<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 MDP15711

Description Mediator of RNA polymerase II transcription subunit 1
SequenceMSAETPGSSECDLSECYGDQTGDDCQTEGVLLLPGGEVEDVKVAQHGEAPESNASLCQLLRMKKFKEFSLRMGDLASLYNVPGDGDTRLKVLKSLQHLQKDLLKISNLPRHLIASDAHVDLVLNGRIGSITPSKEGNPMSIEYYISPSDAMMERLHPGEGNRSQAAVVVVVGASATTHRLQMESLIPTPPQVDSTGLPAFIPLSETCSELLPAFFLLKMKPPVPMLSSFIHKMSQITDLPPDADLQGEPLFQLLQLTALEDKRSCDGKDALFLVSLPDAEFHSYLFTTAEWKCDFWKGSLIHTVPFTHPAHVPALLDLLRYQSAVNTLLASCITSLKHQPELVCDLSGEIVPESDCSFSVTFSIPDSETLAVLLVSVVNCHQLRCRLLMPGTVDQSLDDYISRVLTRCMSIPITLRAIRKRLSSLRPPALPLEPESARKAVSSSSTPAHCAVENTPAILPPAMLSPEPMEEDGLPSNPGHYVMSVAAAPAVDVANTDAIANRSNCASVSVYSHWVASSFPAELV
Length524
PositionMiddle
OrganismIctalurus punctatus (Channel catfish) (Silurus punctatus)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Actinopterygii> Neopterygii> Teleostei> Ostariophysi> Siluriformes> Ictaluridae> Ictalurus.
Aromaticity0.05
Grand average of hydropathy-0.009
Instability index55.22
Isoelectric point5.07
Molecular weight56784.49
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. 


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

>MDP15711
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      98.19|      30|      32|     427|     458|       1
---------------------------------------------------------------------------
  427-  458 (45.50/31.56)	PPALpLEPESARKAvSSSSTPAH..CAVENTPAI
  460-  491 (52.70/27.74)	PPAM.LSPEPMEED.GLPSNPGHyvMSVAAAPAV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      35.11|      10|      34|     241|     251|       2
---------------------------------------------------------------------------
  241-  251 (14.72/13.13)	PDADLQGEpLF
  277-  286 (20.39/11.87)	PDAEFHSY.LF
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     101.36|      24|     155|      59|      82|       3
---------------------------------------------------------------------------
   59-   82 (40.43/26.82)	LLRMK....KFKEFSLRMGDLASLYNVP
   88-  109 (30.18/18.28)	..RLK....VLKSLQHLQKDLLKISNLP
  216-  240 (30.75/18.76)	LLKMKppvpMLSSFIHKMSQ...ITDLP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      21.91|       6|     330|      11|      37|       4
---------------------------------------------------------------------------
   19-   24 (11.33/11.53)	DQTGDD
  394-  399 (10.58/10.13)	DQSLDD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      28.46|       8|      27|     257|     266|       6
---------------------------------------------------------------------------
  257-  266 (10.87/12.92)	TALEDKrsCD
  287-  294 (17.59/11.26)	TTAEWK..CD
---------------------------------------------------------------------------




































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 MDP15711 with Med1 domain of Kingdom Metazoa
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