<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 MDP27310

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMQQSLNRNAPISNSINNIGRSPAQMQSNPTAVALKDTRPVYHPSYNASTACSIVVYLLDPFKNSASRGLWHCFRILQKSLPKPIRDHIIFQIVPIEHVLRVSSPNTRQSFVHVVRSLSFSTFAQCRRNLLHEVKVRSMTGFGPAASDKRYLQENNHNVLNETRLYTPPYVLSVPREGNQINCKHENPPNILFVSYCVSHDQKFVLASATDQCGELLETCCINIDVPPRRLSVSRKHRVSVRSEAIEKLWKFCVTTVSRYSTTTWR
Length265
PositionMiddle
OrganismCiona intestinalis (Transparent sea squirt) (Ascidia intestinalis)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Tunicata> Ascidiacea> Phlebobranchia> Cionidae> Ciona.
Aromaticity0.08
Grand average of hydropathy-0.348
Instability index57.36
Isoelectric point9.78
Molecular weight30204.28
Publications
PubMed=12481130
PubMed=15114417

Function

Annotated function Component of the Mediator complex, a coactivator involved in 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
integral component of membrane	GO:0016021	IBA:GO_Central
mediator complex	GO:0016592	IEA:InterPro

GO - Biological Function
sugar transmembrane transporter activity	GO:0051119	IBA:GO_Central
transcription coregulator activity	GO:0003712	IEA:InterPro

GO - Biological Process
carbohydrate transport	GO:0008643	IBA:GO_Central
regulation of transcription by RNA polymerase II	GO:0006357	IEA:InterPro









Interaction





Binary Interactions











Repeat regions





Repeats

>MDP27310
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      89.74|      31|      58|     167|     197|       1
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  167-  197 (60.84/36.13)	PPYVLSVPRE..GNQIN..CKH.ENPPNILFVS.................YCV
  201-  253 (28.91/13.81)	QKFVLASATDqcGELLEtcCINiDVPPRRLSVSrkhrvsvrseaieklwkFCV
---------------------------------------------------------------------------




































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 MDP27310 with Med13 domain of Kingdom Metazoa
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