<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 MDP27871

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMNRNFVRIGKWFVKPYEKDEKPINKSEHLSCSFTFFLHGDSNVCTSVEINQHQPVYLLSEEHITLAQQSNSPFQVILSPFGLNGTLTGQAFKMSDSATKKLIGEWKQFYPISCCFKEMSEEKQEDMDWEDDSLAAVEVLVAGVRMIYPACFVLVPQSDIPAPSSVGSSHCSASCLGVHQVPASTRDPAMSSVTLTPPTSPEEVQTVDPQSAQKWVKFSSVTDGFNSDSTSHHGGKIPRKLANHVVDRVWQECTMNRAQNKRKYSASSGGLCEEETADKVASWDFVEATQRTNCSCLRHKNLKSRNAGQQGQTPSLGQQQQVLPKHKTNEKQEKSEKPQKRPLTPFHHRVSISDDVGMDTDSASQRLVISAPDSQVRFSNIRTNDVAKTPQMHGSEMANSPQPPPLSPHPCDVVDEGVTKTPSTPQSQHFYQMPTPDPLVPSKPLEDRIDSLSQSFPPQFQETVEPTVYVGTAVNLEEDEANIAWKYYKVPKKKDVEFLPPQLPSDKFKDDPVGPFGQESVTSVTELMVQCKKPLKVSDELVQQYQIKNQYLSAIASDAEQEPKIDPYAFVEGDEEFLFPDKKDRQNSERETGKKHKIDDGTSNVTVLSHEEDAMSLFSPSVKQDVPRPTGHARPPSTSLIYDSDLAVSYTDLDNLFNSDEDELTPGSKKSANGSDDKASCKESKTGNLDPLSCISTADLHKMYPTPPSLEQHIMGFSPMNMNNKEYGSMDTTPGGTVLEGNSSSIGAQFKIEVDEGFCSPKPSEIKDFSYVYKPENCQVLVGCSMFAPLKTLPSQCLPPIKLPEECIYRQSWTVGKLELLPSGPTMPFIKEGDGSNLDQEYGPAYTPQTHTSFGMPPSSAPPSNSGAGILPSPSTPRFPTPRTPRTPRTPRGAGGPASAQGSVKYENSDLYSPASTPSTCRPLNSVEPATVPSIPEAHSLYVNLILSESVMNLFKDCNFDSCCICVCNMNIKGADVGVYIPDPTQEAQYRCTCGFSAVMNRKFGNNSGLFLEDELDIIGRNTDCGKEAEKRFEALRATSAEHVNGGLKESEKFPDELILLLQDQCTNLFSPFGAADQDPFPKIGVVSNWVRVEERDCCNDCYLALEHGRQFMDNMSGGKVDEALVKSSCLHPWSKRNDVSMQCSQDILRMLLSLQPVLQDAIQKKRTIRPWGVQGPLTWQQFHKMAGRGSYGTDESPEPLPIPTFLLGYDYDFLVLSPFALPYWERLMLEPYGSQRDIAYVVLCPENEALLNGAKSFFRDLTAIYESCRLGQHRPISRLLTDGIMRVGSTASKKLSEKLVAEWFSQAADGNNEAFSKLKLYAQVCRYDLGPYLASQPLDSSLLSQPNLVTPPSQSLITPSQMASTGNTNTPSATLASAASSTMTVTSGVALPTSVATANSTLTTTSSSSSSSLNSGASSNKLPSFPPFGSMSSSATGSMSAQASAVQNGQLGGQQSSTLQTAGISGESSSLPTQPHPDVSESTMDRDKVGIPTDGDSHAITYPPAIVVYIIDPFTYENKDEGTNSSNVWTLGLLRCFLEMVQTLPPHIKSTVSVQIVPCQYLLQPVKHEDRQIYTQHLKSLAFSAFTQCRRPLPTSTNVKTLTGFGPGLAMETALKSPDRPECIRLYTPPFILAPVKDKQTELGETFGEAGQKYNVLFVGYCLSHDQRWILASCTDLYGELLETCIINIDVPNRARRKKGSARRFGLQKLWEWCLGLVQMSSLPWRVVIGRLGRIGHGELKDWSCLLSRRNLQSLSKRLKDMCRMCGISAADSPSILSACLVAMEPQGSFVIMPDSVSTGSVFGRSTTLNMQTSQLNTPQDTSCTHILVFPTSASVQVASATYTTENLDLAFNPNNDGADAMGIFDLLDTADDLDPDIINILPASPTGSPVHSPGSHYPHGGDAGKGQGTDRLLSTESHDEVTNILQQPLALGYFVSTAKAGPLPDWFWSACPQAQYQCPLFLKASLHLHVPSVQSDELLHSKHSHPLDSNQTSDVLRFVLEQYNALSWLTCDPAIQDRRSCLPIHFVVLNQLYNFIMNML
Length2041
PositionMiddle
OrganismOryctolagus cuniculus (Rabbit)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Mammalia> Eutheria> Euarchontoglires> Glires> Lagomorpha> Leporidae> Oryctolagus.
Aromaticity0.07
Grand average of hydropathy-0.409
Instability index51.93
Isoelectric point5.45
Molecular weight224062.10
Publications
PubMed=21993624

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. 
ECO:0000256	RuleBase:RU364134
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

>MDP27871
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     506.02|     136|     201|     159|     311|       1
---------------------------------------------------------------------------
  159-  299 (218.43/106.92)	IPAP.SSVGSSHCSASCLGVHQVPASTRDPAMSSVTLTPPTSPEEVQTVDPQSAQKWVKFSSVTDGFNSDSTShhGGKIPRKLANHVVDRVWQEC..TMNRAQNKRKYSASSGGLcEEETADkVAsWDFVEATQRTNCSCLRHK
  368-  501 (215.71/91.56)	ISAPdSQVRFSNIRTN..DVAKTP.QMHGSEMANSPQPPPLSPHPCDVVD.EGVTK.TPSTPQSQHFYQMPTP..DPLVPSKPLEDRIDSLSQSFppQFQETVEPTVYVGTAVNL.EEDEAN.IA.WKYYKVPKKKDVEFLPPQ
  857-  917 (71.89/23.68)	...P.SSAPPSN...SGAGILPSPSTPRFP..TPRTPRTPRTPRGAG..GPASAQGSVKYEN.SDLYSPASTP.......................................................................
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     131.50|      38|     201|    1593|    1630|       2
---------------------------------------------------------------------------
 1593- 1630 (68.19/39.69)	LPTSTNVKTLTGFGPGLAMETA.LKSPDRPECIRLYTPP
 1793- 1831 (63.30/36.26)	MPDSVSTGSVFGRSTTLNMQTSqLNTPQDTSCTHILVFP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     136.81|      43|     847|    1121|    1170|       3
---------------------------------------------------------------------------
 1121- 1170 (65.90/64.65)	DEaLVKSSCLHPWSkrndvSMQCSqDILRMLL....SLQPVLQD.AIQKKRTIRP
 1977- 2024 (70.90/47.30)	DE.LLHSKHSHPLD.....SNQTS.DVLRFVLeqynALSWLTCDpAIQDRRSCLP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     124.30|      36|     209|    1218|    1288|       7
---------------------------------------------------------------------------
  760-  796 (65.98/22.46)	PKPSEiKDFSY.VYKPENCQVLVGC.SMFAPLKTLPSQC
 1231- 1268 (58.32/52.98)	PYGSQ.RDIAYvVLCPENEALLNGAkSFFRDLTAIYESC
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     186.99|      60|     736|     663|     739|       9
---------------------------------------------------------------------------
  592-  661 (88.60/45.06)	GKKHKI...DDGTSNVTVLSHEEDAMSLFSPSvkqDVPR..PTgharPPStslIYDSDLAVSYTDLDNLFNSDED
  666-  730 (98.40/68.84)	GSKKSAngsDDKASCKESKTGNLDPLSCISTA...DLHKmyPT....PPS...LEQHIMGFSPMNMNNKEYGSMD
---------------------------------------------------------------------------




































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 MDP27871 with Med13 domain of Kingdom Metazoa


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) CLRHKNLKSRNAGQQGQTPSLGQQQQVLPKHKTNEKQEKSEKPQKRPLTPFHHRVSISDDVGMDTDSASQRLVISAPDSQVRFSNIRTNDVAKTPQMHGSEMANSPQPPPLSPHPCDVVDEGVTKTPSTPQSQHFYQMPTPDPLVPSKPLEDRIDSLSQSFP
2) DLDNLFNSDEDELTPGSKKSANGSDDKASCKE
3) GPTMPFIKEGDGSNLDQEYGPAYTPQTHTSFGMPPSSAPPSNSGAGILPSPSTPRFPTPRTPRTPRTPRGAGGPASAQGSVKYENS
4) PTSVATANSTLTTTSSSSSSSLNSGASSNKLPSFPPFGSMSSSATGSMSAQASAVQNGQLGGQQSSTLQTAGISGESSSLPTQPHPDVSESTMDRDKVGIPTDGD
5) SPVHSPGSHYPHGGDAGKGQGTDRLLSTESH
6) VTPPSQSLITPSQMASTGNTNTPSATLASAA
295
651
823
1392
1889
1349
456
682
908
1496
1919
1379










Molecular Recognition Features






MoRF SequenceStartStop




1) VEGDE
570
574