<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 MDP00450

Description Mediator of RNA polymerase II transcription subunit 1
SequenceMYLYLKYLIFCPSVVGSKSFISDLHSKYAEKTWNETFKLVRRCMDKSRGDTKPCEPLIRCLKILHEALNVSSLSAMVSRLEIMAKQRGMGSHLSPTETTCYLTADMFYLEVLLLPGGEVEDVKLAQHGEAPVSSESLLQLLKSKKFEEFSVKLKGLFSLYSIPGENETKIKVYTALQFLGKDLQKISHLPRLVKSLRECNLQVDMILNGRIGYLTAGSEGIPMTIQYYISPSDILLEMSDSERGSVGQLALVTVGPTDSTHKLQMASVIPQPPQLDAQGLPLFSPLCEVLSEMMPACFQLKLQPPLPMLSSFVEKLSQITDVAIADADLQWAPFPQLMMTLLGENGGNKTWDGQDAHFLVPLPGKEIHSYVLPGAAWEEAALRGALVSTIPFTHPAHVPALLELLRHQCAINTLLASCITSLRPSPGPVCDLYCEVLPESGSSLSVTFHLSDSDSLSVLLVNVADSRKLTCSLFAVGSESESMDEYVSRVLKRCMSIPVTMRALNRRLSKRTCGEALPACSATISTADDAMGPDTTATAAESAFCLSVAEVNTNPTANPYPCASVCVYSHWMHNNHLPELI
Length581
PositionMiddle
OrganismOncorhynchus mykiss (Rainbow trout) (Salmo gairdneri)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Actinopterygii> Neopterygii> Teleostei> Protacanthopterygii> Salmoniformes> Salmonidae> Salmoninae> Oncorhynchus.
Aromaticity0.07
Grand average of hydropathy0.064
Instability index46.67
Isoelectric point5.72
Molecular weight63651.12
Publications
PubMed=24755649

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

>MDP00450
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     395.27|     120|     124|      90|     211|       1
---------------------------------------------------------------------------
   24-  140 (147.38/89.79)	...............LHSKYAEKTWNETFKLVRRCMDKSRGDTKPCEPLIRCLKILHEAlNVSSLSAMVSRLeimakqrgmGSHLSPTETTCYLTADMFYLEVLLLPGGEVEDVKLAQHGeaPVSSESLLQL
  141-  265 (192.77/113.15)	LKSKKFEEFSVKLKGLFSLYSIPGENETKIKVYTALQFLGKDLQKISHLPRLVKSLREC.NLQVDMILNGRI....gyltaGSEGIPMTIQYYISPSDILLEMSDSERGSVGQLALVTVG..PTDSTHKLQM
  290-  341 (55.13/26.85)	LSEMMPACFQLKLQPPLPMLSSFVEKLSQI...TDVAIADADLQW.APFPQLMMTL............................................................................
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      71.83|      22|     120|     267|     289|       3
---------------------------------------------------------------------------
  267-  289 (36.68/23.81)	SVIP..QPPQLDAQgLPLFSPLCEV
  388-  411 (35.15/17.99)	STIPftHPAHVPAL.LELLRHQCAI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      47.83|      13|      15|     536|     548|       5
---------------------------------------------------------------------------
  536-  548 (21.90/12.26)	TATAAESAFCLSV
  553-  565 (25.93/15.84)	TNPTANPYPCASV
---------------------------------------------------------------------------




































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 MDP00450 with Med1 domain of Kingdom Metazoa
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