<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 MDP22254

Description Mediator of RNA polymerase II transcription subunit 1
SequenceMNKGLCGRKHLPVHPSIPEAEESTQRRNCDVMKRSSLISGLQLKFAQRSWNDTLLLVQRCMEKSRIESKPCEPLVRSLERLQDVLHAPCRSVTRSRLEMIAQQQGMGFHVTEDTCYLTADLFYLEVLLPPCGGVQEVKVALHGEGPVPSESFLKTLRSEDFAAFSTRLKDLFTQYNIPGDNEIKLKLLESLQFLVRDLQKMTGEAEDCDPQQQLVNNNRTGCLVAGKEVMQTAQVTVGASAVPRRLQMASVLPEPLQLDSQGCPVGAPPSEVPGEMLPACFLLRLKPPVPVLSSFVEKLSLITDVAVAQTDQQWAPLHRLLMAGSQSAEETSDQLDLFTVKVLPDGETQRYVFPGASWDAPEQRATVVEAVSFTHPAQVPALLQLLRHQCAVNALLRSCWASQSAAPASPTGTPSDSQLFEVRPESSTSFSVTFTHPRTHSLAVLLVSVCGPQQITCRTFGAETSEAFLEDHMKNFLSIPATMKMLLSRLETASPPHPKSHPTSAEEDPPALMEVSQNAAVPEDSVSKTEVSPNPSVTSHLCSPVGTFAQQAEL
Length554
PositionMiddle
OrganismOryzias latipes (Japanese rice fish) (Japanese killifish)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Actinopterygii> Neopterygii> Teleostei> Neoteleostei> Acanthomorphata> Ovalentaria> Atherinomorphae> Beloniformes> Adrianichthyidae> Oryziinae> Oryzias.
Aromaticity0.05
Grand average of hydropathy-0.198
Instability index61.29
Isoelectric point5.54
Molecular weight60673.68
Publications
PubMed=17554307

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. 
ECO:0000256	RuleBase:RU364059
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

>MDP22254
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      38.62|      11|      15|      70|      82|       1
---------------------------------------------------------------------------
   70-   82 (17.27/13.07)	PCEPLVRSleRLQ
   88-   98 (21.35/10.06)	PCRSVTRS..RLE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     207.46|      47|     305|     124|     174|       2
---------------------------------------------------------------------------
  120-  165 (73.82/36.47)	DLF......yLEVL..LPPCGGVQEVKVALHGEGPVPSESFLKTLRSEDFAAFS
  170-  194 (23.14/11.57)	DLFTQ.........ynIP...GDNEIKLKL.....LESLQFL............
  395-  431 (52.02/25.10)	.............L..LRSCWASQSAAPASPTGTPSDSQLF..EVRPESSTSFS
  434-  480 (58.47/29.22)	..FTHprthsLAVL..LVSVCGPQQITC..RTFGAETSEAFLED.HMKNFLSIP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      52.91|      15|      16|     507|     521|       4
---------------------------------------------------------------------------
  507-  521 (26.65/15.73)	EDPPALMEVSQNAAV
  523-  537 (26.25/15.39)	EDSVSKTEVSPNPSV
---------------------------------------------------------------------------




































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 MDP22254 with Med1 domain of Kingdom Metazoa


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) LSRLETASPPHPKSHPTSAEEDPPALMEVSQNAAVPEDSVSKTEVSPNPSVTSHLCS
487
543










Molecular Recognition Features






MoRF SequenceStartStop




NANANA