<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 MDP31819

Description Mediator of RNA polymerase II transcription subunit 8
SequenceMDFPFQAPIPPLTANYQSEPEKIGQATDMMIKRVTDAKKMIEELLQMLDLQEKCPWPDMLEKFSSLASAMASLQTSVRKSGLPHGHEDHGQFLRSHVLVPQRLQYEPDEALLRVTQGRVFSWNHELVPEYLRTKPNPEMENEEQMLDMERSAKAPDLVVKQIAAYNKNIEGLLGSLSNIDRLHSEAIIEKPTHSREETMKLVKSILLGEAIRTLRTAGAPPTSTPMPAAPGSAGPSQSGSQVMNQAPGMQDYQNPQLRQQLMGQPPQMGYGNAYPPQYPQMHPQQMGELSGNSF
Length294
PositionHead
OrganismCaenorhabditis briggsae
KingdomMetazoa
LineageEukaryota> Metazoa> Ecdysozoa> Nematoda> Chromadorea> Rhabditida> Rhabditina> Rhabditomorpha> Rhabditoidea> Rhabditidae> Peloderinae> Caenorhabditis.
Aromaticity0.05
Grand average of hydropathy-0.618
Instability index62.39
Isoelectric point5.66
Molecular weight32869.14
Publications
PubMed=14624247

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 (By similarity). 
ECO:0000250
GO - Cellular Component
core mediator complex	GO:0070847	IBA:GO_Central
mediator complex	GO:0016592	IBA:GO_Central
GO - Biological Function
RNA polymerase II cis-regulatory region sequence-specific DNA binding	GO:0000978	IBA:GO_Central
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

>MDP31819
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      43.31|      13|      17|     229|     245|       1
---------------------------------------------------------------------------
  232-  245 (19.15/14.76)	SAGPsQSGSQVMNQ
  252-  264 (24.16/ 6.11)	YQNP.QLRQQLMGQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      39.54|      10|      17|     265|     274|       2
---------------------------------------------------------------------------
  265-  274 (22.86/13.43)	PPQMG..YGNAY
  283-  294 (16.68/ 7.89)	PQQMGelSGNSF
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      65.41|      17|      25|      92|     108|       3
---------------------------------------------------------------------------
   92-  108 (31.76/22.59)	FLRSHVLVPQRLQYEPD
  120-  136 (33.65/24.36)	FSWNHELVPEYLRTKPN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      63.85|      17|      96|      46|      62|       4
---------------------------------------------------------------------------
   46-   62 (34.35/22.36)	QMLDLQEKCPWPDMLEK
  144-  160 (29.49/18.28)	QMLDMERSAKAPDLVVK
---------------------------------------------------------------------------




































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 MDP31819 with Med8 domain of Kingdom Metazoa


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) RTLRTAGAPPTSTPMPAAPGSAGPSQSGSQVMNQAPGMQDYQNPQLRQQLMGQPPQMGYGNAYPPQYPQMHPQQMGELSGNSF
212
294










Molecular Recognition Features






MoRF SequenceStartStop




1) MGYGNAYPPQYPQ
2) YQNPQLRQQL
268
252
280
261