<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 MDP16422

Description Mediator of RNA polymerase II transcription subunit 8
SequenceMEQYFAPAPLPVTRNYQGDPDKIAQATDMMIKRITDAKKMIEELLQMLDLQEKCPWPDMLEKFSTLASAMSNLQSAVRRSAQNHGHEDYGQFLRSHVMVTQRLQYEPDEELKKVTQGRVFSWNHDLVPEYLRTKPNPEMENEETLLEIERGSKSQDVVTRQIAVYNKNIDGLLSNLQTIDRLYKNNVVEKPTFNRDETAKIVKSVLTGESLRAQNPPRSSAPPPSSSQIPQSTSSSGPSQPTPQQQQQQQQQQQQQMMSNQMHVDYQGSQLRQQLMGPSGQPQPSQMPMYSQQAQQYGGHQQPMHPQHQNQMGMMAAGQMGAIPPMSHQMQQQRSMHQMPPHMNMPR
Length347
PositionHead
OrganismCaenorhabditis japonica
KingdomMetazoa
LineageEukaryota> Metazoa> Ecdysozoa> Nematoda> Chromadorea> Rhabditida> Rhabditina> Rhabditomorpha> Rhabditoidea> Rhabditidae> Peloderinae> Caenorhabditis.
Aromaticity0.05
Grand average of hydropathy-0.976
Instability index75.82
Isoelectric point6.84
Molecular weight39675.40
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. 


ECO:0000256	RuleBase:RU364144

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

>MDP16422
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     161.03|      36|      40|     228|     267|       1
---------------------------------------------------------------------------
  228-  256 (47.93/13.49)	.........QIPQSTSSSGPS.QPTPQQ.....QQQQQQQQQQQ
  261-  302 (50.88/19.23)	QMHVDYQgsQLRQQL..MGPSgQPQPSQmpmysQQAQQYGGHQQ
  303-  338 (62.23/18.04)	PMHPQHQ.nQMGMMAAGQMGA.IP.PMS.....HQMQQQRSMHQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     259.74|      76|      78|      55|     132|       2
---------------------------------------------------------------------------
    2-   51 (39.87/16.50)	.................................EQY..FAPAPLPVTRNY.........QGDPDKiaqatdmMIKRITDAK..KMIEELLQMLdLQ
   55-  132 (125.14/71.07)	PWPDMLEKFSTL.ASAMSNLQSAVRRSAQNHGHEDYGqFLRSHVMVTQRL.........QYEPDE.......ELKKVTQGRVfSWNHDLVPEY.LR
  135-  212 (94.72/46.97)	PNPEMENEETLLeIERGSKSQDVVTRQIAVYNKNIDG..LLSNLQTIDRLyknnvvekpTFNRDE.......TAKIVK..SV......LTGES.LR
---------------------------------------------------------------------------




































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 MDP16422 with Med8 domain of Kingdom Metazoa


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) KNNVVEKPTFNRDETAKIVKSVLTGESLRAQNPPRSSAPPPSSSQIPQSTSSSGPSQPTPQQQQQQQQQQQQQMMSNQMHVDYQGSQLRQQLMGPSGQPQPSQMPMYSQQAQQYGGHQQPMHPQHQNQMGMMAAGQMGAIPPMSHQMQQQRSMHQMPPHMNMPR
184
347










Molecular Recognition Features






MoRF SequenceStartStop




NANANA