+...+...++.   ..+...+|.++...
T Consensus        75 ~~~g~~~~A~~~~~~al~~~----p~--~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~---~~~~~~l~~~~~~~  145 (368)
T 1fch_A           75 LQEGDLPNAVLLFEAAVQQD----PK--HMEAWQYLGTTQAENEQELLAISALRRCLELKPDN---QTALMALAVSFTNE  145 (368)
T ss_dssp             HHTTCHHHHHHHHHHHHHSC----TT--CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTC---HHHHHHHHHHHHHT
T ss_pred             HHCCCHHHHHHHHHHHHHhC----CC--CHHHHHHHHHHHHHCcCHHHHHHHHHHHHhcCCCC---HHHHHHHHHHHHHc
Confidence            45678888888888777421    11  2345556665554443  34666555444333221   23556666676666


Q ss_pred             CCH-HHHHHHHHhhccCChhhHHHHHH--------------HhhcccCCCCCHH-HHHHHHHHHHhcccc-hhhhHHHHH
Q psy6893         727 ARD-DIYEQLKFNLYQDDAVTGEAAGI--------------AMGLVLLGSKSES-AIQDMVAYAKETQHE-KILRGLAVG  789 (988)
Q Consensus       727 ~~~-dv~~~L~~~l~~D~~~~~e~Aal--------------AlGLI~vGs~n~d-~i~~ll~~~~etq~e-~i~R~lalg  789 (988)
                      ++. +....+...+..++.........              .+|.++ ..++.+ ++..+-+.+...... ...-...+|
T Consensus       146 g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~l~  224 (368)
T 1fch_A          146 SLQRQACEILRDWLRYTPAYAHLVTPAEEGAGGAGLGPSKRILGSLL-SDSLFLEVKELFLAAVRLDPTSIDPDVQCGLG  224 (368)
T ss_dssp             TCHHHHHHHHHHHHHTSTTTGGGCC---------------CTTHHHH-HHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHhCcCcHHHHHHHHHHhhhhcccHHHHHHHHHh-hcccHHHHHHHHHHHHHhCcCcccHHHHHHHH
Confidence            653 34444444443222111000000              122222 112222 222222222111111 222344555


Q ss_pred             HHHHhcCCchhHHHHHHHHhcccchhhhhhcHHHHHHHHcCCCChhHHHHHHHHHHH---------hhhhhhhhhhhccC
Q psy6893         790 ISFIMYGQLENADDLVRDLCEEKDAILRRSGMYTIAMAYCGSGSNVATKRLLHDAIL---------RRSGMYTIAMAYCG  860 (988)
Q Consensus       790 LgLi~~Gr~e~a~~li~~L~~~~dp~~r~~~~~~lslAyaGtGnvl~iq~lL~~~~~---------~~lG~alia~g~~~  860 (988)
                      ..+...|+.+.+...++.........  ....+.++..|...|+.......+..+..         ..+|.++..+|+- 
T Consensus       225 ~~~~~~g~~~~A~~~~~~al~~~~~~--~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~g~~-  301 (368)
T 1fch_A          225 VLFNLSGEYDKAVDCFTAALSVRPND--YLLWNKLGATLANGNQSEEAVAAYRRALELQPGYIRSRYNLGISCINLGAH-  301 (368)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCTTC--HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCH-
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCcCC--HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCCCH-
Confidence            55666788888777777655432211  12345677778888888887777777654         4577777777775 


Q ss_pred             CCchHHHHHhhhhh
Q psy6893         861 SGSNVATKRLLHVA  874 (988)
Q Consensus       861 tgn~~air~ll~~~  874 (988)
                         ..|+..+-..+
T Consensus       302 ---~~A~~~~~~al  312 (368)
T 1fch_A          302 ---REAVEHFLEAL  312 (368)
T ss_dssp             ---HHHHHHHHHHH
T ss_pred             ---HHHHHHHHHHH
Confidence               55555554444

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=84.93  E-value=15  Score=38.97  Aligned_cols=26  Identities=15%  Similarity=0.048  Sum_probs=13.2

Q ss_pred             hhhhhhhhhccCCCchHHHHHhhhhhccCC
Q psy6893         849 SGMYTIAMAYCGSGSNVATKRLLHVAVSDV  878 (988)
Q Consensus       849 lG~alia~g~~~tgn~~air~ll~~~~sd~  878 (988)
                      +|.++..+|+-    +.|+..|...+..+|
T Consensus       206 la~~~~~~g~~----~eA~~~l~~al~~~p  231 (291)
T 3mkr_A          206 QAACHMAQGRW----EAAEGVLQEALDKDS  231 (291)
T ss_dssp             HHHHHHHTTCH----HHHHHHHHHHHHHCT
T ss_pred             HHHHHHHcCCH----HHHHHHHHHHHHhCC
Confidence            44455555554    455555555554444

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=84.78  E-value=51  Score=36.21  Aligned_cols=215  Identities=10%  Similarity=-0.041  Sum_probs=113.4

Q ss_pred             cccCChHHHHHHHhhcCCCCCCCCCccchhhHHHHHhhhccCCch--HHHHHHHHHhhhcCchhhHHHHHHhhHhhhcCC
Q psy6893         649 IHRGHETEALAHMQSYLPRETGPTSGYYEGGGLYALGLIHANHGA--VINDYLLGQVKDATNEMVRHGGCLGLGLAAMGS  726 (988)
Q Consensus       649 Ih~gn~~~~l~~L~~yL~~~~~s~~~~~k~GAL~AlGlI~ag~~~--~~~~~Ll~~l~~s~~~~ir~gA~LGLGla~~Gs  726 (988)
                      ...|+.++++..+...+..     ++.  ..+++.+|.++...+.  +++..+...+...++..   .+...+|.++...
T Consensus       248 ~~~~~~~~A~~~~~~~l~~-----~~~--~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~---~~~~~l~~~~~~~  317 (514)
T 2gw1_A          248 FLKNDPLGAHEDIKKAIEL-----FPR--VNSYIYMALIMADRNDSTEYYNYFDKALKLDSNNS---SVYYHRGQMNFIL  317 (514)
T ss_dssp             HHSSCHHHHHHHHHHHHHH-----CCC--HHHHHHHHHHHHTSSCCTTGGGHHHHHHTTCTTCT---HHHHHHHHHHHHT
T ss_pred             HHCCCHHHHHHHHHHHHhh-----Ccc--HHHHHHHHHHHHHCCCHHHHHHHHHHHhhcCcCCH---HHHHHHHHHHHHh
Confidence            3467888888888877641     122  6666777766655543  34444444333222211   1344555555444


Q ss_pred             CC-HHHHHHHHHhhccCChhhHHHHHHHhhcccCCCCCHHHHHHHHHHHHhcccchhhhHHHHHHHHHhcCCchhHHHHH
Q psy6893         727 AR-DDIYEQLKFNLYQDDAVTGEAAGIAMGLVLLGSKSESAIQDMVAYAKETQHEKILRGLAVGISFIMYGQLENADDLV  805 (988)
Q Consensus       727 ~~-~dv~~~L~~~l~~D~~~~~e~AalAlGLI~vGs~n~d~i~~ll~~~~etq~e~i~R~lalgLgLi~~Gr~e~a~~li  805 (988)
                      ++ ++....+...+..++...  .+-..+|.++.-.++.+-...++.-+.........-...+|..+...|+.+.+...+
T Consensus       318 ~~~~~A~~~~~~~~~~~~~~~--~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~  395 (514)
T 2gw1_A          318 QNYDQAGKDFDKAKELDPENI--FPYIQLACLAYRENKFDDCETLFSEAKRKFPEAPEVPNFFAEILTDKNDFDKALKQY  395 (514)
T ss_dssp             TCTTHHHHHHHHHHHTCSSCS--HHHHHHHHHTTTTTCHHHHHHHHHHHHHHSTTCSHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHhChhhH--HHHHHHHHHHHHcCCHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            44 334555555443333221  234456666666667655444443333322222233445555566778888777777


Q ss_pred             HHHhcccchhhh----hhcHHHHHHHHcC---CCChhHHHHHHHHHHH---------hhhhhhhhhhhccCCCchHHHHH
Q psy6893         806 RDLCEEKDAILR----RSGMYTIAMAYCG---SGSNVATKRLLHDAIL---------RRSGMYTIAMAYCGSGSNVATKR  869 (988)
Q Consensus       806 ~~L~~~~dp~~r----~~~~~~lslAyaG---tGnvl~iq~lL~~~~~---------~~lG~alia~g~~~tgn~~air~  869 (988)
                      +...........    ....+.++..|..   .|+.....+.+..+..         ..+|.++..+|+.    ..|+..
T Consensus       396 ~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~----~~A~~~  471 (514)
T 2gw1_A          396 DLAIELENKLDGIYVGIAPLVGKATLLTRNPTVENFIEATNLLEKASKLDPRSEQAKIGLAQMKLQQEDI----DEAITL  471 (514)
T ss_dssp             HHHHHHHHTSSSCSSCSHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH----HHHHHH
T ss_pred             HHHHHhhhccchHHHHHHHHHHHHHHHhhhhhcCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHhcCH----HHHHHH
Confidence            665543211111    1245667777777   7887777776666553         3455565555554    455555


Q ss_pred             hhhhhccCCC
Q psy6893         870 LLHVAVSDVN  879 (988)
Q Consensus       870 ll~~~~sd~~  879 (988)
                      +-..+..+|+
T Consensus       472 ~~~a~~~~~~  481 (514)
T 2gw1_A          472 FEESADLART  481 (514)
T ss_dssp             HHHHHHHCSS
T ss_pred             HHHHHHhccc
Confidence            5555544553

>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=84.50  E-value=6.7  Score=41.46  Aligned_cols=237  Identities=8%  Similarity=-0.002  Sum_probs=112.5

Q ss_pred             HHHhhcccchhhhhhhhcccccCChHHHHH-HHhhcCCCCCCCCCccchhhHHHHHhhhccCCc--hHHHHHHHHHhhhc
Q psy6893         630 WLARATNWAKLTATASLGVIHRGHETEALA-HMQSYLPRETGPTSGYYEGGGLYALGLIHANHG--AVINDYLLGQVKDA  706 (988)
Q Consensus       630 wl~k~~~w~kfsA~ASLG~Ih~gn~~~~l~-~L~~yL~~~~~s~~~~~k~GAL~AlGlI~ag~~--~~~~~~Ll~~l~~s  706 (988)
                      |-.-...|..+.....-.....|+.++++. .+.+-+.-  ...+++...-+++.+|.+....+  .+++..+...+...
T Consensus        17 ~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~a~~~--~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~   94 (368)
T 1fch_A           17 WDKLQAELEEMAKRDAEAHPWLSDYDDLTSATYDKGYQF--EEENPLRDHPQPFEEGLRRLQEGDLPNAVLLFEAAVQQD   94 (368)
T ss_dssp             -----------------------------CHHHHCCCCC--CSSCTTTTCSSHHHHHHHHHHTTCHHHHHHHHHHHHHSC
T ss_pred             HHHHHHHHHHHHcCCchhhHHHHHHHHHHhhhhhHHHhc--CCCCcccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC
Confidence            433334454443333223445567888887 77765532  13345555566666666655544  45666665555433


Q ss_pred             CchhhHHHHHHhhHhhhcCCCCH-HHHHHHHHhhccCChhhHHHHHHHhhcccCCCCCHHHHHHHHHHHHhcc-cc-hhh
Q psy6893         707 TNEMVRHGGCLGLGLAAMGSARD-DIYEQLKFNLYQDDAVTGEAAGIAMGLVLLGSKSESAIQDMVAYAKETQ-HE-KIL  783 (988)
Q Consensus       707 ~~~~ir~gA~LGLGla~~Gs~~~-dv~~~L~~~l~~D~~~~~e~AalAlGLI~vGs~n~d~i~~ll~~~~etq-~e-~i~  783 (988)
                      ++.   ..+...+|.++...++. +....+...+..++...  .+-..+|.++...++.+-...+++-+.... .. ...
T Consensus        95 p~~---~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~--~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~  169 (368)
T 1fch_A           95 PKH---MEAWQYLGTTQAENEQELLAISALRRCLELKPDNQ--TALMALAVSFTNESLQRQACEILRDWLRYTPAYAHLV  169 (368)
T ss_dssp             TTC---HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCH--HHHHHHHHHHHHTTCHHHHHHHHHHHHHTSTTTGGGC
T ss_pred             CCC---HHHHHHHHHHHHHCcCHHHHHHHHHHHHhcCCCCH--HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCcHHHH
Confidence            322   23556777777777764 45555555553333222  233455555555666554444333322211 11 111


Q ss_pred             hHH--------------HHHHHHHhcCCchhHHHHHHHHhcccchhhhhhcHHHHHHHHcCCCChhHHHHHHHHHHH---
Q psy6893         784 RGL--------------AVGISFIMYGQLENADDLVRDLCEEKDAILRRSGMYTIAMAYCGSGSNVATKRLLHDAIL---  846 (988)
Q Consensus       784 R~l--------------algLgLi~~Gr~e~a~~li~~L~~~~dp~~r~~~~~~lslAyaGtGnvl~iq~lL~~~~~---  846 (988)
                      ...              .++..+ ..|+.+.+...++...............+.++..|...|+.......+..+..   
T Consensus       170 ~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~  248 (368)
T 1fch_A          170 TPAEEGAGGAGLGPSKRILGSLL-SDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVRP  248 (368)
T ss_dssp             C---------------CTTHHHH-HHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHhhhhcccHHHHHHHHHh-hcccHHHHHHHHHHHHHhCcCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCc
Confidence            111              233322 55677777766666554322211223346678888888999887777777654   


Q ss_pred             ------hhhhhhhhhhhccCCCchHHHHHhhhhhccCC
Q psy6893         847 ------RRSGMYTIAMAYCGSGSNVATKRLLHVAVSDV  878 (988)
Q Consensus       847 ------~~lG~alia~g~~~tgn~~air~ll~~~~sd~  878 (988)
                            ..+|.++..+|+-    +.|+..+-..+..+|
T Consensus       249 ~~~~~~~~l~~~~~~~g~~----~~A~~~~~~al~~~~  282 (368)
T 1fch_A          249 NDYLLWNKLGATLANGNQS----EEAVAAYRRALELQP  282 (368)
T ss_dssp             TCHHHHHHHHHHHHHTTCH----HHHHHHHHHHHHHCT
T ss_pred             CCHHHHHHHHHHHHHcCCH----HHHHHHHHHHHHhCC
Confidence                  4577777777665    667777766665555

>2qk2_A LP04448P; mini spindles, MSPS, XMAP215, DIS1, STU2, heat repeat, micro plus END, +TIP, protein binding; 2.10A {Drosophila melanogaster}

Probab=84.40  E-value=7.3  Score=40.02  Aligned_cols=161  Identities=16%  Similarity=0.219  Sum_probs=77.5

Q ss_pred             CCCccchhHHHHHhhhccCCC---CchhHHHHHHhhhhcC-CCchhHHHHHHHHHHHhhccCCC------hhHHHHHHHh
Q psy6893         310 TSGYYEGGGLYALGLIHANHG---AVINDYLLGQVKDATN-EDDAVTGEAAGIAMGLVLLGSKS------ESAIQDMVAY  379 (988)
Q Consensus       310 ~~~y~~~GaL~alGli~~g~~---~~~~d~l~~lL~~~~~-~d~~~~~~aA~lglGL~~~Gs~~------~~~~~~L~~~  379 (988)
                      .+...|-+|+.+|+-+-.+++   ......+...|...+. ..+..++.+|.-++|..--+-+.      +.++..|+..
T Consensus        27 ~~w~~R~~a~~~L~~l~~~~~~~~~~~~~~i~~~L~~~l~kd~~~~V~~~a~~~l~~la~~l~~~~~~~~~~ilp~ll~~  106 (242)
T 2qk2_A           27 KKWTLRKESLEVLEKLLTDHPKLENGEYGALVSALKKVITKDSNVVLVAMAGKCLALLAKGLAKRFSNYASACVPSLLEK  106 (242)
T ss_dssp             SSHHHHHHHHHHHHHHHHHCSSBCCCCCHHHHHHHHHHHHHCSCHHHHHHHHHHHHHHHHHHGGGGHHHHHHHHHHHHHG
T ss_pred             CCHHHHHHHHHHHHHHHccCCCCCCCCHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHH
Confidence            356666777777755433321   1111223333333332 34567778888888866544332      2233444444


Q ss_pred             hhhcchHHHHHHHHHHHHHHhc-CCh-hhHHHHHHHHhhcchhhhhccchhHHHHHhhhhhhhccccchhhHHhhccchh
Q psy6893         380 AKETQHEKILRGLAVGISFIMY-GQL-ENADDLVRDLCEEKDAILRRSGMYTIAMAYCVSYLYFDLFSDLTYRIVKNRSG  457 (988)
Q Consensus       380 ~~dt~~E~~~r~lalgl~~v~~-g~~-e~a~~li~~L~~~~d~~lr~~~~~~~~l~l~Lgll~~g~~~e~~l~~~~~~~~  457 (988)
                      +.|.. ..++.+...++.-+.. ... +....+.+ .+.++++..|..  ...++                         
T Consensus       107 l~d~~-~~vr~~a~~aL~~~~~~~~~~~ll~~l~~-~l~~~~~~vr~~--~l~~l-------------------------  157 (242)
T 2qk2_A          107 FKEKK-PNVVTALREAIDAIYASTSLEAQQESIVE-SLSNKNPSVKSE--TALFI-------------------------  157 (242)
T ss_dssp             GGCCC-HHHHHHHHHHHHHHHTTSCHHHHHHHHHH-HTTCSCHHHHHH--HHHHH-------------------------
T ss_pred             HcCCC-HHHHHHHHHHHHHHHHcCCHHHHHHHHHH-HHcCCChHHHHH--HHHHH-------------------------
Confidence            44543 3344444444443332 222 23333333 334556666653  11111                         


Q ss_pred             HHHHHhhhccCC-----CH-HHHHHHHHHhccCCCchhhHHHHHHHHHHhh
Q psy6893         458 MYTIAMAYCGSG-----SN-VATKRLLHVAVSDVNDDVRREAVTALGFILF  502 (988)
Q Consensus       458 ~~~~~~AYaGTG-----N~-~~Iq~LLhi~~s~~~~dvrr~AV~~lg~I~~  502 (988)
                        ...++..|..     .. ..+..|++ +.+|.+..||.+|..+||.|+.
T Consensus       158 --~~~l~~~~~~~~~~~~l~~l~p~l~~-~l~D~~~~VR~~A~~~l~~l~~  205 (242)
T 2qk2_A          158 --ARALTRTQPTALNKKLLKLLTTSLVK-TLNEPDPTVRDSSAEALGTLIK  205 (242)
T ss_dssp             --HHHHTTCCGGGCCHHHHHHHHHHHHH-HHTSSCHHHHHHHHHHHHHHHH
T ss_pred             --HHHHHHcCCCCccHHHHHHHHHHHHH-HhcCCChHHHHHHHHHHHHHHH
Confidence              1112222211     11 22333333 4477888899999999999983

>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=83.88  E-value=34  Score=34.89  Aligned_cols=215  Identities=11%  Similarity=0.056  Sum_probs=105.7

Q ss_pred             cccCChHHHHHHHhhcCCCCCCCCCccchhhHHHHHhhhccCC--chHHHHHHHHHhhhcCchhhHHHHHHhhHhhhcCC
Q psy6893         649 IHRGHETEALAHMQSYLPRETGPTSGYYEGGGLYALGLIHANH--GAVINDYLLGQVKDATNEMVRHGGCLGLGLAAMGS  726 (988)
Q Consensus       649 Ih~gn~~~~l~~L~~yL~~~~~s~~~~~k~GAL~AlGlI~ag~--~~~~~~~Ll~~l~~s~~~~ir~gA~LGLGla~~Gs  726 (988)
                      ...|+.++++..++..+...  +  .  ...+++.+|.++...  ..+++.++...+...++.   ..+...+|.++...
T Consensus        32 ~~~~~~~~A~~~~~~~~~~~--~--~--~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~---~~~~~~la~~~~~~  102 (327)
T 3cv0_A           32 LKLANLAEAALAFEAVCQAA--P--E--REEAWRSLGLTQAENEKDGLAIIALNHARMLDPKD---IAVHAALAVSHTNE  102 (327)
T ss_dssp             HHTTCHHHHHHHHHHHHHHC--T--T--CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTC---HHHHHHHHHHHHHT
T ss_pred             HHhccHHHHHHHHHHHHHhC--C--C--CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCcCC---HHHHHHHHHHHHHc
Confidence            45678888888887766311  1  1  234455555554443  344666555444333322   22455566666666


Q ss_pred             CCH-HHHHHHHHhhccCChhhHHHHHH-----------Hh-hc-ccCCCCCHHHHHHHHHHHHhcccchhhhHHHHHHHH
Q psy6893         727 ARD-DIYEQLKFNLYQDDAVTGEAAGI-----------AM-GL-VLLGSKSESAIQDMVAYAKETQHEKILRGLAVGISF  792 (988)
Q Consensus       727 ~~~-dv~~~L~~~l~~D~~~~~e~Aal-----------Al-GL-I~vGs~n~d~i~~ll~~~~etq~e~i~R~lalgLgL  792 (988)
                      ++. ++...+...+..++........+           .+ |. ++...++.+-...+++-+.+...+...-...+|..+
T Consensus       103 ~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~  182 (327)
T 3cv0_A          103 HNANAALASLRAWLLSQPQYEQLGSVNLQADVDIDDLNVQSEDFFFAAPNEYRECRTLLHAALEMNPNDAQLHASLGVLY  182 (327)
T ss_dssp             TCHHHHHHHHHHHHHTSTTTTTC--------------------CCTTSHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHhCCccHHHHHHHhHHHHHHHHHHHHHHhHHHHHcccHHHHHHHHHHHHhhCCCCHHHHHHHHHHH
Confidence            553 34444444443222211101000           01 22 334433433333333322222222223344455556


Q ss_pred             HhcCCchhHHHHHHHHhcccchhhhhhcHHHHHHHHcCCCChhHHHHHHHHHHH---------hhhhhhhhhhhccCCCc
Q psy6893         793 IMYGQLENADDLVRDLCEEKDAILRRSGMYTIAMAYCGSGSNVATKRLLHDAIL---------RRSGMYTIAMAYCGSGS  863 (988)
Q Consensus       793 i~~Gr~e~a~~li~~L~~~~dp~~r~~~~~~lslAyaGtGnvl~iq~lL~~~~~---------~~lG~alia~g~~~tgn  863 (988)
                      ...|+.+.+...++.........  ....+.++..|...|+.......+..+..         ..+|.++..+|+-    
T Consensus       183 ~~~~~~~~A~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~g~~----  256 (327)
T 3cv0_A          183 NLSNNYDSAAANLRRAVELRPDD--AQLWNKLGATLANGNRPQEALDAYNRALDINPGYVRVMYNMAVSYSNMSQY----  256 (327)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCTTC--HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH----
T ss_pred             HHhccHHHHHHHHHHHHHhCCCc--HHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhccH----
Confidence            67788888777777665432211  12345667777778888777777776653         3466666666654    


Q ss_pred             hHHHHHhhhhhccCC
Q psy6893         864 NVATKRLLHVAVSDV  878 (988)
Q Consensus       864 ~~air~ll~~~~sd~  878 (988)
                      ..|++.+-..+..+|
T Consensus       257 ~~A~~~~~~a~~~~~  271 (327)
T 3cv0_A          257 DLAAKQLVRAIYMQV  271 (327)
T ss_dssp             HHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHhCC
Confidence            455555544443333

>3l9t_A Putative uncharacterized protein SMU.31; hypothetical protein, unknown function; HET: EPE; 2.21A {Streptococcus mutans}

Probab=83.73  E-value=8.2  Score=40.89  Aligned_cols=151  Identities=17%  Similarity=0.084  Sum_probs=91.2

Q ss_pred             CCCHHHHHHHHHhhccCChhhH-HHHHHHhhcccCCCCCHHHHHHHHHHHHhcccchhh--hHHHHHHHHHhc-CCchhH
Q psy6893         726 SARDDIYEQLKFNLYQDDAVTG-EAAGIAMGLVLLGSKSESAIQDMVAYAKETQHEKIL--RGLAVGISFIMY-GQLENA  801 (988)
Q Consensus       726 s~~~dv~~~L~~~l~~D~~~~~-e~AalAlGLI~vGs~n~d~i~~ll~~~~etq~e~i~--R~lalgLgLi~~-Gr~e~a  801 (988)
                      +.+.+-...|...|..++.... -.|+.++|..   +.+.+++..|...+  .+++.|.  -.++..++-+.. -..+..
T Consensus        66 ~~~~~~~~~la~~L~~~~~deVR~~Av~lLg~~---~~~~~~L~~ir~~v--a~D~~WrVre~lA~a~~~~~~~~~pe~~  140 (240)
T 3l9t_A           66 SNDGEYIKKLAFLAYQSDVYQVRMYAVFLFGYL---SKDKEILIFMRDEV--SKDNNWRVQEVLAKAFDEFCKKIEYKKA  140 (240)
T ss_dssp             HSCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHT---TTSHHHHHHHHHTG--GGCSCHHHHHHHHHHHHHHHHHHCTTTT
T ss_pred             hCCHHHHHHHHHHHHhCcchHHHHHHHHHHHhc---cCcHHHHHHHHHHh--CCCCCccHHHHHHHHHHHHHHhcCHHHH
Confidence            3333333344444555554443 3677788876   35566665555422  2233443  344555544432 233445


Q ss_pred             HHHHHHHhcccchhhhhhcHHHHHHHHcCCCChhHHHHHHHHHHHhhhhhhhhhhhccCCCchHHHHHhhhhhccCCChh
Q psy6893         802 DDLVRDLCEEKDAILRRSGMYTIAMAYCGSGSNVATKRLLHDAILRRSGMYTIAMAYCGSGSNVATKRLLHVAVSDVNDD  881 (988)
Q Consensus       802 ~~li~~L~~~~dp~~r~~~~~~lslAyaGtGnvl~iq~lL~~~~~~~lG~alia~g~~~tgn~~air~ll~~~~sd~~~~  881 (988)
                      -.++.....++++..|...+  +++-                    .++.  . ...  .-++.-+-.++.-+..|++..
T Consensus       141 l~~~~~W~~d~n~~VRR~As--e~~r--------------------pW~~--~-~~~--k~dp~~ll~iL~~L~~D~s~y  193 (240)
T 3l9t_A          141 LPIIDEWLKSSNLHTRRAAT--EGLR--------------------IWTN--R-PYF--KENPNEAIRRIADLKEDVSEY  193 (240)
T ss_dssp             HHHHHHHHHCSSHHHHHHHH--HHTC--------------------SGGG--S-TTT--TTCHHHHHHHHHTTTTCSCHH
T ss_pred             HHHHHHHhcCCCHHHHHHHH--HhhH--------------------HHhc--c-chh--hcCHHHHHHHHHHhcCChHHH
Confidence            56777888889998888733  2210                    0111  0 111  356666777777789999999


Q ss_pred             hhhhHHhhhhhhhhhhhhhhHhhhhhh
Q psy6893         882 VRREAVTALGFILFRKKRTRRKKKKGA  908 (988)
Q Consensus       882 vrraa~~alg~i~~~npeq~pk~~k~~  908 (988)
                      ||++++.+|-=+...+|+-+....++-
T Consensus       194 VrKSVan~LrD~SK~~Pd~V~~~~~~w  220 (240)
T 3l9t_A          194 VRKSVGNALRDISKKFPDLVKIELKNW  220 (240)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHHhhhCHHHHHHHHHHh
Confidence            999999999999999999887776653

>1xqr_A HSPBP1 protein; armadillo repeat, superhelical twist, chaperone; 2.10A {Homo sapiens} SCOP: a.118.1.21 PDB: 1xqs_A*

Probab=83.06  E-value=7.1  Score=42.36  Aligned_cols=131  Identities=12%  Similarity=0.113  Sum_probs=76.4

Q ss_pred             hHHHHH-HhhhhcCCCchhHHHHHHHHHHHhhccCCC-------hhHHHHHHHhhhhcchHHHHHHHHHHHHHHhcCChh
Q psy6893         334 NDYLLG-QVKDATNEDDAVTGEAAGIAMGLVLLGSKS-------ESAIQDMVAYAKETQHEKILRGLAVGISFIMYGQLE  405 (988)
Q Consensus       334 ~d~l~~-lL~~~~~~d~~~~~~aA~lglGL~~~Gs~~-------~~~~~~L~~~~~dt~~E~~~r~lalgl~~v~~g~~e  405 (988)
                      ..+++. +|.    ++++..++.|+-+||-+-.+.-.       ..++..|+.++.+.....+++..+-.|..+..++.+
T Consensus        83 l~~Lv~~lL~----s~~~~vr~~Aa~~Lg~ia~~n~~~~~~vv~~g~l~~Ll~LL~~~~~~~v~~~A~~ALsnl~~~~~~  158 (296)
T 1xqr_A           83 MHLLVGRYLE----AGAAGLRWRAAQLIGTCSQNVAAIQEQVLGLGALRKLLRLLDRDACDTVRVKALFAISCLVREQEA  158 (296)
T ss_dssp             HHHHHHTTTT----CSSHHHHHHHHHHHHHHHTTCHHHHHHHHHTTHHHHHHHHHHHCSCHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHc----CCCHHHHHHHHHHHHHHHhCCHHHHHHHHHCCCHHHHHHHHccCCCHHHHHHHHHHHHHHHcCCcH
Confidence            345555 554    45678889999999976554321       135577888887543444566666666667666655


Q ss_pred             hHHH---------HHHHHhhcchhhhhccchhHHHHHhhhhhhhccccchhhHHhhccchhHHHHHhhhccCCC------
Q psy6893         406 NADD---------LVRDLCEEKDAILRRSGMYTIAMAYCVSYLYFDLFSDLTYRIVKNRSGMYTIAMAYCGSGS------  470 (988)
Q Consensus       406 ~a~~---------li~~L~~~~d~~lr~~~~~~~~l~l~Lgll~~g~~~e~~l~~~~~~~~~~~~~~AYaGTGN------  470 (988)
                      ....         |++.| ...++.++.-+                                 +.+++|..+|+      
T Consensus       159 ~~~~~~~~ggi~~L~~lL-~~~d~~v~~~A---------------------------------~~aLs~L~~~~~~~~~~  204 (296)
T 1xqr_A          159 GLLQFLRLDGFSVLMRAM-QQQVQKLKVKS---------------------------------AFLLQNLLVGHPEHKGT  204 (296)
T ss_dssp             HHHHHHHTTHHHHHHHHH-HSSCHHHHHHH---------------------------------HHHHHHHHHHCGGGHHH
T ss_pred             HHHHHHHCCCHHHHHHHH-cCCCHHHHHHH---------------------------------HHHHHHHHhCChHHHHH
Confidence            4433         33332 33344433321                                 11222222221      


Q ss_pred             ---HHHHHHHHHHhccCCCchhhHHHHHHHHHHhhc
Q psy6893         471 ---NVATKRLLHVAVSDVNDDVRREAVTALGFILFR  503 (988)
Q Consensus       471 ---~~~Iq~LLhi~~s~~~~dvrr~AV~~lg~I~~~  503 (988)
                         .-.|..|..++.+ .+.++|..|+.+|+-|+-+
T Consensus       205 vv~~g~i~~Lv~LL~~-~d~~v~~~al~aL~~l~~~  239 (296)
T 1xqr_A          205 LCSMGMVQQLVALVRT-EHSPFHEHVLGALCSLVTD  239 (296)
T ss_dssp             HHHTTHHHHHHHHHTS-CCSTHHHHHHHHHHHHHTT
T ss_pred             HHHcCCHHHHHHHHcC-CChhHHHHHHHHHHHHHhC
Confidence               2256777777654 4778999999999999854

>3l6x_A Catenin delta-1; catenin, armadillo, ARM, JMD, CE adhesion, complex, cell-CELL adhesion, ARVCF, delta-catenin DP120, JAC-1, cell membrane, membrane; 2.40A {Homo sapiens} PDB: 3l6y_A

Probab=82.73  E-value=46  Score=39.67  Aligned_cols=56  Identities=13%  Similarity=-0.046  Sum_probs=37.6

Q ss_pred             HHHHHhhcCCCCCCCCCccchhhHHHHHhhhccCC--ch-------HHHHHHHHHhhhcCchhhHHHHH
Q psy6893         657 ALAHMQSYLPRETGPTSGYYEGGGLYALGLIHANH--GA-------VINDYLLGQVKDATNEMVRHGGC  716 (988)
Q Consensus       657 ~l~~L~~yL~~~~~s~~~~~k~GAL~AlGlI~ag~--~~-------~~~~~Ll~~l~~s~~~~ir~gA~  716 (988)
                      ++..|-..|.    +.++.++--|..||+.|..+.  .+       .++..|+..|....+..++.-|+
T Consensus        91 ~Ip~LV~LL~----s~~~~vq~~Aa~AL~nLa~~~~~~nk~~I~~~GaIp~LV~LL~s~~~~~~~e~aa  155 (584)
T 3l6x_A           91 GIPVLVGLLD----HPKKEVHLGACGALKNISFGRDQDNKIAIKNCDGVPALVRLLRKARDMDLTEVIT  155 (584)
T ss_dssp             HHHHHHHGGG----CSSHHHHHHHHHHHHHHTSSSCHHHHHHHHHTTHHHHHHHHHHHCCSHHHHHHHH
T ss_pred             CcHHHHHHHC----CCCHHHHHHHHHHHHHHHccCCHHHHHHHHHcCCHHHHHHHHcCCCCHHHHHHHH
Confidence            5666777775    567889999999999997752  11       14777887776644444444444

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=81.74  E-value=13  Score=37.22  Aligned_cols=172  Identities=15%  Similarity=0.036  Sum_probs=85.5

Q ss_pred             cccCChHHHHHHHhhcCCCCCCCCCccchhhHHHHHhhhccCC--chHHHHHHHHHhhhcCchhhHHHHHHhhHhhhcCC
Q psy6893         649 IHRGHETEALAHMQSYLPRETGPTSGYYEGGGLYALGLIHANH--GAVINDYLLGQVKDATNEMVRHGGCLGLGLAAMGS  726 (988)
Q Consensus       649 Ih~gn~~~~l~~L~~yL~~~~~s~~~~~k~GAL~AlGlI~ag~--~~~~~~~Ll~~l~~s~~~~ir~gA~LGLGla~~Gs  726 (988)
                      ...|+.++++..+...+..+    ..  ...+++.+|.+....  ..+++..+..-+.-.++.   ..+...||.++...
T Consensus        16 ~~~g~~~~A~~~~~~al~~~----p~--~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~P~~---~~a~~~lg~~~~~~   86 (217)
T 2pl2_A           16 YALGRYDAALTLFERALKEN----PQ--DPEALYWLARTQLKLGLVNPALENGKTLVARTPRY---LGGYMVLSEAYVAL   86 (217)
T ss_dssp             HHTTCHHHHHHHHHHHHTTS----SS--CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTC---HHHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHhC----CC--CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCc---HHHHHHHHHHHHHh
Confidence            34678889999988877421    11  244566666655444  345666665555433332   22444555555443


Q ss_pred             -----------CC-HHHHHHHHHhhccCChhhHHHHHHHhhcccCCCCCHHHHHHHHHHHHhcccchhhhHHHHHHHHHh
Q psy6893         727 -----------AR-DDIYEQLKFNLYQDDAVTGEAAGIAMGLVLLGSKSESAIQDMVAYAKETQHEKILRGLAVGISFIM  794 (988)
Q Consensus       727 -----------~~-~dv~~~L~~~l~~D~~~~~e~AalAlGLI~vGs~n~d~i~~ll~~~~etq~e~i~R~lalgLgLi~  794 (988)
                                 ++ ++....+...+..++...  .+-+.+|.++...|+.+-.....+-+.+.. +...-...+|..+..
T Consensus        87 ~~~~~~~~~~~g~~~~A~~~~~~al~~~P~~~--~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~la~~~~~  163 (217)
T 2pl2_A           87 YRQAEDRERGKGYLEQALSVLKDAERVNPRYA--PLHLQRGLVYALLGERDKAEASLKQALALE-DTPEIRSALAELYLS  163 (217)
T ss_dssp             HHTCSSHHHHHHHHHHHHHHHHHHHHHCTTCH--HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCHHHHHHHHHHHHH
T ss_pred             hhhhhhhcccccCHHHHHHHHHHHHHhCcccH--HHHHHHHHHHHHcCChHHHHHHHHHHHhcc-cchHHHHHHHHHHHH
Confidence                       32 334455555543333222  234456666666666554433333332222 333334456666677


Q ss_pred             cCCchhHHHHHHHHhcccchhhhhhcHHHHHHHHcCCCCh
Q psy6893         795 YGQLENADDLVRDLCEEKDAILRRSGMYTIAMAYCGSGSN  834 (988)
Q Consensus       795 ~Gr~e~a~~li~~L~~~~dp~~r~~~~~~lslAyaGtGnv  834 (988)
                      .|+.+++...++...... |-. ....+.++..|...|+.
T Consensus       164 ~g~~~~A~~~~~~al~~~-P~~-~~~~~~la~~~~~~g~~  201 (217)
T 2pl2_A          164 MGRLDEALAQYAKALEQA-PKD-LDLRVRYASALLLKGKA  201 (217)
T ss_dssp             HTCHHHHHHHHHHHHHHS-TTC-HHHHHHHHHHHTC----
T ss_pred             cCCHHHHHHHHHHHHHhC-CCC-hHHHHHHHHHHHHccCH
Confidence            788877777766655432 211 11223445555554444

>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=80.83  E-value=45  Score=37.04  Aligned_cols=185  Identities=9%  Similarity=0.026  Sum_probs=104.5

Q ss_pred             CChHHHHHHHhhcCCCCCCCCCc---cchhhHHHHHhhhccCCch--HHHHHHHHHhhhcCchhhHHHHHHhhHhhhcCC
Q psy6893         652 GHETEALAHMQSYLPRETGPTSG---YYEGGGLYALGLIHANHGA--VINDYLLGQVKDATNEMVRHGGCLGLGLAAMGS  726 (988)
Q Consensus       652 gn~~~~l~~L~~yL~~~~~s~~~---~~k~GAL~AlGlI~ag~~~--~~~~~Ll~~l~~s~~~~ir~gA~LGLGla~~Gs  726 (988)
                      ++.++++..++..+...  ++++   ...+-+++.+|.++...+.  +++..+...+...++    ..+...+|.++.-.
T Consensus       216 ~~~~~A~~~~~~~l~~~--p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~~~----~~~~~~l~~~~~~~  289 (537)
T 3fp2_A          216 DLLTKSTDMYHSLLSAN--TVDDPLRENAALALCYTGIFHFLKNNLLDAQVLLQESINLHPT----PNSYIFLALTLADK  289 (537)
T ss_dssp             HHHHHHHHHHHHHHC----CCCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCC----HHHHHHHHHHTCCS
T ss_pred             HHHHHHHHHHHHHHHHC--CCcchhhHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCC----chHHHHHHHHHHHh
Confidence            46677888877776421  1221   2245677777877655543  456665555444333    34666777787777


Q ss_pred             CC-HHHHHHHHHhhccCChhhHHHHHHHhhcccCCCCCHHHHHHHHHHHHhcccchhhhHHHHHHHHHhcCCchhHHHHH
Q psy6893         727 AR-DDIYEQLKFNLYQDDAVTGEAAGIAMGLVLLGSKSESAIQDMVAYAKETQHEKILRGLAVGISFIMYGQLENADDLV  805 (988)
Q Consensus       727 ~~-~dv~~~L~~~l~~D~~~~~e~AalAlGLI~vGs~n~d~i~~ll~~~~etq~e~i~R~lalgLgLi~~Gr~e~a~~li  805 (988)
                      ++ ++....+...+..++...  .+-+.+|.++...++.+-....+.-+.....+...-...+|..+...|+.+.+...+
T Consensus       290 ~~~~~A~~~~~~~~~~~~~~~--~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~  367 (537)
T 3fp2_A          290 ENSQEFFKFFQKAVDLNPEYP--PTYYHRGQMYFILQDYKNAKEDFQKAQSLNPENVYPYIQLACLLYKQGKFTESEAFF  367 (537)
T ss_dssp             SCCHHHHHHHHHHHHHCTTCH--HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCSHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             cCHHHHHHHHHHHhccCCCCH--HHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            65 445555555553333221  233455666666666655444444333322222333445566667788888887777


Q ss_pred             HHHhcccchhhhhhcHHHHHHHHcCCCChhHHHHHHHHHHH
Q psy6893         806 RDLCEEKDAILRRSGMYTIAMAYCGSGSNVATKRLLHDAIL  846 (988)
Q Consensus       806 ~~L~~~~dp~~r~~~~~~lslAyaGtGnvl~iq~lL~~~~~  846 (988)
                      +.........  ....+.++..|...|+.......+..+..
T Consensus       368 ~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~A~~~~~~a~~  406 (537)
T 3fp2_A          368 NETKLKFPTL--PEVPTFFAEILTDRGDFDTAIKQYDIAKR  406 (537)
T ss_dssp             HHHHHHCTTC--THHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHhCCCC--hHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            7765442111  12345567778888888887777777654

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=80.72  E-value=12  Score=37.30  Aligned_cols=157  Identities=10%  Similarity=0.017  Sum_probs=77.1

Q ss_pred             HHHHHhhhcc--CCchHHHHHHHHHhhhcCchhhHHHHHHhhHhhhcCCCCH-HHHHHHHHhhccCChhhHHHHHHHhhc
Q psy6893         680 GLYALGLIHA--NHGAVINDYLLGQVKDATNEMVRHGGCLGLGLAAMGSARD-DIYEQLKFNLYQDDAVTGEAAGIAMGL  756 (988)
Q Consensus       680 AL~AlGlI~a--g~~~~~~~~Ll~~l~~s~~~~ir~gA~LGLGla~~Gs~~~-dv~~~L~~~l~~D~~~~~e~AalAlGL  756 (988)
                      +++.+|.+..  |...+++..+..-+...++.   ..+...+|.++...++. +....+...+..++...  .+-+.+|.
T Consensus         7 ~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~---~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~P~~~--~a~~~lg~   81 (217)
T 2pl2_A            7 NPLRLGVQLYALGRYDAALTLFERALKENPQD---PEALYWLARTQLKLGLVNPALENGKTLVARTPRYL--GGYMVLSE   81 (217)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHTTSSSC---HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCH--HHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCC---HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcH--HHHHHHHH
Confidence            4444454433  34455676665555433322   34566777777776663 45555555554344322  12233444


Q ss_pred             ccCCC-----------CCHHHHHHHHHHHHhcccchhhhHHHHHHHHHhcCCchhHHHHHHHHhcccchhhhhhcHHHHH
Q psy6893         757 VLLGS-----------KSESAIQDMVAYAKETQHEKILRGLAVGISFIMYGQLENADDLVRDLCEEKDAILRRSGMYTIA  825 (988)
Q Consensus       757 I~vGs-----------~n~d~i~~ll~~~~etq~e~i~R~lalgLgLi~~Gr~e~a~~li~~L~~~~dp~~r~~~~~~ls  825 (988)
                      ++...           |+.+-....++-+.+...+...-...+|..+...|+.+++...++...... .  .....+.++
T Consensus        82 ~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-~--~~~~~~~la  158 (217)
T 2pl2_A           82 AYVALYRQAEDRERGKGYLEQALSVLKDAERVNPRYAPLHLQRGLVYALLGERDKAEASLKQALALE-D--TPEIRSALA  158 (217)
T ss_dssp             HHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-C--CHHHHHHHH
T ss_pred             HHHHhhhhhhhhcccccCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCChHHHHHHHHHHHhcc-c--chHHHHHHH
Confidence            43332           333322222222222222223334556666777888888777777655443 1  122234556


Q ss_pred             HHHcCCCChhHHHHHHHHH
Q psy6893         826 MAYCGSGSNVATKRLLHDA  844 (988)
Q Consensus       826 lAyaGtGnvl~iq~lL~~~  844 (988)
                      ..|...|+...-...+..+
T Consensus       159 ~~~~~~g~~~~A~~~~~~a  177 (217)
T 2pl2_A          159 ELYLSMGRLDEALAQYAKA  177 (217)
T ss_dssp             HHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHH
Confidence            6666655654444444443

---

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	988
d1sa0e_	138	a.137.10.1 (E:) Stathmin 4 {Rat (Rattus norvegicus	3e-07
d1sa0e_	138	a.137.10.1 (E:) Stathmin 4 {Rat (Rattus norvegicus	1e-06
d1sa0e_	138	a.137.10.1 (E:) Stathmin 4 {Rat (Rattus norvegicus	1e-05
d2lefa_	86	a.21.1.1 (A:) Lymphoid enhancer-binding factor, LE	3e-06
d1zroa2	314	a.264.1.1 (A:283-596) Erythrocyte binding antigen	2e-05
d1zroa2	314	a.264.1.1 (A:283-596) Erythrocyte binding antigen	1e-04
d1zroa2	314	a.264.1.1 (A:283-596) Erythrocyte binding antigen	2e-04
d1zroa1	275	a.264.1.1 (A:8-282) Erythrocyte binding antigen re	5e-05
d1zroa1	275	a.264.1.1 (A:8-282) Erythrocyte binding antigen re	2e-04
d1zroa1	275	a.264.1.1 (A:8-282) Erythrocyte binding antigen re	0.003
d2c6ja1	294	a.264.1.1 (A:15-308) Duffy receptor, alpha form {P	2e-04
d2c6ja1	294	a.264.1.1 (A:15-308) Duffy receptor, alpha form {P	2e-04
d2c6ja1	294	a.264.1.1 (A:15-308) Duffy receptor, alpha form {P	0.001
d1j46a_	85	a.21.1.1 (A:) SRY {Human (Homo sapiens) [TaxId: 96	4e-04
d1v63a_	101	a.21.1.1 (A:) Nucleolar transcription factor 1 (Up	6e-04
d2a9ua1	134	a.118.23.1 (A:6-139) Ubiquitin carboxyl-terminal h	9e-04
d1k4ta1	72	a.2.8.1 (A:641-712) Eukaryotic DNA topoisomerase I	0.001
d1k99a_	91	a.21.1.1 (A:) Nucleolar transcription factor 1 (Up	0.002
d2efla1	288	a.238.1.4 (A:1-288) Formin-binding protein 1, FNBP	0.003
d1v64a_	108	a.21.1.1 (A:) Nucleolar transcription factor 1 (Up	0.003

>d1sa0e_ a.137.10.1 (E:) Stathmin 4 {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 138

class: All alpha proteins
fold: Non-globular all-alpha subunits of globular proteins
superfamily: Stathmin
family: Stathmin
domain: Stathmin 4
species: Rat (Rattus norvegicus) [TaxId: 10116]

 Score = 48.3 bits (115), Expect = 3e-07
 Identities = 17/89 (19%), Positives = 41/89 (46%), Gaps = 5/89 (5%)

Query: 905 KKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKKKKKKKK 964
           ++    + + +KK + AE+ RK + AE +K   +  E  ++   + I +     K  K+K
Sbjct: 38  RRRDPSLEEIQKKLEAAEERRKYQEAELLKHLAEKREHEREVIQKAIEENNNFIKMAKEK 97

Query: 965 KKKK-----KKKKKKEAEKMKKKTEEAEK 988
             +K     + ++   A  +++  E+ + 
Sbjct: 98  LAQKMESNKENREAHLAAMLERLQEKDKH 126

>d1sa0e_ a.137.10.1 (E:) Stathmin 4 {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 138

class: All alpha proteins
fold: Non-globular all-alpha subunits of globular proteins
superfamily: Stathmin
family: Stathmin
domain: Stathmin 4
species: Rat (Rattus norvegicus) [TaxId: 10116]

 Score = 46.8 bits (111), Expect = 1e-06
 Identities = 17/81 (20%), Positives = 40/81 (49%)

Query: 908 AEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKKKKKKKKKKK 967
                  +++    E+++KK  A + ++K ++AE +K    ++  +++  +K  ++    
Sbjct: 31  EFNASLPRRRDPSLEEIQKKLEAAEERRKYQEAELLKHLAEKREHEREVIQKAIEENNNF 90

Query: 968 KKKKKKKEAEKMKKKTEEAEK 988
            K  K+K A+KM+   E  E 
Sbjct: 91  IKMAKEKLAQKMESNKENREA 111

>d1sa0e_ a.137.10.1 (E:) Stathmin 4 {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 138

class: All alpha proteins
fold: Non-globular all-alpha subunits of globular proteins
superfamily: Stathmin
family: Stathmin
domain: Stathmin 4
species: Rat (Rattus norvegicus) [TaxId: 10116]

 Score = 43.7 bits (103), Expect = 1e-05
 Identities = 18/92 (19%), Positives = 40/92 (43%), Gaps = 4/92 (4%)

Query: 896 RKKRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKK 955
            +    R+K + AE ++   +K++   ++ +K   E     K   EK+ +K       ++
Sbjct: 51  LEAAEERRKYQEAELLKHLAEKREHEREVIQKAIEENNNFIKMAKEKLAQKMESNKENRE 110

Query: 956 KKKKKKKKKKKKKKKKKKKEAEKMKKKTEEAE 987
                  ++ ++K K     AE+++K  E  E
Sbjct: 111 AHLAAMLERLQEKDKH----AEEVRKNKELKE 138

>d2lefa_ a.21.1.1 (A:) Lymphoid enhancer-binding factor, LEF1 {Mouse (Mus musculus) [TaxId: 10090]} Length = 86

class: All alpha proteins
fold: HMG-box
superfamily: HMG-box
family: HMG-box
domain: Lymphoid enhancer-binding factor, LEF1
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 44.1 bits (104), Expect = 3e-06
 Identities = 14/80 (17%), Positives = 31/80 (38%), Gaps = 2/80 (2%)

Query: 891 GFILFRKKRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEK 950
            F+L+ K+   R        +++     +   +       E+  K  + A K ++   + 
Sbjct: 9   AFMLYMKEM--RANVVAESTLKESAAINQILGRRWHALSREEQAKYYELARKERQLHMQL 66

Query: 951 IGKKKKKKKKKKKKKKKKKK 970
                 +    KKKK+K++K
Sbjct: 67  YPGWSARDNYGKKKKRKREK 86

>d1j46a_ a.21.1.1 (A:) SRY {Human (Homo sapiens) [TaxId: 9606]} Length = 85

class: All alpha proteins
fold: HMG-box
superfamily: HMG-box
family: HMG-box
domain: SRY
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 37.9 bits (88), Expect = 4e-04
 Identities = 13/77 (16%), Positives = 31/77 (40%), Gaps = 2/77 (2%)

Query: 891 GFILFRKKRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEK 950
            FI++ + + R+   +      +  +  K+     K     +     ++A+K++    EK
Sbjct: 11  AFIVWSRDQRRKMALENPRM--RNSEISKQLGYQWKMLTEAEKWPFFQEAQKLQAMHREK 68

Query: 951 IGKKKKKKKKKKKKKKK 967
               K + ++K K   K
Sbjct: 69  YPNYKYRPRRKAKMLPK 85

>d1v63a_ a.21.1.1 (A:) Nucleolar transcription factor 1 (Upstream binding factor 1, UBF-1) {Mouse (Mus musculus) [TaxId: 10090]} Length = 101

class: All alpha proteins
fold: HMG-box
superfamily: HMG-box
family: HMG-box
domain: Nucleolar transcription factor 1 (Upstream binding factor 1, UBF-1)
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 37.9 bits (88), Expect = 6e-04
 Identities = 11/86 (12%), Positives = 32/86 (37%), Gaps = 4/86 (4%)

Query: 891 GFILFRKKRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEK 950
           G+  F ++     +          K++  E     ++    + +  KK AE+ +++    
Sbjct: 15  GYQKFSQELLSNGELNHL----PLKERMVEIGSRWQRISQSQKEHYKKLAEEQQRQYKVH 70

Query: 951 IGKKKKKKKKKKKKKKKKKKKKKKEA 976
           +    K    + +   K+    K+++
Sbjct: 71  LDLWVKSLSPQDRAAYKEYISNKRKS 96

>d2a9ua1 a.118.23.1 (A:6-139) Ubiquitin carboxyl-terminal hydrolase 8, USH8 {Human (Homo sapiens) [TaxId: 9606]} Length = 134

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: USP8 N-terminal domain-like
family: USP8 N-terminal domain-like
domain: Ubiquitin carboxyl-terminal hydrolase 8, USH8
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 38.3 bits (89), Expect = 9e-04
 Identities = 19/116 (16%), Positives = 56/116 (48%), Gaps = 8/116 (6%)

Query: 864 NVATKRLLHVAVSDVN--DDVRREAVTALGFILFRKKRTRRKKKKGAEKIRKKKKKKKEA 921
            ++TK  +H A+      ++ R +      ++L+ K  T          I+K+   K++ 
Sbjct: 25  KISTKSYVHSALKIFKTAEECRLDRDEERAYVLYMKYVTV------YNLIKKRPDFKQQQ 78

Query: 922 EKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKKKKKKKKKKKKKKKKKKEAE 977
           +      G   +KK  ++AE++ +    +  + + +KK ++K ++++ ++ +++ +
Sbjct: 79  DYFHSILGPGNIKKAVEEAERLSESLKLRYEEAEVRKKLEEKDRQEEAQRLQQKRQ 134

>d1k4ta1 a.2.8.1 (A:641-712) Eukaryotic DNA topoisomerase I, dispensable insert domain {Human (Homo sapiens) [TaxId: 9606]} Length = 72

class: All alpha proteins
fold: Long alpha-hairpin
superfamily: Eukaryotic DNA topoisomerase I, dispensable insert domain
family: Eukaryotic DNA topoisomerase I, dispensable insert domain
domain: Eukaryotic DNA topoisomerase I, dispensable insert domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 35.9 bits (83), Expect = 0.001
 Identities = 16/60 (26%), Positives = 29/60 (48%), Gaps = 2/60 (3%)

Query: 931 EKMKKKKKDAEKMKK--KGAEKIGKKKKKKKKKKKKKKKKKKKKKKEAEKMKKKTEEAEK 988
            K+  KK+     ++  K A+   K  K  K KK  + KKK  ++ E + MK + +  ++
Sbjct: 9   TKIDAKKEQLADARRDLKSAKADAKVMKDAKTKKVVESKKKAVQRLEEQLMKLEVQATDR 68

>d1k99a_ a.21.1.1 (A:) Nucleolar transcription factor 1 (Upstream binding factor 1, UBF-1) {Human (Homo sapiens) [TaxId: 9606]} Length = 91

class: All alpha proteins
fold: HMG-box
superfamily: HMG-box
family: HMG-box
domain: Nucleolar transcription factor 1 (Upstream binding factor 1, UBF-1)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 36.1 bits (83), Expect = 0.002
 Identities = 12/77 (15%), Positives = 27/77 (35%), Gaps = 2/77 (2%)

Query: 891 GFILFRKKRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEK 950
            +  F  ++  R K              K   K  K+   +K  K  +D ++ K++    
Sbjct: 17  PYFRFFMEK--RAKYAKLHPEMSNLDLTKILSKKYKELPEKKKMKYIQDFQREKQEFERN 74

Query: 951 IGKKKKKKKKKKKKKKK 967
           + + ++      +  KK
Sbjct: 75  LARFREDHPDLIQNAKK 91

>d2efla1 a.238.1.4 (A:1-288) Formin-binding protein 1, FNBP1 {Human (Homo sapiens) [TaxId: 9606]} Length = 288

class: All alpha proteins
fold: BAR/IMD domain-like
superfamily: BAR/IMD domain-like
family: FCH domain
domain: Formin-binding protein 1, FNBP1
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 38.6 bits (89), Expect = 0.003
 Identities = 11/87 (12%), Positives = 37/87 (42%), Gaps = 1/87 (1%)

Query: 902 RKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEKIGKKKKKKKKK 961
            +  +  ++ RK         +   +   ++++  K+  E+  K+ A++  +  +K    
Sbjct: 103 ARYVQELKQERKSNFHDGRKAQQHIETCWKQLESSKRRFERDCKE-ADRAQQYFEKMDAD 161

Query: 962 KKKKKKKKKKKKKEAEKMKKKTEEAEK 988
               K   +K +++A+   +  E+++ 
Sbjct: 162 INVTKADVEKARQQAQIRHQMAEDSKA 188

>d1v64a_ a.21.1.1 (A:) Nucleolar transcription factor 1 (Upstream binding factor 1, UBF-1) {Mouse (Mus musculus) [TaxId: 10090]} Length = 108

class: All alpha proteins
fold: HMG-box
superfamily: HMG-box
family: HMG-box
domain: Nucleolar transcription factor 1 (Upstream binding factor 1, UBF-1)
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 36.1 bits (83), Expect = 0.003
 Identities = 7/84 (8%), Positives = 29/84 (34%), Gaps = 6/84 (7%)

Query: 891 GFILFRKKRTRRKKKKGAEKIRKKKKKKKEAEKMRKKKGAEKMKKKKKDAEKMKKKGAEK 950
            + L+  +     K           ++     +  K    ++     K  ++ KK    +
Sbjct: 24  SYSLYCAELMANMKDV------PSTERMVLCSQQWKLLSQKEKDAYHKKCDQKKKDYEVE 77

Query: 951 IGKKKKKKKKKKKKKKKKKKKKKK 974
           + +  +   ++++++   ++K   
Sbjct: 78  LLRFLESLPEEEQQRVLGEEKMLN 101

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	988
d1b3ua_	588	Constant regulatory domain of protein phosphatase	98.13
d1oyza_	276	Hypothetical protein YibA {Escherichia coli [TaxId	97.92
d1oyza_	276	Hypothetical protein YibA {Escherichia coli [TaxId	97.89
d1b3ua_	588	Constant regulatory domain of protein phosphatase	97.21
d2vglb_	579	Adaptin beta subunit N-terminal fragment {Human (H	96.93
d1jdha_	529	beta-Catenin {Human (Homo sapiens) [TaxId: 9606]}	96.44
d1u6gc_	1207	Cullin-associated NEDD8-dissociated protein 1 (Tip	96.15
d2vglb_	579	Adaptin beta subunit N-terminal fragment {Human (H	95.4
d1jdha_	529	beta-Catenin {Human (Homo sapiens) [TaxId: 9606]}	95.28
d1te4a_	111	MTH187 {Archaeon Methanobacterium thermoautotrophi	94.79
d1q1sc_	434	Importin alpha {Mouse (Mus musculus) [TaxId: 10090	94.65
d1te4a_	111	MTH187 {Archaeon Methanobacterium thermoautotrophi	94.56
d1lsha1	336	Lipovitellin-phosvitin complex, superhelical domai	93.15
d1wa5b_	503	Karyopherin alpha {Baker's yeast (Saccharomyces ce	93.12
d1u6gc_	1207	Cullin-associated NEDD8-dissociated protein 1 (Tip	92.98
d1xqra1	264	Hsp70-binding protein 1 (HspBP1) {Human (Homo sapi	86.35
d1q1sc_	434	Importin alpha {Mouse (Mus musculus) [TaxId: 10090	84.44
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	83.93
d1xqra1	264	Hsp70-binding protein 1 (HspBP1) {Human (Homo sapi	82.09
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	81.28

>d1b3ua_ a.118.1.2 (A:) Constant regulatory domain of protein phosphatase 2a, pr65alpha {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: HEAT repeat
domain: Constant regulatory domain of protein phosphatase 2a, pr65alpha
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.13  E-value=0.00027  Score=79.67  Aligned_cols=495  Identities=14%  Similarity=0.111  Sum_probs=230.2

Q ss_pred             HHHHHhhhhcCCCchhHHHHHHHHHHHhhccCCChhHHHHHHHhhhhcc--hHHHHHHHHHHHHHHh--cCChhhHHHH-
Q psy6893         336 YLLGQVKDATNEDDAVTGEAAGIAMGLVLLGSKSESAIQDMVAYAKETQ--HEKILRGLAVGISFIM--YGQLENADDL-  410 (988)
Q Consensus       336 ~l~~lL~~~~~~d~~~~~~aA~lglGL~~~Gs~~~~~~~~L~~~~~dt~--~E~~~r~lalgl~~v~--~g~~e~a~~l-  410 (988)
                      +.++.|.+.+.+++...|..|+-.++-+-..-|.+...++|+|++.+.-  .+..+.+++-.|+.+.  -|..+.+..+ 
T Consensus        10 ~~i~~l~~~l~~~~~~~R~~a~~~l~~ia~~lg~~~~~~~lip~l~~~~~~~~ev~~~~~~~l~~~~~~~~~~~~~~~ll   89 (588)
T d1b3ua_          10 YPIAVLIDELRNEDVQLRLNSIKKLSTIALALGVERTRSELLPFLTDTIYDEDEVLLALAEQLGTFTTLVGGPEYVHCLL   89 (588)
T ss_dssp             HHHHHHHHHTTCSCHHHHHHHHHTHHHHHHHSCHHHHHHTHHHHHHHTCCCCHHHHHHHHHHHTTCSGGGTSGGGGGGGH
T ss_pred             hHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHhCcHhhHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHcCChhHHHHHH
Confidence            3466677778888999999999888877666677778888999887642  2344555555555432  1344444444 


Q ss_pred             --HHHHhhcchhhhhccchhHHHHHhhhhhhhcccc---chh-hHHh----hccchhHH--------HHHhhhccCCCHH
Q psy6893         411 --VRDLCEEKDAILRRSGMYTIAMAYCVSYLYFDLF---SDL-TYRI----VKNRSGMY--------TIAMAYCGSGSNV  472 (988)
Q Consensus       411 --i~~L~~~~d~~lr~~~~~~~~l~l~Lgll~~g~~---~e~-~l~~----~~~~~~~~--------~~~~AYaGTGN~~  472 (988)
                        ++.++.++++..|..+      +.+|+.+.-.-.   .+. ++..    ...+....        .....+.+.....
T Consensus        90 ~~l~~l~~~~~~~Vr~~a------~~~l~~i~~~~~~~~~~~~l~p~i~~L~~~~~~~~r~~a~~ll~~~~~~~~~~~~~  163 (588)
T d1b3ua_          90 PPLESLATVEETVVRDKA------VESLRAISHEHSPSDLEAHFVPLVKRLAGGDWFTSRTSACGLFSVCYPRVSSAVKA  163 (588)
T ss_dssp             HHHHHHTTSSCHHHHHHH------HHHHHHHHTTSCHHHHHHTHHHHHHHHHTCSSHHHHHHHGGGHHHHTTTSCHHHHH
T ss_pred             HHHHHHccCCCHHHHHHH------HHHHHHHHHhCCHHHHHHHHHHHHHHHhcccchHHHHHHHHHHHHHHHHhhHHHHH
Confidence              4456677777777732      223332221111   111 1111    22221111        1112233333344


Q ss_pred             HHHHHHHHhccCCCchhhHHHHHHHHHHhhcCccccccccCCCCchhHHhhccchhhhhhHhhHHH-----hhhhcccCC
Q psy6893         473 ATKRLLHVAVSDVNDDVRREAVTALGFILFRTLFYVAPACTRSPWPGVISLLDDPMIELKEFSLKK-----LNDIVDDFW  547 (988)
Q Consensus       473 ~Iq~LLhi~~s~~~~dvrr~AV~~lg~I~~~~~~~~g~~~~~~~~p~ai~lL~~~~~~~~~~~~~~-----l~~~~~~~~  547 (988)
                      .+..++.-+.+|.++.||+.|+.+++-++-.-+.    ..   ..+..+.+|.... ++.+..+|.     +..+...+.
T Consensus       164 ~l~~~~~~l~~D~~~~VR~~a~~~l~~~~~~~~~----~~---~~~~l~~~l~~l~-~d~~~~vr~~a~~~l~~i~~~~~  235 (588)
T d1b3ua_         164 ELRQYFRNLCSDDTPMVRRAAASKLGEFAKVLEL----DN---VKSEIIPMFSNLA-SDEQDSVRLLAVEACVNIAQLLP  235 (588)
T ss_dssp             HHHHHHHHHHTCSCHHHHHHHHHHHHHHHHTSCH----HH---HHHTHHHHHHHHH-TCSCHHHHTTHHHHHHHHHHHSC
T ss_pred             HHHHHHHHHhccCCHHHHHHHHHHHHHHHHHhcH----HH---HHHHHHHHHHHHh-cCCchhhHHHHHHHHHHhhccCC
Confidence            4444555556788899999999999988753210    00   0011111111111 111112221     222221110


Q ss_pred             CCc---------------hh---hHHHHHHHHHhhhccCCchhHHHHHHHHHhcCCchHHHHHhhhh---hhhhhhhhhH
Q psy6893         548 PEN---------------EK---EKQLQARITKLSKILSGEVSIDLHLQFLIRSNKTDMLILKNTKE---SIRVSICHTA  606 (988)
Q Consensus       548 ~~~---------------~~---~~~~~~~~~~l~~Il~g~~~~~l~l~fL~~~n~tD~~il~~~kd---s~r~s~~h~A  606 (988)
                      ...               ..   -......+.++.....++......+.          .+..-..|   .+|....+  
T Consensus       236 ~~~~~~~i~~~l~~~~~D~~~~Vr~~~~~~l~~l~~~~~~~~~~~~l~~----------~l~~ll~d~~~~vr~~a~~--  303 (588)
T d1b3ua_         236 QEDLEALVMPTLRQAAEDKSWRVRYMVADKFTELQKAVGPEITKTDLVP----------AFQNLMKDCEAEVRAAASH--  303 (588)
T ss_dssp             HHHHHHHTHHHHHHHHTCSSHHHHHHHHHTHHHHHHHHCHHHHHHTHHH----------HHHHHHTCSSHHHHHHHHH--
T ss_pred             HHHHHHHHHHHHHHhcccccHHHHHHHHHhHHHHHHHhhhhhhhhhhhH----------HHHHHHhccchHHHHHHHH--
Confidence            000               00   00000111222222222111110000          01111111   13432211  


Q ss_pred             HHHHHHHhhcCCCc-hh-hhcc---hhHHHHhhccc-chhhhhhhhccccc--CCh---HHHHHHHhhcCCCCCCCCCcc
Q psy6893         607 TIIANAFMHSGTTS-DQ-FLRD---NLEWLARATNW-AKLTATASLGVIHR--GHE---TEALAHMQSYLPRETGPTSGY  675 (988)
Q Consensus       607 ~~~ana~~naGt~~-D~-flr~---~~~wl~k~~~w-~kfsA~ASLG~Ih~--gn~---~~~l~~L~~yL~~~~~s~~~~  675 (988)
                       .+..-+...+... +. ++..   .+.+..+..+| -+..++.+++.+..  |..   +..+..+..++.    ..++.
T Consensus       304 -~l~~~~~~l~~~~~~~~~~~~i~~~l~~~~~d~~~~vr~~~~~~l~~~~~~~~~~~~~~~l~p~l~~~l~----d~~~~  378 (588)
T d1b3ua_         304 -KVKEFCENLSADCRENVIMSQILPCIKELVSDANQHVKSALASVIMGLSPILGKDNTIEHLLPLFLAQLK----DECPE  378 (588)
T ss_dssp             -HHHHHHHTSCTTTHHHHHHHTHHHHHHHHHTCSCHHHHHHHHTTGGGGHHHHCHHHHHHHTHHHHHHHHT----CSCHH
T ss_pred             -HHHHHHHHHhhhhhhhhhHHHHHHHHHHhhcCCChHHHHHHHHHHhhhhhccchhHHHHHHHHHHHHHHH----hhhhh
Confidence             2222223333322 11 1111   23334444454 34555556655432  221   222334444553    45678


Q ss_pred             chhhHHHHHhhhccCCchH-----HHHHHHHHhhhcCchhhHHHHHHhhHhhh--cCCC--CHHHHHHHHHhhccCChh-
Q psy6893         676 YEGGGLYALGLIHANHGAV-----INDYLLGQVKDATNEMVRHGGCLGLGLAA--MGSA--RDDIYEQLKFNLYQDDAV-  745 (988)
Q Consensus       676 ~k~GAL~AlGlI~ag~~~~-----~~~~Ll~~l~~s~~~~ir~gA~LGLGla~--~Gs~--~~dv~~~L~~~l~~D~~~-  745 (988)
                      ++.+++.+++.+....+..     ++..+.+. .++.+.-+|..++..++...  .|..  .+.+...+...+ .|+.. 
T Consensus       379 v~~~~~~~l~~~~~~~~~~~~~~~ll~~l~~~-~~d~~~~~r~~~~~~l~~l~~~~~~~~~~~~l~~~l~~~l-~D~~~~  456 (588)
T d1b3ua_         379 VRLNIISNLDCVNEVIGIRQLSQSLLPAIVEL-AEDAKWRVRLAIIEYMPLLAGQLGVEFFDEKLNSLCMAWL-VDHVYA  456 (588)
T ss_dssp             HHHHHHTTCHHHHHHSCHHHHHHHHHHHHHHH-HTCSSHHHHHHHHHHHHHHHHHHCGGGCCHHHHHHHHHGG-GCSSHH
T ss_pred             hhhHHHHHHHHHHhhcchhhhhhHHHHHHHHH-HhcccHHHHHHHHHHHHHHHHHcChHhHHHHHHHHHHhhc-cCCchh
Confidence            8999999888775544432     23334333 34456678888888777653  2322  234444454444 45543 


Q ss_pred             hHHHHHHHhhcccCCCCCHHHHHHHHHHHHhc-ccchh-hhHH-HHHHHHHh--cCCc---hhHHHHHHHHhcccchhhh
Q psy6893         746 TGEAAGIAMGLVLLGSKSESAIQDMVAYAKET-QHEKI-LRGL-AVGISFIM--YGQL---ENADDLVRDLCEEKDAILR  817 (988)
Q Consensus       746 ~~e~AalAlGLI~vGs~n~d~i~~ll~~~~et-q~e~i-~R~l-algLgLi~--~Gr~---e~a~~li~~L~~~~dp~~r  817 (988)
                      .++.|+-++|.+.-.-|...+...+++.+.+- .+.++ .|.. +.+++.+.  ++..   +.+-+.+-.+..++.|..|
T Consensus       457 VR~~A~~~L~~l~~~~~~~~~~~~i~~~l~~~~~~~~~~~R~~~~~~l~~l~~~~~~~~~~~~ilp~ll~~~~D~v~nVR  536 (588)
T d1b3ua_         457 IREAATSNLKKLVEKFGKEWAHATIIPKVLAMSGDPNYLHRMTTLFCINVLSEVCGQDITTKHMLPTVLRMAGDPVANVR  536 (588)
T ss_dssp             HHHHHHHHHHHHHHHHCHHHHHHHTHHHHHHTTTCSCHHHHHHHHHHHHHHHHHHHHHHHHHHTHHHHHHGGGCSCHHHH
T ss_pred             HHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHcChHHHHHHHHHHHHHHcCCCCHHHH
Confidence            34567778887754434444555566655432 23333 2432 22333322  2221   2223333344556666677


Q ss_pred             hhcHHHHHHHHcCCCChhHHHHHHHHHHHhhhhhhhhhhhccCCCc---hHHHHHhhhhhccCCChhhhhhHHhhhhhh
Q psy6893         818 RSGMYTIAMAYCGSGSNVATKRLLHDAILRRSGMYTIAMAYCGSGS---NVATKRLLHVAVSDVNDDVRREAVTALGFI  893 (988)
Q Consensus       818 ~~~~~~lslAyaGtGnvl~iq~lL~~~~~~~lG~alia~g~~~tgn---~~air~ll~~~~sd~~~~vrraa~~alg~i  893 (988)
                      ..  .+.++.+++                           .. .++   +..+..+++-+.+|+|.|||..|-.++..+
T Consensus       537 ~~--a~~~l~~i~---------------------------~~-~~~~~~~~~i~~~l~~L~~D~d~dVr~~A~~al~~l  585 (588)
T d1b3ua_         537 FN--VAKSLQKIG---------------------------PI-LDNSTLQSEVKPILEKLTQDQDVDVKYFAQEALTVL  585 (588)
T ss_dssp             HH--HHHHHHHHG---------------------------GG-SCHHHHHHHHHHHHHHHTTCSSHHHHHHHHHHHHHT
T ss_pred             HH--HHHHHHHHH---------------------------HH-cCcHhHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHH
Confidence            65  333333332                           11 122   223455666668899999999998888655

>d1oyza_ a.118.1.16 (A:) Hypothetical protein YibA {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: PBS lyase HEAT-like repeat
domain: Hypothetical protein YibA
species: Escherichia coli [TaxId: 562]

Probab=97.92  E-value=0.0001  Score=74.22  Aligned_cols=233  Identities=14%  Similarity=0.142  Sum_probs=134.5

Q ss_pred             cchhhhhhhhcccccCChHHHHHHHhhcCCCCCCCCCccchhhHHHHHhhhccCCchH--HHHHHHHHhhhcCchhhHHH
Q psy6893         637 WAKLTATASLGVIHRGHETEALAHMQSYLPRETGPTSGYYEGGGLYALGLIHANHGAV--INDYLLGQVKDATNEMVRHG  714 (988)
Q Consensus       637 w~kfsA~ASLG~Ih~gn~~~~l~~L~~yL~~~~~s~~~~~k~GAL~AlGlI~ag~~~~--~~~~Ll~~l~~s~~~~ir~g  714 (988)
                      +-+..|+..||.+.  + +.++..|...+.    +.++++|..|+.+||.+.......  +...|...+.+.++..+|..
T Consensus        34 ~vR~~A~~~L~~~~--~-~~~~~~l~~~l~----d~~~~vr~~a~~aL~~l~~~~~~~~~~~~~l~~~~l~d~~~~vr~~  106 (276)
T d1oyza_          34 LKRISSARVLQLRG--G-QDAVRLAIEFCS----DKNYIRRDIGAFILGQIKICKKCEDNVFNILNNMALNDKSACVRAT  106 (276)
T ss_dssp             HHHHHHHHHHHHHC--C-HHHHHHHHHHHT----CSSHHHHHHHHHHHHHSCCCTTTHHHHHHHHHHHHHHCSCHHHHHH
T ss_pred             HHHHHHHHHHHhhC--C-HhHHHHHHHHHc----CCCHHHHHHHHHHHHHhccccccccchHHHHHHHHhcCCChhHHHH
Confidence            45567777777653  4 357778877875    567888999999998885444332  45556666666777889999


Q ss_pred             HHHhhHhhhcCCC--CHHHHHHHHHhhccCChh-hHHHHHHHhhcccCCCCCHHHHHHHHHHHHhcccchhhhHHHHHHH
Q psy6893         715 GCLGLGLAAMGSA--RDDIYEQLKFNLYQDDAV-TGEAAGIAMGLVLLGSKSESAIQDMVAYAKETQHEKILRGLAVGIS  791 (988)
Q Consensus       715 A~LGLGla~~Gs~--~~dv~~~L~~~l~~D~~~-~~e~AalAlGLI~vGs~n~d~i~~ll~~~~etq~e~i~R~lalgLg  791 (988)
                      |+..||-.+-+..  .+.++..|...+ .|+.. ....|+.++|.+  |  +..++..++.+.. ..+....+....+++
T Consensus       107 a~~aL~~~~~~~~~~~~~~~~~l~~~~-~d~~~~vr~~a~~~l~~~--~--~~~~~~~l~~l~~-~~~~~~~~~~~~~~~  180 (276)
T d1oyza_         107 AIESTAQRCKKNPIYSPKIVEQSQITA-FDKSTNVRRATAFAISVI--N--DKATIPLLINLLK-DPNGDVRNWAAFAIN  180 (276)
T ss_dssp             HHHHHHHHHHHCGGGHHHHHHHHHHHT-TCSCHHHHHHHHHHHHTC-------CCHHHHHHHHT-CSSHHHHHHHHHHHH
T ss_pred             HHHHHHHHccccchhhHHHHHHHHHHh-cCcchHHHHHHHHHHhhc--c--hHHHHHHHHHhcc-cccchhhhhHHHHHH
Confidence            9888876533221  133455555544 34333 333455566654  3  4455555555543 233444445555666


Q ss_pred             HHhcCCchhHHHHHHHHhcccchhhhhhcHHHHHHHHcCCCChhHHHHHHHHHHH--hhhhhhhhhhhccCCCchHHHHH
Q psy6893         792 FIMYGQLENADDLVRDLCEEKDAILRRSGMYTIAMAYCGSGSNVATKRLLHDAIL--RRSGMYTIAMAYCGSGSNVATKR  869 (988)
Q Consensus       792 Li~~Gr~e~a~~li~~L~~~~dp~~r~~~~~~lslAyaGtGnvl~iq~lL~~~~~--~~lG~alia~g~~~tgn~~air~  869 (988)
                      .+..+.......++..+ .++++..|...+.+  +...|.  .-.+..++ .+..  .+.--+.-++|+.  |++.++..
T Consensus       181 ~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~a--l~~~~~--~~~~~~L~-~~l~d~~vr~~a~~aL~~i--g~~~~~~~  252 (276)
T d1oyza_         181 INKYDNSDIRDCFVEML-QDKNEEVRIEAIIG--LSYRKD--KRVLSVLC-DELKKNTVYDDIIEAAGEL--GDKTLLPV  252 (276)
T ss_dssp             HHTCCCHHHHHHHHHHT-TCSCHHHHHHHHHH--HHHTTC--GGGHHHHH-HHHTSSSCCHHHHHHHHHH--CCGGGHHH
T ss_pred             hhhccccccchhhhhhh-hhhhhhhhhhhccc--cchhhh--hhhHHHHH-HHhCChHHHHHHHHHHHHc--CCHHHHHH
Confidence            66666666666666554 34555556654443  344442  22222222 2221  2233455566664  67778888


Q ss_pred             hhhhhccCCChhhhhhHHhhh
Q psy6893         870 LLHVAVSDVNDDVRREAVTAL  890 (988)
Q Consensus       870 ll~~~~sd~~~~vrraa~~al  890 (988)
                      |.+++..+.|.+||+.|..+|
T Consensus       253 L~~~l~~~~d~~vr~~A~~~L  273 (276)
T d1oyza_         253 LDTMLYKFDDNEIITSAIDKL  273 (276)
T ss_dssp             HHHHHTTSSCCHHHHHHHHHH
T ss_pred             HHHHHccCCCHHHHHHHHHHH
Confidence            888777666778888877665

>d1oyza_ a.118.1.16 (A:) Hypothetical protein YibA {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: PBS lyase HEAT-like repeat
domain: Hypothetical protein YibA
species: Escherichia coli [TaxId: 562]

Probab=97.89  E-value=0.00018  Score=72.36  Aligned_cols=77  Identities=12%  Similarity=0.088  Sum_probs=45.4

Q ss_pred             hhcCCCchhHHHHHHHHHHHhhccCCChhHHHHHHHhhhhcchHHHHHHHHHHHHHHhcCC---hhhHHHHHHHHhhcch
Q psy6893         343 DATNEDDAVTGEAAGIAMGLVLLGSKSESAIQDMVAYAKETQHEKILRGLAVGISFIMYGQ---LENADDLVRDLCEEKD  419 (988)
Q Consensus       343 ~~~~~d~~~~~~aA~lglGL~~~Gs~~~~~~~~L~~~~~dt~~E~~~r~lalgl~~v~~g~---~e~a~~li~~L~~~~d  419 (988)
                      ..++++++.++..|+.+||.  .|  .++++..|+.++.|.+.++ ++..+.+|+.++...   ......++..++++++
T Consensus        26 ~~L~d~~~~vR~~A~~~L~~--~~--~~~~~~~l~~~l~d~~~~v-r~~a~~aL~~l~~~~~~~~~~~~~l~~~~l~d~~  100 (276)
T d1oyza_          26 RLLDDHNSLKRISSARVLQL--RG--GQDAVRLAIEFCSDKNYIR-RDIGAFILGQIKICKKCEDNVFNILNNMALNDKS  100 (276)
T ss_dssp             HHTTCSSHHHHHHHHHHHHH--HC--CHHHHHHHHHHHTCSSHHH-HHHHHHHHHHSCCCTTTHHHHHHHHHHHHHHCSC
T ss_pred             HHhcCCCHHHHHHHHHHHHh--hC--CHhHHHHHHHHHcCCCHHH-HHHHHHHHHHhccccccccchHHHHHHHHhcCCC
Confidence            33445678888888888774  34  4677888888777665443 344444454444332   1223345666666666


Q ss_pred             hhhhc
Q psy6893         420 AILRR  424 (988)
Q Consensus       420 ~~lr~  424 (988)
                      +.+|.
T Consensus       101 ~~vr~  105 (276)
T d1oyza_         101 ACVRA  105 (276)
T ss_dssp             HHHHH
T ss_pred             hhHHH
Confidence            66665

>d1b3ua_ a.118.1.2 (A:) Constant regulatory domain of protein phosphatase 2a, pr65alpha {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: HEAT repeat
domain: Constant regulatory domain of protein phosphatase 2a, pr65alpha
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.21  E-value=0.0032  Score=70.55  Aligned_cols=150  Identities=8%  Similarity=-0.005  Sum_probs=83.6

Q ss_pred             CCCccchhhHHHHHhhhccCCch----H-HHHHHHHHhhhcCchhhHHHHHHhhHhhhcCCCCHHHHHHHHHhhc---cC
Q psy6893         671 PTSGYYEGGGLYALGLIHANHGA----V-INDYLLGQVKDATNEMVRHGGCLGLGLAAMGSARDDIYEQLKFNLY---QD  742 (988)
Q Consensus       671 s~~~~~k~GAL~AlGlI~ag~~~----~-~~~~Ll~~l~~s~~~~ir~gA~LGLGla~~Gs~~~dv~~~L~~~l~---~D  742 (988)
                      +.+..+|..++-.++.+....+.    + ....+...+ ......+|..|+-.||...-..+.+.....++|.+.   .|
T Consensus       413 d~~~~~r~~~~~~l~~l~~~~~~~~~~~~l~~~l~~~l-~D~~~~VR~~A~~~L~~l~~~~~~~~~~~~i~~~l~~~~~~  491 (588)
T d1b3ua_         413 DAKWRVRLAIIEYMPLLAGQLGVEFFDEKLNSLCMAWL-VDHVYAIREAATSNLKKLVEKFGKEWAHATIIPKVLAMSGD  491 (588)
T ss_dssp             CSSHHHHHHHHHHHHHHHHHHCGGGCCHHHHHHHHHGG-GCSSHHHHHHHHHHHHHHHHHHCHHHHHHHTHHHHHHTTTC
T ss_pred             cccHHHHHHHHHHHHHHHHHcChHhHHHHHHHHHHhhc-cCCchhHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhcC
Confidence            34556888888888877443222    2 344444444 445678999999999887544344444444555442   33


Q ss_pred             C-hhhHHHHHHHhhcccCCCCCHHHHHHHHHHHHhcccc--hhhhHH-HHHHHHHhcC--C---chhHHHHHHHHhcccc
Q psy6893         743 D-AVTGEAAGIAMGLVLLGSKSESAIQDMVAYAKETQHE--KILRGL-AVGISFIMYG--Q---LENADDLVRDLCEEKD  813 (988)
Q Consensus       743 ~-~~~~e~AalAlGLI~vGs~n~d~i~~ll~~~~etq~e--~i~R~l-algLgLi~~G--r---~e~a~~li~~L~~~~d  813 (988)
                      + ...+..+..+++.+.-+.+.....+.++..+..--++  .-.|.. +-.|+.++.-  .   .+.+..+++.|..++|
T Consensus       492 ~~~~~R~~~~~~l~~l~~~~~~~~~~~~ilp~ll~~~~D~v~nVR~~a~~~l~~i~~~~~~~~~~~~i~~~l~~L~~D~d  571 (588)
T d1b3ua_         492 PNYLHRMTTLFCINVLSEVCGQDITTKHMLPTVLRMAGDPVANVRFNVAKSLQKIGPILDNSTLQSEVKPILEKLTQDQD  571 (588)
T ss_dssp             SCHHHHHHHHHHHHHHHHHHHHHHHHHHTHHHHHHGGGCSCHHHHHHHHHHHHHHGGGSCHHHHHHHHHHHHHHHTTCSS
T ss_pred             CCHHHHHHHHHHHHHHHHHcChHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHcCcHhHHHHHHHHHHHHcCCCC
Confidence            3 3344456666666543222222233444443332222  234544 4456555421  1   1457788999999999


Q ss_pred             hhhhhhcH
Q psy6893         814 AILRRSGM  821 (988)
Q Consensus       814 p~~r~~~~  821 (988)
                      +-.|+.+.
T Consensus       572 ~dVr~~A~  579 (588)
T d1b3ua_         572 VDVKYFAQ  579 (588)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            98888643

>d1jdha_ a.118.1.1 (A:) beta-Catenin {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: Armadillo repeat
domain: beta-Catenin
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.44  E-value=0.31  Score=53.03  Aligned_cols=70  Identities=11%  Similarity=-0.046  Sum_probs=44.4

Q ss_pred             HHHHHHHhhcCCCCCCCCCccchhhHHHHHhhhccCCch--------HHHHHHHHHhh-hcCchhhHHHHHHhhHhhhcC
Q psy6893         655 TEALAHMQSYLPRETGPTSGYYEGGGLYALGLIHANHGA--------VINDYLLGQVK-DATNEMVRHGGCLGLGLAAMG  725 (988)
Q Consensus       655 ~~~l~~L~~yL~~~~~s~~~~~k~GAL~AlGlI~ag~~~--------~~~~~Ll~~l~-~s~~~~ir~gA~LGLGla~~G  725 (988)
                      ..++..|-+++.    ++++..+.-|+.+|+-+.++...        ..+..|...+. .++++.++..|+..|+-...+
T Consensus       265 ~~~i~~Lv~ll~----~~~~~~~~~a~~~L~~l~~~~~~~~~~i~~~~~i~~Li~~l~~~~~~~~~~~~a~~aL~~l~~~  340 (529)
T d1jdha_         265 EGLLGTLVQLLG----SDDINVVTCAAGILSNLTCNNYKNKMMVCQVGGIEALVRTVLRAGDREDITEPAICALRHLTSR  340 (529)
T ss_dssp             HHHHHHHHHHTT----CSCHHHHHHHHHHHHHHTTTCHHHHHHHHHTTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSS
T ss_pred             hhcchhhhhhcc----cccHHHHHHHHHHHHhhccchhHHHHHHHHhhhHHHHHHHHHhhhcchhHHHHHHHHhhcccch
Confidence            457778888885    55677888888888888666532        13445555554 334556777777777655444


Q ss_pred             CCC
Q psy6893         726 SAR  728 (988)
Q Consensus       726 s~~  728 (988)
                      ..+
T Consensus       341 ~~~  343 (529)
T d1jdha_         341 HQE  343 (529)
T ss_dssp             STT
T ss_pred             hhc
Confidence            443

>d1u6gc_ a.118.1.2 (C:) Cullin-associated NEDD8-dissociated protein 1 (Tip120) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: HEAT repeat
domain: Cullin-associated NEDD8-dissociated protein 1 (Tip120)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.15  E-value=1.9  Score=51.26  Aligned_cols=200  Identities=14%  Similarity=0.109  Sum_probs=99.9

Q ss_pred             CccchhhHHHHHhhhccCCc----hHHHHHHHHHhhhcCchhhHHHHHHhhHhhhcCCCCHHHHHHHHHhhccCChhhHH
Q psy6893         673 SGYYEGGGLYALGLIHANHG----AVINDYLLGQVKDATNEMVRHGGCLGLGLAAMGSARDDIYEQLKFNLYQDDAVTGE  748 (988)
Q Consensus       673 ~~~~k~GAL~AlGlI~ag~~----~~~~~~Ll~~l~~s~~~~ir~gA~LGLGla~~Gs~~~dv~~~L~~~l~~D~~~~~e  748 (988)
                      .+-.+.-|+.++|-+....+    .+....+++.+ +++++.+|..|..+||.+..|.... ..-.+...+..++ ....
T Consensus       828 ~~~~~~~al~~Lge~~~~~~~~~~~~l~~~l~~~l-~~~~~~vr~aAa~aLg~l~~~~~~~-~lp~il~~l~~~~-~~~~  904 (1207)
T d1u6gc_         828 TDSIRLLALLSLGEVGHHIDLSGQLELKSVILEAF-SSPSEEVKSAASYALGSISVGNLPE-YLPFVLQEITSQP-KRQY  904 (1207)
T ss_dssp             CHHHHHHHHHHHHHHHHHSCCCSCTHHHHHHHHGG-GCSCHHHHHHHHHHHHHHHHHTHHH-HHHHHHHHHHSCG-GGHH
T ss_pred             hHHHHHHHHHHHHHHHHhccccchHHHHHHHHHHh-CCCCHHHHHHHHHHHHHHHHhhHHH-HhHHHHHHHhcCc-hHHH
Confidence            34556677777776654332    12344454444 4456677888888888766554322 2233333332222 1111


Q ss_pred             HHHHHhhcccCCCC---CHHHHHHHHHHHH---hcccchhhhHHHHHHHHHhcCCchhHHHHHHHHhcccchhhhhhcHH
Q psy6893         749 AAGIAMGLVLLGSK---SESAIQDMVAYAK---ETQHEKILRGLAVGISFIMYGQLENADDLVRDLCEEKDAILRRSGMY  822 (988)
Q Consensus       749 ~AalAlGLI~vGs~---n~d~i~~ll~~~~---etq~e~i~R~lalgLgLi~~Gr~e~a~~li~~L~~~~dp~~r~~~~~  822 (988)
                      ..--+++-+.-..+   .......+++.+.   +..++.+...++.+||-+..-..+..-..+..+..++++..|...+ 
T Consensus       905 ~ll~al~ei~~~~~~~~~~~~~~~i~~~L~~~~~~~~~~vr~~~a~~lg~L~~~~~~~~lp~L~~~l~~~~~~~r~~ai-  983 (1207)
T d1u6gc_         905 LLLHSLKEIISSASVVGLKPYVENIWALLLKHCECAEEGTRNVVAECLGKLTLIDPETLLPRLKGYLISGSSYARSSVV-  983 (1207)
T ss_dssp             HHHHHHHHHHHSSCSTTTHHHHHHHHHHHTTCCCCSSTTHHHHHHHHHHHHHHSSGGGTHHHHTTTSSSSCHHHHHHHH-
T ss_pred             HHHHHHHHHHHhcchhhhHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHhCCCCHHHHHHHH-
Confidence            22122222211111   2234455555442   2224445455666777666555555444454555667777776643 


Q ss_pred             HHHHHHcCCCChhHHHHHHHHHHHhhhhhhhhhhhccCCCchHHHHHhhhhhccCCChhhhhhHHhhhhhhhhhhhhh
Q psy6893         823 TIAMAYCGSGSNVATKRLLHDAILRRSGMYTIAMAYCGSGSNVATKRLLHVAVSDVNDDVRREAVTALGFILFRKKRT  900 (988)
Q Consensus       823 ~lslAyaGtGnvl~iq~lL~~~~~~~lG~alia~g~~~tgn~~air~ll~~~~sd~~~~vrraa~~alg~i~~~npeq  900 (988)
                       .++.|.=+.....+...+..+                      |-.|+.. .+|++.+|||+|..+++-+..+.|.-
T Consensus       984 -~~l~~~~~~~~~~~~~~l~~l----------------------i~~ll~~-l~d~~~~vR~~al~~l~~~~~~~p~l 1037 (1207)
T d1u6gc_         984 -TAVKFTISDHPQPIDPLLKNC----------------------IGDFLKT-LEDPDLNVRRVALVTFNSAAHNKPSL 1037 (1207)
T ss_dssp             -HHTGGGCCSSCCTHHHHHHHH----------------------STTTHHH-HSSSSTHHHHHHHHHHHHHHHHCGGG
T ss_pred             -HHHHHHHHhcchhhHHHHHHH----------------------HHHHHHH-hCCCCHHHHHHHHHHHHHHHHhChHH
Confidence             344443211111111111111                      1112222 46889999999999998887777664

>d1jdha_ a.118.1.1 (A:) beta-Catenin {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: Armadillo repeat
domain: beta-Catenin
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.28  E-value=0.67  Score=50.22  Aligned_cols=73  Identities=10%  Similarity=0.130  Sum_probs=46.3

Q ss_pred             HHHHHHHHHHhccCCCchhhHHHHHHHHHHhhcCccccccccCCCCchhHHhhccchhhhhhHhhHHHhhhhcc
Q psy6893         471 NVATKRLLHVAVSDVNDDVRREAVTALGFILFRTLFYVAPACTRSPWPGVISLLDDPMIELKEFSLKKLNDIVD  544 (988)
Q Consensus       471 ~~~Iq~LLhi~~s~~~~dvrr~AV~~lg~I~~~~~~~~g~~~~~~~~p~ai~lL~~~~~~~~~~~~~~l~~~~~  544 (988)
                      ...|..|++++....++++|+.|+..|..+...++.+.-+.-. .|+|..+.+|..+......+-.+-|.++..
T Consensus        58 ~~~v~~l~~~L~~~~~~~~~~~a~~~L~~l~~~~~~~~~i~~~-g~i~~Li~lL~~~~~~v~~~a~~aL~~l~~  130 (529)
T d1jdha_          58 PQMVSAIVRTMQNTNDVETARCTAGTLHNLSHHREGLLAIFKS-GGIPALVKMLGSPVDSVLFYAITTLHNLLL  130 (529)
T ss_dssp             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHTTSHHHHHHHHHT-THHHHHHHHTTCSCHHHHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHcCCCCHHHHHHHHHHHHHHhCCchhHHHHHHC-CCHHHHHHHhCCCCHHHHHHHHHHHHHhhc
Confidence            3467888888877677789999999999987655433222211 368999999986543322332333544443

>d1te4a_ a.118.1.16 (A:) MTH187 {Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: PBS lyase HEAT-like repeat
domain: MTH187
species: Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]

Probab=94.79  E-value=0.028  Score=49.29  Aligned_cols=87  Identities=14%  Similarity=0.195  Sum_probs=49.6

Q ss_pred             chhhhhhhhcccccCChHHHHHHHhhcCCCCCCCCCccchhhHHHHHhhhccCCchHHHHHHHHHhhhcCchhhHHHHHH
Q psy6893         638 AKLTATASLGVIHRGHETEALAHMQSYLPRETGPTSGYYEGGGLYALGLIHANHGAVINDYLLGQVKDATNEMVRHGGCL  717 (988)
Q Consensus       638 ~kfsA~ASLG~Ih~gn~~~~l~~L~~yL~~~~~s~~~~~k~GAL~AlGlI~ag~~~~~~~~Ll~~l~~s~~~~ir~gA~L  717 (988)
                      -+..|+-+||.+..    +++..|-+.|.    +.++++|..|+.+||.+.  . ..++.+|...+. +++..+|..|+.
T Consensus         8 VR~~A~~aL~~~~~----~~~~~L~~~l~----d~~~~vR~~a~~~L~~~~--~-~~~~~~L~~~l~-d~~~~VR~~a~~   75 (111)
T d1te4a_           8 VRRDVSTALSRMGD----EAFEPLLESLS----NEDWRIRGAAAWIIGNFQ--D-ERAVEPLIKLLE-DDSGFVRSGAAR   75 (111)
T ss_dssp             SSSSCCSSTTSCSS----TTHHHHHHGGG----CSCHHHHHHHHHHHGGGC--S-HHHHHHHHHHHH-HCCTHHHHHHHH
T ss_pred             HHHHHHHHHHHhCH----HHHHHHHHHHc----CCCHHHHHHHHHHHHhcc--h-hhhHHHHHhhhc-cchhHHHHHHHH
Confidence            34566666665532    24444555553    445677777777777652  1 235555555443 345667777777


Q ss_pred             hhHhhhcCCCCHHHHHHHHHhhc
Q psy6893         718 GLGLAAMGSARDDIYEQLKFNLY  740 (988)
Q Consensus       718 GLGla~~Gs~~~dv~~~L~~~l~  740 (988)
                      +||-.  |  ++.+...|..++.
T Consensus        76 aL~~i--~--~~~~~~~L~~ll~   94 (111)
T d1te4a_          76 SLEQI--G--GERVRAAMEKLAE   94 (111)
T ss_dssp             HHHHH--C--SHHHHHHHHHHTT
T ss_pred             HHHHh--C--ccchHHHHHHHHc
Confidence            77653  3  4566666666653

>d1q1sc_ a.118.1.1 (C:) Importin alpha {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: Armadillo repeat
domain: Importin alpha
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=94.65  E-value=0.7  Score=48.14  Aligned_cols=98  Identities=14%  Similarity=0.057  Sum_probs=55.4

Q ss_pred             HHHHhhcCCCCCCCCCccchhhHHHHHhhhccCCchH--------HHHHHHHHhhhcCchhhHHHHHHhhHhhhcCCCC-
Q psy6893         658 LAHMQSYLPRETGPTSGYYEGGGLYALGLIHANHGAV--------INDYLLGQVKDATNEMVRHGGCLGLGLAAMGSAR-  728 (988)
Q Consensus       658 l~~L~~yL~~~~~s~~~~~k~GAL~AlGlI~ag~~~~--------~~~~Ll~~l~~s~~~~ir~gA~LGLGla~~Gs~~-  728 (988)
                      +..|-+++.    ++++.++-.++.+++-+..+....        .+..|...+ ++.+..++.-|+..|+-...++.+ 
T Consensus       232 ~~~Lv~ll~----~~~~~~~~~al~~l~~l~~~~~~~~~~~~~~~~~~~l~~ll-~~~~~~v~~~a~~~L~~l~~~~~~~  306 (434)
T d1q1sc_         232 VPQLVKLLG----ATELPIVTPALRAIGNIVTGTDEQTQKVIDAGALAVFPSLL-TNPKTNIQKEATWTMSNITAGRQDQ  306 (434)
T ss_dssp             HHHHHHHHT----CSCHHHHHHHHHHHHHHTTSCHHHHHHHHHTTGGGGHHHHT-TCSSHHHHHHHHHHHHHHTTSCHHH
T ss_pred             chhcccccc----cchhhhhhchhhhhhhHHhhhhHHHHHHHhccccchHHHhh-cccchhhhHHHHHHHhhhccccchh
Confidence            344455554    456777888888888776655321        122343333 455667888888887755443322 


Q ss_pred             ------HHHHHHHHHhhccCChhhHHHHHHHhhcccCC
Q psy6893         729 ------DDIYEQLKFNLYQDDAVTGEAAGIAMGLVLLG  760 (988)
Q Consensus       729 ------~dv~~~L~~~l~~D~~~~~e~AalAlGLI~vG  760 (988)
                            ..++..|+.++.+++......|+.+++-+..+
T Consensus       307 ~~~i~~~~~i~~li~~l~~~~~~v~~~a~~~l~nl~~~  344 (434)
T d1q1sc_         307 IQQVVNHGLVPFLVGVLSKADFKTQKEAAWAITNYTSG  344 (434)
T ss_dssp             HHHHHHTTCHHHHHHHHHSSCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHhhhhhHHHHHHHHhccChHHHHHHHHHHHHHHhc
Confidence                  11344555566555544455666677665544

>d1te4a_ a.118.1.16 (A:) MTH187 {Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: PBS lyase HEAT-like repeat
domain: MTH187
species: Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]

Probab=94.56  E-value=0.028  Score=49.32  Aligned_cols=91  Identities=16%  Similarity=0.110  Sum_probs=60.9

Q ss_pred             CCCccchhhHHHHHhhhccCCchHHHHHHHHHhhhcCchhhHHHHHHhhHhhhcCCCCHHHHHHHHHhhccCChhhHHHH
Q psy6893         671 PTSGYYEGGGLYALGLIHANHGAVINDYLLGQVKDATNEMVRHGGCLGLGLAAMGSARDDIYEQLKFNLYQDDAVTGEAA  750 (988)
Q Consensus       671 s~~~~~k~GAL~AlGlI~ag~~~~~~~~Ll~~l~~s~~~~ir~gA~LGLGla~~Gs~~~dv~~~L~~~l~~D~~~~~e~A  750 (988)
                      +.++++|..|+.+||-+.    ++.+..|+..+ ++++..+|..|+..||-.    ..+++...|...+..++......|
T Consensus         3 D~~~~VR~~A~~aL~~~~----~~~~~~L~~~l-~d~~~~vR~~a~~~L~~~----~~~~~~~~L~~~l~d~~~~VR~~a   73 (111)
T d1te4a_           3 DENKWVRRDVSTALSRMG----DEAFEPLLESL-SNEDWRIRGAAAWIIGNF----QDERAVEPLIKLLEDDSGFVRSGA   73 (111)
T ss_dssp             SSCCCSSSSCCSSTTSCS----STTHHHHHHGG-GCSCHHHHHHHHHHHGGG----CSHHHHHHHHHHHHHCCTHHHHHH
T ss_pred             CcCHHHHHHHHHHHHHhC----HHHHHHHHHHH-cCCCHHHHHHHHHHHHhc----chhhhHHHHHhhhccchhHHHHHH
Confidence            456788888888888762    23455566555 455678888898888753    356677788887754444445567


Q ss_pred             HHHhhcccCCCCCHHHHHHHHHHH
Q psy6893         751 GIAMGLVLLGSKSESAIQDMVAYA  774 (988)
Q Consensus       751 alAlGLI~vGs~n~d~i~~ll~~~  774 (988)
                      +.++|-+  |  +.+++..|.+++
T Consensus        74 ~~aL~~i--~--~~~~~~~L~~ll   93 (111)
T d1te4a_          74 ARSLEQI--G--GERVRAAMEKLA   93 (111)
T ss_dssp             HHHHHHH--C--SHHHHHHHHHHT
T ss_pred             HHHHHHh--C--ccchHHHHHHHH
Confidence            7777775  4  566666666655

>d1lsha1 a.118.4.1 (A:285-620) Lipovitellin-phosvitin complex, superhelical domain {Lamprey (Ichthyomyzon unicuspis) [TaxId: 30308]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Lipovitellin-phosvitin complex, superhelical domain
family: Lipovitellin-phosvitin complex, superhelical domain
domain: Lipovitellin-phosvitin complex, superhelical domain
species: Lamprey (Ichthyomyzon unicuspis) [TaxId: 30308]

Probab=93.15  E-value=3.7  Score=42.79  Aligned_cols=97  Identities=15%  Similarity=0.232  Sum_probs=61.4

Q ss_pred             hhhhhhhhcccccCChHHHHHHHhhcCCCCCC---CCCccchhhHHHHHhhhccCCchHHHHHHHHHhhhc-CchhhHHH
Q psy6893         639 KLTATASLGVIHRGHETEALAHMQSYLPRETG---PTSGYYEGGGLYALGLIHANHGAVINDYLLGQVKDA-TNEMVRHG  714 (988)
Q Consensus       639 kfsA~ASLG~Ih~gn~~~~l~~L~~yL~~~~~---s~~~~~k~GAL~AlGlI~ag~~~~~~~~Ll~~l~~s-~~~~ir~g  714 (988)
                      ++.+.=+||-+.  ++ +.+..|.+|++....   ....++|.-|++||..+.+.....+...|+..+.+. .+..+|+.
T Consensus       189 ~~~~LkaLGN~g--~p-~~i~~l~~~l~~~~~~~~~~~~~vR~aAi~Alr~~~~~~p~~v~~~l~~i~~n~~e~~EvRia  265 (336)
T d1lsha1         189 IVLALKALGNAG--QP-NSIKKIQRFLPGQGKSLDEYSTRVQAEAIMALRNIAKRDPRKVQEIVLPIFLNVAIKSELRIR  265 (336)
T ss_dssp             HHHHHHHHHHHT--CG-GGHHHHHTTSTTSSSCCCCSCHHHHHHHHHTTTTGGGTCHHHHHHHHHHHHHCTTSCHHHHHH
T ss_pred             HHHHHHHHhccC--CH-hHHHHHHHHhcccccccccccHHHHHHHHHHHHHhhhcCcHHHHHHHHHHHcCCCCChHHHHH
Confidence            444455566443  33 578888889874321   124578888888888886665555666666655544 34578888


Q ss_pred             HHHhhHhhhcCC-CCHHHHHHHHHhhccC
Q psy6893         715 GCLGLGLAAMGS-ARDDIYEQLKFNLYQD  742 (988)
Q Consensus       715 A~LGLGla~~Gs-~~~dv~~~L~~~l~~D  742 (988)
                      |++-|    |-+ -....+..+...+..|
T Consensus       266 A~~~l----m~t~P~~~~l~~i~~~l~~E  290 (336)
T d1lsha1         266 SCIVF----FESKPSVALVSMVAVRLRRE  290 (336)
T ss_dssp             HHHHH----HHTCCCHHHHHHHHHHHTTC
T ss_pred             HHHHH----HhcCCCHHHHHHHHHHHHhC
Confidence            88877    345 3566677777666433

>d1wa5b_ a.118.1.1 (B:) Karyopherin alpha {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: Armadillo repeat
domain: Karyopherin alpha
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=93.12  E-value=4.4  Score=43.09  Aligned_cols=54  Identities=22%  Similarity=0.107  Sum_probs=37.9

Q ss_pred             HHHHHHHHhccCCCchhhHHHHHHHHHHhhcCccccccccCCCCchhHHhhccc
Q psy6893         473 ATKRLLHVAVSDVNDDVRREAVTALGFILFRTLFYVAPACTRSPWPGVISLLDD  526 (988)
Q Consensus       473 ~Iq~LLhi~~s~~~~dvrr~AV~~lg~I~~~~~~~~g~~~~~~~~p~ai~lL~~  526 (988)
                      .|..|++++.++.++++|..|+-.|+-|+.+++-+.-...-..++|..+.+|..
T Consensus       120 ~i~~Lv~~l~~~~~~~iq~~a~~~L~ni~~~~~~~~~~~~~~g~i~~l~~lL~s  173 (503)
T d1wa5b_         120 VVPRLVEFMRENQPEMLQLEAAWALTNIASGTSAQTKVVVDADAVPLFIQLLYT  173 (503)
T ss_dssp             CHHHHHHTTSTTSCHHHHHHHHHHHHHHTTSCHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             ChHHHHHHHcCCCCHHHHHHHHHHHHHHHcCCHHHHHHHHhCCChHHHHHHhcC
Confidence            467888888887788899999999999998765322222223456777776653

>d1u6gc_ a.118.1.2 (C:) Cullin-associated NEDD8-dissociated protein 1 (Tip120) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: HEAT repeat
domain: Cullin-associated NEDD8-dissociated protein 1 (Tip120)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.98  E-value=2.4  Score=50.34  Aligned_cols=102  Identities=19%  Similarity=0.264  Sum_probs=68.6

Q ss_pred             hhhhhhhhcccccCChHHHHHHHhhcCCCCCCCCCccchhhHHHHHhhhccCCchHHHHH-------HHHHhhhcCchhh
Q psy6893         639 KLTATASLGVIHRGHETEALAHMQSYLPRETGPTSGYYEGGGLYALGLIHANHGAVINDY-------LLGQVKDATNEMV  711 (988)
Q Consensus       639 kfsA~ASLG~Ih~gn~~~~l~~L~~yL~~~~~s~~~~~k~GAL~AlGlI~ag~~~~~~~~-------Ll~~l~~s~~~~i  711 (988)
                      +-.++..+|.+..-++..-+..|..++.    +.++.+|.+++.+++.+....+.....+       ++..+ +.++..+
T Consensus       945 r~~~a~~lg~L~~~~~~~~lp~L~~~l~----~~~~~~r~~ai~~l~~~~~~~~~~~~~~l~~li~~ll~~l-~d~~~~v 1019 (1207)
T d1u6gc_         945 RNVVAECLGKLTLIDPETLLPRLKGYLI----SGSSYARSSVVTAVKFTISDHPQPIDPLLKNCIGDFLKTL-EDPDLNV 1019 (1207)
T ss_dssp             HHHHHHHHHHHHHSSGGGTHHHHTTTSS----SSCHHHHHHHHHHTGGGCCSSCCTHHHHHHHHSTTTHHHH-SSSSTHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHhC----CCCHHHHHHHHHHHHHHHHhcchhhHHHHHHHHHHHHHHh-CCCCHHH
Confidence            3456677887777788888888988885    6678999999999998877765432222       33333 3356789


Q ss_pred             HHHHHHhhHhhhcCCC--CHHHHHHHHHhhccCChh
Q psy6893         712 RHGGCLGLGLAAMGSA--RDDIYEQLKFNLYQDDAV  745 (988)
Q Consensus       712 r~gA~LGLGla~~Gs~--~~dv~~~L~~~l~~D~~~  745 (988)
                      |..|+..|+-+.--..  =.+.+..|+|.++..+.+
T Consensus      1020 R~~al~~l~~~~~~~p~li~~~l~~llp~l~~~t~~ 1055 (1207)
T d1u6gc_        1020 RRVALVTFNSAAHNKPSLIRDLLDTVLPHLYNETKV 1055 (1207)
T ss_dssp             HHHHHHHHHHHHHHCGGGTGGGHHHHHHHHHHTTSC
T ss_pred             HHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHHhcc
Confidence            9999998876531110  023467778877754443

>d1xqra1 a.118.1.21 (A:87-350) Hsp70-binding protein 1 (HspBP1) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: HspBP1 domain
domain: Hsp70-binding protein 1 (HspBP1)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=86.35  E-value=2.2  Score=42.12  Aligned_cols=135  Identities=13%  Similarity=0.084  Sum_probs=69.8

Q ss_pred             cCCCchhHHHHHHHHHHHhhccCCC-------hhHHHHHHHhhhhcchHHHHHHHHHHHHHHhcCChhhH---------H
Q psy6893         345 TNEDDAVTGEAAGIAMGLVLLGSKS-------ESAIQDMVAYAKETQHEKILRGLAVGISFIMYGQLENA---------D  408 (988)
Q Consensus       345 ~~~d~~~~~~aA~lglGL~~~Gs~~-------~~~~~~L~~~~~dt~~E~~~r~lalgl~~v~~g~~e~a---------~  408 (988)
                      +.+.+..++..|+.+||-+-.+...       ..++..|++++.+..+....+..+..+..+..++.+..         .
T Consensus        68 l~s~~~~vr~~A~~~L~~l~~~~~~~~~~~~~~~~i~~Lv~lL~~~~~~~v~~~a~~aL~~l~~~~~~~~~~~~~~~gi~  147 (264)
T d1xqra1          68 LEAGAAGLRWRAAQLIGTCSQNVAAIQEQVLGLGALRKLLRLLDRDACDTVRVKALFAISCLVREQEAGLLQFLRLDGFS  147 (264)
T ss_dssp             TTCSSHHHHHHHHHHHHHHHTTCHHHHHHHHHTTHHHHHHHHHHHCSCHHHHHHHHHHHHHHHTTCHHHHHHHHHTTHHH
T ss_pred             hCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHcCchHHHHHHhhcCCCHHHHHHHHHHHHHHhccchhhHHHHHHhhhhh
Confidence            3445667777777777755543211       12456677777654444455555555555665554433         3


Q ss_pred             HHHHHHhhcchhhhhccchhHHHHHhhhhhhhccccchhhHHhhccchhHHHHHhhhccCCCHHHHHHHHHHhccCCCch
Q psy6893         409 DLVRDLCEEKDAILRRSGMYTIAMAYCVSYLYFDLFSDLTYRIVKNRSGMYTIAMAYCGSGSNVATKRLLHVAVSDVNDD  488 (988)
Q Consensus       409 ~li~~L~~~~d~~lr~~~~~~~~l~l~Lgll~~g~~~e~~l~~~~~~~~~~~~~~AYaGTGN~~~Iq~LLhi~~s~~~~d  488 (988)
                      .+++.|. ..++.++.-      .+.+|+-+.           ...|...  ..+.     +...|+.|++++ ++.+++
T Consensus       148 ~L~~lL~-~~~~~~~~~------a~~~L~~l~-----------~~~~~~~--~~~~-----~~~~v~~L~~lL-~~~~~~  201 (264)
T d1xqra1         148 VLMRAMQ-QQVQKLKVK------SAFLLQNLL-----------VGHPEHK--GTLC-----SMGMVQQLVALV-RTEHSP  201 (264)
T ss_dssp             HHHHHHH-SSCHHHHHH------HHHHHHHHH-----------HHCGGGH--HHHH-----HTTHHHHHHHHH-TSCCST
T ss_pred             HHHHHHh-cCchHHHHH------HHHHHHHHH-----------hccHHHH--HHHH-----HhhhHHHHHHHH-cCCCHH
Confidence            4444443 333333321      111111110           0111111  1111     122478888887 456788


Q ss_pred             hhHHHHHHHHHHhhcCc
Q psy6893         489 VRREAVTALGFILFRTL  505 (988)
Q Consensus       489 vrr~AV~~lg~I~~~~~  505 (988)
                      +|..|+.+|+-++...|
T Consensus       202 ~~~~a~~aL~~L~~~~~  218 (264)
T d1xqra1         202 FHEHVLGALCSLVTDFP  218 (264)
T ss_dssp             HHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHHHHhcCH
Confidence            99999999999885443

>d1q1sc_ a.118.1.1 (C:) Importin alpha {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: Armadillo repeat
domain: Importin alpha
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=84.44  E-value=6.1  Score=40.49  Aligned_cols=31  Identities=10%  Similarity=0.167  Sum_probs=21.7

Q ss_pred             HhhhhhccCCChhhhhhHHhhhhhhhhhhhhh
Q psy6893         869 RLLHVAVSDVNDDVRREAVTALGFILFRKKRT  900 (988)
Q Consensus       869 ~ll~~~~sd~~~~vrraa~~alg~i~~~npeq  900 (988)
                      .|..++. ++++++|+.+..+++-++..+++.
T Consensus       276 ~l~~ll~-~~~~~v~~~a~~~L~~l~~~~~~~  306 (434)
T d1q1sc_         276 VFPSLLT-NPKTNIQKEATWTMSNITAGRQDQ  306 (434)
T ss_dssp             GHHHHTT-CSSHHHHHHHHHHHHHHTTSCHHH
T ss_pred             hHHHhhc-ccchhhhHHHHHHHhhhccccchh
Confidence            3444444 468899999999988887665553

>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=83.93  E-value=20  Score=34.68  Aligned_cols=150  Identities=13%  Similarity=-0.002  Sum_probs=69.7

Q ss_pred             ccCChHHHHHHHhhcCCCCCCCCCccchhhHHHHHhhhccCCc--hHHHHHHHHHhhhcCchhhHHHHHHhhHhhhcCCC
Q psy6893         650 HRGHETEALAHMQSYLPRETGPTSGYYEGGGLYALGLIHANHG--AVINDYLLGQVKDATNEMVRHGGCLGLGLAAMGSA  727 (988)
Q Consensus       650 h~gn~~~~l~~L~~yL~~~~~s~~~~~k~GAL~AlGlI~ag~~--~~~~~~Ll~~l~~s~~~~ir~gA~LGLGla~~Gs~  727 (988)
                      ..|+.+++...+...+..+  +  .+  ..+++.+|.+....+  .+++..+..........   ..+...+|.++.-.+
T Consensus       181 ~~~~~~~A~~~~~~al~~~--p--~~--~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~  251 (388)
T d1w3ba_         181 AQGEIWLAIHHFEKAVTLD--P--NF--LDAYINLGNVLKEARIFDRAVAAYLRALSLSPNH---AVVHGNLACVYYEQG  251 (388)
T ss_dssp             TTTCHHHHHHHHHHHHHHC--T--TC--HHHHHHHHHHHHTTTCTTHHHHHHHHHHHHCTTC---HHHHHHHHHHHHHTT
T ss_pred             ccCcHHHHHHHHHHHHHhC--c--cc--HHHHHHHhhhhhccccHHHHHHHHHHhHHHhhhH---HHHHHHHHHHHHHCC
Confidence            4567777777777665311  1  11  335555565554443  44665554443322221   123344566666555


Q ss_pred             CH-HHHHHHHHhhccCChhhHHHHHHHhhcccCCCCCHHHHHHHHHHHHhcccchhhhHHHHHHHHHhcCCchhHHHHHH
Q psy6893         728 RD-DIYEQLKFNLYQDDAVTGEAAGIAMGLVLLGSKSESAIQDMVAYAKETQHEKILRGLAVGISFIMYGQLENADDLVR  806 (988)
Q Consensus       728 ~~-dv~~~L~~~l~~D~~~~~e~AalAlGLI~vGs~n~d~i~~ll~~~~etq~e~i~R~lalgLgLi~~Gr~e~a~~li~  806 (988)
                      +. ++...+...+..++...  .+-+.+|.+....++.+-...+++...............++..+...|+.+++...++
T Consensus       252 ~~~~A~~~~~~al~~~p~~~--~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~  329 (388)
T d1w3ba_         252 LIDLAIDTYRRAIELQPHFP--DAYCNLANALKEKGSVAEAEDCYNTALRLCPTHADSLNNLANIKREQGNIEEAVRLYR  329 (388)
T ss_dssp             CHHHHHHHHHHHHHTCSSCH--HHHHHHHHHHHHHSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhCCCCH--HHHHHHHHHHHHcCCHHHHHHHHHhhhccCCccchhhhHHHHHHHHCCCHHHHHHHHH
Confidence            53 34455544443333221  1223344444444454433333333333222222233344444566677777666666


Q ss_pred             HHhc
Q psy6893         807 DLCE  810 (988)
Q Consensus       807 ~L~~  810 (988)
                      ....
T Consensus       330 ~al~  333 (388)
T d1w3ba_         330 KALE  333 (388)
T ss_dssp             HHTT
T ss_pred             HHHH
Confidence            5443

>d1xqra1 a.118.1.21 (A:87-350) Hsp70-binding protein 1 (HspBP1) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: HspBP1 domain
domain: Hsp70-binding protein 1 (HspBP1)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=82.09  E-value=4.3  Score=39.82  Aligned_cols=39  Identities=10%  Similarity=0.072  Sum_probs=30.1

Q ss_pred             HHHHHhhhhhccCCChhhhhhHHhhhhhhhhhhhhhhHhh
Q psy6893         865 VATKRLLHVAVSDVNDDVRREAVTALGFILFRKKRTRRKK  904 (988)
Q Consensus       865 ~air~ll~~~~sd~~~~vrraa~~alg~i~~~npeq~pk~  904 (988)
                      .++..|.+++.+ +++.+|+.+..+|+-+...+|+.....
T Consensus       186 ~~v~~L~~lL~~-~~~~~~~~a~~aL~~L~~~~~~~~~~~  224 (264)
T d1xqra1         186 GMVQQLVALVRT-EHSPFHEHVLGALCSLVTDFPQGVREC  224 (264)
T ss_dssp             THHHHHHHHHTS-CCSTHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             hhHHHHHHHHcC-CCHHHHHHHHHHHHHHHhcCHHHHHHH
Confidence            357788888755 688999999999998887777765443

>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=81.28  E-value=22  Score=33.19  Aligned_cols=222  Identities=17%  Similarity=0.164  Sum_probs=112.3

Q ss_pred             HHHHHHHhhcCCCCCCCCCccchhhHHHHHhhhccCCch--HHHHHHHHHhhhcCchhhHHHHHHhhHhhhcCCCCHH-H
Q psy6893         655 TEALAHMQSYLPRETGPTSGYYEGGGLYALGLIHANHGA--VINDYLLGQVKDATNEMVRHGGCLGLGLAAMGSARDD-I  731 (988)
Q Consensus       655 ~~~l~~L~~yL~~~~~s~~~~~k~GAL~AlGlI~ag~~~--~~~~~Ll~~l~~s~~~~ir~gA~LGLGla~~Gs~~~d-v  731 (988)
                      +.++..+...+.+.  .-.+-.++-+++-+|.++...|.  +++..+...+.-.++.   ..+...+|.++...++.+ +
T Consensus        16 e~al~~~~e~l~~~--~~~~~~~a~~~~~~G~~y~~~g~~~~A~~~~~~al~l~p~~---~~a~~~lg~~~~~~g~~~~A   90 (259)
T d1xnfa_          16 EVILARMEQILASR--ALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIRPDM---PEVFNYLGIYLTQAGNFDAA   90 (259)
T ss_dssp             HHHHHHHHHHHTSS--CCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCC---HHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHhh--hcCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHhhccCCCC---HHHHhhhchHHHHHHHHHHh
Confidence            34555555555321  12344577888888888766553  4666666555433332   224567788887777743 5


Q ss_pred             HHHHHHhhccCChhhHHHHHHHhhcccCCCCCHHH-HHHHHHHHHhcccchhhhHHHHHHHHHhcCCchhHHHHHHHHhc
Q psy6893         732 YEQLKFNLYQDDAVTGEAAGIAMGLVLLGSKSESA-IQDMVAYAKETQHEKILRGLAVGISFIMYGQLENADDLVRDLCE  810 (988)
Q Consensus       732 ~~~L~~~l~~D~~~~~e~AalAlGLI~vGs~n~d~-i~~ll~~~~etq~e~i~R~lalgLgLi~~Gr~e~a~~li~~L~~  810 (988)
                      ++.+...+..++...  .+-+.+|.++...++.+- ++.+-..+.....+ ....+.++++....+..+....+......
T Consensus        91 ~~~~~~al~~~p~~~--~a~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  167 (259)
T d1xnfa_          91 YEAFDSVLELDPTYN--YAHLNRGIALYYGGRDKLAQDDLLAFYQDDPND-PFRSLWLYLAEQKLDEKQAKEVLKQHFEK  167 (259)
T ss_dssp             HHHHHHHHHHCTTCT--HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTC-HHHHHHHHHHHHHHCHHHHHHHHHHHHHH
T ss_pred             hhhhhHHHHHHhhhh--hhHHHHHHHHHHHhhHHHHHHHHHHHHhhcccc-HHHHHHHHHHHHHhhhHHHHHHHHHHhhc
Confidence            666665554444322  244556666666666443 33333333222222 22223344544555555555555554443


Q ss_pred             ccchhhhhhcHHHHHHHHcCCCChhHHHHHHHHHH-----------H--hhhhhhhhhhhccCCCchHHHHHhhhhhccC
Q psy6893         811 EKDAILRRSGMYTIAMAYCGSGSNVATKRLLHDAI-----------L--RRSGMYTIAMAYCGSGSNVATKRLLHVAVSD  877 (988)
Q Consensus       811 ~~dp~~r~~~~~~lslAyaGtGnvl~iq~lL~~~~-----------~--~~lG~alia~g~~~tgn~~air~ll~~~~sd  877 (988)
                      ..+..  +.  ......|.|.-.......-....+           +  -.+|.++..+|+.    +.|++.+-..+..+
T Consensus       168 ~~~~~--~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~----~~A~~~~~~al~~~  239 (259)
T d1xnfa_         168 SDKEQ--WG--WNIVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDL----DSATALFKLAVANN  239 (259)
T ss_dssp             SCCCS--TH--HHHHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCH----HHHHHHHHHHHTTC
T ss_pred             cchhh--hh--hhHHHHHHHHHHHHHHHHHHHHHHHHhhhcCcccHHHHHHHHHHHHHCCCH----HHHHHHHHHHHHcC
Confidence            32221  11  122233344322211111111110           0  2378888888776    78888888887788


Q ss_pred             CChhhh-hhHHhhhhh
Q psy6893         878 VNDDVR-REAVTALGF  892 (988)
Q Consensus       878 ~~~~vr-raa~~alg~  892 (988)
                      |++.+- |.+-+.|..
T Consensus       240 p~~~~~~~~a~~~L~~  255 (259)
T d1xnfa_         240 VHNFVEHRYALLELSL  255 (259)
T ss_dssp             CTTCHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHH
Confidence            866543 444444443