<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 MDP30162

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMSASFVPNGASLEDCHCNLFCLADLTGIKWKKYVWQGPTSAPILFPVTEEDPILSSFSRCLKADVLGVWRRDQRPGRRELWIFWWGEDPSFADLIHHDLSEEEDGVWENGLSYECRTLLFKAVHNLLERCLMNRNFVRIGKWFVKPYEKDEKPINKSEHLSCSFTFFLHGDSNVCTSVEINQHQPVYLLSEEHITLAQQSNSPFQVILCPFGLNGTLTGQAFKMSDSATKKLIGEWKQFYPISCCLKEMSEEKQEDMDWEDDSLAAVEVLVAGVRMIYPACFVLVPQSDIPTPSPVGSTHCSSSCLGVHQVPASTRDPAMSSVTLTPPTSPEEVQTVDPQSVQKWVKFSSVSDGFNSDSTSHHGGKIPRKLANHVVDRVWQECNMNRAQNKRKYSASSGGLCEEATAAKVASWDFVEATQRTNCSCLRHKNLKSRNAGQQGQAPSLGQQQQILPKHKTNEKQEKSEKPQKRPLTPFHHRVSVSDDVGMDADSASQRLVISAPDSQVRFSNIRTNDVAKTPQMHGAEMANSPQPPPLSPHPCDVVDEGVTKTPSTPQSQHFYQMPTPDPLVPSKPMEDRIDSLSQSFPPQYQEAVEPTVYVGTAVNLEEDEADIAWKYYKFPKKKDVEFLPPQLPSDKFKDDPVGPFGQESVTSVTELMVQCKKPLKVSDELVQQYQIKNQCLSAIASDAEQEPKIDPYAFVEGDEEFLFPDKKDRQNSEREAGKKHKVEDGTSSVTVLSHEEDAMSLFSPSIKQDAPRPTSHARPPSTSLIYDSDLAVSYTDLDNLFNSDEDELTPGSKKSANGSDDKASCKESKTGNLDPLSCISTADLHKMYPTPPSLEQHIMGFSPMNMNNKEYGSMDTAPGGTVLEGNSSSIGAQFKIEVDEGFCSPKPSEIKDFSYVYKPENCQILVGCSMFAPLKTLPSQYLPPIKLPEECIYRQSWTVGKLELLSSGPSMPFIKEGDGSNMDQEYGPAYTPQTHTSFGMPPSSAPPSNSGAGILPSPSTPRFPTPRTPRTPRTPRGAGGPASAQGSVKYENSDLYSPASTPSTCRPLNSVEPATVPSIPEAHSLYVNLILSESVMNLFKDCNFDSCCICVCNMNIKGADVGVYIPDPTQEAQYRCTCGFSAVMNRKFGNNSGLFLEDELDIIGRNTDCGKEAEKRFEALRATSAEHVNGGLKESEKLSDDLILLLQDQCTNLFSPFGAADQDPFPKSGVISNWVRVEERDCCNDCYLALEHGRQFMDNMSGGKVDEALVKSSCLHPWSKRNDVSMQCSQDILRMLLSLQPVLQDAIQKKRTVRPWGVQGPLTWQQFHKMAGRGSYGTDESPEPLPIPTFLLGYDYDYLVLSPFALPYWERLMLEPYGSQRDIAYVVLCPENEALLNGAKSFFRDLTAIYESCRLGQHRPISRLLTDGIMRVGSTASKKLSEKLVAEWFSQAADGNNEAFSKLKLYAQVCRYDLGPYLASLPLDSSLLSQPNLVAPTSQSLITPPQMTNTGNANTPSATLASAVSSTMTVTSGVAISTSVATANSTLTTASTSSSSSSNLNSGVSSNKLPSFPPFGSMNSNAAGSMSTQANTVQSGQLGGQQTSALQTAGISGESSSLPTQPHPDVSESTMDRDKVGIPTDGDSHAVTYPPAIVVYIIDPFTYENTDESTNSSSVWTLGLLRCFLEMVQTLPPHIKSTVSVQIIPCQYLLQPVKHEDREIYPQHLKSLAFSAFTQCRRPLPTSTNVKTLTGFGPGLAMETALRSPDRPECIRLYAPPFILAPVKDKQTELGETFGEAGQKYNVLFVGYCLSHDQRWILASCTDLYGELLETCIINIDVPNRARRKKSSARKFGLQKLWEWCLGLVQMSSLPWRVVIGRLGRIGHGELKDWSCLLSRRNLQSLSKRLKDMCRMCGISAADSPSILSACLVAMEPQGSFVIMPDSVSTGSVFGRSTTLNMQTSQLNTPQDTSCTHILVFPTSASVQVASATYTTENLDLAFNPNNDGADGMGIFDLLDTGDDLDPDIINILPASPTGSPVHSPGSHYPHGGDAGKGQSTDRLLSTEPHEEVPNILQQPLALGYFVSTAKAGPLPDWFWSACPQAQYQCPLFLKASLHLHVPSVQSDELLHSKHSHPLDSNQTSDVLRFVLEQYNALSWLTCDPAIQDRRSCLPIHFVVLNQLYNFIMNML
Length2174
PositionMiddle
OrganismPan troglodytes (Chimpanzee)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Mammalia> Eutheria> Euarchontoglires> Primates> Haplorrhini> Catarrhini> Hominidae> Pan.
Aromaticity0.08
Grand average of hydropathy-0.390
Instability index52.84
Isoelectric point5.38
Molecular weight239285.36
Publications
PubMed=16136131

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

>MDP30162
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     145.74|      30|      31|     951|     980|       1
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  951-  980 (54.57/29.03)	LSSGP.SMPFIKEGDGSNMDQE.YGPAY.TPQT
  984- 1014 (44.43/22.00)	FGMPPsSAPPSNSGAG.ILPSP.STPRFpTPRT
 1020- 1050 (46.74/23.60)	TPRGA.GGPASAQGSVKYENSDlYSPAS.TPST
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     568.96|     173|     714|     746|     948|       2
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  483-  588 (69.04/20.67)	..........................................................................SDDVGMDADSASQRLvisAPdsqvrFSNIRTNDVAKtpqmhgaemanSPQPPPLSPHpcdVVdeGVtkTPS.TPQSQHFYQM.................................PT.PDPLVPSKPME.DR......IDSLSQSFPP............................................
  746-  948 (267.86/173.57)	SLFSpsikqdapRPTSHArPPSTSLIYDSDLavsyTDLDNLfNSDEDELTPG...............SKKSANGSDDKASCKESKTGNL...DP.....LSCISTADLHK..........mYPTPPSLEQH...IM..GF..SPM.NMNNKEYGSMDTaPGGTV.................LEGNSSSIGAQFKIEVDEGFCS.PK...PSEIKDFSYVYKPENCQILVGcsmfaplktlPSQYlppiKLPEECIYRQS.WTVGKL
 1472- 1667 (232.06/105.77)	SLLS........QPNLVA.PTSQSLITPPQM....TNTGNA.NTPSATLASAvsstmtvtsgvaistSVATANSTLTTASTSSSSSSNL...N.......SGVSSNKLP.............................SF..PPFgSMNSNAAGSMST.QANTVqsgqlggqqtsalqtagISGESSSLPTQPHPDVSESTMDrDKvgiPTDGDSHAVTYPPAIVVYIID..........PFTY....ENTDESTNSSSvWTLGLL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     123.78|      36|     713|     625|     661|       3
---------------------------------------------------------------------------
  323-  344 (33.78/12.85)	.VTLTPPTSP..............EEVQTVDPQSVQK
  345-  364 (27.82/ 9.06)	WVKFSS...VSDGFNSDSTSHHG..............
  625-  661 (62.18/33.48)	DVEFLPPQLPSDKFKDDPVGPFGqESVTSVTELMVQC
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     195.12|      65|     254|     409|     482|       7
---------------------------------------------------------------------------
  409-  482 (93.24/83.94)	KVASwDFVEATQRTNcSCLrhknlkSRNAGQQGQAPSL.......GQQQQILPKHKTNEKQEKsEKPQKRPLTPFHHRVSV
  666-  737 (101.88/62.70)	KVSD.ELVQQYQIKN.QCL......SAIASDAEQEPKIdpyafveGDEEFLFPDKKDRQNSER.EAGKKHKVEDGTSSVTV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     654.68|     217|    1726|      41|     309|       8
---------------------------------------------------------------------------
   41-  290 (345.51/286.77)	AP..ILFPVTEEDPILS.SFSRC.LKADVLGV...WRRDQRpgrrelWIF.....WWGE..DPSFADL.IHHDLSEEEDGVWENGLS..YE.CRTLLfkAVHNLLERCLMNRnFVRIGK.....WFVKPYEKDEKPINKSEHLSCSFTFFLHGDSNVCTSVEINQHQPvyllsEEHITLAQQSNSPFQVilcpFGLNGTLTGQAFKMS...DSATKKLIgewkqFYPISCCLKEMSEE.KQEDMDW.....ED..DSLAAVEVLVAGVRMiYPacfvlvpqsDI
 1761- 2011 (309.18/174.85)	APpfILAPVKDKQTELGeTFGEAgQKYNVLFVgycLSHDQR......WILasctdLYGEllETCIINIdVPNRARRKKSSARKFGLQklWEwCLGLV..QMSSLPWRVVIGR.LGRIGHgelkdWSCLLSRRNLQSLSKRLKDMCRMCGISAADSPSILSACLVAMEP.....QGSFVIMPDSVSTGSV....FGRSTTLNMQTSQLNtpqDTSCTHIL.....VFPTSASVQVASATyTTENLDLafnpnNDgaDGMGIFDLLDTGDDL.DP.........DI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      92.07|      26|      28|    1098|    1125|       9
---------------------------------------------------------------------------
 1100- 1125 (49.62/36.86)	MNIK.GADVGVYIPDPTQEAQYRCTCG
 1130- 1156 (42.45/22.80)	MNRKfGNNSGLFLEDELDIIGRNTDCG
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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 MDP30162 with Med13 domain of Kingdom Metazoa
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