<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 MDP27354

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMDKNFVRIGKWFVRPYEKDEKPVNRSEHLSCAFTFFLHGESNVCTSVEIAQHQPLYLLNQDHLHTAQASPAPFPVLLSPYGLNGTLTGQAYKMADPATPAARSETGQAAPRQAPSPTRGPLRPEAPGGQGSRLPDSIALSSPRLSGQRLAHSRCRRMAPQSYVPQWANPVPGRVGGSLPRSTCVYIHWGDGRTRTMAINRVEALLFTERSLWAELSTGDGGGAQSAFGHFPAQDGMITKHSPKRLGKTPPKLHNHMVHRVWKECILNRTQPKRSQLATPNLEEESSHNPASWDFADPIQRVSCSCSRHKPFKQRCASGPARPPTIAQPGFAGGSSASLPPPASSKHKTAERPEKGDKPQKRPTMPFHHRPSVAEELCVDQDPAGQKLSLAAIDSSPEVADGRKFEKQMALTSRNPGKPMNLNPMDSPHSPISPLPPTLSPQPRGPEAESLEAPSVPGNPALYANGLELQPFPGLDDRTVLAGQRLPVMAEVSETALYCGIATPNHEASKKWHGYRLPPSDDPEFRPPELRGEGYEDAKAEVNADSTALKRLLAQPNKRFKIWENKQAQVPLLNYLDPLPVIQPAGEGLGELSDPYTFEDGDIKYSFTVNKRCKLGTEKDPLKKSKLPPGWDGLVMASIPKDAMSIFSPAPKTDARQDNAAGRAGSGSLTQVTDLAPSINDLDNIFDNSDDDELGNPSLLQSVSGFNSFIQCLPSVAGSVNQSSCLAVTDLQRMFPTPPSLEQHPAFSPVMNYKDGISSEAASALGVLESPMVTTVPTQLTDFKMEVEEGMGSPKPEEMKDFSYVHRATTFQPLVSSSMFAPLKMLPSQCLLPLKIPEACLFRPSWAIPPKIEQLPLPPTAPFIRDGYKYVGGRSRAGLLPGVPSGPLPVAVRTRVPRMAAGSRSLAVGKIMNDNNNYYRSLRRPCPPLRAYCEESNPSVPYIERLLRVLGLPKSYLMIPPSCNLFSCLCPLRLFSKLLETGYTLPSTLLSALHKVGIKPSSGRFFNNNSEDNISTLPSSPRCRPSTRSTFSALGLSGPSPGVLLALPRRRHLLPVLSLVLVGLVVGLVGRRRPPDPPRLPRRGLYDRVRADDNDSWVECFNALEQGRQYVDNPTGGKVDEALVRAATVHSWPHSNVLDISVLSSQDVVRMLLSLQPFLQDAIQKKRTGRTWENIQHVQGPLTWQQFHKMAGRGTYGSEESPEPLPIPTLLVGYDKDFLTISPFSLPFWERLLMDPYGGHRDVAYIVVCPENEALLEGAKTFFRDLSAVYEMCRLGQHKPICKVLQDGIMRVGETESQKLTDELVSEWFCQSWGSEESDNHSRLKLYAQVCRHHLAPYLATLQLDSSLLVPPKYIPPSAGSFHAGTNGGGGAANPASSAPPASSSSTPAANPSAPATSSGTRATEGSPNRGPAPPSSRSSRRAKREKKKKLGSNPNSASDAEAGGRAPPVGRASPGGSGNPPLRSARATDPQPCLGSAPERDKIGIPTEPESADSQAYPPAVVIYMVDPFTYTAEDGSASANFWLLSLMRCYTEMLNNLPENMRSSFVLQIVPCQYMLQAMKGEQVFYIQHLKSMAFSVYCQCRRPLPTQIHIKSLTGFGPAASVEMTLKNPERPSPIQLYSPPFILAPIKDKQTELGETFGEASQKYNVLFVGYCLSHDQRWLLASCTDLHGELLETCIVNIDLPNRSRRSKVSARKNGLQKLWEWCTGIVQMTSLPWRVVIGRLGRLGHGELKGELFPSSSPLSPPRRR
Length1750
PositionMiddle
OrganismOrnithorhynchus anatinus (Duckbill platypus)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Mammalia> Monotremata> Ornithorhynchidae> Ornithorhynchus.
Aromaticity0.07
Grand average of hydropathy-0.436
Instability index63.02
Isoelectric point8.97
Molecular weight191387.97
Publications
PubMed=18464734

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. 
ECO:0000256	RuleBase:RU364134
GO - Cellular Component
mediator complex	GO:0016592	IBA:GO_Central
GO - Biological Function
transcription coregulator activity	GO:0003712	IBA:GO_Central
GO - Biological Process
regulation of transcription by RNA polymerase II	GO:0006357	IBA:GO_Central

Interaction

Binary Interactions











Repeat regions





Repeats

>MDP27354
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      63.23|      23|      28|     786|     812|       1
---------------------------------------------------------------------------
  786-  812 (35.61/25.15)	VEEGMGSP.K..PEE....MKdfsyVHRATTFQP
  814-  843 (27.61/10.50)	VSSSMFAPlKmlPSQcllpLK....IPEACLFRP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     171.25|      31|      32|    1355|    1385|       2
---------------------------------------------------------------------------
  339-  365 (29.78/ 6.96)	P...PPASSKHKTAERPE.KGDKPQKrPT.MP.....
 1355- 1385 (56.53/19.73)	P...PSAGSFHAGTNGGG.GAANPAS.SA.PPASSSS
 1387- 1419 (49.90/16.56)	PaanPSAPATSSGTRATE.GSPNR.G.PA.PPSSRSS
 1434- 1464 (35.04/ 9.47)	P...NSASDAEAGGRAPPvGRASPGG.SGnPPLRS..
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      91.34|      26|      28|     234|     261|       3
---------------------------------------------------------------------------
  234-  259 (48.01/21.77)	DGMITKHSPKRLGKTPPKLHNHMVHR
  263-  288 (43.33/22.45)	ECILNRTQPKRSQLATPNLEEESSHN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     152.24|      38|      38|     106|     143|       4
---------------------------------------------------------------------------
   94-  133 (54.69/18.42)	AD......PAtpaarsetGQAAPRQAPSPTR...GPLRPEA.........PGGQGSRL
  134-  178 (48.29/15.45)	PDSIALSSPR......lsGQ...RLAHSRCR....RMAPQSyvpqwanpvPGRVGGSL
  289-  333 (49.27/15.90)	PASWDFADPI.....qrvSCSCSRHKPFKQRcasGPARPPT......iaqPGFAGG..
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     115.25|      30|      30|     413|     442|       5
---------------------------------------------------------------------------
  380-  412 (26.67/ 7.70)	QDPaGQKLSLAAIDsSPEvADGRK.FEKQ...MALTS
  413-  442 (56.75/25.52)	RNP.GKPMNLNPMD.SPH.SPISP.LPPT...LSPQP
  443-  472 (31.83/10.76)	RGP.....EAESLE.APS.VPGNPaLYANgleLQPFP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     139.42|      30|      77|     858|     887|       6
---------------------------------------------------------------------------
  858-  887 (55.09/26.14)	PTAPFIRDGYKYVGGRSRA.GLLPG..........VPSGPL
  888-  928 (38.04/15.68)	PVAVRTRVPRMAAGSRSLAvGKIMNdnnnyyrslrRPCPPL
  937-  964 (46.29/20.74)	PSVPYIERLLR.VLGLPKS.YLMIP...........PSCNL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      87.12|      28|      30|    1020|    1049|       7
---------------------------------------------------------------------------
 1006- 1033 (43.37/17.80)	NNNSEDNISTLPSSPRCRPSTRSTFSAL
 1036- 1063 (43.76/24.28)	SGPSPGVLLALPRRRHLLPVLSLVLVGL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      61.14|      24|      80|     584|     624|       8
---------------------------------------------------------------------------
  531-  579 (29.24/12.86)	GEGYEDakaevnadstalkrlLAQP..............NKRFKIWENKqaqvpllnylDPL..P
  585-  624 (31.91/59.24)	GEGLGE...............LSDPytfedgdikysftvNKRCKLGTEK..........DPLkkS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      93.15|      20|      49|     666|     685|      11
---------------------------------------------------------------------------
  666-  685 (33.85/22.01)	GSLTQ.VTDLAPSINDLDNIF
  696-  716 (28.53/17.19)	PSLLQsVSGFNSFIQCLPSVA
  717-  734 (30.77/19.22)	GSVNQ.SSCLA..VTDLQRMF
---------------------------------------------------------------------------




































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 MDP27354 with Med13 domain of Kingdom Metazoa


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) FKQRCASGPARPPTIAQPGFAGGSSASLPPPASSKHKTAERPEKGDKPQKRPTMPFHHRPSVAEELCVDQDPAGQKLSLAAIDSSPEVADGRKFEKQMALTSRNPGKPMNLNPMDSPHSPISPLPPTLSPQPRGPEAESLEAPSVPGNPALYANGLEL
2) GAQSAFGHFPAQDGMITKHSPKRLGKTPPKLH
3) IPPSAGSFHAGTNGGGGAANPASSAPPASSSSTPAANPSAPATSSGTRATEGSPNRGPAPPSSRSSRRAKREKKKKLGSNPNSASDAEAGGRAPPVGRASPGGSGNPPLRSARATDPQPCLGSAPERDKIGIPTEPESA
4) SKKWHGYRLPPSDDPEFRPPELRGEGYEDAKAE
5) YKMADPATPAARSETGQAAPRQAPSPTRGPLRPEAPGGQGSRLPDSIALSSP
311
222
1354
508
91
468
253
1492
540
142










Molecular Recognition Features






MoRF SequenceStartStop




1) KKKKLG
1426
1431