<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 MDP29684

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMTAAANWVANGASLEDCHSNLFSLAELTGIKWRRYNFGGHGDCGPIISAPAQDDPILLSFIRCLQANLLCVWRRDVKPDCKELWIFWWGDEPNLVGVIHHELQVVEEGLWENGLSYECRTLLFKAIHNLLERCLMDKNFVRIGKWFVRPYEKDEKPVNKSEHLSCAFTFFLHGESNVCTSVEIAQHQPIYLISEEHIHMAQSSPAPFQVLVSPYGLNGTLTGQAYKMSDPATRKLIEEWQYFYPMVLKKKEELKEEEELGYDDDFPVAVEVIVGGVRMVYPSAFVLISQNDIPVPQSVATAGGHITVGQPGLGSVKDPSNCGMPLTPPTSPEQAITGESGVMQSATSHLGSQDGGMVTMHSPKRSGKIPPKLHNHMVHRVWKECILNRTQSKRSQMSTPTLEEEPANNPATWDFVDPTQRVSCSCSRHKLLKRCAVGPSRPPTMSQPGFSAGPSSSSSLPPPASSKHKTTERQEKGDKLQKRPLIPFHHRPSVAEELCMEQDTPGQKLGLAGMDSSLEVSSSRKYDKQMAVPSRNTSKQMNLNPMDSPHSPISPLPPTLSPQPRGQETESLDPPSVPVNPALYGNGLELQQLSTLDDRTVLVGQRLPLMAEVSETALYCGIRPSNPESSDKWWHSFRLPASDDAEFRPPELQGERCDAKMEVNSESTALQRLLAQPNKRFKIWQDKQPQMQSLHFLDPLPLSQQPGDSLGEVNDPYTFEDGDIKYIFTANKKCKQGTEKDSLKKNKSEDGFGTKDVTTPGHSTPVPDGKNAMSIFSSATKTDVRQDNAAGRAGSSSLTQVTDLAPSLHDLDNIFDNSDDDELGAVSPALRSSKMPTVGTEDRPLGKDGRAAVPYPPTVADLQRMFPTPPSLEQHPAFSPVMNYKDGISSETVSALGMMESPMVSMVSTHLTEFKMEVEDGLGSPKPEEIKDFSYVHRVPPFQPFVGSSMFAPLKMLPSHCLLPLKIPDACLFRPSWAIPPKIEQLPMPPAATFIRDGYNNVPSVGSLADPDYLNTPQMNTPVTLNSAAPASNSGAGVLPSPATPRFSVPTPRTPRTPRTPRGGGTASGQGSVKYDSTDQGSPASTPSTTRPLNSVEPATMQPIPEAHSLYVTLILSDSVMNIFKDRNFDSCCICACNMNIKGADVGLYIPDSSNEDQYRCTCGFSAIMNRKLGYNSGLFLEDELDIFGKNSDIGQAAERRLMMCQTTFLPQMEGARKSQETPISLLLLLQNQHTQPFASLSFLDYISSNSRQTLPCVSWSYDRVQADNNDYWTECFNALEQGRQYVDNPTGGKVDEALVRSATVHSWPHSNVLDISMLSSQDVVRMLLSLQPFLQDAIQKKRTGRTWENIQHVQGPLTWQQFHKMAGRGTYGSEESPEPLPIPTLLVGYDKDFLTISPFSLPFWERLLLDPYGGHRDVAYIVVCPENEALLEGAKTFFRDLSAVYEMCRLGQHKPICKVLRDGIMRVGKTVAQKLTDELVSEWFNQPWSSEENDNHSRLKLYAQVCRHHLAPYLATLQLDSSLLIPPKYQTPPAATQGQAPPGNAGPLASNSGSAAPPAGSAFNPTSNGGSTNPPTSSSTSGSSVPQVSSSASAPGINQMSTTSSSGLSGSVGGQNPSVGGSATDRTQGNMGCGGDTELGQNSSQPVQDGQESVTERERIGIPTEPDSADSQAYPPAVVIYMVDPFTYTAEEDSTSGNFWLLSLMRCYTEMLDNLPEHMRNSFILQIVPCQYMLQTVKDEQVFYIQYLKSMAFSVYCQCRRPLPTQIHIKSLTGFGPAASIEMTLKNPERPSPIQLYSPPFILAPIKDKSKQTELGENFGEASQKYNVLFVGYCLSHDQRWLLASCTDLHGELLETCVVNIALPNRSRKSKVSARKIGLQKLWEWCIGIVQMTSLPWRVVIGRLGRLGHGELKDWSILLGECSLQTISKQLKDVCRMCGISAADSPSILSACLVAMEPQGSFVVMPDAVTMGSVFGRSTALNMQSSQLNTPQDASCTHILVFPTSSTIQVAPANYPNEDGFSPNNDDMFVDLPFPDDMDNDIGILMTGNLHSSPNSSPVPSPGSPSGIGVGSHFQHSRSQGERLLSREAPEELKQQPLALGYFVSTAKAENLPQWFWSSCPQAQNQCPLFLKASLHHHISVAQSDELLPARNSQRVPHPLDSKTTSDVLRFVLEQYNALSWLTCNPATQDRTSCLPVHFVVLTQLYNAIMNIL
Length2213
PositionMiddle
OrganismIctidomys tridecemlineatus (Thirteen-lined ground squirrel) (Spermophilus tridecemlineatus)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Mammalia> Eutheria> Euarchontoglires> Glires> Rodentia> Sciuromorpha> Sciuridae> Xerinae> Marmotini> Ictidomys.
Aromaticity0.07
Grand average of hydropathy-0.391
Instability index57.51
Isoelectric point5.66
Molecular weight243183.51
Publications









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:InterPro

GO - Biological Function
transcription coregulator activity	GO:0003712	IEA:InterPro

GO - Biological Process
regulation of transcription by RNA polymerase II	GO:0006357	IEA:InterPro









Interaction





Binary Interactions











Repeat regions





Repeats

>MDP29684
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             6|     679.70|     108|     109|     779|     886|       1
---------------------------------------------------------------------------
  262-  340 (41.75/12.74)	..............................................................DD...DFPVAVEVIVGGVR.MvyPSafvlISQND.IPVpqsvatagghitvGQ.PGLGSVKDP.SNCG.....MPLT....PPtSPEQ...............AITG.ESG
  342-  448 (122.45/52.90)	MQSATSHlgSQDGGMVTMHSP...KRS.GKIPPK.................LH..NHMVHRVWK...ECILNRTQSKR.SQ.M..ST....PTLEE.EP....................ANNPAT.WDFVDpTQRV.......SC.SCSRHkllkrcavgPSRPPTMS..QPG
  467-  586 (115.99/49.68)	HKTTERQ..EK.GDKLQKRPL...IPF.HH.RPSvaeelcmeqdtpgqklgLAGMDSSLEVSSSrkyDKQMAV.PSRNTSK.Q..MN....LNPMD.SP..................HSPISPLP.PTLSP.QPRGQETesldPP.SVPVN.........PAL.....Y.GNG
  642-  742 (110.43/46.92)	DDAEFRP..PELQGERCDAKMevnSES.TALQRL.................LAQPNKRFKIWQD...KQ.....PQMQSLHfL..DP....LPLSQ.QPG.............DS.LGEVNDPYT.FEDGD.IKYIFTA....NK.KCKQG.........TEKDSL.......
  779-  886 (169.86/76.49)	TKTDVRQ..DNAAGRAGSSSL...TQV.TDLAPS.................LHDLDNIFDNSDD...DELGAVSPALRSSK.M..PT....VGTED.RPL.............GK.DGRAAVPYP.PTVAD.LQRMFPT....PP.SLEQH.........PAFSPVMNY.KDG
  891-  997 (119.22/51.29)	TVS........ALGMMESPMV...SMVsTHLTEF.................KMEVEDGLGSPKP...EEIKDFSYVHRVPPfQ..PF....VGSSMfAPL.............KMlPSHCLLPLKiPDACL.FRPSWAI....PP.KIEQL.........P.MPPAATFiRDG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      57.40|      15|      16|    1540|    1554|       2
---------------------------------------------------------------------------
 1540- 1554 (30.98/13.11)	APP.GNAGPLASNSGS
 1556- 1571 (26.43/10.08)	APPaGSAFNPTSNGGS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     221.97|      70|     912|    1026|    1121|       4
---------------------------------------------------------------------------
 1040- 1109 (130.06/65.15)	SPATPRFSVP.......TPRTPRTPRTPRGG..GTASGQG.SVKYDSTD..QGSPASTPSTTRPLNSVEP......................ATMQPIPEAHSL
 1577- 1680 (91.91/30.49)	SSSTSGSSVPqvsssasAPGINQMSTTSSSGlsGSVGGQNpSVGGSATDrtQGNMGCGGDTELGQNSSQPvqdgqesvtererigiptepdsADSQAYPPAVVI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     224.61|      69|    1266|     156|     239|       5
---------------------------------------------------------------------------
  156-  229 (111.26/65.59)	PVNKSeHLSCAFTFFlHGESNVCTSVEIAQHQ.PIYLIS..EEHIHMAQSS...PAPFQVLVsPYGLN...........GTLTGQayKMSD
 1425- 1477 (66.51/25.68)	PENEA.LLEGAKTFF.RDLSAVYEMCRLGQHK.PI.................................ckvlrdgimrvGKTVAQ..KLTD
 2119- 2167 (46.84/16.05)	........................SCPQAQNQcPLFLKAslHHHISVAQSDellPARNSQRV.PHPLD...........SKTTSD......
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      80.26|      23|     912|     237|     261|       8
---------------------------------------------------------------------------
  239-  261 (42.68/25.77)	WQYFYPMVLKKKEELKEEEE........LGY
 1359- 1389 (37.58/16.41)	WQQFHKMAGRGTYGSEESPEplpiptllVGY
---------------------------------------------------------------------------




































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 MDP29684 with Med13 domain of Kingdom Metazoa
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