<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 MDP29039

Description Mediator of RNA polymerase II transcription subunit 1
SequenceMNANLILENLHLKFANKTWNETFNLVRTCTEKPMEWSKPLCSALERLQEVLNASSTDLIRHHLQRMARQQGMDFHISEATCCLTADLFRLEVALLPCGGVENVKLTPHAGFPIHCESLLQLLRAENFSEFSAKLTDLLSQYNIPGDKETKLRLFESLQLLSQDLQCMSSLPRVQLDSEAQIQLINDGLMGCLKAANADHPLTIQFYSVPAPGSNASDLFVQGAQVTIGASDAMHKLQLASALIEPAVTEDQRTPVFLPLSEVPHQSLPGCFLLRLQPPMPLILSFITKISSITGVLPDVDLQGEPLPKVLTSGYAKSHKEDEKDAVFSEGFILPGAAWDVPAQRAAVVDHIPFTHPSHVPALLEILRHQSAINALLRSCVAKAAAEYPVSDLYELLPESETSFSVTFQRRDADSLAVLLVNITDSHQISCKLFGAGTRDPSLVEMLSSVLTRSMSVPLTLMALHSQR
Length467
PositionMiddle
OrganismTakifugu rubripes (Japanese pufferfish) (Fugu rubripes)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Actinopterygii> Neopterygii> Teleostei> Neoteleostei> Acanthomorphata> Eupercaria> Tetraodontiformes> Tetradontoidea> Tetraodontidae> Takifugu.
Aromaticity0.06
Grand average of hydropathy0.034
Instability index57.25
Isoelectric point5.51
Molecular weight51382.60
Publications
PubMed=21551351

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
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

>MDP29039
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     229.55|      64|     242|     108|     207|       1
---------------------------------------------------------------------------
   46-   94 (46.36/39.85)	..........RLQ.EVLNAS..STD....LirHHLQRM..ARQQgMDfhiSEATC..............C.LTADL..FRLEVAL
  142-  205 (110.67/58.80)	NIPGDKETKLRLF.ESLQLL..SQD....L..QCMSSL..PRVQ.LD...SEAQI.....QLINDGLMGC.LKAANADHPLTIQF
  209-  285 (72.52/21.94)	PAPGSNASDL..FvQGAQVTigASDamhkL..QLASALiePAVT.ED...QRTPVflplsEVPHQSLPGCfLLRLQPPMPLILSF
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      78.70|      25|     241|     108|     134|       2
---------------------------------------------------------------------------
  108-  134 (39.48/26.31)	HAGF..PIHCESLLQLLRAEnfSEFSAKL
  350-  376 (39.22/20.01)	HIPFthPSHVPALLEILRHQ..SAINALL
---------------------------------------------------------------------------




































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 MDP29039 with Med1 domain of Kingdom Metazoa
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