<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 MDP28163

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMSASFVPNGASLEDCHCNLFCLADLTGIKWKKYVWQGPTSAPILFPVTEEDPILSSFSRCLKADVLGVWRRDQRPGRRELWIFWWGEDPSFADLIHHDLSEEEDGVWENGLSYECRTLLFKAVHNLLERCLMNRNFVRIGKWFVKPYEKDEKPVNKSEHLSCSFTFFLHGDSNVCTSVEINQHQPVYLLSEEHITLAQQSNSPFQVILCPFGLNGTLTGQAFKMSDSATKKLIGEWKQFYPISCCLKEMSEEKQEDMDWEDDSLAAVEVLVAGVRMIYPACFVLVPQSDIPTPSPVGSTHCSSSCLGVHQVPASTRDPAMSSVTLTPPTSPEEVQTVDPQSVQKWVKFSSVSDGFNSDSTSHHGGKIPRKLANHVVDRVWQECNMNRAQNKRKYSASSGGLCEEATAAKVASWDFVEATQRTNCSCLRHKNLKSRNAGQQGQAPSLGQQQQILPKHKTNEKQEKSEKPQKRPLTPFHHRVSVSDDVGMDADSASQRLVISAPDSQVRFSNIRTNDVAKTPQMHGTEMANSPQPPPLSPHPCDVVDEGVTKTPSTPQSQHFYQMPTPDPLVPSKPMEDRIDSLSQSFPPQYQEAVEPTVYVGTAVNLEEDEANIAWKYYKFPKKKDVEFLPPQLPSDKFKDDPVGPFGQESVTSVTELMVQCKKPLKVSDELVQQYQIKNQCLSAIASDAEQEPKIDPYAFVEGDEEFLFPDKKDRQNSEREAGKKHKVEDGTSSVTVLSHEEDAMSLFSPSIKQDAPRPTSHARPPSTSLIYDSDLAVSYTDLDNLFNSDEDELTPGSKKSANGSDDKASCKESKTGNLDPLSCISTADLHKMYPTPPSLEQHIMGFSPMNMNNKEYGSMDTTPGGTVLEGNSSSIGAQFKIEVDEGFCSPKPSEIKDFSYVYKPENYQILVGCSMFAPLKTLPSQYLTPIKLPEECIYRQSWTVGKLELLSSGPSMPFIKEGDGSNMDQEYGPAYTPQTHTSFGMPPSSAPPSNSGAGILPSPSTPRFPTPRTPRTPRTPRGAGGPASAQGSVKYENSDLYSPASTPSTCRPLNSVEPATVPSIPEAHSLYVNLILSESVMNLFKDCNFDSCCICVCNMNIKGADVGVYIPDPTQEAQYRCTCGFSAVMNRKFGNNSGLFLEDELDIIGRNTDCGKEAEKRFEALRATSAEHVNGGLKESEKLSDDLILLLQDQCTNLFSPFGAADQDPFPKSGVISNWVRVEERDCCNDCYLALEHGRQFMDNMSGGKVDEALVKSSCLHPWSKRNDVSMQCSQDILRMLLSLQPVLQDAIQKKRTVRPWGVQGPLTWQQFHKMAGRGSYGTDESPEPLPIPTFLLGYDYDYLVLSPFALPYWERLMLEPYGSQRDIAYVVLCPENEALLNGAKSFFRDLTAIYESCRLGQHRPISRLLTDGIMRVGSTASKKLSEKLVAEWFSQAADGNNEAFSKLKLYAQVCRYDLGPYLASLPLDSSLLSQPNLVAPTSQSLITPPQMTNTGNANTPSATLASAASSTMTVSSGVAISTSVATANSTLTTASTSSSSSSNLNSGVSSNKLPSFPPFGSMNSNAAGSMSTQANTVQSGQLGGQQTSALQTAGISGESSSLPTQPHPDVSESTMDRDKVGIPTDGDSHAVTYPPAIVVYIIDPFTYENTDESTNSSSVWTLGLLRCFLEMVQTLPPHIKSTVSVQIIPCQYLLQPVKHEDREIYPQHLKSLAFSAFTQCRRPLPTSTNVKTLTGFGPGLAMETALRSPDRPECIRLYAPPFILAPVKDKQTELGETFGEAGQKYNVLFVGYCLSHDQRWILASCTDLYGELLETCIINIDVPNRARRKKSSARKFGLQKLWEWCLGLVQMSSLPWRVVIGRLGRIGHGELKDWSCLLSRRNLQSLSKRLKDMCRMCGISAADSPSILSACLVAMEPQGSFVIMPDSVSTGSVFGRSTTLNMQTSQLNTPQDTSCTHILVFPTSASVQVASATYTTENLDLAFNPNNDGADGMGIFDLLDTGDDLDPDIINILPASPTGSPVHSPGSHYPHGGDAGKGQSTDRLLSTEPHEEVPNILQQPLALGYFVSTAKAGPLPDWFWSACPQAQYQCPLFLKASLHLHVPSVQSDELLHSKHSHPLDSNQTSDVLRFVLEQYNALSWLTCDPAIQDRRSCLPIHFVVLNQLYNFIMNML
Length2174
PositionMiddle
OrganismGorilla gorilla gorilla (Western lowland gorilla)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Mammalia> Eutheria> Euarchontoglires> Primates> Haplorrhini> Catarrhini> Hominidae> Gorilla.
Aromaticity0.08
Grand average of hydropathy-0.395
Instability index53.17
Isoelectric point5.40
Molecular weight239352.34
Publications
PubMed=22398555

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	IBA:GO_Central
nucleoplasm	GO:0005654	IEA:Ensembl

GO - Biological Function
thyroid hormone receptor binding	GO:0046966	IEA:Ensembl
transcription coactivator activity	GO:0003713	IEA:Ensembl
transcription coregulator activity	GO:0003712	IBA:GO_Central

GO - Biological Process
positive regulation of transcription initiation from RNA polymerase II promoter	GO:0060261	IEA:Ensembl
regulation of transcription by RNA polymerase II	GO:0006357	IBA:GO_Central









Interaction





Binary Interactions











Repeat regions





Repeats

>MDP28163
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      84.94|      26|      32|    1014|    1042|       1
---------------------------------------------------------------------------
 1014- 1042 (35.47/27.78)	TPRTPRtPRGAGGPASAQgSVKyENSDLY
 1047- 1072 (49.48/24.13)	TPSTCR.PLNSVEPATVP.SIP.EAHSLY
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      82.09|      27|      30|    1494|    1520|       2
---------------------------------------------------------------------------
 1494- 1520 (42.05/22.30)	TNTGNANTPSATLASAASSTMTVSSGV
 1524- 1550 (40.04/20.86)	TSVATANSTLTTASTSSSSSSNLNSGV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      48.91|      13|      35|    1252|    1264|       3
---------------------------------------------------------------------------
 1252- 1264 (24.87/15.87)	DEALVKSSCLHPW
 1290- 1302 (24.03/15.05)	QDAIQKKRTVRPW
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     265.37|      94|     534|       1|     148|       4
---------------------------------------------------------------------------
    6-  117 (151.73/167.63)	VPNGASLEDCHCNLFCLadltGIKWKKYVWQGPT.SAPILFPVT..EE....DPilSSFSRCLK.........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................advlgVWRRDQRPGRRELwifwWGEDPSFADLIHHDLSEEEDgvwENGLSYECRT
  290-  347 (58.99/13.67)	IPTPSPVGSTHCSSSCL....GVHQVPASTRDPAmSSVTLTPPTspEEvqtvDP..QSVQKWVK................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................
  938-  980 (54.66/11.26)	................................................................fssvsdgfnsdstshhggkiprklanhvvdrvwqecnmnraqnkrkysassgglceeataakvaswdfveatqrtncsclrhknlksrnagqqgqapslgqqqqilpkhktnekqeksekpqkrpltpfhhrvsvsddvgmdadsasqrlvisapdsqvrfsnirtndvaktpqmhgtemanspqppplsphpcdvvdegvtktpstpqsqhfyqmptpdplvpskpmedridslsqsfppqyqeaveptvyvgtavnleedeaniawkyykfpkkkdveflppqlpsdkfkddpvgpfgqesvtsvtelmvqckkplkvsdelvqqyqiknqclsaiasdaeqepkidpyafvegdeeflfpdkkdrqnsereagkkhkvedgtssvtvlsheedamslfspsikqdaprptsharppstsliydsdlavsytdldnlfnsdedeltpgskksangsddkasckesktgnldplscistadlhkmyptppsleqhimgfspmnmnnkeygsmdttpggtvlegnsssigaqfkievdegfcspkpseikdfsyvykpenyqilvgcsmfaplktlpsqyltpiklpeecIYRQSWTVGKLEL....LSSGPSMPFIKEGDGSNMDQ...EYGPAYTPQT
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      90.49|      25|      30|     514|     538|       5
---------------------------------------------------------------------------
  514-  538 (48.24/24.58)	NDVAKTPQM.HGTEMANSPQPPPLSP
  546-  571 (42.24/20.52)	EGVTKTPSTpQSQHFYQMPTPDPLVP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      55.91|      16|      28|    1096|    1111|       6
---------------------------------------------------------------------------
 1096- 1111 (32.50/21.09)	CVCN....MNIK.GADVGVYI
 1122- 1142 (23.41/12.99)	CTCGfsavMNRKfGNNSGLFL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      46.08|      14|     533|     917|     934|       9
---------------------------------------------------------------------------
  828-  841 (26.41/ 9.10)	ADLHKM...YPTPPSLE
  918-  934 (19.67/17.51)	APLKTLpsqYLTPIKLP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     194.62|      62|     714|     847|     912|      10
---------------------------------------------------------------------------
  847-  912 (105.29/78.86)	FSPM.NMNNKEYGSMdTTPGGTV.................LEGNSSSIGAQFKIEVDEGFCS.PK...PSEIKDFSYVYKPenyQILV
 1558- 1641 (89.32/54.74)	FPPFgSMNSNAAGSM.STQANTVqsgqlggqqtsalqtagISGESSSLPTQPHPDVSESTMDrDKvgiPTDGDSHAVTYPP...AIVV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      83.09|      25|     500|     487|     512|      15
---------------------------------------------------------------------------
  487-  512 (39.62/27.13)	GMDADSA....SQRLVISAPdSQVRFSNIR
  985- 1013 (43.46/25.12)	GMPPSSAppsnSGAGILPSP.STPRFPTPR
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      49.75|      15|     417|    1361|    1392|      16
---------------------------------------------------------------------------
 1341- 1359 (22.54/18.80)	DYDYLVLSPFAlpywERLM
 1368- 1382 (27.20/24.52)	DIAYVVLCPEN....EALL
---------------------------------------------------------------------------




































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 MDP28163 with Med13 domain of Kingdom Metazoa
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