Psyllid ID: psy1643

---

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--
Protein Sequence
MAKKNKKGGKNTNNSAPGAASTSQCSGGSAKPANQAGPSKQNVPANQAGPSKQNVPVNQGGAAKQNIQGSSSKQNVSANQAGPSKQNGPVKQTGASKQNGPVKQTSKETPRSRRKPSSLPLQKEVEAIRLRRRVKMKPLKNTQCSIHLKHLPAPKSTHAPAEFRLKCILLFKQEYPMFYHDNVKTPPVNFYYKFSTTKDRKAPAEMAIFNCVDQLVAQDKKDTILTTITSEGGEQNFIMFQLKYLIKCLIVKVLDNSNPLLINYDIVLYVLAKCLQLVQQDPKAKLPSTTIIEFRTKVLELAVDRVAGQNSERFLMFVLYMLNFSPKSLRPDAVRKQLQKWYMGKESDQLVVLVAKCSVYQGLSHANVLKLIHFDVFHQSPDKKLALYAIAFGFAYVSHRLISGKFLATPRVPPFVTSDDCFDKASDKVKTIVKDVAVVRCNTSHQKVVAAAVKTHSLGIESVCPKFAKSFKVNTACLEGMTQRGLLQSMHRLRKDNVLSSEDHAIVDESTTCGTYVKQLGASPVTEPPLHPAEVLAAYAEYVLAPVTKMASFQKKAVKPPPSEGGGGDQAQEKSEDETPVLTAKAPEPAIVSALQELYKSSFSNLKTHDSLKISVCLDLQPRFESQPCRDYRPLSGSHVAVLVLESLLRMVDYKMDNIRLVGFKDAKVRPIVRLKTHNCDDNLEGLDDLVDELATVKLEDAPEAEKEEESGKDSADSIIKNYEKIWRYYKRQIPKARGITIHKLLSWSIKQMWHPDVYVVICSQENLSLYKTNVIFAEYMEKTKRKNTNQENLSLYKTNVIFAEYMEKTKRKNTNSSHLKYMPKLKAKTPIQQLLSSAEQADNFCNSVGILQQTAIPSKFSGFDRGGSQTPQQQTQQEDYAHLFATLISRCARDIDALIESLPNEDSTTELQLASLRKLEQDNQGAAERLEDTVRRGELLLEQIQAALTDIAQSQLETNGV
Secondary Structure (PSIPRED)
cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEcccccccccccccccHHccHHHHHHHccccHHHHEEcccccccHHHHHHHHHHHHHHHHHHHHcccccccccHHHHHHHHHHHHHHcccccccccccHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHcccccccHHHHHHHHHHHccccHHHHHHHHHHcccccccccHHHHHHccccccccccHHHHHHHHHHHHHHHEccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHcccccccccccccccHHHHHHHHccccHHHHHHHHHccccccccccccccHHHcccccHHHHHHccccccccccccHHHHHHHHHHHHcccccHHHHHHHHccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHcccccccccEEEEEEEccccccccccccccccccHHHHHHHHHHHHHHHHHEEcccEEEEEEccccccccccccccccccHHHHHHHHHHHHHHHcccccHHHHHHHHcccccHHHHHHHHHHHHHHHHHcccccccEEEcccccccccccccccEEEEEEccccccccccHHHHHHHHHHHHcccccccccccccHHHHHHHHHHHHHcccccccccccccccccccHHHHHHcHHHHHHHHHHHHHHHccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccc
Secondary Structure Prediction (SSPRO)
cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHcccccccccccccccccccccccccccccccHHHHHHHHHHHHcccccEcccccccccEEEEEEEcccccccccHHHEEEHcHHHHHHcccccEEEEEEcccccHHHHHHHHHHHHHHHHHHHEHccccccEEHHHHHHHHHHHHHHHHHccccccccccEEEEEHHHHHHHHHHHHccccHHHHHHHHHHHHHccccccccHHHHHHHHHHHcccccccEEEEEEEEEEcccccHHHHHHHHccccccccHHHHHHHHHHHHHHHHHHHHcccHHHccccccccccccHHHHHHHHHHHcHEHHcEEEEEEcccHHHHHHHHHEHcccccccccHHHHHcHHHHHHHHccccHHHHHHHHHHHcccccccccccEEEEcccccHHHHHHccccccccccccHHHHHHHHHHHHHcHHHHHHHHHHHccccccccccccccccccccccccEEEcccccHHHHHHHHHHHHHHcHccccccccEEEEEccccccccccccccccccccHHHHHHHHHHHHHHHHcccccEEEEccccccEccEEEEEccccccccccHHHHHHHHHHcccccccHHHHHHccccccHHHHHHHHHHHHHHHHHHcHHHccHHHHHHHHHHHHHcccccEEEEEEccccccHHHHHHHHHHHHHHHHHccccHHHcHHHHHHHHHHHHHHHHHcccccccHHHHcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccc
Coil and Loop (DISEMBL)
makknkkggkntnnsapgaastsqcsggsakpanqagpskqnvpanqagpskqnvpvnqggaakqniqgssskqnvsanqagpskqngpvkqtgaskqngpvkqtsketprsrrkpsslplqKEVEAIRLRRRvkmkplkntqcsihlkhlpapksthapaEFRLKCILLFkqeypmfyhdnvktppvnfyykfsttkdrkapaemAIFNCVDQLVAQDKKDTILTTItseggeqnFIMFQLKYLIKCLIVKvldnsnplliNYDIVLYVLAKCLQLvqqdpkaklpsttiIEFRTKVLELAVDRVAGQNSERFLMFVLYMLnfspkslrpDAVRKQLQKWYMGKESDQLVVLVAKCSVYQGLSHANVLKLIHfdvfhqspdkKLALYAIAFGFAYVSHRLISgkflatprvppfvtsddcfdkasDKVKTIVKDVAVVRCNTSHQKVVAAAVKTHSLGIESVCPKFAKSFKVNTACLEGMTQRGLLQSMHRLrkdnvlssedhaivdesttcgtyvkqlgaspvtepplhpaEVLAAYAEYVLAPVTKMASFqkkavkpppseggggdqaqeksedetpvltakapepAIVSALQELYKSsfsnlkthdslkisvcldlqprfesqpcrdyrplsgSHVAVLVLESLLRMVDykmdnirlvgfkdakvrpivrlkthncddnleGLDDLVDELATVkledapeaekeeesgkdsADSIIKNYEKIWRYYKRQIPKARGITIHKLLSWSIkqmwhpdvYVVICSQENLSLYKTNVIFAEYMEKTkrkntnqenlsLYKTNVIFAEYMEKTkrkntnsshlkympklkaktPIQQLLSSAEQADNFCNSVGilqqtaipskfsgfdrggsqtpqqqtQQEDYAHLFATLISRCARDIDALIeslpnedstTELQLASLRKLEQDNQGAAERLEDTVRRGELLLEQIQAALTDIAQsqletngv
Flexible Loop (DISEMBL)
makknkkggkntnnsapgaaSTSQCSGGSAKPANQAGPSKQNVPANQAGPSKQNVPVNQGGAAKQNIQGSSSKQNVSANQagpskqngpvkqtgaskqngpvkqtsketprsrrkpsslplqkeveairlrrrvkmkplkntqcsihlkhlpapksthaPAEFRLKCILLFKQEYPMFYHDNVKTPPVNFYYKFSTTKDRKAPAEMAIFNCVDQLVAQDKKDTILTTitseggeqnFIMFQLKYLIKCLIVKVLDNSNPLLINYDIVLYVLAKCLQLVQqdpkaklpsttiiEFRTKVLELAVDRVAGQNSERFLMFVLYMLNFSPKSLRPDAVRKQLQKWYMGKESDQLVVLVAKCSVYQGLSHANVLKLIHFDVFHQSPDKKLALYAIAFGFAYVSHRLISGKFLATPRVPPFVTSDDCFDKASDKVKTIVKDVAVVRCNTSHQKVVAAAVKTHSLGIESVCPKFAKSFKVNTACLEGMTQRGLLQSMHRLRKDNVLSSEDHAIVDESTTCGTYVKQLGASPVTEPPLHPAEVLAAYAEYVLAPVTKMASFQKKavkpppseggggdqaqekSEDETPVLTAKAPEPAIVSALQELYKSSFSNLKTHDSLKISVCLDLQPRFESQPCRDYRPLSGSHVAVLVLESLLRMVDYKMDNirlvgfkdakvrpivrlkthncddnleGLDDLVDELATVKledapeaekeeesgkdsadsiIKNYEKIWRYYKRQIPKARGITIHKLLSWSIKQMWHPDVYVVICSQENLSLYKTNVIFAEYMEktkrkntnqenlslYKTNVIFAEYMEktkrkntnsshlkympkLKAKTPIQQLLSSAEQADNFCNSVGILQQTAIPSKFSGFDRGGSQTPQQQTQQEDYAHLFATLISRCARDIDALIeslpnedstTELQLASLRKLEQDNQGAAERLEDTVRRGELLLEQIQAALtdiaqsqletngv
Low Complexity Region (SEG)
MAkknkkggkntnnSAPGAASTSQCSGGSAKPANQAGPSKQNVPANQAGPSKQNVPVNQGGAAKQNIQGSSSKQNVSANQAGPSKQNGPVKQTGASKQNGPVKQTSKETPRSRRKPSSLPLQKEVEAIRLRRRVKMKPLKNTQCSIHLKHLPAPKSTHAPAEFRLKCILLFKQEYPMFYHDNVKTPPVNFYYKFSTTKDRKAPAEMAIFNCVDQLVAQDKKDTILTTITSEGGEQNFIMFQLKYLIKCLIVKVLDNSNPLLINYDIVLYVLAKCLQLVQQDPKAKLPSTTIIEFRTKVLELAVDRVAGQNSERFLMFVLYMLNFSPKSLRPDAVRKQLQKWYMGKESDQLVVLVAKCSVYQGLSHANVLKLIHFDVFHQSPDKKLALYAIAFGFAYVSHRLISGKFLATPRVPPFVTSDDCFDKASDKVKTIVKDVAVVRCNTSHQKVVAAAVKTHSLGIESVCPKFAKSFKVNTACLEGMTQRGLLQSMHRLRKDNVLSSEDHAIVDESTTCGTYVKQLGASPVTEPPLHPAEVLAAYAEYVLAPVTKMASFQKKAVKPPPSEGGGGDQAQEKSEDETPVLTAKAPEPAIVSALQELYKSSFSNLKTHDSLKISVCLDLQPRFESQPCRDYRPLSGSHVAVLVLESLLRMVDYKMDNIRLVGFKDAKVRPIVRLKTHNCDDNLEGLDDLVDELATVkledapeaekeeesgkdsadsIIKNYEKIWRYYKRQIPKARGITIHKLLSWSIKQMWHPDVYVVICSQENLSLYKTNVIFAEYMEKTKRKNTNQENLSLYKTNVIFAEYMEKTKRKNTNSSHLKYMPKLKAKTPIQQLLSSAEQADNFCNSVGILQQTAIPSKFSGFDRGGSqtpqqqtqqEDYAHLFATLISRCARDIDALIESLPNEDSTTELQLASLRKLEQDNQGAAERLEDTVRRGELLLEQIQAALTDIAQSQLETNGV
Disordered region (IsUnstruct)
**********************************************************************************************************************************************QCSIHLKHL******HAPAEFRLKCILLFKQEYPMFYHDNVKTPPVNFYYKFSTTKDRKAPAEMAIFNCVDQLVAQDKKDTILTTITSEGGEQNFIMFQLKYLIKCLIVKVLDNSNPLLINYDIVLYVLAKCLQLVQQDPKAKLPSTTIIEFRTKVLELAVDRVAGQNSERFLMFVLYMLNFSPKSLRPDAVRKQLQKWYMGKESDQLVVLVAKCSVYQGLSHANVLKLIHFDVFHQSPDKKLALYAIAFGFAYVSHRLISGKFLATPRVPPFVTSDDCFDKASDKVKTIVKDVAVVRCNTSHQKVVAAAVKTHSLGIESVCPKFAKSFKVNTACLEGMTQRGLLQSMHRLRKDNVL***DHAIVDESTTCGTYVKQLGASPVTEPPLHPAEVLAAYAEYVLAPVTKM****************************************IVSALQELYKSSFSNLKTHDSLKISVCLDLQPRFESQPCRDYRPLSGSHVAVLVLESLLRMVDYKMDNIRLVGFKDAKVRPIVRLKTHNCDDNLEGLDDLVDELATV*********************IIKNYEKIWRYYKRQIPKARGITIHKLLSWSIKQMWHPDVYVVICSQENLSLYKTNVIFAEYMEKT*******ENLSLYKTNVIFAEYM************************************NFCNSVGILQQTAI***********************YAHLFATLISRCARDIDALIE**************************************LLLEQIQAA**************
Disordered Region (DISOPRED)
*****************************************************************************************************************************************************************************************************************NCV**LVAQDKKDTILTTI***GGEQNFIMFQLKYLIKCLIVKVLDNSNPLLINYDIVLYVLAKCLQLVQQDPKAKLPSTTIIEFRTKVLELAVDRVAGQNSERFLMFVLYMLNFSPKSLRPDAVRKQLQKWYMGKESDQLVVLVAKCSVYQGLSHANVLKLIHFDVFHQSPDKKLALYAIAFGFAYVSHRLISGK***********TSDDCFDKASDKVKTIVKDVAVVRCNTSHQKVVAAAVKTHSLGIESVCPKFAKSFKVNTACLEGMTQRGLLQSMHRLRKDNVLSSEDHAIVDESTTCGTYVKQLGASPVTEPPLHPAEVLAAYAEYVLAPVTKMASF*******************************KAPEPAIVSALQELYKSSFSNLKTHDSLKISVCLDLQPRFESQPCRDYRPLSGSHVAVLVLESLLRMVDYKMDNIRLVGFKDAKVRPIVRLKTHNCDDNLEGLDDLVDELATV*********************IIKNYEKIWRYYKRQIPKARGITIHKLLSWSIKQMWHPDVYVVICSQENLSLYKTNVIFAEY**************SLYKTNVIFAEY***************YMPKLKAKTPIQQLLSSAEQADNFCNSVGILQQTAIPSKF*********************HLFATLISRCARDIDALIES****************************LEDTVRRGELLLEQIQAALTDIAQSQLE****
Disordered Region (DISEMBL)
*****************************************************NVPVN*************************************************************PLQKEVEAIRLRRRVKMKPLKNTQCSIHLKHLPAPKSTHAPAEFRLKCILLFKQEYPMFYHDNVKTPPVNFYYKFSTTKDRKAPAEMAIFNCVDQLVAQDKKDTILTTITSEGGEQNFIMFQLKYLIKCLIVKVLDNSNPLLINYDIVLYVLAKCLQLVQQDPKAKLPSTTIIEFRTKVLELAVDRVAGQNSERFLMFVLYMLNFSPKSLRPDAVRKQLQKWYMGKESDQLVVLVAKCSVYQGLSHANVLKLIHFDVFHQSPDKKLALYAIAFGFAYVSHRLISGKFLATPRVPPFVTSDDCFDKASDKVKTIVKDVAVVRCNTSHQKVVAAAVKTHSLGIESVCPKFAKSFKVNTACLEGMTQRGLLQSMHRLRKDNVLSSEDHAIVDESTTCGTYVKQLGASPVTEPPLHPAEVLAAYAEYVLAPVTKMAS******************************TAKAPEPAIVSALQELYKSSFSNLKTHDSLKISVCLDLQPRFESQPCRDYRPLSGSHVAVLVLESLLRMVDYKMDNIRLVGFKDAKVRPIVRLKTHNCDDNLEGLDDLVDELATVKLED***************DSIIKNYEKIWRYYKRQIPKARGITIHKLLSWSIKQMWHPDVYVVICSQENLSLYKTNVIFAEYMEKTKRKNTNQENLSLYKTNVIFAEYMEKTKRKNTNSSHLKYMPKLKAKTPIQQLLSSAEQADNFCNSVGILQQTAIPSKFSG**************QEDYAHLFATLISRCARDIDALIESLPNEDSTTELQLASLRKLEQDNQGAAERLEDTVRRGELLLEQIQAALTDIAQSQLETNGV
Disordered Region (DISPRO)
************************************************************************************************************************************************************THAPAEFRLKCILLFKQEYPMFYHDNVKTPPVNFYYKFSTTKDRKAPAEMAIFNCVDQLVAQDKKDTILTTITSEGGEQNFIMFQLKYLIKCLIVKVLDNSNPLLINYDIVLYVLAKCLQLVQQDPKAKLPSTTIIEFRTKVLELAVDRVAGQNSERFLMFVLYMLNFSPKSLRPDAVRKQLQKWYMGKESDQLVVLVAKCSVYQGLSHANVLKLIHFDVFHQSPDKKLALYAIAFGFAYVSHRLISGKFLATPRVPPFVTSDDCFDKASDKVKTIVKDVAVVRCNTSHQKVVAAAVKTHSLGIESVCPKFAKSFKVNTACLEGMTQRGLLQSMHRLRKDNVLSSEDHAIVDESTTCGTYVKQLGASPVTEPPLHPAEVLAAYAEYVLAPVTKMASFQKKAV********************TPVLTAKAPEPAIVSALQELYKSSFSNLKTHDSLKISVCLDLQPRFESQPCRDYRPLSGSHVAVLVLESLLRMVDYKMDNIRLVGFKDAKVRPIVRLKTHNCDDNLEGLDDLVDELATVKLEDAP**********DSADSIIKNYEKIWRYYKRQIPKARGITIHKLLSWSIKQMWHPDVYVVICSQENLSLYKTNVIFAEYMEKTKRKNTNQENLSLYKTNVIFAEYMEKTKRKNTNSSHLKYMPKLKAKTPIQQLLSSAEQADNFCNSVGILQQTAIPSKFSGF****S****QQTQQEDYAHLFATLISRCARDIDALIESLPNEDSTTELQLASLRKLEQDNQGAAERLEDTVRRGELLLEQIQAALTDIAQSQLE****
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MAKKNKKGGKNTNNSAPGAASTSQCSGGSAKPANQAGPSKQNVPANQAGPSKQNVPVNQGGAAKQNIQGSSSKQNVSANQAGPSKQNGPVKQTGASKQNGPVKQTSKETPRSRRKPSSLPLQKEVEAIRLRRRVKMKPLKNTQCSIHLKHLPAPKSTHAPAEFRLKCILLFKQEYPMFYHDNVKTPPVNFYYKFSTTKDRKAPAEMAIFNCVDQLVAQDKKDTILTTITSEGGEQNFIMFQLKYLIKCLIVKVLDNSNPLLINYDIVLYVLAKCLQLVQQDPKAKLPSTTIIEFRTKVLELAVDRVAGQNSERFLMFVLYMLNFSPKSLRPDAVRKQLQKWYMGKESDQLVVLVAKCSVYQGLSHANVLKLIHFDVFHQSPDKKLALYAIAFGFAYVSHRLISGKFLATPRVPPFVTSDDCFDKASDKVKTIVKDVAVVRCNTSHQKVVAAAVKTHSLGIESVCPKFAKSFKVNTACLEGMTQRGLLQSMHRLRKDNVLSSEDHAIVDESTTCGTYVKQLGASPVTEPPLHPAEVLAAYAEYVLAPVTKMASFQKKAVKPPPSEGGGGDQAQEKSEDETPVLTAKAPEPAIVSALQELYKSSFSNLKTHDSLKISVCLDLQPRFESQPCRDYRPLSGSHVAVLVLESLLRMVDYKMDNIRLVGFKDAKVRPIVRLKTHNCDDNLEGLDDLVDELATVKLEDAPEAEKEEESGKDSADSIIKNYEKIWRYYKRQIPKARGITIHKLLSWSIKQMWHPDVYVVICSQENLSLYKTNVIFAEYMEKTKRKNTNQENLSLYKTNVIFAEYMEKTKRKNTNSSHLKYMPKLKAKTPIQQLLSSAEQADNFCNSVGILQQTAIPSKFSGFDRGGSQTPQQQTQQEDYAHLFATLISRCARDIDALIESLPNEDSTTELQLASxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxLTDIAQSQLETNGV
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	962	2.2.26 [Sep-21-2011]
Q16RX1	141	Mediator of RNA polymeras	N/A	N/A	0.122	0.836	0.697	1e-42
Q9W5P1	142	Mediator of RNA polymeras	yes	N/A	0.123	0.838	0.605	9e-35
Q7PTL0	154	Mediator of RNA polymeras	no	N/A	0.123	0.772	0.580	2e-32
Q7ZTI5	145	Mediator of RNA polymeras	yes	N/A	0.121	0.806	0.567	8e-29
Q9CQ39	144	Mediator of RNA polymeras	yes	N/A	0.124	0.833	0.553	4e-28
Q2TBU8	144	Mediator of RNA polymeras	yes	N/A	0.121	0.812	0.559	8e-28
Q5RE46	144	Mediator of RNA polymeras	yes	N/A	0.121	0.812	0.559	1e-27
Q4R6N3	144	Mediator of RNA polymeras	N/A	N/A	0.121	0.812	0.559	2e-27
Q13503	144	Mediator of RNA polymeras	yes	N/A	0.121	0.812	0.550	5e-27

>sp|Q16RX1|MED21_AEDAE Mediator of RNA polymerase II transcription subunit 21 OS=Aedes aegypti GN=MED21 PE=3 SV=1

 Score =  175 bits (444), Expect = 1e-42,   Method: Compositional matrix adjust.
 Identities = 83/119 (69%), Positives = 107/119 (89%), Gaps = 1/119 (0%)

Query: 840 EQADNFCNSVGILQQTAIPSKFSGFDRGGSQTPQQQTQQEDYAHLFATLISRCARDIDAL 899
           +QA++FCNS+GILQQ ++PSKF GF+R GSQTPQQ  QQEDYA LF+TLISRCA+DID L
Sbjct: 14  QQAEHFCNSIGILQQCSVPSKFPGFERTGSQTPQQ-NQQEDYAQLFSTLISRCAKDIDTL 72

Query: 900 IESLPNEDSTTELQLASLRKLEQDNQGAAERLEDTVRRGELLLEQIQAALTDIAQSQLE 958
           IESLP+E+S+ ELQ+ +L++LE +NQ +AE+LE+ VR+GELLLE+IQAAL+DIAQSQL+
Sbjct: 73  IESLPSEESSIELQVQALKRLEIENQESAEKLEEVVRKGELLLEKIQAALSDIAQSQLD 131

Component of the Mediator complex, a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. Mediator is recruited to promoters by direct interactions with regulatory proteins and serves as a scaffold for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors.
Aedes aegypti (taxid: 7159)

>sp|Q9W5P1|MED21_DROME Mediator of RNA polymerase II transcription subunit 21 OS=Drosophila melanogaster GN=MED21 PE=1 SV=1

 Score =  149 bits (377), Expect = 9e-35,   Method: Compositional matrix adjust.
 Identities = 72/119 (60%), Positives = 97/119 (81%)

Query: 840 EQADNFCNSVGILQQTAIPSKFSGFDRGGSQTPQQQTQQEDYAHLFATLISRCARDIDAL 899
           +QA++FCN++G++QQT++PSKF  F+R G QTP     QEDYA LFA LI+RCA+DID L
Sbjct: 14  QQAEHFCNAIGVIQQTSLPSKFVNFERIGPQTPIPCPPQEDYAQLFAQLIARCAKDIDTL 73

Query: 900 IESLPNEDSTTELQLASLRKLEQDNQGAAERLEDTVRRGELLLEQIQAALTDIAQSQLE 958
           IESLPNEDS+ ELQ +SL++LE +NQG A  LE+ V++GELLLE++Q +L  IAQ+QL+
Sbjct: 74  IESLPNEDSSIELQNSSLKRLEIENQGTARDLEEVVQKGELLLEKMQYSLECIAQAQLD 132

Component of the Mediator complex, a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. Mediator is recruited to promoters by direct interactions with regulatory proteins and serves as a scaffold for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors. Required for activated transcription of the MtnA, MtnB and MtnD genes.

Drosophila melanogaster (taxid: 7227)

>sp|Q7PTL0|MED21_ANOGA Mediator of RNA polymerase II transcription subunit 21 OS=Anopheles gambiae GN=MED21 PE=3 SV=5

 Score =  142 bits (357), Expect = 2e-32,   Method: Compositional matrix adjust.
 Identities = 79/136 (58%), Positives = 105/136 (77%), Gaps = 17/136 (12%)

Query: 840 EQADNFCNSVGILQQTAIPSKFSGFDRGGSQTPQQQTQQEDYAH---------------- 883
           +QA++FCNS+GILQQ ++PSKF+GF+R GSQTPQQQ  Q+                    
Sbjct: 14  QQAEHFCNSIGILQQCSVPSKFAGFERTGSQTPQQQVHQQQQLPQQQQQQQQPQQQEDFP 73

Query: 884 -LFATLISRCARDIDALIESLPNEDSTTELQLASLRKLEQDNQGAAERLEDTVRRGELLL 942
            LF+TLISRCA+DID LIESLP+E+S+ ELQ+ SL++LE +N+ +AE+LE+ VR+GELLL
Sbjct: 74  QLFSTLISRCAKDIDTLIESLPSEESSIELQVQSLQRLEAENKESAEKLEEIVRKGELLL 133

Query: 943 EQIQAALTDIAQSQLE 958
           E+IQAAL+DIAQSQL+
Sbjct: 134 EKIQAALSDIAQSQLD 149

Component of the Mediator complex, a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. Mediator is recruited to promoters by direct interactions with regulatory proteins and serves as a scaffold for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors.

Anopheles gambiae (taxid: 7165)

>sp|Q7ZTI5|MED21_DANRE Mediator of RNA polymerase II transcription subunit 21 OS=Danio rerio GN=med21 PE=2 SV=1

 Score =  129 bits (325), Expect = 8e-29,   Method: Compositional matrix adjust.
 Identities = 67/118 (56%), Positives = 86/118 (72%), Gaps = 1/118 (0%)

Query: 842 ADNFCNSVGILQQTAIPSKFSGFDRGGSQTPQQQTQQEDYAHLFATLISRCARDIDALIE 901
           AD FCN++G+LQQ A P+ FS      ++  Q     E+YA LFA LI+R A+D+D LI+
Sbjct: 16  ADQFCNAIGVLQQCAPPASFSNIQTAINKD-QPSNPTEEYAQLFAALIARTAKDVDVLID 74

Query: 902 SLPNEDSTTELQLASLRKLEQDNQGAAERLEDTVRRGELLLEQIQAALTDIAQSQLET 959
           SLP+E+ST  LQ ASLR+LE++NQ AA RLE+ V RG+ LLE+IQ AL DIAQSQL T
Sbjct: 75  SLPSEESTAALQAASLRQLEEENQEAAARLEEVVYRGDALLEKIQTALADIAQSQLRT 132

Component of the Mediator complex, a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. Mediator is recruited to promoters by direct interactions with regulatory proteins and serves as a scaffold for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors.

Danio rerio (taxid: 7955)

>sp|Q9CQ39|MED21_MOUSE Mediator of RNA polymerase II transcription subunit 21 OS=Mus musculus GN=Med21 PE=1 SV=1

 Score =  127 bits (319), Expect = 4e-28,   Method: Compositional matrix adjust.
 Identities = 67/121 (55%), Positives = 86/121 (71%), Gaps = 1/121 (0%)

Query: 842 ADNFCNSVGILQQTAIPSKFSGFDRGGSQTPQQQTQQEDYAHLFATLISRCARDIDALIE 901
           AD FCN++G+LQQ   P+ FS      ++  Q     E+YA LFA LI+R A+DID LI+
Sbjct: 16  ADQFCNAIGVLQQCGPPASFSNIQTAINKD-QPANPTEEYAQLFAALIARTAKDIDVLID 74

Query: 902 SLPNEDSTTELQLASLRKLEQDNQGAAERLEDTVRRGELLLEQIQAALTDIAQSQLETNG 961
           SLP+E+ST  LQ ASL KLE++N  AA  LED V RG++LLE+IQ+AL DIAQSQL+T  
Sbjct: 75  SLPSEESTAALQAASLYKLEEENHEAATCLEDVVYRGDMLLEKIQSALADIAQSQLKTRS 134

Query: 962 V 962
           V
Sbjct: 135 V 135

Component of the Mediator complex, a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. Mediator is recruited to promoters by direct interactions with regulatory proteins and serves as a scaffold for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors.

Mus musculus (taxid: 10090)

>sp|Q2TBU8|MED21_BOVIN Mediator of RNA polymerase II transcription subunit 21 OS=Bos taurus GN=MED21 PE=2 SV=1

 Score =  126 bits (317), Expect = 8e-28,   Method: Compositional matrix adjust.
 Identities = 66/118 (55%), Positives = 85/118 (72%), Gaps = 1/118 (0%)

Query: 842 ADNFCNSVGILQQTAIPSKFSGFDRGGSQTPQQQTQQEDYAHLFATLISRCARDIDALIE 901
           AD FCN++G+LQQ   P+ FS      ++  Q     E+YA LFA LI+R A+DID LI+
Sbjct: 16  ADQFCNAIGVLQQCGPPASFSNIQTAINKD-QPANPTEEYAQLFAALIARTAKDIDVLID 74

Query: 902 SLPNEDSTTELQLASLRKLEQDNQGAAERLEDTVRRGELLLEQIQAALTDIAQSQLET 959
           SLP+E+ST  LQ ASL KLE++N  AA  LED V RG++LLE+IQ+AL DIAQSQL+T
Sbjct: 75  SLPSEESTAALQAASLYKLEEENHEAATSLEDVVYRGDMLLEKIQSALADIAQSQLKT 132

Component of the Mediator complex, a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. Mediator is recruited to promoters by direct interactions with regulatory proteins and serves as a scaffold for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors.

Bos taurus (taxid: 9913)

>sp|Q5RE46|MED21_PONAB Mediator of RNA polymerase II transcription subunit 21 OS=Pongo abelii GN=MED21 PE=2 SV=1

 Score =  126 bits (316), Expect = 1e-27,   Method: Compositional matrix adjust.
 Identities = 66/118 (55%), Positives = 84/118 (71%), Gaps = 1/118 (0%)

Query: 842 ADNFCNSVGILQQTAIPSKFSGFDRGGSQTPQQQTQQEDYAHLFATLISRCARDIDALIE 901
           AD FCN++G+LQQ   P+ FS   +      Q     E+YA LFA LI+R A+DID LI+
Sbjct: 16  ADQFCNAIGVLQQCGPPASFSNI-QTAINKDQPANSTEEYAQLFAALIARTAKDIDVLID 74

Query: 902 SLPNEDSTTELQLASLRKLEQDNQGAAERLEDTVRRGELLLEQIQAALTDIAQSQLET 959
           SLP+E+ST  LQ ASL KLE++N  AA  LED V RG++LLE+IQ+AL DIAQSQL+T
Sbjct: 75  SLPSEESTAALQAASLYKLEEENHEAATCLEDVVYRGDMLLEKIQSALADIAQSQLKT 132

Component of the Mediator complex, a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. Mediator is recruited to promoters by direct interactions with regulatory proteins and serves as a scaffold for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors.

Pongo abelii (taxid: 9601)

>sp|Q4R6N3|MED21_MACFA Mediator of RNA polymerase II transcription subunit 21 OS=Macaca fascicularis GN=MED21 PE=2 SV=1

 Score =  125 bits (314), Expect = 2e-27,   Method: Compositional matrix adjust.
 Identities = 66/118 (55%), Positives = 85/118 (72%), Gaps = 1/118 (0%)

Query: 842 ADNFCNSVGILQQTAIPSKFSGFDRGGSQTPQQQTQQEDYAHLFATLISRCARDIDALIE 901
           AD FCN++G+LQQ   P+ FS      ++  Q     E+YA LFA LI+R A+DID LI+
Sbjct: 16  ADQFCNAIGVLQQCGPPASFSNIQTAINKD-QPANPTEEYAQLFAALIARTAKDIDVLID 74

Query: 902 SLPNEDSTTELQLASLRKLEQDNQGAAERLEDTVRRGELLLEQIQAALTDIAQSQLET 959
           SLP+E+ST  LQ ASL KLE++N  AA  LED V RG++LLE+IQ+AL DIAQSQL+T
Sbjct: 75  SLPSEESTAALQAASLYKLEEENHEAATCLEDVVYRGDMLLEKIQSALADIAQSQLKT 132

Component of the Mediator complex, a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. Mediator is recruited to promoters by direct interactions with regulatory proteins and serves as a scaffold for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors.

Macaca fascicularis (taxid: 9541)

>sp|Q13503|MED21_HUMAN Mediator of RNA polymerase II transcription subunit 21 OS=Homo sapiens GN=MED21 PE=1 SV=1

 Score =  124 bits (310), Expect = 5e-27,   Method: Compositional matrix adjust.
 Identities = 65/118 (55%), Positives = 85/118 (72%), Gaps = 1/118 (0%)

Query: 842 ADNFCNSVGILQQTAIPSKFSGFDRGGSQTPQQQTQQEDYAHLFATLISRCARDIDALIE 901
           AD FCN++G+LQQ   P+ F+      ++  Q     E+YA LFA LI+R A+DID LI+
Sbjct: 16  ADQFCNAIGVLQQCGPPASFNNIQTAINKD-QPANPTEEYAQLFAALIARTAKDIDVLID 74

Query: 902 SLPNEDSTTELQLASLRKLEQDNQGAAERLEDTVRRGELLLEQIQAALTDIAQSQLET 959
           SLP+E+ST  LQ ASL KLE++N  AA  LED V RG++LLE+IQ+AL DIAQSQL+T
Sbjct: 75  SLPSEESTAALQAASLYKLEEENHEAATCLEDVVYRGDMLLEKIQSALADIAQSQLKT 132

Component of the Mediator complex, a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. Mediator is recruited to promoters by direct interactions with regulatory proteins and serves as a scaffold for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors.

Homo sapiens (taxid: 9606)

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	962
242025144	148	mediator of RNA polymerase II transcript	0.125	0.817	0.756	2e-44
170055487	141	Srb7p: RNA polymerase II holoenzyme comp	0.122	0.836	0.705	2e-41
157127307	141	Srb7p: RNA polymerase II holoenzyme comp	0.122	0.836	0.697	9e-41
91085453	143	PREDICTED: similar to Srb7p: RNA polymer	0.122	0.825	0.722	2e-39
321474643	138	hypothetical protein DAPPUDRAFT_300243 [	0.119	0.833	0.692	1e-38
195453657	140	GK14351 [Drosophila willistoni] gi|19416	0.123	0.85	0.655	5e-38
195107744	142	GI23617 [Drosophila mojavensis] gi|19391	0.123	0.838	0.663	8e-38
332373928	144	unknown [Dendroctonus ponderosae]	0.122	0.819	0.689	9e-38
307195484	181	Mediator of RNA polymerase II transcript	0.121	0.646	0.697	1e-37
195388608	142	GJ23591 [Drosophila virilis] gi|19415105	0.123	0.838	0.655	4e-37

>gi|242025144|ref|XP_002432986.1| mediator of RNA polymerase II transcription subunit, putative [Pediculus humanus corporis] gi|212518495|gb|EEB20248.1| mediator of RNA polymerase II transcription subunit, putative [Pediculus humanus corporis]

 Score =  187 bits (476), Expect = 2e-44,   Method: Compositional matrix adjust.
 Identities = 93/123 (75%), Positives = 107/123 (86%), Gaps = 2/123 (1%)

Query: 838 SAEQADNFCNSVGILQQTAIPSKFSGFDRGGSQTPQQQTQQ--EDYAHLFATLISRCARD 895
           +A QA+NFCNS+GILQQ A P KFSGF+R GSQTPQQ  QQ  EDYA LFATLI+RCA+D
Sbjct: 15  NAVQAENFCNSIGILQQFAQPGKFSGFERSGSQTPQQGNQQAQEDYAQLFATLIARCAKD 74

Query: 896 IDALIESLPNEDSTTELQLASLRKLEQDNQGAAERLEDTVRRGELLLEQIQAALTDIAQS 955
           ID LIESLPNEDS+TELQ+ASLR+LE +NQ AA+RLE  V++GELLLEQIQ+AL DIAQS
Sbjct: 75  IDVLIESLPNEDSSTELQVASLRRLETENQEAADRLEQVVKKGELLLEQIQSALADIAQS 134

Query: 956 QLE 958
           QLE
Sbjct: 135 QLE 137

Source: Pediculus humanus corporis

Species: Pediculus humanus

Genus: Pediculus

Family: Pediculidae

Order: Phthiraptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|170055487|ref|XP_001863604.1| Srb7p: RNA polymerase II holoenzyme component [Culex quinquefasciatus] gi|167875427|gb|EDS38810.1| Srb7p: RNA polymerase II holoenzyme component [Culex quinquefasciatus]

 Score =  177 bits (450), Expect = 2e-41,   Method: Compositional matrix adjust.
 Identities = 84/119 (70%), Positives = 108/119 (90%), Gaps = 1/119 (0%)

Query: 840 EQADNFCNSVGILQQTAIPSKFSGFDRGGSQTPQQQTQQEDYAHLFATLISRCARDIDAL 899
           +QA++FCNS+GILQQ ++PSKF GF+R GSQTPQQ TQQEDYA LF+TLISRCA+DID L
Sbjct: 14  QQAEHFCNSIGILQQGSVPSKFPGFERTGSQTPQQ-TQQEDYAQLFSTLISRCAKDIDTL 72

Query: 900 IESLPNEDSTTELQLASLRKLEQDNQGAAERLEDTVRRGELLLEQIQAALTDIAQSQLE 958
           IESLP+E+S+ ELQ+ +L++LE +NQ +AE+LE+ VR+GELLLE+IQAAL+DIAQSQL+
Sbjct: 73  IESLPSEESSIELQVQALKRLEVENQDSAEKLEEVVRKGELLLEKIQAALSDIAQSQLD 131

Source: Culex quinquefasciatus

Species: Culex quinquefasciatus

Genus: Culex

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|157127307|ref|XP_001654915.1| Srb7p: RNA polymerase II holoenzyme component, putative [Aedes aegypti] gi|121955142|sp|Q16RX1.1|MED21_AEDAE RecName: Full=Mediator of RNA polymerase II transcription subunit 21; AltName: Full=Mediator complex subunit 21 gi|108872953|gb|EAT37178.1| AAEL010797-PA [Aedes aegypti]

 Score =  175 bits (444), Expect = 9e-41,   Method: Compositional matrix adjust.
 Identities = 83/119 (69%), Positives = 107/119 (89%), Gaps = 1/119 (0%)

Query: 840 EQADNFCNSVGILQQTAIPSKFSGFDRGGSQTPQQQTQQEDYAHLFATLISRCARDIDAL 899
           +QA++FCNS+GILQQ ++PSKF GF+R GSQTPQQ  QQEDYA LF+TLISRCA+DID L
Sbjct: 14  QQAEHFCNSIGILQQCSVPSKFPGFERTGSQTPQQ-NQQEDYAQLFSTLISRCAKDIDTL 72

Query: 900 IESLPNEDSTTELQLASLRKLEQDNQGAAERLEDTVRRGELLLEQIQAALTDIAQSQLE 958
           IESLP+E+S+ ELQ+ +L++LE +NQ +AE+LE+ VR+GELLLE+IQAAL+DIAQSQL+
Sbjct: 73  IESLPSEESSIELQVQALKRLEIENQESAEKLEEVVRKGELLLEKIQAALSDIAQSQLD 131

Source: Aedes aegypti

Species: Aedes aegypti

Genus: Aedes

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|91085453|ref|XP_969413.1| PREDICTED: similar to Srb7p: RNA polymerase II holoenzyme component, putative [Tribolium castaneum] gi|270008396|gb|EFA04844.1| hypothetical protein TcasGA2_TC014894 [Tribolium castaneum]

 Score =  171 bits (432), Expect = 2e-39,   Method: Compositional matrix adjust.
 Identities = 86/119 (72%), Positives = 101/119 (84%), Gaps = 1/119 (0%)

Query: 840 EQADNFCNSVGILQQTAIPSKFSGFDRGGSQTPQQQTQQEDYAHLFATLISRCARDIDAL 899
           +QA++FCNS+GILQQ A PSKF  FDR GSQTPQQQ Q EDY  LF TLI+RCA+DID L
Sbjct: 14  QQAEHFCNSIGILQQFAPPSKFPNFDRSGSQTPQQQNQ-EDYVQLFTTLIARCAKDIDTL 72

Query: 900 IESLPNEDSTTELQLASLRKLEQDNQGAAERLEDTVRRGELLLEQIQAALTDIAQSQLE 958
           IESLP+E+++TELQL SLR LE DNQ +AERLE  VR+G+ LLEQIQAAL+DIAQSQL+
Sbjct: 73  IESLPSEENSTELQLQSLRILESDNQESAERLEAIVRKGQDLLEQIQAALSDIAQSQLD 131

Source: Tribolium castaneum

Species: Tribolium castaneum

Genus: Tribolium

Family: Tenebrionidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|321474643|gb|EFX85608.1| hypothetical protein DAPPUDRAFT_300243 [Daphnia pulex]

 Score =  168 bits (426), Expect = 1e-38,   Method: Compositional matrix adjust.
 Identities = 81/117 (69%), Positives = 100/117 (85%), Gaps = 2/117 (1%)

Query: 841 QADNFCNSVGILQQTAIPSKFSGFDRGGSQTPQQQTQQEDYAHLFATLISRCARDIDALI 900
           QADNFCN++GILQQTA P+ F GFDR G++TPQQQ  QED+A LFATLI+RCA+DID LI
Sbjct: 15  QADNFCNAIGILQQTAPPATFPGFDRAGNRTPQQQ--QEDHASLFATLIARCAKDIDVLI 72

Query: 901 ESLPNEDSTTELQLASLRKLEQDNQGAAERLEDTVRRGELLLEQIQAALTDIAQSQL 957
           +SLP+EDST+ELQ+ASLR+LE +N+ AA RL + V  GEL+LE+IQ AL DIAQ+QL
Sbjct: 73  DSLPSEDSTSELQIASLRRLENENESAAARLREVVSEGELMLEKIQNALHDIAQTQL 129

Source: Daphnia pulex

Species: Daphnia pulex

Genus: Daphnia

Family: Daphniidae

Order: Diplostraca

Class: Branchiopoda

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195453657|ref|XP_002073882.1| GK14351 [Drosophila willistoni] gi|194169967|gb|EDW84868.1| GK14351 [Drosophila willistoni]

 Score =  166 bits (421), Expect = 5e-38,   Method: Compositional matrix adjust.
 Identities = 78/119 (65%), Positives = 100/119 (84%)

Query: 840 EQADNFCNSVGILQQTAIPSKFSGFDRGGSQTPQQQTQQEDYAHLFATLISRCARDIDAL 899
           +QA++FCN++G++QQT+ PSKF+ FDR GSQTP Q   QEDYA LFA LI+RCA+DID L
Sbjct: 14  QQAEHFCNAIGVIQQTSYPSKFANFDRTGSQTPNQNQPQEDYAQLFAQLIARCAKDIDTL 73

Query: 900 IESLPNEDSTTELQLASLRKLEQDNQGAAERLEDTVRRGELLLEQIQAALTDIAQSQLE 958
           IESLPNEDS+ ELQ +SL++LE +NQ  AE LE  V++GELLLE+IQ+AL DIAQ+QL+
Sbjct: 74  IESLPNEDSSIELQNSSLKRLEVENQETAEELEQVVQKGELLLEKIQSALEDIAQAQLD 132

Source: Drosophila willistoni

Species: Drosophila willistoni

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195107744|ref|XP_001998468.1| GI23617 [Drosophila mojavensis] gi|193915062|gb|EDW13929.1| GI23617 [Drosophila mojavensis]

 Score =  166 bits (419), Expect = 8e-38,   Method: Compositional matrix adjust.
 Identities = 79/119 (66%), Positives = 101/119 (84%)

Query: 840 EQADNFCNSVGILQQTAIPSKFSGFDRGGSQTPQQQTQQEDYAHLFATLISRCARDIDAL 899
           +QA++FCN++G++QQT+ PSKF+ FDR GSQTP Q   QEDYA LFA LI+RCA+DID L
Sbjct: 14  QQAEHFCNAIGVIQQTSYPSKFANFDRTGSQTPVQNPPQEDYAQLFAQLIARCAKDIDTL 73

Query: 900 IESLPNEDSTTELQLASLRKLEQDNQGAAERLEDTVRRGELLLEQIQAALTDIAQSQLE 958
           IESLPNEDS+ ELQ +SL++LE +NQ  AE+LE  V++GELLLE+IQ+AL DIAQSQL+
Sbjct: 74  IESLPNEDSSIELQNSSLKRLEIENQETAEQLEQVVQKGELLLEKIQSALGDIAQSQLD 132

Source: Drosophila mojavensis

Species: Drosophila mojavensis

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|332373928|gb|AEE62105.1| unknown [Dendroctonus ponderosae]

 Score =  165 bits (418), Expect = 9e-38,   Method: Compositional matrix adjust.
 Identities = 82/119 (68%), Positives = 102/119 (85%), Gaps = 1/119 (0%)

Query: 840 EQADNFCNSVGILQQTAIPSKFSGFDRGGSQTPQQQTQQEDYAHLFATLISRCARDIDAL 899
           +QA++FCNS+GILQQ A PSKF  FDR GSQTPQQQTQ EDY  LF TLISRCA+DID L
Sbjct: 14  QQAEHFCNSIGILQQFAPPSKFPNFDRSGSQTPQQQTQ-EDYVQLFTTLISRCAKDIDTL 72

Query: 900 IESLPNEDSTTELQLASLRKLEQDNQGAAERLEDTVRRGELLLEQIQAALTDIAQSQLE 958
           IESLP+E+++TE QL+SLR+LEQ+NQ AA+RL+  VR G+ LLE++Q AL+DIAQ+QL+
Sbjct: 73  IESLPSEENSTESQLSSLRQLEQENQDAADRLDAIVRSGQELLEKVQLALSDIAQAQLD 131

Source: Dendroctonus ponderosae

Species: Dendroctonus ponderosae

Genus: Dendroctonus

Family: Curculionidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307195484|gb|EFN77370.1| Mediator of RNA polymerase II transcription subunit 21 [Harpegnathos saltator]

 Score =  165 bits (417), Expect = 1e-37,   Method: Compositional matrix adjust.
 Identities = 83/119 (69%), Positives = 100/119 (84%), Gaps = 2/119 (1%)

Query: 840 EQADNFCNSVGILQQTAIPSKFSGFDRGGSQTPQQQTQQEDYAHLFATLISRCARDIDAL 899
           +QA++FCNSVGILQQ + PSKF GFDR G  TPQ    QEDYA LFATLISRCA+DID L
Sbjct: 14  QQAEHFCNSVGILQQYSTPSKFPGFDRIG--TPQPHQTQEDYAALFATLISRCAKDIDTL 71

Query: 900 IESLPNEDSTTELQLASLRKLEQDNQGAAERLEDTVRRGELLLEQIQAALTDIAQSQLE 958
           IESLP+E+S+ ELQ+ASL +LEQ+NQ A E+LE+ VR+GE LL++IQAAL DIAQSQL+
Sbjct: 72  IESLPSEESSQELQVASLNRLEQENQEAGEQLEEIVRQGEALLQRIQAALQDIAQSQLD 130

Source: Harpegnathos saltator

Species: Harpegnathos saltator

Genus: Harpegnathos

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195388608|ref|XP_002052971.1| GJ23591 [Drosophila virilis] gi|194151057|gb|EDW66491.1| GJ23591 [Drosophila virilis]

 Score =  163 bits (412), Expect = 4e-37,   Method: Compositional matrix adjust.
 Identities = 78/119 (65%), Positives = 100/119 (84%)

Query: 840 EQADNFCNSVGILQQTAIPSKFSGFDRGGSQTPQQQTQQEDYAHLFATLISRCARDIDAL 899
           +QA++FCN++G++QQT+ PSKF+ FDR GSQTP Q   QEDYA LFA LI+RCA+DID L
Sbjct: 14  QQAEHFCNAIGVIQQTSYPSKFANFDRTGSQTPIQNPPQEDYAQLFAQLIARCAKDIDTL 73

Query: 900 IESLPNEDSTTELQLASLRKLEQDNQGAAERLEDTVRRGELLLEQIQAALTDIAQSQLE 958
           IESLPNEDS+ ELQ  SL++LE +NQ  AE+LE  V++GELLLE+IQ+AL DIAQ+QL+
Sbjct: 74  IESLPNEDSSIELQNCSLKRLEFENQETAEQLEQVVQKGELLLEKIQSALGDIAQAQLD 132

Source: Drosophila virilis

Species: Drosophila virilis

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

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	962
FB|FBgn0040020	142	MED21 "Mediator complex subuni	0.132	0.894	0.542	1.7e-30
ZFIN|ZDB-GENE-040426-2763	145	med21 "mediator complex subuni	0.132	0.875	0.530	1.7e-27
MGI|MGI:1347064	144	Med21 "mediator complex subuni	0.135	0.902	0.518	7.4e-27
UNIPROTKB|Q2TBU8	144	MED21 "Mediator of RNA polymer	0.132	0.881	0.523	1.2e-26
UNIPROTKB|E1C1C6	144	MED21 "Uncharacterized protein	0.132	0.881	0.515	1.6e-26
UNIPROTKB|F1SG80	144	MED21 "Uncharacterized protein	0.132	0.881	0.523	3.3e-26
UNIPROTKB|Q13503	144	MED21 "Mediator of RNA polymer	0.132	0.881	0.515	4.2e-26
WB|WBGene00007704	130	mdt-21 [Caenorhabditis elegans	0.124	0.923	0.244	0.00034
UNIPROTKB|Q6BER6	130	mdt-21 "Mediator of RNA polyme	0.124	0.923	0.244	0.00034

FB|FBgn0040020 MED21 "Mediator complex subunit 21" [Drosophila melanogaster (taxid:7227)]

 Score = 347 (127.2 bits), Expect = 1.7e-30, P = 1.7e-30
 Identities = 70/129 (54%), Positives = 98/129 (75%)

Query:   830 TPIQQLLSSAEQADNFCNSVGILQQTAIPSKFSGFDRGGSXXXXXXXXXEDYAHLFATLI 889
             T +Q  ++  +QA++FCN++G++QQT++PSKF  F+R G          EDYA LFA LI
Sbjct:     6 TQLQDTVN--QQAEHFCNAIGVIQQTSLPSKFVNFERIGPQTPIPCPPQEDYAQLFAQLI 63

Query:   890 SRCARDIDALIESLPNEDSTTELQLASLRKLEQDNQGAAERLEDTVRRGELLLEQIQAAL 949
             +RCA+DID LIESLPNEDS+ ELQ +SL++LE +NQG A  LE+ V++GELLLE++Q +L
Sbjct:    64 ARCAKDIDTLIESLPNEDSSIELQNSSLKRLEIENQGTARDLEEVVQKGELLLEKMQYSL 123

Query:   950 TDIAQSQLE 958
               IAQ+QL+
Sbjct:   124 ECIAQAQLD 132

GO:0016591 "DNA-directed RNA polymerase II, holoenzyme" evidence=ISS

GO:0016592 "mediator complex" evidence=ISS;IDA

GO:0006367 "transcription initiation from RNA polymerase II promoter" evidence=ISS

GO:0001104 "RNA polymerase II transcription cofactor activity" evidence=ISS

GO:0006357 "regulation of transcription from RNA polymerase II promoter" evidence=IDA

GO:0003713 "transcription coactivator activity" evidence=IDA

GO:0005634 "nucleus" evidence=IDA

ZFIN|ZDB-GENE-040426-2763 med21 "mediator complex subunit 21" [Danio rerio (taxid:7955)]

 Score = 319 (117.4 bits), Expect = 1.7e-27, P = 1.7e-27
 Identities = 69/130 (53%), Positives = 90/130 (69%)

Query:   830 TPIQQLLSSAEQADNFCNSVGILQQTAIPSKFSGFDRGGSXXXXXXXXXEDYAHLFATLI 889
             T +Q  ++S   AD FCN++G+LQQ A P+ FS      +         E+YA LFA LI
Sbjct:     6 TQLQDAVNSL--ADQFCNAIGVLQQCAPPASFSNIQTAINKDQPSNPT-EEYAQLFAALI 62

Query:   890 SRCARDIDALIESLPNEDSTTELQLASLRKLEQDNQGAAERLEDTVRRGELLLEQIQAAL 949
             +R A+D+D LI+SLP+E+ST  LQ ASLR+LE++NQ AA RLE+ V RG+ LLE+IQ AL
Sbjct:    63 ARTAKDVDVLIDSLPSEESTAALQAASLRQLEEENQEAAARLEEVVYRGDALLEKIQTAL 122

Query:   950 TDIAQSQLET 959
              DIAQSQL T
Sbjct:   123 ADIAQSQLRT 132

GO:0006351 "transcription, DNA-dependent" evidence=IEA

GO:0006355 "regulation of transcription, DNA-dependent" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

MGI|MGI:1347064 Med21 "mediator complex subunit 21" [Mus musculus (taxid:10090)]

 Score = 313 (115.2 bits), Expect = 7.4e-27, P = 7.4e-27
 Identities = 69/133 (51%), Positives = 90/133 (67%)

Query:   830 TPIQQLLSSAEQADNFCNSVGILQQTAIPSKFSGFDRGGSXXXXXXXXXEDYAHLFATLI 889
             T +Q  ++S   AD FCN++G+LQQ   P+ FS      +         E+YA LFA LI
Sbjct:     6 TQLQDAVNSL--ADQFCNAIGVLQQCGPPASFSNIQTAINKDQPANPT-EEYAQLFAALI 62

Query:   890 SRCARDIDALIESLPNEDSTTELQLASLRKLEQDNQGAAERLEDTVRRGELLLEQIQAAL 949
             +R A+DID LI+SLP+E+ST  LQ ASL KLE++N  AA  LED V RG++LLE+IQ+AL
Sbjct:    63 ARTAKDIDVLIDSLPSEESTAALQAASLYKLEEENHEAATCLEDVVYRGDMLLEKIQSAL 122

Query:   950 TDIAQSQLETNGV 962
              DIAQSQL+T  V
Sbjct:   123 ADIAQSQLKTRSV 135

GO:0001824 "blastocyst development" evidence=IMP

GO:0003713 "transcription coactivator activity" evidence=ISO

GO:0005515 "protein binding" evidence=IPI

GO:0005634 "nucleus" evidence=IEA

GO:0006351 "transcription, DNA-dependent" evidence=IEA

GO:0006355 "regulation of transcription, DNA-dependent" evidence=IEA

GO:0006366 "transcription from RNA polymerase II promoter" evidence=IC

GO:0016592 "mediator complex" evidence=ISO;IDA

GO:0019827 "stem cell maintenance" evidence=IMP

GO:0045944 "positive regulation of transcription from RNA polymerase II promoter" evidence=ISO

UNIPROTKB|Q2TBU8 MED21 "Mediator of RNA polymerase II transcription subunit 21" [Bos taurus (taxid:9913)]

 Score = 311 (114.5 bits), Expect = 1.2e-26, P = 1.2e-26
 Identities = 68/130 (52%), Positives = 89/130 (68%)

Query:   830 TPIQQLLSSAEQADNFCNSVGILQQTAIPSKFSGFDRGGSXXXXXXXXXEDYAHLFATLI 889
             T +Q  ++S   AD FCN++G+LQQ   P+ FS      +         E+YA LFA LI
Sbjct:     6 TQLQDAVNSL--ADQFCNAIGVLQQCGPPASFSNIQTAINKDQPANPT-EEYAQLFAALI 62

Query:   890 SRCARDIDALIESLPNEDSTTELQLASLRKLEQDNQGAAERLEDTVRRGELLLEQIQAAL 949
             +R A+DID LI+SLP+E+ST  LQ ASL KLE++N  AA  LED V RG++LLE+IQ+AL
Sbjct:    63 ARTAKDIDVLIDSLPSEESTAALQAASLYKLEEENHEAATSLEDVVYRGDMLLEKIQSAL 122

Query:   950 TDIAQSQLET 959
              DIAQSQL+T
Sbjct:   123 ADIAQSQLKT 132

GO:0045944 "positive regulation of transcription from RNA polymerase II promoter" evidence=IEA

GO:0019827 "stem cell maintenance" evidence=IEA

GO:0016592 "mediator complex" evidence=IEA

GO:0003713 "transcription coactivator activity" evidence=IEA

GO:0001824 "blastocyst development" evidence=IEA

GO:0006351 "transcription, DNA-dependent" evidence=IEA

UNIPROTKB|E1C1C6 MED21 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 310 (114.2 bits), Expect = 1.6e-26, P = 1.6e-26
 Identities = 67/130 (51%), Positives = 90/130 (69%)

Query:   830 TPIQQLLSSAEQADNFCNSVGILQQTAIPSKFSGFDRGGSXXXXXXXXXEDYAHLFATLI 889
             T +Q  ++S   AD FCN++G+LQQ   P+ FS      +         E+YA LFA LI
Sbjct:     6 TQLQDAVNSL--ADQFCNAIGVLQQCGPPASFSNIQTAINKDQPANPT-EEYAQLFAALI 62

Query:   890 SRCARDIDALIESLPNEDSTTELQLASLRKLEQDNQGAAERLEDTVRRGELLLEQIQAAL 949
             +R A+DID LI+SLP+E+ST  LQ ASL +LE++N  AA RLE+ V RG++LLE+IQ+AL
Sbjct:    63 ARTAKDIDVLIDSLPSEESTAALQAASLYRLEEENHEAAARLEEVVYRGDMLLEKIQSAL 122

Query:   950 TDIAQSQLET 959
              DIAQSQL+T
Sbjct:   123 ADIAQSQLKT 132

GO:0001824 "blastocyst development" evidence=IEA

GO:0003713 "transcription coactivator activity" evidence=IEA

GO:0016592 "mediator complex" evidence=IEA

GO:0019827 "stem cell maintenance" evidence=IEA

GO:0045944 "positive regulation of transcription from RNA polymerase II promoter" evidence=IEA

UNIPROTKB|F1SG80 MED21 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 307 (113.1 bits), Expect = 3.3e-26, P = 3.3e-26
 Identities = 68/130 (52%), Positives = 89/130 (68%)

Query:   830 TPIQQLLSSAEQADNFCNSVGILQQTAIPSKFSGFDRGGSXXXXXXXXXEDYAHLFATLI 889
             T +Q  ++S   AD FCN++G+LQQ   P+ FS      +         E+YA LFA LI
Sbjct:     6 TQLQDAVNSL--ADQFCNAIGVLQQCGPPASFSNIQTTINKDQPANPT-EEYAQLFAALI 62

Query:   890 SRCARDIDALIESLPNEDSTTELQLASLRKLEQDNQGAAERLEDTVRRGELLLEQIQAAL 949
             +R A+DID LI+SLP+E+ST  LQ ASL KLE++N  AA  LED V RG++LLE+IQ+AL
Sbjct:    63 ARTAKDIDVLIDSLPSEESTAALQAASLYKLEEENHEAATCLEDVVYRGDMLLEKIQSAL 122

Query:   950 TDIAQSQLET 959
              DIAQSQL+T
Sbjct:   123 ADIAQSQLKT 132

GO:0045944 "positive regulation of transcription from RNA polymerase II promoter" evidence=IEA

GO:0019827 "stem cell maintenance" evidence=IEA

GO:0016592 "mediator complex" evidence=IEA

GO:0003713 "transcription coactivator activity" evidence=IEA

GO:0001824 "blastocyst development" evidence=IEA

UNIPROTKB|Q13503 MED21 "Mediator of RNA polymerase II transcription subunit 21" [Homo sapiens (taxid:9606)]

 Score = 306 (112.8 bits), Expect = 4.2e-26, P = 4.2e-26
 Identities = 67/130 (51%), Positives = 89/130 (68%)

Query:   830 TPIQQLLSSAEQADNFCNSVGILQQTAIPSKFSGFDRGGSXXXXXXXXXEDYAHLFATLI 889
             T +Q  ++S   AD FCN++G+LQQ   P+ F+      +         E+YA LFA LI
Sbjct:     6 TQLQDAVNSL--ADQFCNAIGVLQQCGPPASFNNIQTAINKDQPANPT-EEYAQLFAALI 62

Query:   890 SRCARDIDALIESLPNEDSTTELQLASLRKLEQDNQGAAERLEDTVRRGELLLEQIQAAL 949
             +R A+DID LI+SLP+E+ST  LQ ASL KLE++N  AA  LED V RG++LLE+IQ+AL
Sbjct:    63 ARTAKDIDVLIDSLPSEESTAALQAASLYKLEEENHEAATCLEDVVYRGDMLLEKIQSAL 122

Query:   950 TDIAQSQLET 959
              DIAQSQL+T
Sbjct:   123 ADIAQSQLKT 132

GO:0006351 "transcription, DNA-dependent" evidence=IEA

GO:0001824 "blastocyst development" evidence=IEA

GO:0019827 "stem cell maintenance" evidence=IEA

GO:0006357 "regulation of transcription from RNA polymerase II promoter" evidence=TAS

GO:0003713 "transcription coactivator activity" evidence=IDA

GO:0016592 "mediator complex" evidence=IDA

GO:0045944 "positive regulation of transcription from RNA polymerase II promoter" evidence=IDA

GO:0003899 "DNA-directed RNA polymerase activity" evidence=TAS

WB|WBGene00007704 mdt-21 [Caenorhabditis elegans (taxid:6239)]

 Score = 101 (40.6 bits), Expect = 0.00034, P = 0.00034
 Identities = 32/131 (24%), Positives = 62/131 (47%)

Query:   830 TPIQQLLSSAEQADNFCNSVGILQQTAIPSKFSGFDRGGSXXXXXXXXXEDYAHLFATLI 889
             T +Q +++  E A    N++G+LQ TA P +F    +            E    +FA  I
Sbjct:     6 TQLQDMIN--EMAGLMTNAIGVLQATAPPCEFGAISQ--------ELEDEPNCAIFAAGI 55

Query:   890 SRCARDIDALIESLPNEDSTTELQLAS-LRKLEQDNQGAAERLEDTVRRGELLLEQIQAA 948
             ++ A++I+ LI+S P E    E ++   + K ++  +     L   V     L+  +Q  
Sbjct:    56 AKAAKNIEILIDSFPIEAGNQEAEVEEKMIKNDEKQREKVNELVGLVGDSNRLVGVVQKK 115

Query:   949 LTDIAQSQLET 959
             L +I+++Q+ +
Sbjct:   116 LAEISKTQMSS 126

GO:0040010 "positive regulation of growth rate" evidence=IMP

GO:0007413 "axonal fasciculation" evidence=IMP

GO:0040011 "locomotion" evidence=IMP

UNIPROTKB|Q6BER6 mdt-21 "Mediator of RNA polymerase II transcription subunit 21" [Caenorhabditis elegans (taxid:6239)]

 Score = 101 (40.6 bits), Expect = 0.00034, P = 0.00034
 Identities = 32/131 (24%), Positives = 62/131 (47%)

Query:   830 TPIQQLLSSAEQADNFCNSVGILQQTAIPSKFSGFDRGGSXXXXXXXXXEDYAHLFATLI 889
             T +Q +++  E A    N++G+LQ TA P +F    +            E    +FA  I
Sbjct:     6 TQLQDMIN--EMAGLMTNAIGVLQATAPPCEFGAISQ--------ELEDEPNCAIFAAGI 55

Query:   890 SRCARDIDALIESLPNEDSTTELQLAS-LRKLEQDNQGAAERLEDTVRRGELLLEQIQAA 948
             ++ A++I+ LI+S P E    E ++   + K ++  +     L   V     L+  +Q  
Sbjct:    56 AKAAKNIEILIDSFPIEAGNQEAEVEEKMIKNDEKQREKVNELVGLVGDSNRLVGVVQKK 115

Query:   949 LTDIAQSQLET 959
             L +I+++Q+ +
Sbjct:   116 LAEISKTQMSS 126


Parameters:
  V=100
  filter=SEG
  E=0.001

  ctxfactor=1.00

  Query                        -----  As Used  -----    -----  Computed  ----
  Frame  MatID Matrix name     Lambda    K       H      Lambda    K       H
   +0      0   BLOSUM62        0.316   0.131   0.373    same    same    same
               Q=9,R=2         0.244   0.0300  0.180     n/a     n/a     n/a

  Query
  Frame  MatID  Length  Eff.Length     E     S W   T  X   E2     S2
   +0      0      962       920   0.00090  122 3  11 22  0.41    34
                                                     37  0.45    37


Statistics:

  Database:  /share/blast/go-seqdb.fasta
   Title:  go_20130330-seqdb.fasta
   Posted:  5:47:42 AM PDT Apr 1, 2013
   Created:  5:47:42 AM PDT Apr 1, 2013
   Format:  XDF-1
   # of letters in database:  169,044,731
   # of sequences in database:  368,745
   # of database sequences satisfying E:  9
  No. of states in DFA:  622 (66 KB)
  Total size of DFA:  412 KB (2199 KB)
  Time to generate neighborhood:  0.00u 0.00s 0.00t   Elapsed:  00:00:00
  No. of threads or processors used:  24
  Search cpu time:  92.66u 0.09s 92.75t   Elapsed:  00:01:10
  Total cpu time:  92.66u 0.09s 92.75t   Elapsed:  00:01:10
  Start:  Thu Aug 15 11:31:24 2013   End:  Thu Aug 15 11:32:34 2013

GO:0005515 "protein binding" evidence=IPI

---

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)
Q5RE46	MED21_PONAB	No assigned EC number	0.5593	0.1216	0.8125	yes	N/A
Q7ZTI5	MED21_DANRE	No assigned EC number	0.5677	0.1216	0.8068	yes	N/A
Q9W5P1	MED21_DROME	No assigned EC number	0.6050	0.1237	0.8380	yes	N/A
Q9CQ39	MED21_MOUSE	No assigned EC number	0.5537	0.1247	0.8333	yes	N/A
Q2TBU8	MED21_BOVIN	No assigned EC number	0.5593	0.1216	0.8125	yes	N/A
Q13503	MED21_HUMAN	No assigned EC number	0.5508	0.1216	0.8125	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	962
pfam11221	132	pfam11221, Med21, Subunit 21 of Mediator complex	4e-30

>gnl|CDD|204614 pfam11221, Med21, Subunit 21 of Mediator complex

 Score =  115 bits (290), Expect = 4e-30
 Identities = 35/119 (29%), Positives = 61/119 (51%), Gaps = 3/119 (2%)

Query: 840 EQADNFCNSVGILQQTAIPSKFSGFD-RGGSQTPQQQ--TQQEDYAHLFATLISRCARDI 896
           + A+ FC ++G LQQ   PS  S  +              + E+     A  I   A+ I
Sbjct: 14  QLAEQFCATIGYLQQNHDPSPLSPDEPAVSDPKANAPPPEEFEEGQRELARDIILKAQQI 73

Query: 897 DALIESLPNEDSTTELQLASLRKLEQDNQGAAERLEDTVRRGELLLEQIQAALTDIAQS 955
           + LI+SLP  +S+ E QL  +++LE++ +      E+ V+  E LL++++A L +IA+ 
Sbjct: 74  EYLIDSLPGIESSEEEQLRRIKELEEELREVEAEREEAVKEKEKLLKKVEALLREIARG 132

Med21 has been known as Srb7 in yeasts, hSrb7 in humans and Trap 19 in Drosophila. The heterodimer of the two subunits Med7 and Med21 appears to act as a hinge between the middle and the tail regions of Mediator. Length = 132

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	962
KOG1510|consensus	139		100.0
PF11221	144	Med21: Subunit 21 of Mediator complex; InterPro: I	100.0
PF07544	83	Med9: RNA polymerase II transcription mediator com	95.42
PF05731	385	TROVE: TROVE domain; InterPro: IPR008858 The TROVE	94.58

>KOG1510|consensus

Probab=100.00  E-value=1.1e-37  Score=292.33  Aligned_cols=135  Identities=39%  Similarity=0.604  Sum_probs=129.0

Q ss_pred             CCCcchHHHhhhCHHHHHHHHHHHHhhhccccCCCCCCCCCCCCCCC--CCCCCcchHHHHHHHHHHHHHHhhHHHHHHh
Q psy1643         825 KLKAKTPIQQLLSSAEQADNFCNSVGILQQTAIPSKFSGFDRGGSQT--PQQQTQQEDYAHLFATLISRCARDIDALIES  902 (962)
Q Consensus       825 mADRLTQLQDCLD~aQLAEQFcNSIGYLQRdAPPSsFsPndKIsSpd--PqQqqp~EDnpQEFATDIIrKAKQIE~LIDS  902 (962)
                      ||||||||||+||  +||+||||+|||||++|||+.|+++.+..+.+  |.+.+|+++++++||++|++++||||.||||
T Consensus         1 MaDRlTQLQd~vn--~~A~qf~naig~Lq~~~pp~~l~~~e~~~~~~~~~~pa~p~~~~~~~laa~i~~~akqId~LIds   78 (139)
T KOG1510|consen    1 MADRLTQLQDTVN--EMAEQFCNAIGVLQQTHPPVPLPNNEPESPDKVNPIPAEPFEEYAQLLAADIAKKAKQIDTLIDS   78 (139)
T ss_pred             CchHHHHHHHHHH--HHHHHHHHHHHHHHhcCCcccCCCCCCCCCCCCCCCCCCccHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            8999999999999  99999999999999999999999999875433  4567889999999999999999999999999


Q ss_pred             CCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccC
Q psy1643         903 LPNEDSTTELQLASLRKLEQDNQGAAERLEDTVRRGELLLEQIQAALTDIAQSQLETNG  961 (962)
Q Consensus       903 LPGIDSSEEEQLERIRELEEENKEAEQELQEAVKEAEELLEQVQEALrdIAQSQLnTRp  961 (962)
                      |||+++++++|+++|.+|++||++++.||+++|.++|.||++|+.+|.+||+.||+|++
T Consensus        79 LP~~~~~~e~Ql~~i~kLq~en~e~~~el~~~v~~~e~Ll~~vq~~le~~a~~~l~~k~  137 (139)
T KOG1510|consen   79 LPGEEGSAEAQLEKIKKLQEENEEVALELEELVSKGEKLLEQVQSLLEDIADLQLNSKK  137 (139)
T ss_pred             CCCcccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccC
Confidence            99999999999999999999999999999999999999999999999999999999985

>PF11221 Med21: Subunit 21 of Mediator complex; InterPro: IPR021384 The Mediator complex is a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes

Probab=100.00  E-value=4.3e-38  Score=289.72  Aligned_cols=128  Identities=37%  Similarity=0.523  Sum_probs=106.0

Q ss_pred             CCCcchHHHhhhCHHHHHHHHHHHHhhhccccCCCCCCCCC-CCCCCCCC--------------CCCcchHHHHHHHHHH
Q psy1643         825 KLKAKTPIQQLLSSAEQADNFCNSVGILQQTAIPSKFSGFD-RGGSQTPQ--------------QQTQQEDYAHLFATLI  889 (962)
Q Consensus       825 mADRLTQLQDCLD~aQLAEQFcNSIGYLQRdAPPSsFsPnd-KIsSpdPq--------------Qqqp~EDnpQEFATDI  889 (962)
                      |||||||||||||  ||+++||||||||+++|||+.|++++ .+.+..|+              ++.++++++++||+||
T Consensus         1 M~DrlTQLQd~ld--qL~~~f~~si~~l~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~elA~dI   78 (144)
T PF11221_consen    1 MADRLTQLQDCLD--QLAEQFCNSIGYLQRDAPPSPLSPNDPSISDPKPQAPPQQQQQAEPAPDPPEEFEENIKELATDI   78 (144)
T ss_dssp             --HHHHHHHHHHH--HHHHHHHHHHHHHHHTTGGGG-----------------------------HHHHHHHHHHHHHHH
T ss_pred             CCcHHHHHHHHHH--HHHHHHHHHHhhhccCCCCCCCCCCcccccCccccchhhhhhhhcccCCChhhHHHHHHHHHHHH
Confidence            8999999999999  99999999999999999999999998 33222111              1235678999999999


Q ss_pred             HHHHhhHHHHHHhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy1643         890 SRCARDIDALIESLPNEDSTTELQLASLRKLEQDNQGAAERLEDTVRRGELLLEQIQAALTDIAQ  954 (962)
Q Consensus       890 IrKAKQIE~LIDSLPGIDSSEEEQLERIRELEEENKEAEQELQEAVKEAEELLEQVQEALrdIAQ  954 (962)
                      ++|+||||+|||||||+++||++|+++|++|++||+++++||+++|+++|++|++|+++|+.||+
T Consensus        79 i~kakqIe~LIdsLPg~~~see~Q~~~i~~L~~E~~~~~~el~~~v~e~e~ll~~v~~~i~~ia~  143 (144)
T PF11221_consen   79 IRKAKQIEYLIDSLPGIEVSEEEQLKRIKELEEENEEAEEELQEAVKEAEELLKQVQELIREIAR  143 (144)
T ss_dssp             HHHHHHHHHHHHHSTTSSS-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTT--
T ss_pred             HHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            99999999999999999999999999999999999999999999999999999999999999986

Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. The Mediator complex, having a compact conformation in its free form, is recruited to promoters by direct interactions with regulatory proteins and serves for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors. On recruitment the Mediator complex unfolds to an extended conformation and partially surrounds RNA polymerase II, specifically interacting with the unphosphorylated form of the C-terminal domain (CTD) of RNA polymerase II. The Mediator complex dissociates from the RNA polymerase II holoenzyme and stays at the promoter when transcriptional elongation begins. The Mediator complex is composed of at least 31 subunits: MED1, MED4, MED6, MED7, MED8, MED9, MED10, MED11, MED12, MED13, MED13L, MED14, MED15, MED16, MED17, MED18, MED19, MED20, MED21, MED22, MED23, MED24, MED25, MED26, MED27, MED29, MED30, MED31, CCNC, CDK8 and CDC2L6/CDK11. The subunits form at least three structurally distinct submodules. The head and the middle modules interact directly with RNA polymerase II, whereas the elongated tail module interacts with gene-specific regulatory proteins. Mediator containing the CDK8 module is less active than Mediator lacking this module in supporting transcriptional activation. The head module contains: MED6, MED8, MED11, SRB4/MED17, SRB5/MED18, ROX3/MED19, SRB2/MED20 and SRB6/MED22. The middle module contains: MED1, MED4, NUT1/MED5, MED7, CSE2/MED9, NUT2/MED10, SRB7/MED21 and SOH1/MED31. CSE2/MED9 interacts directly with MED4. The tail module contains: MED2, PGD1/MED3, RGR1/MED14, GAL11/MED15 and SIN4/MED16. The CDK8 module contains: MED12, MED13, CCNC and CDK8. Individual preparations of the Mediator complex lacking one or more distinct subunits have been variously termed ARC, CRSP, DRIP, PC2, SMCC and TRAP. Med21 has been known as Srb7 in yeasts, hSrb7 in humans and Trap 19 in Drosophila. The heterodimer of the two subunits Med7 and Med21 appears to act as a hinge between the middle and the tail regions of Mediator []. ; PDB: 1YKE_B 1YKH_B.

>PF07544 Med9: RNA polymerase II transcription mediator complex subunit 9; InterPro: IPR011425 The Mediator complex is a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes

Probab=95.42  E-value=0.065  Score=47.10  Aligned_cols=55  Identities=20%  Similarity=0.189  Sum_probs=44.9

Q ss_pred             HHHHHHHHHHHHhhHHHHHHhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy1643         882 AHLFATLISRCARDIDALIESLPNEDSTTELQLASLRKLEQDNQGAAERLEDTVR  936 (962)
Q Consensus       882 pQEFATDIIrKAKQIE~LIDSLPGIDSSEEEQLERIRELEEENKEAEQELQEAVK  936 (962)
                      ...-+..|-.+-+..-.+|.+|||++.|.|+|.+.|+.|+++++...+-|.+.-+
T Consensus        26 ~~~~~~~lk~Klq~ar~~i~~lpgi~~s~eeq~~~i~~Le~~i~~k~~~L~~~~~   80 (83)
T PF07544_consen   26 LDTATGSLKHKLQKARAAIRELPGIDRSVEEQEEEIEELEEQIRKKREVLQKFKE   80 (83)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhCCCccCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344667777888888999999999999999999999999999777666655443

Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. The Mediator complex, having a compact conformation in its free form, is recruited to promoters by direct interactions with regulatory proteins and serves for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors. On recruitment the Mediator complex unfolds to an extended conformation and partially surrounds RNA polymerase II, specifically interacting with the unphosphorylated form of the C-terminal domain (CTD) of RNA polymerase II. The Mediator complex dissociates from the RNA polymerase II holoenzyme and stays at the promoter when transcriptional elongation begins. The Mediator complex is composed of at least 31 subunits: MED1, MED4, MED6, MED7, MED8, MED9, MED10, MED11, MED12, MED13, MED13L, MED14, MED15, MED16, MED17, MED18, MED19, MED20, MED21, MED22, MED23, MED24, MED25, MED26, MED27, MED29, MED30, MED31, CCNC, CDK8 and CDC2L6/CDK11. The subunits form at least three structurally distinct submodules. The head and the middle modules interact directly with RNA polymerase II, whereas the elongated tail module interacts with gene-specific regulatory proteins. Mediator containing the CDK8 module is less active than Mediator lacking this module in supporting transcriptional activation. The head module contains: MED6, MED8, MED11, SRB4/MED17, SRB5/MED18, ROX3/MED19, SRB2/MED20 and SRB6/MED22. The middle module contains: MED1, MED4, NUT1/MED5, MED7, CSE2/MED9, NUT2/MED10, SRB7/MED21 and SOH1/MED31. CSE2/MED9 interacts directly with MED4. The tail module contains: MED2, PGD1/MED3, RGR1/MED14, GAL11/MED15 and SIN4/MED16. The CDK8 module contains: MED12, MED13, CCNC and CDK8. Individual preparations of the Mediator complex lacking one or more distinct subunits have been variously termed ARC, CRSP, DRIP, PC2, SMCC and TRAP. This entry represents subunit Med9 of the Mediator complex. Subunit Med9 is part of the middle module of the Mediator complex []; this associates with the core polymerase subunits to form the RNA polymerase II holoenzyme. Med9 alternatively known as the chromosome segregation protein, CSE2 (P33308 from SWISSPROT) is required, along with CSE1 (P33307 from SWISSPROT) for accurate mitotic chromosome segregation in Saccharomyces cerevisiae (Baker's yeast) [].; GO: 0001104 RNA polymerase II transcription cofactor activity, 0006357 regulation of transcription from RNA polymerase II promoter, 0016592 mediator complex

>PF05731 TROVE: TROVE domain; InterPro: IPR008858 The TROVE (Telomerase, Ro and Vault) domain is a module of ~300-500 residues that is found in TEP1 and Ro60 the protein components of three ribonucleoprotein particles

Probab=94.58  E-value=0.024  Score=60.73  Aligned_cols=260  Identities=23%  Similarity=0.241  Sum_probs=125.1

Q ss_pred             hhhhhhhhhhccccCchhHHHHHHH----H-hcCCCCCCCchHHHHHHHHHhcccCCCcEEEEEEeecccccccccchhe
Q psy1643         296 TKVLELAVDRVAGQNSERFLMFVLY----M-LNFSPKSLRPDAVRKQLQKWYMGKESDQLVVLVAKCSVYQGLSHANVLK  370 (962)
Q Consensus       296 ~~~~~~~~~~~~~~~~~~~~~~~~~----~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  370 (962)
                      ...+..++.+|. ++..-++.|+-|    + -.-.-..-=|-++||.+++||-.+..-|    ++|+..-.|-||..+++
T Consensus        89 r~~~~~~~~~Vv-r~p~dl~ef~~~~q~~~~~~~~~~~~lg~~lRkav~~wf~~~d~yq----LaKY~~r~~~s~rD~lr  163 (385)
T PF05731_consen   89 RPAARRYFPRVV-RRPSDLFEFVQYYQSLARKGVRGRRGLGRALRKAVADWFNQFDAYQ----LAKYKQRNGWSHRDVLR  163 (385)
T ss_dssp             HHHHHHHHHHH---SHHHHHHHHHH--HHHHHHHTTT-S-SHHHHHHHHHHHHCS-HHH----HHH-SEETTEEHHHHHH
T ss_pred             HHHHHHHHHHHH-cCcchHHHHHHHHHHHHhccccCCCCcCHHHHHHHHHHHhcCCHHH----HHHhhccCCCChhhhhh
Confidence            345556677766 455567778877    1 1111122247899999999999988555    46888889999999999


Q ss_pred             eeeeeccccCCccchhHHHhhhhhhhhhhhhccccc-ccCCCCCCcccCcchhhhcccchhhhcceeeEEEecCch----
Q psy1643         371 LIHFDVFHQSPDKKLALYAIAFGFAYVSHRLISGKF-LATPRVPPFVTSDDCFDKASDKVKTIVKDVAVVRCNTSH----  445 (962)
Q Consensus       371 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----  445 (962)
                      +.|-..-.    .+.   .-..-|.|+..+..  +| -+...+|+-+....=-.|....--.+.....+|.|-..+    
T Consensus       164 l~Hpkp~~----~~~---~~~~l~~~l~~~~~--~~~~~~~~l~~~~~~~~~~~k~~~~~~~~~~~~~~v~~l~~~~~~k  234 (385)
T PF05731_consen  164 LVHPKPKD----ERP---EQEALFKYLIKGRH--KFEEEYKALPEKKRKWKFTLKKLIEKLHIEEPAEHVMALLGFEKLK  234 (385)
T ss_dssp             HCT---SS----H-----HHHHHHHHHHC--------------------HHHHHHHTTT----HHHCCHHHHHHHHHHCT
T ss_pred             ccCCCCCc----chh---hHHHHHHHHHcCCc--ccccccchhhhhhhhhHHHHHHHhcccccccchHHHHHHHHHHHHH
Confidence            98864322    111   11122334433311  11 122234433321110000000000011111112221111    


Q ss_pred             ----hHHHHHhhhcccc-------------------ccccccchhhhhcccchhhhcc-hhhhhhHHHhhhhccccccCC
Q psy1643         446 ----QKVVAAAVKTHSL-------------------GIESVCPKFAKSFKVNTACLEG-MTQRGLLQSMHRLRKDNVLSS  501 (962)
Q Consensus       446 ----~~~~~~~~~~~~~-------------------~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~  501 (962)
                          ..-++..++.|-|                   ..|.+-....++=.|=.+-+.. |.-..||..+-+|-.-+|+..
T Consensus       235 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~rm~l~~p~twE~~~s~~~~~~~vW~~Li~~~mp~~allrNL~~l~~~Gv~~~  314 (385)
T PF05731_consen  235 HLIRYPSAAELIERSRLPGGWDYPRAGKRMKLPRPETWERLLSALGNSKEVWEALIPSKMPFMALLRNLRNLTRAGVLEP  314 (385)
T ss_dssp             T--SHHHHHHHHHHHT-------------------G-GGGCSTCGGG-HHHHHHHHTT---HHHHHHCHHHHHHTTTT-T
T ss_pred             hhcchHHHHHHHHHhccccccccccccccccccccccHHHHcCCcCCCHHHHHHHHHhhccHHHHHHHHHHHHHcCCChh
Confidence                1224556677777                   6777777777766677777777 888899998888888888653


Q ss_pred             CCceecccCcccchhhhhcCCCCCCCCCCChHHHHHHhhhhhhhcccccccccccccCCCCCCCCCCccccccccCCCcc
Q psy1643         502 EDHAIVDESTTCGTYVKQLGASPVTEPPLHPAEVLAAYAEYVLAPVTKMASFQKKAVKPPPSEGGGGDQAQEKSEDETPV  581 (962)
Q Consensus       502 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  581 (962)
                       .|..|=+--+.-.-        |...-.||..+|+||-.|--.                    .+.....         
T Consensus       315 -~~~~v~~rL~d~~~--------v~~sr~~P~~~l~A~~~~~~~--------------------~~~~~~~---------  356 (385)
T PF05731_consen  315 -HHEKVLERLTDPEA--------VRKSRQHPFRFLSAYRVYESG--------------------RPQLRGK---------  356 (385)
T ss_dssp             -T-HHHHHHHT-HHH--------HHHTT--HHHHHHHHHHHHCS--------------------B-S-TT----------
T ss_pred             -HHHHHHHHhcCHHH--------HHHcccCHHHHHHHHHHHHhc--------------------Ccccccc---------
Confidence             33322222222222        334568999999999887311                    0000000         


Q ss_pred             eeccCCchHHHHHHHHHHHhhcccccc
Q psy1643         582 LTAKAPEPAIVSALQELYKSSFSNLKT  608 (962)
Q Consensus       582 ~~~~~~~~~~~~~~~~~~~~~~~~~~~  608 (962)
                       ..-.|.+.|+.||++-+.-||.|+..
T Consensus       357 -~~~~~~~~i~~ALe~A~~~s~~nv~p  382 (385)
T PF05731_consen  357 -LKWEPDPEIVDALEEAFYLSFHNVPP  382 (385)
T ss_dssp             --B----HHHHHHHHHHHHHCCGG---
T ss_pred             -ccCCChHHHHHHHHHHHHHHHhcCCC
Confidence             33458899999999999999999853

The TROVE domain is also found in bacterial ribonucleoproteins suggesting an ancient origin of these ribonucleoproteins. The TROVE domain can be found associated with other domains, such as the VWFA domain, the TEP1 N-terminal domain, the NACHT-NTPase domain, and WD-40 repeats. The TROVE domain may be involved in binding the RNA components of the three RNPs, which are telomerase RNA, Y RNA and vault RNA []. The TROVE domain contains a few absolutely conserved residues. As none of these conserved residues are the polar type of amino acids found in active sites, it seems unlikely that this region has an enzymatic function [].; GO: 0003723 RNA binding, 0030529 ribonucleoprotein complex; PDB: 2NVO_A 2I91_B 1YVP_A 1YVR_A.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	962
1yke_B	151	RNA polymerase II holoenzyme component SRB7; gene	2e-25
1ykh_B	132	RNA polymerase II holoenzyme component SRB7; gene	6e-24
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	5e-18
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-12
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	8e-09
1yvr_A	538	RO autoantigen, 60-kDa SS-A/RO ribonucleoprotein,	3e-10
2nvo_A	535	RO sixty-related protein, RSR; alpha helical repea	7e-10

>1yke_B RNA polymerase II holoenzyme component SRB7; gene regulation; 3.30A {Saccharomyces cerevisiae} SCOP: a.252.1.1 Length = 151

 Score =  102 bits (254), Expect = 2e-25
 Identities = 22/123 (17%), Positives = 51/123 (41%), Gaps = 3/123 (2%)

Query: 840 EQADNFCNSVGILQQTAIPSKFSGFDRGGSQTPQQQTQQEDYAH---LFATLISRCARDI 896
           +  + FC ++  + +     + +  +   S         E++++     +T I    R I
Sbjct: 14  QMTEQFCATLNYIDKNHGFERLTVNEPQMSDKHATVVPPEEFSNTIDELSTDIILKTRQI 73

Query: 897 DALIESLPNEDSTTELQLASLRKLEQDNQGAAERLEDTVRRGELLLEQIQAALTDIAQSQ 956
           + LI+SLP  D + E QL  +  L++      +   + +++ E LL  + + + D     
Sbjct: 74  NKLIDSLPGVDVSAEEQLRKIDMLQKKLVEVEDEKIEAIKKKEKLLRHVDSLIEDFVDGI 133

Query: 957 LET 959
             +
Sbjct: 134 ANS 136

>1ykh_B RNA polymerase II holoenzyme component SRB7; gene regulation; 3.00A {Saccharomyces cerevisiae} SCOP: a.252.1.1 Length = 132

 Score = 97.4 bits (242), Expect = 6e-24
 Identities = 21/117 (17%), Positives = 50/117 (42%), Gaps = 3/117 (2%)

Query: 840 EQADNFCNSVGILQQTAIPSKFSGFDRGGSQTPQQQTQQEDYAHL---FATLISRCARDI 896
           +  + FC ++  + +     + +  +   S         E++++     +T I    R I
Sbjct: 14  QMTEQFCATLNYIDKNHGFERLTVNEPQMSDKHATVVPPEEFSNTIDELSTDIILKTRQI 73

Query: 897 DALIESLPNEDSTTELQLASLRKLEQDNQGAAERLEDTVRRGELLLEQIQAALTDIA 953
           + LI+SLP  D + E QL  +  L++      +   + +++ E L+  + + + D  
Sbjct: 74  NKLIDSLPGVDVSAEEQLRKIDMLQKKLVEVEDEKIEAIKKKEKLMRHVDSMIEDFV 130

>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 = 88.8 bits (219), Expect = 5e-18
 Identities = 98/642 (15%), Positives = 198/642 (30%), Gaps = 189/642 (29%)

Query: 445 HQKVVAAAVKTHSLGIESVCPKFAKSFKVNTACLEGMTQRGLLQSMHRLRKDNVLSSE-- 502
           H   +      H    + +   F  +F  N  C +       +Q M +    ++LS E  
Sbjct: 3   HHHHMDFETGEHQYQYKDILSVFEDAFVDNFDCKD-------VQDMPK----SILSKEEI 51

Query: 503 DHAIVDESTTCGTY-------------VKQ-LG----------ASPVTEPPLHPAEVLAA 538
           DH I+ +    GT              V++ +            SP+      P+ +   
Sbjct: 52  DHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRM 111

Query: 539 YAEY---------VLAP--VT---KMASFQKKAVKPPPSE-------GGGGDQAQEKSED 577
           Y E          V A   V+        ++  ++  P++        G G     K+  
Sbjct: 112 YIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSG-----KT-- 164

Query: 578 ETPVLTAKA-PEPAIVSALQ-ELYKSSFSNLKTHDS-LKI--SVCLDLQPRFESQPCRDY 632
               +         +   +  +++  +  N  + ++ L++   +   + P + S+     
Sbjct: 165 ---WVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSS 221

Query: 633 RPLSGSHVAVLVLESLLRMVDYK-----MDNIR--------------LVGFKDAKVRPIV 673
                 H     L  LL+   Y+     + N++              L+  +  +V   +
Sbjct: 222 NIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFL 281

Query: 674 --RLKTHNC-DDNLEGL--DDLVDELATV---KLEDAPEAEKEEESGKDSADSII----K 721
                TH   D +   L  D++   L      + +D P    E  +      SII    +
Sbjct: 282 SAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPR---EVLTTNPRRLSIIAESIR 338

Query: 722 NYEKIWRYYKR-QIPKARGITIHKLLSWSIKQMWHPDVYVVICSQENLSLYKTNVIFAEY 780
           +    W  +K     K     +  ++  S+  +  P         E   ++    +F   
Sbjct: 339 DGLATWDNWKHVNCDK-----LTTIIESSLNVL-EPA--------EYRKMFDRLSVF--- 381

Query: 781 MEKTKRKNTN--QENLSLYKTNVIFAEYM------------EKTKRKNTNSSHLKYMPKL 826
                  + +     LSL   +VI ++ M            EK  +++T S    Y+ +L
Sbjct: 382 -----PPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYL-EL 435

Query: 827 KAKTPIQQLLSSAEQADNFCNSVGILQQTAIPSKFSGFDRGGSQTPQ----------QQT 876
           K K   +  L  +           I+    IP  F   D       Q          +  
Sbjct: 436 KVKLENEYALHRS-----------IVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNI 484

Query: 877 QQEDYAHLFATLISRCARD---IDA-LIESLPNEDSTTELQ--LASLRKLEQ---DNQGA 927
           +  +   LF  +      D   ++  +       +++  +   L  L+  +    DN   
Sbjct: 485 EHPERMTLFRMVF----LDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPK 540

Query: 928 AERLEDTVRRGELLLEQIQAAL-----TDIAQSQL--ETNGV 962
            ERL + +      L +I+  L     TD+ +  L  E   +
Sbjct: 541 YERLVNAILD---FLPKIEENLICSKYTDLLRIALMAEDEAI 579

>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 = 70.7 bits (172), Expect = 2e-12
 Identities = 65/330 (19%), Positives = 104/330 (31%), Gaps = 99/330 (30%)

Query: 116 PSSLPLQKEVEAIRLRRRVKMKPLKNTQCSIHLKHLPAPKSTHAPAEFRLKC-ILLFKQE 174
            S++ L+       LRR +K KP +N  C + L ++   K+ +A   F L C ILL    
Sbjct: 220 SSNIKLRIHSIQAELRRLLKSKPYEN--CLLVLLNVQNAKAWNA---FNLSCKILL---- 270

Query: 175 YPMFYHDNVKTPPVNFYYKFSTTKDRKAPAEMAIFNCVDQLVAQDKKDTILTTITSEGGE 234
                                TT+ +            D L A          I+ +   
Sbjct: 271 ---------------------TTRFK---------QVTDFLSAATTTH-----ISLDHHS 295

Query: 235 QNFIMFQ-LKYLIKCLIVKVLD------NSNPLLINYDIVLYVLAKCL-------QLVQQ 280
                 +    L+K L  +  D       +NP  ++      ++A+ +          + 
Sbjct: 296 MTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLS------IIAESIRDGLATWDNWKH 349

Query: 281 DPKAKLPSTTIIEFRTKVLELAVDRVAGQNSERFLMFVLYMLNFSPKSLR-PDAVRKQLQ 339
               KL  TTIIE    VLE A  R      + F    +    F P S   P  +   + 
Sbjct: 350 VNCDKL--TTIIESSLNVLEPAEYR------KMFDRLSV----F-PPSAHIPTILLSLI- 395

Query: 340 KWYMGKESDQLVVLVAKCSVY-----QGLSHANVLKLIHFDVFHQSPDKKLALYAIAFGF 394
            W+   +SD +VV V K   Y     Q       +  I+ +      + + AL       
Sbjct: 396 -WFDVIKSDVMVV-VNKLHKYSLVEKQPKESTISIPSIYLE-LKVKLENEYAL------- 445

Query: 395 AYVSHRLISGKFLATPRVPPFVTSDDCFDK 424
               HR I   +                D+
Sbjct: 446 ----HRSIVDHYNIPKTFDSDDLIPPYLDQ 471

>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 = 58.7 bits (141), Expect = 8e-09
 Identities = 86/614 (14%), Positives = 168/614 (27%), Gaps = 188/614 (30%)

Query: 123 KEVEAIRLRRRVKMKPLKNTQCSIHLKHLPAPKSTHAPAEFRLKCILLFKQEYPMFYHDN 182
           K+V+   + + +    L   +   H+       S       RL   LL KQE        
Sbjct: 36  KDVQ--DMPKSI----LSKEEID-HIIMSKDAVS----GTLRLFWTLLSKQE-------- 76

Query: 183 VKTPPVNFYYKFSTTKDRKAPAEMAIFNCVDQLVAQDKKDTILTTITSEGGEQNFIMFQL 242
                     KF                 V++++  +    +++ I +E  + + +    
Sbjct: 77  ------EMVQKF-----------------VEEVLRINY-KFLMSPIKTEQRQPSMMT--R 110

Query: 243 KYLIKCLIVKVLDNSNPLLINYDIV----LYVLAKCLQLVQQDPKAKLPSTTIIEFRTKV 298
            Y I+      L N N +   Y++        L + L   +  P   +           +
Sbjct: 111 MY-IEQ--RDRLYNDNQVFAKYNVSRLQPYLKLRQALL--ELRPAKNV-----------L 154

Query: 299 LE---------LAVDRVAGQNSERFLMFVLYMLNFSPKSLRPDAVRKQLQKWYM------ 343
           ++         +A+D       +  + F ++ LN       P+ V + LQK         
Sbjct: 155 IDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLK-NCNSPETVLEMLQKLLYQIDPNW 213

Query: 344 GKESDQLVVLVAKC-SVYQGLS-------HANVLKLIHFDVFHQSPDKKLALYAIAFGF- 394
              SD    +  +  S+   L        + N L L+  +V     + K      AF   
Sbjct: 214 TSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCL-LVLLNVQ----NAKAWN---AFNLS 265

Query: 395 ---------AYVSHRLISGKFLATPRVPPFVTSDDCFDKA------SDKVKTIVKDVAVV 439
                      V+  L +    AT                         +    +D+   
Sbjct: 266 CKILLTTRFKQVTDFLSA----ATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPRE 321

Query: 440 RCNTS--HQKVVAAAVKTHSLGIE----SVCPKFAKSFKVNTACLEGMTQRGLLQSMHRL 493
              T+     ++A +++      +      C K     + +   LE    R +   +   
Sbjct: 322 VLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVF 381

Query: 494 RKD-----NVLS--------SEDHAIVDE------------STTCGTYVKQLG--ASPVT 526
                    +LS        S+   +V++             +T       L        
Sbjct: 382 PPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLEN 441

Query: 527 EPPLHPAEVLAAYAEYVLAPVTKMASFQKKAVKPPPSEG----------GGGDQAQEKSE 576
           E  LH   ++  Y            +F    + PP  +              +  +  + 
Sbjct: 442 EYALH-RSIVDHYN--------IPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTL 492

Query: 577 DETPVL-------------TAKAPEPAIVSALQEL--YKSSFSNLKTHDSLKISVCLDLQ 621
                L             TA     +I++ LQ+L  YK    +        ++  LD  
Sbjct: 493 FRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLVNAILDFL 552

Query: 622 PRFESQ----PCRD 631
           P+ E         D
Sbjct: 553 PKIEENLICSKYTD 566

>1yvr_A RO autoantigen, 60-kDa SS-A/RO ribonucleoprotein, 60 kDa; heat repeat, VON willebrand factor A, rossmann fold, midas motif', RNA binding protein; 1.95A {Xenopus laevis} SCOP: a.118.25.1 c.62.1.5 PDB: 1yvp_A 2i91_A Length = 538

 Score = 63.0 bits (152), Expect = 3e-10
 Identities = 68/394 (17%), Positives = 138/394 (35%), Gaps = 72/394 (18%)

Query: 302 AVDRVAGQNSERFLMFVLYMLNFSPKSLRPD---AVRKQLQKWYMGKESDQLVVLVAKCS 358
           AV  V  +       F+ +  +            A+RK +  WY  K++  L + V K  
Sbjct: 114 AVPEVC-RIPTHLFTFIQFKKDLKEGMKCGMWGRALRKAVSDWYNTKDALNLAMAVTKYK 172

Query: 359 VYQGLSHANVLKLIHFDVFHQSPDKKLALYAIAFGFAYVSHRLISGKFLATPRVPPFVTS 418
              G SH ++L+L H  +   +    +          YVS      +     +       
Sbjct: 173 QRNGWSHKDLLRLSH--IKPANEGLTMV-------AKYVSKGWKEVQEAYKEKELS---- 219

Query: 419 DDCFDKASDKVKTIVKDVAVVRCNTSHQKVVAAAVKTHSLGIESVCPKFAKSFKVNTACL 478
                  ++KV   ++    V+     +  +   +  + L  E +     KS ++  + L
Sbjct: 220 -----PETEKVLKYLEATERVKRTKD-ELEIIHLIDEYRLVREHLLTIHLKSKEIWKSLL 273

Query: 479 EGMTQRGLLQSMHRLRKDNVL--SSEDHAIVDESTTCGTYVKQLGASPVTEPPLHPAEVL 536
           + M    LL+++ ++  D+VL  +S + + V E  T    +K+          +HP  +L
Sbjct: 274 QDMPLTALLRNLGKMTADSVLAPASSEVSSVCERLTNEKLLKK--------ARIHPFHIL 325

Query: 537 AAYAEYVLAPVTKMASFQKKAVKPPPSEGGGGDQAQEKSEDETPVLTAKAPEPAIVSALQ 596
            A   Y                     + G G++ + +            P+ +IV AL 
Sbjct: 326 VALETY---------------------KKGHGNRGKLR----------WIPDTSIVEALD 354

Query: 597 ELYKSSFSNLKTHDSLKISVCLDLQPRFESQPCRDYRPLSGSHVAVLVLESLLRMVDYKM 656
             +  SF  ++     +  + +D+     +Q       L+ S VA  +   + R      
Sbjct: 355 NAFYKSFKLVEPTG-KRFLLAIDVSAS-MNQRVLG-SILNASVVAAAMCMLVAR----TE 407

Query: 657 DNIRLVGFKDAKVRPIVRLKTHNCDDNLEGLDDL 690
            +  +V F D ++ P          + +E + D+
Sbjct: 408 KDSHMVAFSD-EMLPCPITVNMLLHEVVEKMSDI 440

>2nvo_A RO sixty-related protein, RSR; alpha helical repeats, VON willebrand factor A domain, beta- RNA binding protein; 1.89A {Deinococcus radiodurans} Length = 535

 Score = 61.8 bits (149), Expect = 7e-10
 Identities = 60/399 (15%), Positives = 123/399 (30%), Gaps = 79/399 (19%)

Query: 293 EFRTKVLELAVDRVAGQNSERFLMFVLYMLNFSPKSLRPDAVRKQLQKWYMGKESDQLVV 352
               K    A+  VA +     L F+ +              R+ +   Y   + D+L +
Sbjct: 116 AADRKAAWDALPEVA-RTGTMLLHFLAFADALGG---WGRLTRRGVANVYETADVDKLAL 171

Query: 353 LVAKCSVYQGLSHANVLKLIHFDVFHQSPDKKLALYAIAFGFAYVSHRLISGKFLATPRV 412
              K     G S A+ L+  H               A      ++   +           
Sbjct: 172 WAVKYKARDGWSQADALRKAHPKTDD---------AARNAVLKFMVDGV----------- 211

Query: 413 PPFVTSDDCFDKASDKVKTIVKDVAVVRCNTSHQKVVAAAVKTHSLGIESVCPKFAKSFK 472
                      K       +++         +     AA ++ + L +E+V P   +  +
Sbjct: 212 ---------LPKVDSPALRVIEGHLKATEAQTDAA-AAALMQEYRLPLEAV-PTHVRGAE 260

Query: 473 VNTACLEGMTQRGLLQSMHRLRKDNVLSSEDHAIVDESTTCGTYVKQLG-ASPVTEPPLH 531
           V  A ++      LL+++  L +  VL+  D A V         +++L   + +    +H
Sbjct: 261 VYRAAMQTNGLTWLLRNLGNLGRVGVLTPNDSATVQA------VIERLTDPAALKRGRIH 314

Query: 532 PAEVLAAYAEYVLAPVTKMASFQKKAVKPPPSEGGGGDQAQEKSEDETPVLTAKAPEPAI 591
           P + L A   Y                       G G + +              P P +
Sbjct: 315 PLDALKARLVY---------------------AQGQGVRGKGTWL----------PVPRV 343

Query: 592 VSALQELYKSSFSNLKTHDSLKISVCLDLQPRFESQPCRDYRPLSGSHVAVLVLESLLRM 651
           V AL+E +  +F N++   + +  + LD+              L+ +  A  +    LR 
Sbjct: 344 VDALEEAFTLAFGNVQ-PANTRHLLALDVSGSMTCGDVAGVPGLTPNMAAAAMSLIALR- 401

Query: 652 VDYKMDNIRLVGFKDAKVRPIVRLKTHNCDDNLEGLDDL 690
                 +   +GF + + RP+        +  ++    +
Sbjct: 402 ---TEPDALTMGFAE-QFRPLGITPRDTLESAMQKAQSV 436

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	962
1yke_B	151	RNA polymerase II holoenzyme component SRB7; gene	100.0
1ykh_B	132	RNA polymerase II holoenzyme component SRB7; gene	100.0
2nvo_A	535	RO sixty-related protein, RSR; alpha helical repea	97.89
1yvr_A	538	RO autoantigen, 60-kDa SS-A/RO ribonucleoprotein,	97.36

>1yke_B RNA polymerase II holoenzyme component SRB7; gene regulation; 3.30A {Saccharomyces cerevisiae} SCOP: a.252.1.1

Probab=100.00  E-value=9e-39  Score=299.01  Aligned_cols=135  Identities=18%  Similarity=0.256  Sum_probs=114.2

Q ss_pred             CCCcchHHHhhhCHHHHHHHHHHHHhhhccccCCCCCCCCCCCCC-CC--CCCCCcchHHHHHHHHHHHHHHhhHHHHHH
Q psy1643         825 KLKAKTPIQQLLSSAEQADNFCNSVGILQQTAIPSKFSGFDRGGS-QT--PQQQTQQEDYAHLFATLISRCARDIDALIE  901 (962)
Q Consensus       825 mADRLTQLQDCLD~aQLAEQFcNSIGYLQRdAPPSsFsPndKIsS-pd--PqQqqp~EDnpQEFATDIIrKAKQIE~LID  901 (962)
                      |||||||||||||  |||++||||||||+++|||+.|+|++...+ +.  |+++..+...+++||+|||.|+||||+|||
T Consensus         1 MaDrLTQLQd~ld--qLa~~f~nsig~Lq~~app~~~~~~~~~~~~~~~~~~~~~~f~~~~~ela~dli~kakqIe~LId   78 (151)
T 1yke_B            1 MTDRLTQLQICLD--QMTEQFCATLNYIDKNHGFERLTVNEPQMSDKHATVVPPEEFSNTIDELSTDIILKTRQINKLID   78 (151)
T ss_dssp             --CCHHHHHHHHH--HHHHHTTTTHHHHHHTTGGGGCCC------------CCHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CCchHHHHHHHHH--HHHHHHHHHHHHHhcCCCcccCCCCCCCCCCcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            8999999999999  999999999999999999999998776321 11  122245677899999999999999999999


Q ss_pred             hCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccC
Q psy1643         902 SLPNEDSTTELQLASLRKLEQDNQGAAERLEDTVRRGELLLEQIQAALTDIAQSQLETNG  961 (962)
Q Consensus       902 SLPGIDSSEEEQLERIRELEEENKEAEQELQEAVKEAEELLEQVQEALrdIAQSQLnTRp  961 (962)
                      ||||+++||++|++||++|++||+++++||+++|+++|.+|++|+++|++||+++|++|+
T Consensus        79 sLPg~~~seeeQ~~ri~~Le~E~~~~~~el~~~v~eae~ll~~v~~~l~~ia~~~l~~r~  138 (151)
T 1yke_B           79 SLPGVDVSAEEQLRKIDMLQKKLVEVEDEKIEAIKKKEKLLRHVDSLIEDFVDGIANSKK  138 (151)
T ss_dssp             HCTTSSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCCCC-----
T ss_pred             hCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC
Confidence            999999999999999999999999999999999999999999999999999999999985

>1ykh_B RNA polymerase II holoenzyme component SRB7; gene regulation; 3.00A {Saccharomyces cerevisiae} SCOP: a.252.1.1

Probab=100.00  E-value=1.1e-37  Score=285.09  Aligned_cols=128  Identities=18%  Similarity=0.271  Sum_probs=108.3

Q ss_pred             CCCcchHHHhhhCHHHHHHHHHHHHhhhccccCCCCCCCCCCCCC-CC--CCCCCcchHHHHHHHHHHHHHHhhHHHHHH
Q psy1643         825 KLKAKTPIQQLLSSAEQADNFCNSVGILQQTAIPSKFSGFDRGGS-QT--PQQQTQQEDYAHLFATLISRCARDIDALIE  901 (962)
Q Consensus       825 mADRLTQLQDCLD~aQLAEQFcNSIGYLQRdAPPSsFsPndKIsS-pd--PqQqqp~EDnpQEFATDIIrKAKQIE~LID  901 (962)
                      |||||||||||||  |||++||||||||+++|||+.|+|++...+ +.  ++++..+...+++||+|||.|+||||+|||
T Consensus         1 MaDrlTQLQd~ld--qla~~f~nsig~Lq~~a~p~~~~~~~~~~~~~~~~~~~~~~f~~~~~ela~dli~k~kqIe~LId   78 (132)
T 1ykh_B            1 MTDRMTQLQICLD--QMTEQFCATLNYIDKNHGFERLTVNEPQMSDKHATVVPPEEFSNTIDELSTDIILKTRQINKLID   78 (132)
T ss_dssp             -CHHHHHHHHHHH--HHHHHHHHHHHHHHHSSCCC---------------CCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CCchHHHHHHHHH--HHHHHHHHHHHHHhcCCCcccCCCCCCCCCCccCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            8999999999999  999999999999999999999998776422 11  122345677899999999999999999999


Q ss_pred             hCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy1643         902 SLPNEDSTTELQLASLRKLEQDNQGAAERLEDTVRRGELLLEQIQAALTDIAQ  954 (962)
Q Consensus       902 SLPGIDSSEEEQLERIRELEEENKEAEQELQEAVKEAEELLEQVQEALrdIAQ  954 (962)
                      ||||+++||++|++||++|++||+++++||+++|+++|.+|++|+++|+.|++
T Consensus        79 sLP~~~~see~Q~~ri~~L~~E~~~~~~el~~~v~e~e~ll~~v~~~l~~i~~  131 (132)
T 1ykh_B           79 SLPGVDVSAEEQLRKIDMLQKKLVEVEDEKIEAIKKKEKLMRHVDSMIEDFVD  131 (132)
T ss_dssp             HSTTTTCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTC-
T ss_pred             hCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            99999999999999999999999999999999999999999999999999876

>2nvo_A RO sixty-related protein, RSR; alpha helical repeats, VON willebrand factor A domain, beta- RNA binding protein; 1.89A {Deinococcus radiodurans}

Probab=97.89  E-value=1.7e-05  Score=84.46  Aligned_cols=350  Identities=19%  Similarity=0.260  Sum_probs=208.4

Q ss_pred             HHHhhhe-eeeccCCCceeEehhhHHHHHHHHHHHhhcCCCCCCCcceeEeeehhhhhhhhhhccccCchhHHHHHHHHh
Q psy1643         244 YLIKCLI-VKVLDNSNPLLINYDIVLYVLAKCLQLVQQDPKAKLPSTTIIEFRTKVLELAVDRVAGQNSERFLMFVLYML  322 (962)
Q Consensus       244 ~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  322 (962)
                      ++.+|++ +-    ..-..+.-+-.+++||-|-..  -++.+         .|.. .--++.+|. ++..-++.|+-|+-
T Consensus        82 ~~~~~~~~~~----r~~~~~r~~~~l~~lal~~~~--~~~~~---------~r~~-~~~~~~~vv-~~~~~l~~f~~~~~  144 (535)
T 2nvo_A           82 LALRVTLDVV----RGQRAPKADPALLVLALIAKT--APNAA---------DRKA-AWDALPEVA-RTGTMLLHFLAFAD  144 (535)
T ss_dssp             HHHHHHHHHH----HHTCCSCSHHHHHHHHHHHHH--CSSHH---------HHHH-HHHHHHHHC-CSHHHHHHHHHHHT
T ss_pred             HHHHHHHHHH----hcCCCCCCchHHHHHHHHhcC--cchhh---------HHHH-HHHHHHHHH-CCcchHHHHHHHHH
Confidence            4566665 31    223445566677777766532  11111         0111 224566665 45666788999987


Q ss_pred             cCCCCCCCchHHHHHHHHHhcccCCCcEEEEEEeecccccccccchheeeeeeccccCCccchhHHHhhhhhhhhhhhhc
Q psy1643         323 NFSPKSLRPDAVRKQLQKWYMGKESDQLVVLVAKCSVYQGLSHANVLKLIHFDVFHQSPDKKLALYAIAFGFAYVSHRLI  402 (962)
Q Consensus       323 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  402 (962)
                      .+.+   -+-++|+.+++||-.+..+.|.-.++|+....|.+|.-|+++.|..-  .+++ ..+|+      .|++.   
T Consensus       145 ~~~~---~gr~lr~av~~wy~~~~~~~la~ql~ky~~~~~~~~~D~lrl~Hpkp--~~~~-~~~l~------~~i~~---  209 (535)
T 2nvo_A          145 ALGG---WGRLTRRGVANVYETADVDKLALWAVKYKARDGWSQADALRKAHPKT--DDAA-RNAVL------KFMVD---  209 (535)
T ss_dssp             TTCC---CCHHHHHHHHHHHHHSCHHHHHHHHHHCSEETTEEHHHHHHHHCCCC--SSHH-HHHHH------HHHHH---
T ss_pred             Hhcc---cchHHHHHHHHHHhcCChHHHHHHHHHhcccCCCcHHHHHHhcCCCC--CCHH-HHHHH------HHHHc---
Confidence            7643   47799999999999999988888889999999999999999998631  1222 22332      24432   


Q ss_pred             ccccccCCCCCCcccCcchhhhcccchhhhcceeeEEEecCchhHHHHHhhhccccccccccchhhhhcccchhhhcchh
Q psy1643         403 SGKFLATPRVPPFVTSDDCFDKASDKVKTIVKDVAVVRCNTSHQKVVAAAVKTHSLGIESVCPKFAKSFKVNTACLEGMT  482 (962)
Q Consensus       403 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  482 (962)
                       |. ..   -||            +++...++.+.-++-.++ ..-.+..++.|.+-.|.+-..... -++=.+-+..|.
T Consensus       210 -g~-~~---~~~------------~~~~~~l~~~~~~~~~~~-~~~a~~~i~~~~~t~E~~~s~~~~-~~~W~~Li~~mp  270 (535)
T 2nvo_A          210 -GV-LP---KVD------------SPALRVIEGHLKATEAQT-DAAAAALMQEYRLPLEAVPTHVRG-AEVYRAAMQTNG  270 (535)
T ss_dssp             -CC-CC---CCC------------TTHHHHHHHHHHHTTCCS-HHHHHHHHHHHTCCGGGSCGGGCC-HHHHHHHHTTCC
T ss_pred             -CC-CC---CCH------------HHHHHHHHHHHHHhhcCC-HHHHHHHHHhCCCCHhhcccccCC-HHHHHHHHHCCC
Confidence             32 11   011            122223322222222222 223456788999999988555444 444445678999


Q ss_pred             hhhhHHHhhhhccccccCCCCceecccCcccchhhhhcC-CCCCCCCCCChHHHHHHhhhhhhhcccccccccccccCCC
Q psy1643         483 QRGLLQSMHRLRKDNVLSSEDHAIVDESTTCGTYVKQLG-ASPVTEPPLHPAEVLAAYAEYVLAPVTKMASFQKKAVKPP  561 (962)
Q Consensus       483 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  561 (962)
                      -.-+|..+.++-+.+++...|..-+++      ++..|. ...+..--.||-.++++|.+|--                 
T Consensus       271 ~~AllrNlr~~~~~g~~~~~~~~~~e~------v~~~L~d~~~v~~s~~~Pf~~~~a~r~y~~-----------------  327 (535)
T 2nvo_A          271 LTWLLRNLGNLGRVGVLTPNDSATVQA------VIERLTDPAALKRGRIHPLDALKARLVYAQ-----------------  327 (535)
T ss_dssp             HHHHHHHHHHHHHTTSSCTTCHHHHHH------HHHHHTCHHHHHHTTCCHHHHHHHHHHHHT-----------------
T ss_pred             HHHHHHHHHHHHHcCCCCCCchHHHHH------HHHHhCCHhhHhhcCCCcHHHHHHHHHhhc-----------------
Confidence            999999999999999986665423332      333332 22233345799999999999921                 


Q ss_pred             CCCCCCCccccccccCCCcceeccCCchHHHHHHHHHHHhhcccccccCceeeEEeecCCccccCCCCCCCCC-CCCCch
Q psy1643         562 PSEGGGGDQAQEKSEDETPVLTAKAPEPAIVSALQELYKSSFSNLKTHDSLKISVCLDLQPRFESQPCRDYRP-LSGSHV  640 (962)
Q Consensus       562 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~  640 (962)
                          |.+|-   +.-       .-.|.+.++.+|.+.|..+|.|++.- .+.+-+|+|.-..-...+... ++ +...-+
T Consensus       328 ----G~dd~---r~i-------dW~~~ar~~~al~~a~~~~~~~~~~~-~~~~lv~vDvSgSM~~~~~~~-~~k~~~~e~  391 (535)
T 2nvo_A          328 ----GQGVR---GKG-------TWLPVPRVVDALEEAFTLAFGNVQPA-NTRHLLALDVSGSMTCGDVAG-VPGLTPNMA  391 (535)
T ss_dssp             ----SBCST---TCC-------BCCCCHHHHHHHHHHHHHHGGGCCCC-CSEEEEEECCSGGGGSCCGGG-CTTCCHHHH
T ss_pred             ----ccCcc---CCC-------CCcccHHHHHHHHHHHHHHhhcCCCC-CceEEEEEECCccccCCCCCC-CCcccHHHH
Confidence                11221   011       12245788999999999999998764 588999999876543322211 11 222223


Q ss_pred             hHHHHHHHHHhhhccccceEEeeccCCcccceeeecccCCCCcccCchhHHhhhh
Q psy1643         641 AVLVLESLLRMVDYKMDNIRLVGFKDAKVRPIVRLKTHNCDDNLEGLDDLVDELA  695 (962)
Q Consensus       641 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  695 (962)
                      |.++.-.++    ..-|++.|+.|.+ .+.++ .+   .-+   .++.+++++|.
T Consensus       392 Aa~la~~~~----r~~d~v~lv~Fs~-~~~~~-~~---~~~---~~l~~~l~~l~  434 (535)
T 2nvo_A          392 AAAMSLIAL----RTEPDALTMGFAE-QFRPL-GI---TPR---DTLESAMQKAQ  434 (535)
T ss_dssp             HHHHHHHHH----HHSSEEEEEEEBS-SEEEC-CC---CTT---CCHHHHHHHTC
T ss_pred             HHHHHHHHc----CcCCceEEEEECC-cceEc-CC---Ccc---hhHHHHHHHHh
Confidence            333322222    3567999999988 33321 11   111   45667777764

>1yvr_A RO autoantigen, 60-kDa SS-A/RO ribonucleoprotein, 60 kDa; heat repeat, VON willebrand factor A, rossmann fold, midas motif', RNA binding protein; 1.95A {Xenopus laevis} SCOP: a.118.25.1 c.62.1.5 PDB: 1yvp_A 2i91_A

Probab=97.36  E-value=0.00018  Score=76.05  Aligned_cols=322  Identities=20%  Similarity=0.309  Sum_probs=185.4

Q ss_pred             hhhhhhccccCchhHHHHHHHHhcCCCCCC---CchHHHHHHHHHhcccCCCcEEEEEEeecccccccccchheeeeeec
Q psy1643         300 ELAVDRVAGQNSERFLMFVLYMLNFSPKSL---RPDAVRKQLQKWYMGKESDQLVVLVAKCSVYQGLSHANVLKLIHFDV  376 (962)
Q Consensus       300 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  376 (962)
                      .-++.+|. ++..-++.|+-|+-.+.-...   =+-.+|+.+.+||-.+..+.|.-.++|+..+.|.||..++++.|.-.
T Consensus       112 ~~~~~~v~-~~~~~l~~~~~~~~~~~~~~~~~~~~r~~r~av~~w~~~~~~~~la~~l~ky~~~~~~~~~Dll~l~h~~~  190 (538)
T 1yvr_A          112 FRAVPEVC-RIPTHLFTFIQFKKDLKEGMKCGMWGRALRKAVSDWYNTKDALNLAMAVTKYKQRNGWSHKDLLRLSHIKP  190 (538)
T ss_dssp             HHHHHHHC-CSHHHHHHHHHHHHHC--------CCHHHHHHHHHHHHTSCHHHHHHHHTSCCCSSSCCHHHHHHHTTCCC
T ss_pred             HHHHHHHH-CCchHHHHHHHHHHHHHhccCCCCccHHHHHHHHHHHhcCCHHHHHHHHHHhccccCCcHHHHhhhcCCCC
Confidence            34555553 567778889999977653221   27899999999999999988888889999999999999999999764


Q ss_pred             cccCCccchhHHHhhhhhhhhhhhhcc-cccccCCCCCCcccCcchhhhcccchhhhcceeeEEEecCchhHHHHHhhhc
Q psy1643         377 FHQSPDKKLALYAIAFGFAYVSHRLIS-GKFLATPRVPPFVTSDDCFDKASDKVKTIVKDVAVVRCNTSHQKVVAAAVKT  455 (962)
Q Consensus       377 ~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  455 (962)
                         +++. .+++.-     |++.+.-. .|.+..+.     .+.+     .+++..++.++.=+|.-..-.++ +..+..
T Consensus       191 ---~~~~-~~l~~~-----~l~~~~~~~~k~~~~~~-----~~~~-----~~~~~~~~~~~~~~~~~~~~~~~-~~~i~~  250 (538)
T 1yvr_A          191 ---ANEG-LTMVAK-----YVSKGWKEVQEAYKEKE-----LSPE-----TEKVLKYLEATERVKRTKDELEI-IHLIDE  250 (538)
T ss_dssp             ---SSHH-HHHHHH-----HHHTCHHHHHHHTTTCC-----CCHH-----HHHHHHHHHHHHHHHTCCCHHHH-HHHHHH
T ss_pred             ---cHHH-HHHHHH-----HhcCCHHHHHHhhcccc-----cccc-----HHHHHHHHHHHHHHHhcCCHHHH-HHHHHh
Confidence               3332 222221     33322111 12122211     1110     12222222222222222233333 456788


Q ss_pred             cccccccccchhhhhcccchhhhcchhhhhhHHHhhhhccccccCCCCceecccCcccchhhhhcC-CCCCCCCCCChHH
Q psy1643         456 HSLGIESVCPKFAKSFKVNTACLEGMTQRGLLQSMHRLRKDNVLSSEDHAIVDESTTCGTYVKQLG-ASPVTEPPLHPAE  534 (962)
Q Consensus       456 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~  534 (962)
                      |.+-+|.+-.....+-+|=.+-+..|.-..||..+-++-..+|+...+. .+.+      ++..|. ..++..--.||-.
T Consensus       251 ~~~t~E~~~~~l~~~~~~we~l~~~~~~~allrnlr~~~~~g~~~~~~~-~~~~------v~~~L~~~~~v~~s~~~P~~  323 (538)
T 1yvr_A          251 YRLVREHLLTIHLKSKEIWKSLLQDMPLTALLRNLGKMTADSVLAPASS-EVSS------VCERLTNEKLLKKARIHPFH  323 (538)
T ss_dssp             HCCCGGGSCTTGGGCHHHHHHHHHTCCHHHHHHHHHHHHHTTTTCTTCH-HHHH------HHHHHTCHHHHHHTTCCHHH
T ss_pred             cCCCHhhchhhhcCCHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCchH-HHHH------HHHHhcCHHhHhhccCCcHH
Confidence            9999998833333333444455668888889999999988888866554 4433      222221 1223334579999


Q ss_pred             HHHHhhhhhhhcccccccccccccCCCCCCCCCCccccccccCCCcceeccCCchHHHHHHHHHHHhhcccccccCceee
Q psy1643         535 VLAAYAEYVLAPVTKMASFQKKAVKPPPSEGGGGDQAQEKSEDETPVLTAKAPEPAIVSALQELYKSSFSNLKTHDSLKI  614 (962)
Q Consensus       535 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  614 (962)
                      ++++|.+|.-..                     ++-.   .       ..-.|.+.+..+|.+.|..+|.+++.- ...|
T Consensus       324 ~~~a~r~y~~g~---------------------~~~~---~-------i~w~~~~r~~~al~~~~~~~~~~~~~~-~~~v  371 (538)
T 1yvr_A          324 ILVALETYKKGH---------------------GNRG---K-------LRWIPDTSIVEALDNAFYKSFKLVEPT-GKRF  371 (538)
T ss_dssp             HHHHHHHHHHCC------------------------------------CCCCCCHHHHHHHHHHHHHTSCCCCCC-CCCE
T ss_pred             HHHHHHHhhccC---------------------CcCC---C-------cCCCcchhHHHHHHHHHHHHHhhcCCC-CceE
Confidence            999999996420                     0000   0       012345778899999999999987643 5778


Q ss_pred             EEeecCCccccCCCCCCCCCCCCCchhHHHHHHHHHhhhccccceEEeeccCCcccceeeecccCCCCcccCchhHHhhh
Q psy1643         615 SVCLDLQPRFESQPCRDYRPLSGSHVAVLVLESLLRMVDYKMDNIRLVGFKDAKVRPIVRLKTHNCDDNLEGLDDLVDEL  694 (962)
Q Consensus       615 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  694 (962)
                      -+|+|.-..-....- . ..+....+|.+..-..    -..-|++.||.|.++- .++ .+.   -+   .++.++++.|
T Consensus       372 ~lvvD~SgSM~~~~~-~-~~l~~~~~Aa~l~~~~----~~~~d~vglv~Fs~~~-~~~-~~t---~~---~~l~~~l~~l  437 (538)
T 1yvr_A          372 LLAIDVSASMNQRVL-G-SILNASVVAAAMCMLV----ARTEKDSHMVAFSDEM-LPC-PIT---VN---MLLHEVVEKM  437 (538)
T ss_dssp             EEEEECSGGGGSBST-T-SSCBHHHHHHHHHHHH----HHHCSSEEEEEESSSE-ECC-SCC---TT---SCHHHHHHHH
T ss_pred             EEEEECccccCCCCC-C-CcHHHHHHHHHHHHHH----hccCCceEEEEECCCc-eEc-CCC---Cc---ccHHHHHHHH
Confidence            899998665432111 1 1132222221211111    1356899999999842 111 111   11   2377777777


Q ss_pred             h
Q psy1643         695 A  695 (962)
Q Consensus       695 ~  695 (962)
                      .
T Consensus       438 ~  438 (538)
T 1yvr_A          438 S  438 (538)
T ss_dssp             T
T ss_pred             h
Confidence            5

---

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	962
d1ykhb1	129	a.252.1.1 (B:2-130) RNA polymerase II holoenzyme c	3e-33
d1yvra1	359	a.118.25.1 (A:5-363) 60-kda SS-aARo ribonucleoprot	1e-14

>d1ykhb1 a.252.1.1 (B:2-130) RNA polymerase II holoenzyme component SRB7 (MED21) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 129

class: All alpha proteins
fold: Mediator hinge subcomplex-like
superfamily: Mediator hinge subcomplex-like
family: CSE2-like
domain: RNA polymerase II holoenzyme component SRB7 (MED21)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score =  122 bits (307), Expect = 3e-33
 Identities = 21/116 (18%), Positives = 49/116 (42%), Gaps = 3/116 (2%)

Query: 840 EQADNFCNSVGILQQTAIPSKFSGFDRGGSQTPQQQTQQEDYA---HLFATLISRCARDI 896
           +  + FC ++  + +     + +  +   S         E+++      +T I    R I
Sbjct: 13  QMTEQFCATLNYIDKNHGFERLTVNEPQMSDKHATVVPPEEFSNTIDELSTDIILKTRQI 72

Query: 897 DALIESLPNEDSTTELQLASLRKLEQDNQGAAERLEDTVRRGELLLEQIQAALTDI 952
           + LI+SLP  D + E QL  +  L++      +   + +++ E L+  + + + D 
Sbjct: 73  NKLIDSLPGVDVSAEEQLRKIDMLQKKLVEVEDEKIEAIKKKEKLMRHVDSMIEDF 128

>d1yvra1 a.118.25.1 (A:5-363) 60-kda SS-aARo ribonucleoprotein {African clawed frog (Xenopus laevis) [TaxId: 8355]} Length = 359

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TROVE domain-like
family: TROVE domain-like
domain: 60-kda SS-aARo ribonucleoprotein
species: African clawed frog (Xenopus laevis) [TaxId: 8355]

 Score = 74.2 bits (182), Expect = 1e-14
 Identities = 48/313 (15%), Positives = 104/313 (33%), Gaps = 63/313 (20%)

Query: 295 RTKVLELAVDRVAGQNSERFLMFVLYMLNFSPKSLRPD---AVRKQLQKWYMGKESDQLV 351
           +        +    +       F+ +  +            A+RK +  WY  K++  L 
Sbjct: 104 KQAAFRAVPEVC--RIPTHLFTFIQFKKDLKEGMKCGMWGRALRKAVSDWYNTKDALNLA 161

Query: 352 VLVAKCSVYQGLSHANVLKLIHFDVFHQSPDKKLALYAIAFGFAYVSHRLISGKFLATPR 411
           + V K     G SH ++L+L H      + +    +        YVS      +     +
Sbjct: 162 MAVTKYKQRNGWSHKDLLRLSH---IKPANEGLTMV------AKYVSKGWKEVQEAYKEK 212

Query: 412 VPPFVTSDDCFDKASDKVKTIVKDVAVVRCNTSHQKVVAAAVKTHSLGIESVCPKFAKSF 471
                         ++KV   ++    V+      + +   +  + L  E +     KS 
Sbjct: 213 ELS---------PETEKVLKYLEATERVKRTKDELE-IIHLIDEYRLVREHLLTIHLKSK 262

Query: 472 KVNTACLEGMTQRGLLQSMHRLRKDNVLSSEDHAIVDESTTCGTYVKQLG-ASPVTEPPL 530
           ++  + L+ M    LL+++ ++  D+VL+     +        +  ++L     + +  +
Sbjct: 263 EIWKSLLQDMPLTALLRNLGKMTADSVLAPASSEV-------SSVCERLTNEKLLKKARI 315

Query: 531 HPAEVLAAYAEYVLAPVTKMASFQKKAVKPPPSEGGGGDQAQEKSEDETPVLTAKAPEPA 590
           HP  +L A   Y                     + G G++ + +            P+ +
Sbjct: 316 HPFHILVALETY---------------------KKGHGNRGKLRWI----------PDTS 344

Query: 591 IVSALQELYKSSF 603
           IV AL   +  SF
Sbjct: 345 IVEALDNAFYKSF 357

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	962
d1ykhb1	129	RNA polymerase II holoenzyme component SRB7 (MED21	100.0
d1yvra1	359	60-kda SS-aARo ribonucleoprotein {African clawed f	98.22

>d1ykhb1 a.252.1.1 (B:2-130) RNA polymerase II holoenzyme component SRB7 (MED21) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: Mediator hinge subcomplex-like
superfamily: Mediator hinge subcomplex-like
family: CSE2-like
domain: RNA polymerase II holoenzyme component SRB7 (MED21)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=100.00  E-value=2.6e-37  Score=280.65  Aligned_cols=125  Identities=18%  Similarity=0.278  Sum_probs=106.9

Q ss_pred             CCcchHHHhhhCHHHHHHHHHHHHhhhccccCCCCCCCCCCCCC-CC--CCCCCcchHHHHHHHHHHHHHHhhHHHHHHh
Q psy1643         826 LKAKTPIQQLLSSAEQADNFCNSVGILQQTAIPSKFSGFDRGGS-QT--PQQQTQQEDYAHLFATLISRCARDIDALIES  902 (962)
Q Consensus       826 ADRLTQLQDCLD~aQLAEQFcNSIGYLQRdAPPSsFsPndKIsS-pd--PqQqqp~EDnpQEFATDIIrKAKQIE~LIDS  902 (962)
                      +|||||||||||  |||+|||||||||+++|+|+.|+++..... +.  +.++..+++.+++||+||+.|+||||+||||
T Consensus         1 sDrLTQLQd~ln--qla~~f~nsig~L~~~a~~~~~~~~~~~~~~~~~~~~~~e~f~~~~~elA~dii~kakqId~LI~s   78 (129)
T d1ykhb1           1 TDRMTQLQICLD--QMTEQFCATLNYIDKNHGFERLTVNEPQMSDKHATVVPPEEFSNTIDELSTDIILKTRQINKLIDS   78 (129)
T ss_dssp             CHHHHHHHHHHH--HHHHHHHHHHHHHHHSSCCC---------------CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CchHHHHHHHHH--HHHHHHHHHHHHHhcCCCcccCCCCCcccCCCCCCCCCHHHHHHHHHHHHHHHHHHHhhHHHHHHh
Confidence            699999999999  999999999999999999999998875422 11  2233456889999999999999999999999


Q ss_pred             CCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy1643         903 LPNEDSTTELQLASLRKLEQDNQGAAERLEDTVRRGELLLEQIQAALTDI  952 (962)
Q Consensus       903 LPGIDSSEEEQLERIRELEEENKEAEQELQEAVKEAEELLEQVQEALrdI  952 (962)
                      |||+++|||+|+++|++|++||+++++||+++|+++|.||++|+++|++|
T Consensus        79 LP~~~~see~Q~~~i~~Le~E~~~~~~el~~~v~e~e~ll~~i~~~i~~i  128 (129)
T d1ykhb1          79 LPGVDVSAEEQLRKIDMLQKKLVEVEDEKIEAIKKKEKLMRHVDSMIEDF  128 (129)
T ss_dssp             STTTTCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTT
T ss_pred             CCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            99999999999999999999999999999999999999999999999876

>d1yvra1 a.118.25.1 (A:5-363) 60-kda SS-aARo ribonucleoprotein {African clawed frog (Xenopus laevis) [TaxId: 8355]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TROVE domain-like
family: TROVE domain-like
domain: 60-kda SS-aARo ribonucleoprotein
species: African clawed frog (Xenopus laevis) [TaxId: 8355]

Probab=98.22  E-value=8.8e-08  Score=96.39  Aligned_cols=271  Identities=22%  Similarity=0.347  Sum_probs=170.3

Q ss_pred             ehhhHHHHHHHHHHHhhcCCCCCCCcceeEeeehhhhhhhhhhccccCchhHHHHHHHHhcCCCCCC---CchHHHHHHH
Q psy1643         263 NYDIVLYVLAKCLQLVQQDPKAKLPSTTIIEFRTKVLELAVDRVAGQNSERFLMFVLYMLNFSPKSL---RPDAVRKQLQ  339 (962)
Q Consensus       263 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~  339 (962)
                      +-|-.|++||-|-+.  -|++.          |..+.+ ++-+|. .+..-+++||-|+-.+.-..-   =.-.+||.++
T Consensus        84 r~~p~l~aLal~a~~--~d~~~----------r~~a~~-~~~~v~-r~~~~L~~fv~~~~~~~~~~~~~~~gr~lrkav~  149 (359)
T d1yvra1          84 KQEPTLFALAVCSQC--SDIKT----------KQAAFR-AVPEVC-RIPTHLFTFIQFKKDLKEGMKCGMWGRALRKAVS  149 (359)
T ss_dssp             CSHHHHHHHHHHHTS--SCHHH----------HHHHHH-HHHHHC-CSHHHHHHHHHHHHHC--------CCHHHHHHHH
T ss_pred             CcchHHHHHHHHHhC--CCHHH----------HHHHHH-HHHHHh-cCchHHHHHHHHHHHhccCcCCCcccHHHHHHHH
Confidence            346677888877542  34332          233333 233444 355667899999988764322   2479999999


Q ss_pred             HHhcccCCCcEEEEEEeecccccccccchheeeeeeccccCCccchhHHHhhhhhhhhhhhhcccccccCCCCCCcccCc
Q psy1643         340 KWYMGKESDQLVVLVAKCSVYQGLSHANVLKLIHFDVFHQSPDKKLALYAIAFGFAYVSHRLISGKFLATPRVPPFVTSD  419 (962)
Q Consensus       340 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  419 (962)
                      +||-.+..++|.-.++|+.-..|.||.-+|++.|..     |..  .  +...-|.|+..+.-...-...   ++..++ 
T Consensus       150 ~Wy~~~~~~~LA~~~~Ky~~r~gwShkDlLrl~Hpk-----p~~--~--~~~~l~~~i~~g~~~~~~~~~---~~~~~~-  216 (359)
T d1yvra1         150 DWYNTKDALNLAMAVTKYKQRNGWSHKDLLRLSHIK-----PAN--E--GLTMVAKYVSKGWKEVQEAYK---EKELSP-  216 (359)
T ss_dssp             HHHHTSCHHHHHHHHTSCCCSSSCCHHHHHHHTTCC-----CSS--H--HHHHHHHHHHTCHHHHHHHTT---TCCCCH-
T ss_pred             HHHhcCCHHHHHHHHHhcCCCCCCCHHHHHHHcCCC-----CCc--H--HHHHHHHHHhcCccccccccc---cccccc-
Confidence            999999999998888899999999999999999853     221  1  122224454433211111111   111111 


Q ss_pred             chhhhcccchhhhcceeeEEEecCchhHHHHHhhhccccccccccchhhhhcccchhhhcchhhhhhHHHhhhhcccccc
Q psy1643         420 DCFDKASDKVKTIVKDVAVVRCNTSHQKVVAAAVKTHSLGIESVCPKFAKSFKVNTACLEGMTQRGLLQSMHRLRKDNVL  499 (962)
Q Consensus       420 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  499 (962)
                       .    .+.+..++..+.-++=.+. ...++..++.|.|..|.+=..+.++-.|-.+-++.|...-||+.+-+|-+.+|+
T Consensus       217 -~----~~~~~~~~~~~~~~k~~~~-~~~~~~lI~~~~Lt~E~~p~~~~~~~~vWeaLi~~mp~~ALLRNL~~l~~~gvl  290 (359)
T d1yvra1         217 -E----TEKVLKYLEATERVKRTKD-ELEIIHLIDEYRLVREHLLTIHLKSKEIWKSLLQDMPLTALLRNLGKMTADSVL  290 (359)
T ss_dssp             -H----HHHHHHHHHHHHHHHTCCC-HHHHHHHHHHHCCCGGGSCTTGGGCHHHHHHHHHTCCHHHHHHHHHHHHHTTTT
T ss_pred             -h----HHHHHHHHHHHHHHHhcCC-HHHHHHHHHHcCCCHHHhhhhhccCHHHHHHHHHcCCHHHHHHHHHHHhhcccC
Confidence             1    1122233333322232222 335566899999999999999999999999999999999999999999999999


Q ss_pred             CCCCceecccCcccchhhhhc-CCCCCCCCCCChHHHHHHhhhhhhhcccccccccccccCCCCCCCCCCccccccccCC
Q psy1643         500 SSEDHAIVDESTTCGTYVKQL-GASPVTEPPLHPAEVLAAYAEYVLAPVTKMASFQKKAVKPPPSEGGGGDQAQEKSEDE  578 (962)
Q Consensus       500 ~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  578 (962)
                      +..++. +      ..++.+| ...-+..--.||-.+|.||..|--                    ||| +...      
T Consensus       291 ~~~~~~-~------~~V~~rL~D~~~l~~arihP~~~L~A~~~Y~~--------------------g~~-~~~~------  336 (359)
T d1yvra1         291 APASSE-V------SSVCERLTNEKLLKKARIHPFHILVALETYKK--------------------GHG-NRGK------  336 (359)
T ss_dssp             CTTCHH-H------HHHHHHHTCHHHHHHTTCCHHHHHHHHHHHHH--------------------CC------------
T ss_pred             CCCcHH-H------HHHHHHhCCHHHHHHcccChHHHHHHHHHHHh--------------------cCC-cccc------
Confidence            643322 1      1233333 122344567899999999998731                    222 1111      


Q ss_pred             CcceeccCCchHHHHHHHHHHHhhcc
Q psy1643         579 TPVLTAKAPEPAIVSALQELYKSSFS  604 (962)
Q Consensus       579 ~~~~~~~~~~~~~~~~~~~~~~~~~~  604 (962)
                          ....|.+.|++||++.|.-||.
T Consensus       337 ----~~w~p~~~i~~AL~~A~~~sf~  358 (359)
T d1yvra1         337 ----LRWIPDTSIVEALDNAFYKSFK  358 (359)
T ss_dssp             ----CCCCCCHHHHHHHHHHHHHTSC
T ss_pred             ----CCCCCcHHHHHHHHHHHHHHcC
Confidence                1134779999999999999985