<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 MDP27470

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMSASFVPNGASLEDCHCNLFCLADLTGIKWKKYVWQGPTSAPILFPVTEEDPILSSFSRCLKADVLGVWRRDQRPGRRELWIFWWGEDPNFADLIHHDLSEEEDGVWENGLSYECRTLLFKAVHNLLERCLMNRNFVRIGKWFVKPYEKDEKPINKSEHLSCSFTFFLHGDSNVCTSVEINQHQPVYLLSEEHITLAQQSNSPFQVILCPFGLNGTLTGQAFKMSDSATKKLIGEWKQFYPISCCLKEMSEEKQEDMDWEDDSLAAVEVLVAGVRMIYPACFVLVPQSDIPTPSPVGSTHCSSSCLGVHQVPASTRDPAMSSVTLTPPTSPEEVQTVDPQSAQKWVKFSSVSDGFNSDSTSHHGGKIPRKLANHVVDRVWQECNMNRAQNKRKYSASSGGLCEEVTAAKVASWDFVEATQRTNCSCLRHKNLKSRNAGQQGQAPSLGQQQQILPKHKTNEKQEKSEKPQKRPLTPFHHRVSVSDDVGMDTDSASQRLVISAPDSQVRFSSIRTNDVAKTPQMHGTEMANSPQPPPLSPHPCDVVDEGVTKTPSTPQSQHFYQMPTPDPLVPSKPMEDRIDSLSQSFPPQYQEAVEPTVYVGTAVNLEEDEANIAWKYYKVPKKKDVEFLPPQLPSDKFKDDPVGPFGQESVTSVTELMVQCKKPLKISDELVQQYQIKNQYLSAIASDAEQEPKIDPYAFVEGDEEFLFPDKKDRQNSEREAGKKHKVEDGTSSVTVLSHEEDAMSLFSPSIKQDAPRPASHARPPSTSLIYDSDLAVSFTDLDNLFNSDEDELTPGSKKSANGSDDKTSCKESKTGNLDPLSCISTADLHKMYPTPPSLEQHIMGFSPMNMNNKEYGSMDTTPGGTVLEGNSSSIGAQFKIEVDEGFCSPKPSEIKDFSYVYKPENCQILVGCSMFAPLKTLPSQYLPPIKLPEECIYRQSWTVGKLELLSSGSTMPFIKEGYDLCCYNNPTQEAQYSAIMNRKFGNSSGLFLEDELDIIGRNTDCGKEAEKRFEALRGTSAEHVNGGLKESEKLSDDLILLLQDQCTNLFSPFGAADQDPFPKSGVISNWVRVEERDCCNDCYLALEHGRQFMDNMSGGKVDEALVKSSCLHPWSKRNDVSMQCSQDILRMLLSLQPVLQDAIQKKRTVRPWGVQGPLTWQQFHKMAGRGSYGTDESPEPLPIPTFLLGYDYDYLVLSPFALPYWERLMLEPYGSQRDIAYVVLCPENEALLNGAKSFFRDLTAIYESCRLGQHRPVSRLLTDGIMRVGSTASNKLSEKLVAEWFSQAADGNNEAFSKLKLYAQVCRYDLGPYLASLPLDSSLLSQPNLVAPTSQSLITPPQMTNTGNANTPSATLASAASSTMTMTSGVAISTSVATANSTLTTASTSSSSSSNLNSGVSSNKLPSFPPFGSMNSNAAGSMSTQANTVQSGQLGGQQTSTLQTAGISGESSSLPTQPHPDVSESTMDRDKVGIPTDGDSHAITYPPAIVVYIIDPFTYENTDESANSSSVWTLGLLRCFLEMVQTLPPHIKSTVSVQIIPCQYLLQPVKHEDREIYPQHLKSLAFSAFTQCRRPLPTSTNVKTLTGFGPGLAMETALRSPDRPECIRLYAPPFILAPVKDKQTELGETFGEAGQKYNVLFVGYCLSHDQRWILASCTDLYGELLETCIINIDVPNRARRKKSSARKFGLQKLWEWCLGLVQMSSLPWRVVIGRLGRIGHGELKDWSCLLSRRNLQSLSKRLKDMCRMCGISAADSPSILSACLVAMEPQGSFVIMPDSVSTGSVFGRSTTLNMQTSQLNTPQDTSCTHILVFPTSASVQVASATYTTENLDLAFNPNNDGADGMGIFDLLDTGDDLDPDIINILPASPTGSPVHSPGSHYPHGGDVGKGQSTDRLLSTEPHEEVPNILQQPLALGYFVSTAKAGPLPDWFWSACPQAQYQCPLFLKASLHLHVPSVQSDELLHSKHSHPLDSNQTSDVLRFVLEQYNALSWLTCDPAIQDRRSCLPIHFVVLNQLYNFIMNML
Length2026
PositionMiddle
OrganismMacaca mulatta (Rhesus macaque)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Mammalia> Eutheria> Euarchontoglires> Primates> Haplorrhini> Catarrhini> Cercopithecidae> Cercopithecinae> Macaca.
Aromaticity0.08
Grand average of hydropathy-0.394
Instability index53.43
Isoelectric point5.36
Molecular weight223938.27
Publications
PubMed=17431167
PubMed=25319552

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

>MDP27470
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      81.53|      24|      26|     905|     929|       1
---------------------------------------------------------------------------
  905-  929 (41.45/30.30)	PENCqILVGCSMFAPLKTLPS.QYLP
  934-  958 (40.08/24.14)	PEEC.IYRQSWTVGKLELLSSgSTMP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     229.70|      63|     865|     563|     635|       2
---------------------------------------------------------------------------
  532-  564 (49.19/22.45)	QPPPLSP.HPC..DVV......DEGVTKTPstPQ.SQ........................HFYQMP..................
  565-  634 (105.15/74.73)	TPDPLVPSKPME.DRI......DSLSQSFP..PQ.YQEAVEPTVYVGTAvnlEEDEANIAWKYYKVP.....kkkdVEFLPPQLP
 1460- 1534 (75.36/41.95)	.PHPDVSESTMDrDKVgiptdgDSHAITYP..PAiVVYIIDPFTYENTD...ESANSSSVWTL....gllrcflemVQTLPPHIK
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      50.33|      12|     865|     520|     531|       3
---------------------------------------------------------------------------
  520-  531 (25.55/16.64)	PQMHGTEMANSP
 1343- 1354 (24.79/15.90)	PQMTNTGNANTP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     138.26|      50|     865|     209|     264|       4
---------------------------------------------------------------------------
  209-  232 (27.53/10.33)	.................................CPFGLNGTLTGQAFKMSDSATKKL
  233-  263 (29.28/27.65)	IGEWKQFYPiscclKEMSEEKQEDMDWEDDS..........................
  446-  497 (81.45/53.05)	LGQQQQILP.....KHKTNEKQEKSEKPQKRplTPFHHRVSVSDDVGMDTDSASQRL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      79.13|      22|      26|    1180|    1201|       6
---------------------------------------------------------------------------
 1180- 1201 (42.16/26.91)	P..EPLPIPTFLLGYDYDYLVLSP
 1205- 1228 (36.97/22.55)	PywERLMLEPYGSQRDIAYVVLCP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      62.12|      21|     870|     707|     728|       7
---------------------------------------------------------------------------
  707-  728 (34.26/26.28)	FLFPDKKDRQN..SE..rEAGKKHKV
 1616- 1641 (27.87/15.69)	FILAPVKDKQTelGEtfgEAGQKYNV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     250.65|      86|     589|     760|     879|       8
---------------------------------------------------------------------------
  760-  879 (120.96/112.27)	ASHARPPSTSLIYDSDLAVSFTdldnlFNSDEDELTPGSKKSANGSddktsckesktgNLDplSCISTADLHkmyptppsleqhimGFSPM.NMNNKEYGSMdTTPGGTV.................LEGNSSSIGAQ
 1356- 1459 (129.69/62.79)	ATLASAASSTMTMTSGVAISTS.....VATANSTLTTASTSSSSSS............NLN..SGVSSNKLP..............SFPPFgSMNSNAAGSM.STQANTVqsgqlggqqtstlqtagISGESSSLPTQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      77.31|      22|     589|     383|     404|      12
---------------------------------------------------------------------------
  383-  404 (41.84/25.34)	CNMNRAQNKRKYSA........SSGGLCEE
  967-  996 (35.47/20.31)	CCYNNPTQEAQYSAimnrkfgnSSGLFLED
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     182.62|      53|    1578|     279|     340|      13
---------------------------------------------------------------------------
  279-  340 (85.10/59.05)	PACFVLVPQSdiPTPSPVGSThcsssclGVHQVPASTRDPAMSSVTLTPPTSPEEVQTVDPQ
 1861- 1913 (97.52/48.59)	PDIINILPAS..PTGSPVHSP.......GSHYPHGGDVGKGQSTDRLLSTEPHEEVPNILQQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      73.27|      22|     309|     737|     759|      15
---------------------------------------------------------------------------
  737-  759 (36.29/21.44)	VLSHEEDAMSLFSP..SIKQDaPRP
 1041- 1064 (36.98/17.93)	ILLLQDQCTNLFSPfgAADQD.PFP
---------------------------------------------------------------------------




































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 MDP27470 with Med13 domain of Kingdom Metazoa
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