<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 MDP19904

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMSASFVPNGASLEDCHCNLFCLADLTGIKWKKYVWQGPTSAPILFPVTEEDPILSSFSRCLKADVLGVWRRDQRPGRRELWIFWWGEDPSFADLIHHDLSEEEDGVWENGLSYECRTLLFKAVHNLLERCLMNRNFVRIGKWFVKPYEKDEKPINKSEHLSCSFTFFLHGDSNVCTSVEINQHQPVYLLSEEHITLAQQSNSPFQVILCPFGLNGTLTGQAFKMSDSATKKLIGEWKQFYPISCCLKEMSEEKQEDMDWEDDSLAAVEVLVAGVRMIYPACFVLVPQSDIPTPSPVGSTHCSSSCLGVHQVPASTRDPAMSSVTLTPPTSPEEVQTVDPQSVQKWVKFSSVSDGFNSDSTSHHGGKIPRKLANHVVDRVWQECNMNRAQNKRKYSASSGGLCEEATAAKVASWDFVEATQRTNCSCLRHKNLKSRNAGQQGQAPSLGQQQQILPKHKTNEKQEKSEKPQKRPLTPFHHRVSVSDDVGMDADSASQRLVISAPDSQVRFSNIRTNDVAKTPQMHGAEMANSPQPPPLSPHPCDVVDEGVTKTPSTPQSQHFYQMPTPDPLVPSKPMEDRIDSLSQSFPPQYQEAVEPTVYVGTAVNLEEDEADIAWKYYKFPKKKDVEFLPPQLPSDKFKDDPVGPFGQESVTSVTELMVQCKKPLKVSDELVQQYQIKNQCLSAIASDAEQEPKIDPYAFVEGDEEFLFPDKKDRQNSEREAGKKHKVEDGTSSVTVLSHEEDAMSLFSPSIKQDAPRPTSHARPPSTSLIYDSDLAVSYTDLDNLFNSDEDELTPGSKKSANGSDDKASCKESKTGNLDPLSCISTADLHKMYPTPPSLEQHIMGFSPMNMNNKEYGSMDTTPGGTVLEGNSSSIGAQFKIEVDEGFCSPKPSEIKDFSYVYKPENCQILVGCSMFAPLKTLPSQYLPPIKLPEECIYRQSWTVGKLELLSSGPSMPFIKEGDGSNMDQEYGPAYTPQTHTSFGMPPSSAPPSNSGAGILPSPSTPRFPTPRTPRTPRTPRGAGGPASAQGSVKYENSDLYSPASTPSTCRPLNSVEPATVPSIPEAHSLYVNLILSESVMNLFKDCNFDSCCICVCNMNIKGADVGVYIPDPTQEAQYRCTCGFSAVMNRKFGNNSGLFLEDELDIIGRNTDCGKEAEKRFEALRATSAEHVNGGLKESEKLSDDLILLLQDQCTNLFSPFGAADQDPFPKSGVISNWVRVEERDCCNDCYLALEHGRQFMDNMSGGKVDEALVKSSCLHPWSKRNDVSMQCSQDILRMLLSLQPVLQDAIQKRTVRPWGVQGPLTWQQFHKMAGRGSYGTDESPEPLPIPTFLLGYDYDYLVLSPFALPYWERLMLEPYGSQRDIAYVVLCPENEALLNGAKSFFRDLTAIYESCRLGQHRPISRLLTDGIMRVGSTASKKLSEKLVAEWFSQAADGNNEAFSKLKLYAQVCRYDLGPYLASLPLDSSLLSQPNLVAPTSQSLITPPQMTNTGNANTPSATLASAASSTMTVTSGVAISTSVATANSTLTTASTSSSSSSNLNSGVSSNKLPSFPPFGSMNSNAAGSMSTQANTVQSGQLGGQQTSALQTAGISGESSSLPTQPHPDVSESTMDRDKVGIPTDGDSHAVTYPPAIVVYIIDPFTYENTDESTNSSSVWTLGLLRCFLEMVQTLPAHIKSTVSVQIIPCQYLLQPVKHEDREIYPQHLKSLAFSAFTQCRRPLPTSTNVKTLTGFGPGLAMETALRSPDRPECIRLYAPPFILAPVKDKQTELGETFGEAGQKYNVLFVGYCLSHDQRWILASCTDLYGELLETCIINIDVPNRARRKKSSARKFGLQKLWEWCLGLVQMSSLPWRVVIGRLGRIGHGELKDWSCLLSRRNLQSLSKRLKDMCRMCGISAADSPSILSACLVAMEPQGSFVIMPDSVSTGSVFGRSTTLNMQTSQLNTPQDTSCTHILVFPTSASVQVASATYTTENLDLAFNPNNDGADGMGIFDLLDTGDDLDPDIINILPASPTGSPVHSPGSHYPHGGDAGKGQSTDRLLSTEPHEEVPNILQQPLALGYFVSTAKAGPLPDWFWSACPQAQYQCPLFLKASLHLHVPSVQSDELLHSKHSHPLDSNQTSDVLRFVLEQYNALSWLTCDPAIQDRRSCLPIHFVVLNQLYNFIMNML
Length2173
PositionMiddle
OrganismPan paniscus (Pygmy chimpanzee) (Bonobo)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Mammalia> Eutheria> Euarchontoglires> Primates> Haplorrhini> Catarrhini> Hominidae> Pan.
Aromaticity0.08
Grand average of hydropathy-0.389
Instability index52.73
Isoelectric point5.37
Molecular weight239133.13
Publications
PubMed=22722832

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
positive regulation of transcription initiation from RNA polymerase II promoter	GO:0060261	IEA:Ensembl









Interaction





Binary Interactions











Repeat regions





Repeats

>MDP19904
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     186.12|      58|      68|     842|     909|       1
---------------------------------------------------------------------------
  844-  905 (94.93/67.10)	IMG...FSPMNMNNKEYGSMDTTPGGTVLEgNSSSIGaqfKIE.VDEGFCSP..KPSEIKDFSYVYKP
  911-  974 (91.19/40.54)	LVGcsmFAPLKTLPSQYLPPIKLPEECIYR.QSWTVG...KLElLSSGPSMPfiKEGDGSNMDQEYGP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     128.04|      39|      61|     463|     503|       2
---------------------------------------------------------------------------
  463-  503 (63.59/40.99)	EKSEKPQKRPLTPfhHRVSVSDD.VG.MDADSASQRLV.ISAPD
  526-  567 (64.45/35.06)	EMANSPQPPPLSP..HPCDVVDEgVTkTPSTPQSQHFYqMPTPD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     351.99|      86|     714|     746|     841|       3
---------------------------------------------------------------------------
  289-  344 (61.05/23.08)	DIPTPS....PVGSTHCSSSCLGVHQvpaSTRDPAMSS..VTLTpPTSPEEVQT.VDPQSVQK...............................
  702-  743 (29.10/ 6.17)	....................................EGDEEFLF.P.DKKDRQN.SEREAGKKHKVEDGTSSVTVLShEE.D............
  755-  840 (143.53/88.62)	DAPRPTSHARPPSTSLIYDSDLAVSY...TDLDNLFNSDEDELT.PGSKKSANG.SDDKASCKESKTGNLDPLSCIS.TA.DLHKMYP.TPPSL
  982- 1065 (118.31/57.72)	.....TSFGMPPSSAPPSNSGAGILP...SPSTPRFPTPRTPRT.PRTPRGAGGpASAQGSVKYENSDLYSPASTPS.TCrPLNSVEPaTVPSI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      69.62|      21|     713|     625|     661|       4
---------------------------------------------------------------------------
  568-  594 (29.03/ 8.25)	PLVPSKPMEDriDSLSqsfpPQYQEAV
  631-  651 (40.59/25.51)	PQLPSDKFKD..DPVG....PFGQESV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     684.81|     224|    1725|      41|     288|      12
---------------------------------------------------------------------------
   41-  288 (365.09/279.96)	AP..ILFPVTEEDPILS.SFSRC.LKADVLGV...WRRDQRpgrrelWIF.....WWGE..DPSFADL.IHHDLSEEEDGVWENGLS..YE.CRTLLfkAVHNLLERCLMNRnFVRIGK.....WFVKPYEKDEKPINKSEHLSCSFTFFLHGDSNVCTSVEINQHQPvyllsEEHITLAQQSNSPFQVilcpFGLNGTLTGQAFKMS...DSATKKLIgewkqFYPISCCLKEMSEE.KQEDMDW.....ED..DSLAAVEVLVAGVRMiYPACFVLVPQS
 1760- 2017 (319.73/196.13)	APpfILAPVKDKQTELGeTFGEAgQKYNVLFVgycLSHDQR......WILasctdLYGEllETCIINIdVPNRARRKKSSARKFGLQklWEwCLGLV..QMSSLPWRVVIGR.LGRIGHgelkdWSCLLSRRNLQSLSKRLKDMCRMCGISAADSPSILSACLVAMEP.....QGSFVIMPDSVSTGSV....FGRSTTLNMQTSQLNtpqDTSCTHIL.....VFPTSASVQVASATyTTENLDLafnpnNDgaDGMGIFDLLDTGDDL.DPDIINILPAS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      51.48|      16|      29|    1504|    1519|      15
---------------------------------------------------------------------------
 1504- 1519 (25.62/12.70)	TLASAASSTMTVTSGV
 1534- 1549 (25.86/12.89)	TASTSSSSSSNLNSGV
---------------------------------------------------------------------------




































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 MDP19904 with Med13 domain of Kingdom Metazoa
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