<p>This section provides information about the protein and gene name(s) and synonym(s) and about the organism that is the source of the protein sequence.<p><a href='/help/names_and_taxonomy_section' target='_top'>More...</a></p>Detailed information on MDP29674

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMSSSFVANGASLEDCHCNLFCLADLTGIKWKRYVWQGPTSAPILFPVTEEDPILSSFSRCLKADVLGVWRRDQRPGRRELWIFWWGEDPNFADLIHHDLSEEEDGVWENGLSYECRTLLFKAVHNLLERCLMNRNFVRIGKWFVKPYEKDEKPINKSEHLSCSFTFFLHGESNVCTSVEINQHQPVYLLSEEHITLAQQSNSSFQVILSPFGLNGTLTGQAFKMSDSATKKLIGEWKQFYPISCSLKEMSEEKQEDMDWEDDSLAAVEVLVAGVRMIYPACFVLVPQSDIPTPSSVASSHCSASCLGVHQVPASTRDPAMSSVTLTPPTSPEEVQTVDPQSAQKWVKFSSVSDGFNSDSTSHHGGKIPRKLANHVVDRVWQECNMNRAQNKRKYSASSGGLCEEETPDKVACWDFVEATQRTNCSCLRHKNPKPRNSGQQGQVPSLGQQQQVLPKHKTSEKQEKSEKPQKRPLTPFHHRISISDDVGMDTDSASQRLVISASDSQVRFSNIRTNDVAKTPQMHGTEMTNSPQPPPLSPHPCDVVDEGVTKTPSTPQSQHFYQMPTPDPLVPTKPMEDRIDSLSQSFPPQYQEAVEPTVYIGTAVNLEEDEANIAWKYYKVPKKKDVEFLPPQLPSDKFKDDPVGPFGQENVTSVTELMVQCKKRLKVSDELVQQYQMKNQYLSAIASDAEQEPKIDPYAFVEGDEEFLFPDKKDRQNSERETGKKHKVEDGTSTVTVLSHEEDAMSLFSPSIKQDAPRPTSHARPPSTSLIYDSDLAVSYTDLDNLFNSDEDELTPGSKKSSNGSDDKASCKESKTGNLDPLSCISTADLHKMYPTPPSLEQHIMGFSPMNMNNKEYGSMDTTPGGTVLEGNSSSIGAQFKIEVDEGFCSPKPSEIKDFSYVYKPENCQVLVGCSMFAPLKTLPSQCLPPIKLPEECIYRQSWTVGKLELLSSGPAMPFIKEGDGSNMDQEYGPAYTPQTHTSFGMPPSSAPPSNSGAGILPSPSTPRFPTPRTPRTPRTPRGAGGPASAQGSVKYENSDLYSPASTPSTCRPLNSVEPATVPSIPEAHSLYVNLILSESVMNLFKDCNFDSCCICVCNMNIKGADVGVYIPDPTQEAQYRCACGFSAVMNRKFGNNSGLFLEDELDIIGRNTDCGKEAEKRFEALRATSTEHVNGGLKESEKFPDELILLLQDQCTNLFSPFGAADQDPFPKIGVISNWVRVEERDCCNDCYLALEHGRQFMDNMSGGKVDEALVKSSCLHPWSKRNDMSMQCSQDILRMLLSLQPVLQDAIQKKRTVRPWGVQGPLTWQQFHKMAGRGSYGTDESPEPLPIPTFLLGYDYDFLVLSPFALPYWERLMLEPYGSQRDIAYVVLCPENEALLNGAKSFFRDLTAIYESCRLGQHRPISRLLTDGIMRVGSTASKKLSEKLVAEWFSQAADGNNEAFSKLKLYAQVCRYDLGPYLASQPLDSSLLSQPNLVAPTNQSLITPPHVTNTGTSNTPSATLASAASNTMTMTSGVAISTSVATANSTLTTTSSSSSSSLSSGVSSNKLPSFPPFGSMNSSGTGSMTTQANTVQSGHLGGQQSSALQTAGISGESSSLPTQPHPDVSESTMDRDKVGIPTDGDSHAITYPPAIVVYIIDPFTYENKDESTNSSNVWTLGLLRCFLEMVQTLPPHIKSTVSVQIVPCQYLLQPVKHEDRQIYTQHLKSLAFSVFTQCRRPLPTSTNVKTLTGFGPGLAMETALKSPDRPECIRLYTPPFILAPVKDKQTELGETFGEAGQKYNVLFVGYCLSHDQRWILASCTDLYGELLETCIINIDVPNRARRKKGSARRFGLQKLWEWCLGLVQMSSLPWRVVIGRLGRIGHGELKDWYCLLSRRNLQSLSKRLKDMCRMCGISAADSPSILSACLVAMEPQGSFVIMPDSVSTGSVFGRSTTLNMQTSQLNTPQDTSCTHILVFPTSATVQVASATYTTENLDLAFNPNTDGADGMVIFDLLDTGDDLDPDIINILPASPTASPVHSPGSHYPHGSDAGKGQGTDRLLSTESHDEVTNILLQQPLALGYFVSTAKAGPLPDWFWSACPQAQYQCPLFLKASLHLHVPSVQSDELLHSKHSHPLDSNQTSDVLRFVLEQYNALSWLTCDPAIQDRRSCLPIHFVVLNQLYNFIMNML
Length2173
PositionMiddle
OrganismIctidomys tridecemlineatus (Thirteen-lined ground squirrel) (Spermophilus tridecemlineatus)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Mammalia> Eutheria> Euarchontoglires> Glires> Rodentia> Sciuromorpha> Sciuridae> Xerinae> Marmotini> Ictidomys.
Aromaticity0.08
Grand average of hydropathy-0.406
Instability index51.66
Isoelectric point5.45
Molecular weight239891.03
Publications









Function






Annotated function

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. 


GO - Cellular Component
mediator complex	GO:0016592	IEA:Ensembl
nucleoplasm	GO:0005654	IEA:Ensembl

GO - Biological Function
thyroid hormone receptor binding	GO:0046966	IEA:Ensembl
transcription coactivator activity	GO:0003713	IEA:Ensembl

GO - Biological Process
cholesterol homeostasis	GO:0042632	IEA:Ensembl
negative regulation of DNA-binding transcription factor activity	GO:0043433	IEA:Ensembl
positive regulation of transcription initiation from RNA polymerase II promoter	GO:0060261	IEA:Ensembl
triglyceride homeostasis	GO:0070328	IEA:Ensembl









Interaction





Binary Interactions











Repeat regions





Repeats

>MDP29674
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|    1029.34|     255|     263|     504|     765|       1
---------------------------------------------------------------------------
  309-  595 (301.68/139.85)	......................HQVPaSTR....DpamssVTLTPPTSPeevqtvdpqsaqkwvkfssvSDGFNS.....DSTS...HHGGKIPRKLANHVVD.....RVWQECnM..NRAQNKRKYSASSGGLCEEEtPdKVACWDFVEATQRTNCSCLRHKNPKPRNSGQQGQVPS.......LGQQQQVLPKHKTSEKQE....KSE.KPqkrpltpfhhrisisddvgmdtdsasqrlvisasdSQVRFSNIRTNDVAKTP....QMHG........TEMTNS...PQPPPLS.PHPCDVVD..EGVTkTPSTPQSQHFY.QMPTPD..PLVPTKP.MED.RIDSLSQSFPPQYQEAVE
  596-  856 (330.39/163.53)	PTVYIGTAVnLEEDEANIAWKYYKVP.KKK....D.....VEFLPPQLP....................SDKFKD.....DPVG...PFGQENVTSVTELMVQCKKRLKVSDEL.V..QQYQMKNQYLSAIASDAEQE.P.KIDPYAFVEGDEEFLFPDKKDRQNSERETGKKHKVEDGTSTVTVLSHEEDAMSLFSPSIKQDaprpTSHaRP..................pstsliydsdlavsytdLDNLFN...SDEDELTPgskkSSNG........SDDKASckeSKTGNLD.PLSC........................ISTADlhKMYPTPPsLEQ.HI....MGFSPMNMNNKE
  861- 1106 (334.06/152.58)	DTTPGGTV..LEGNSSSIGAQ.FKI...EV....D.....EGFCSPK.P....................SE.IKDfsyvyKPENcqvLVGCSMFAPLKTLPSQCLPPIKLPEEC.I..YRQSWTVGKLELLSSG.....P.AM.PF.IKEGD.....GSNMDQEYGPAYTPQTH.TSFGMPPSSAPPSNSGAGILPSPSTP..................................................RFPTPRTPRTPRTP....RGAGgpasaqgsVKYENS...DLYSPAStPSTCRPLNsvEPAT.VPSIPEAHSLYvNLILSE..SVMNL...FKDcNFDSCCICVCNMNIKGAD
 1107- 1214 (63.21/21.39)	VGVYIPDPT..QEAQYRCACGFSAVM.NRKfgnnS.....GLFLEDELD...............iigrnTDCGKE.....AE.K...RFEALRATSTEHVNGGLKESEKFPDEL.IllLQDQCTNLFSPFGAADQDPF.P.KI............................................................................................................................................................................................................................
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     229.90|      75|     421|    1306|    1399|       2
---------------------------------------------------------------------------
 1306- 1399 (109.96/97.99)	GPltwqqfhKMAGRGSYGTDESPEPLPIptfllgYDYDFlVLSPfaLPYWERLMLEPYG..SQR.DIAYVVLCPENEA..LLNGAKSFFRDLtaiYESC
 1737- 1816 (119.94/64.67)	GP.......GLAMETALKSPDRPECIRL......YTPPF.ILAP..VKDKQTELGETFGeaGQKyNVLFVGYCLSHDQrwILASCTDLYGEL...LETC
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      64.03|      17|     284|       6|      22|       6
---------------------------------------------------------------------------
    6-   22 (32.97/19.14)	VANGASLEDCHCNLFCL
  290-  306 (31.06/17.55)	IPTPSSVASSHCSASCL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     122.82|      37|     815|    1264|    1301|       8
---------------------------------------------------------------------------
 1264- 1301 (61.26/45.76)	WSKRNDMSMQCSQdILRMLLSLQ.PVLQ.DAIQKKRTVRP
 2081- 2119 (61.56/40.84)	WSACPQAQYQCPL.FLKASLHLHvPSVQsDELLHSKHSHP
---------------------------------------------------------------------------




































Explaination for Stockholm format
  The  "Stockholm" format is a system for marking up features in a multiple alignment. These mark-up annotations are preceded by a 'magic' label, of which there are four types. The Stockholm format is used by HMMER, Pfam, and Belvu. Mark-up lines include any characters except whitespace. Underscore ("_") is used instead of space. 

 #=GR (seqname) PP (Generic per-Sequence AND per-Column markup, exactly 1 char per column) where PP is Posterior Probability  [0-9*], (0=0.00-0.05; 1=0.05-0.15; *=0.95-1.00) 
 
 #=GC PP_cons line is Stockholm-format consensus posterior probability annotation for the entire column.  It’s calculated simply as the arithmetic mean of the per-residue posterior probabilities in that column.  This should prove useful in phylogenetic inference applications, for example, where it’s common to mask away non confidently aligned columns of a multiple alignment. The PP_cons line provides an objective measure of the confidence assigned to each column.
 
 #=GC RF line is Stockholm-format reference coordinate annotation, with an x marking each column that the profile considered to be consensus.





Alignment of MDP29674 with Med13 domain of Kingdom Metazoa
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