<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 MDP16275

Description Mediator of RNA polymerase II transcription subunit 1
SequenceMATVSLMATGHMDLNGPGKPTLGRWWWPGPRQPSSSLMEKLKMTSKQVKAWSEERLKLRDAMAIYKNTDNVDPDRLQKCLENIKKAITAFSVELSLRICFFVTSHGRKARGSSQTCKLKVMSTQEGNIFISSDTFYVEVRWVRRERTGRDGGPLQDPVSCTEMSESLKQNNFKEFGEHLCGLADFYQTGGDANQKAKAFSSLQCLEKDLLTILAITKKPGATALATVKNSLGYCTPRAGGHHMKLTFFISPYDLLDVDQQQPKELGPDDPLPKDIGLWVSIGLENSQPRKLQTMPLIVQSTTEGKVTRNNSQLGPANSIHLPAVFTLTLSQLMPVSLTLLRQLQSLTVQQTLLNVVEVKDHLRCYIGVQRKPDTSADQHPICRHTLDPDFITNQQSRNAQHPRGYTFHVNLPDQKQRYYVTDSPMVGEIRGILITKIHFAQHTQVLQTINCLRQQANYNALVASCVRKADQENDESEEVFEVTAYNLHRMTVLFEHPAKDGMACVEFDTSDAANPKCKLYPREGEEPFCSEEYATKVLQKCLSIPITMRAILKKTVGWLETRKQKEVPAAATPAMGSSPFPSPNLPSSGPFSALQKLPKSFGGTQGPSYNSAKIKGRTLSGTQNYQGSILSDLTSSMATFFPQPTYSSSTAAPVPQAVPGEPLLSPPKQTQNPMLASLLQSTITGGGPPAHRIPVQQQQYQQQQQQQQQQQQQQQQQLQLQQQPQLQQQQQQHTSTTASTTSGPTTDASNTTYSHHSNTS
Length760
PositionMiddle
OrganismStichopus japonicus (Sea cucumber)
KingdomMetazoa
LineageEukaryota> Metazoa> Echinodermata> Eleutherozoa> Echinozoa> Holothuroidea> Aspidochirotacea> Aspidochirotida> Stichopodidae> Apostichopus.
Aromaticity0.06
Grand average of hydropathy-0.560
Instability index54.52
Isoelectric point8.94
Molecular weight84423.79
Publications
PubMed=29023486

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:RU364059
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

>MDP16275
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      62.16|      15|      15|     703|     717|       1
---------------------------------------------------------------------------
  703-  717 (31.27/13.78)	QQQQQQQQQQQQQQQ
  719-  733 (30.90/13.54)	QLQQQPQLQQQQQQH
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      66.02|      20|      23|     645|     667|       2
---------------------------------------------------------------------------
  645-  667 (30.53/20.56)	TYSSSTAAPVPQAVPGEpllSPP
  670-  689 (35.48/16.68)	TQNPMLASLLQSTITGG...GPP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      52.52|      16|      23|     255|     271|       3
---------------------------------------------------------------------------
  255-  271 (24.38/14.87)	LDVDQQQPKELgPDDPL
  281-  296 (28.14/12.93)	IGLENSQPRKL.QTMPL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     239.12|      76|     334|     153|     239|       8
---------------------------------------------------------------------------
  153-  239 (114.19/82.05)	PLQDPVSCTEMSESlKQNNFKefgehlCGLadfYQTGGDANQKAKAFSS..LQ.CLEKDlLTILAITKKP.GATALATVKNSLGYCTPRAG
  497-  576 (124.92/64.78)	PAKDGMACVEFDTS.DAANPK......CKL...YPREGEEPFCSEEYATkvLQkCLSIP.ITMRAILKKTvGWLETRKQKEVPAAATPAMG
---------------------------------------------------------------------------




































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 MDP16275 with Med1 domain of Kingdom Metazoa


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) FFPQPTYSSSTAAPVPQAVPGEPLLSPPKQTQNPMLASLLQSTITGGGPPAHRIPVQQQQYQQQQQQQQQQQQQQQQQLQLQQQPQLQQQQQQHTSTTASTTSGPTTDASNTTYSHHSNTS
640
760










Molecular Recognition Features






MoRF SequenceStartStop




1) LGRWWW
22
27