<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 MDP24718

Description Mediator of RNA polymerase II transcription subunit 4
SequenceMADRESIRGRNTKERVNRLLDDYERLTKQLFESFSSPYQGTRQDVSTGDSTQISYVAVKMSYVAVKVSYVAVKVSYVAVKVSYVAVKVSYVAVKVSYVAVKVSYVAVKVSYVAVKVSYIAVKVSYVAVKVSYVAVKVSYVAVNVSYVAVKISYVAVKMSYVAVKVSYGAVKVSYVAVKVSYVGEHFIGGKPNQAYPVPNINLAVEIPGGPGANREAEVLEKLTSKDKELQAAVVQAKEQQKRQQDIESLKLHIAKKDEKILALEVQLKEAEQILSQALFQAKKKLTAIEKANKGSVSSEELIKYAHQISSSNAVEAPTTWMAGDPRRPYPLDIEMRSGLLGRLGEGVAMETEIPTSTVGVAETSAVTAPVNGVVDGVANGPSASSLSWQSSLHAIGIPSTTEQTSIGNDVTMGAANGRNELTTEEVEFMSSSSCSSSSDSP
Length441
PositionMiddle
OrganismNematostella vectensis (Starlet sea anemone)
KingdomMetazoa
LineageEukaryota> Metazoa> Cnidaria> Anthozoa> Hexacorallia> Actiniaria> Edwardsiidae> Nematostella.
Aromaticity0.07
Grand average of hydropathy-0.039
Instability index38.72
Isoelectric point9.00
Molecular weight47442.59
Publications
PubMed=17615350

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. 
GO - Cellular Component
core mediator complex	GO:0070847	IBA:GO_Central
mediator complex	GO:0016592	IEA:InterPro

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

>MDP24718
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             6|     222.43|      18|      18|      66|      83|       1
---------------------------------------------------------------------------
   66-   83 (41.08/19.28)	KVSYVAVKVSYVAVKVSY
   87-  104 (41.08/19.28)	KVSYVAVKVSYVAVKVSY
  108-  125 (39.78/18.49)	KVSYVAVKVSYIAVKVSY
  129-  146 (40.05/18.65)	KVSYVAVKVSYVAVNVSY
  150-  167 (39.45/18.29)	KISYVAVKMSYVAVKVSY
  171-  182 (20.99/ 7.05)	KVSYVAVKVSYV......
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      79.99|      23|      40|     358|     380|       2
---------------------------------------------------------------------------
  358-  380 (38.88/23.23)	VGVAETSAVTAPVNGVVDGVANG
  395-  417 (41.11/24.94)	IGIPSTTEQTSIGNDVTMGAANG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      79.21|      28|      40|     212|     243|       3
---------------------------------------------------------------------------
  212-  239 (42.04/38.44)	ANREAEVLE...KLTSKDKELQAAVVQAKEQ
  254-  284 (37.17/22.18)	AKKDEKILAlevQLKEAEQILSQALFQAKKK
---------------------------------------------------------------------------




































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 MDP24718 with Med4 domain of Kingdom Metazoa
Unable to open file!