<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 MDP22236

Description Mediator of RNA polymerase II transcription subunit 1
SequenceMNKGLCGRKHLPVHPSIPEAEESTQRRNCDVMKRSSLISGLQLKFAQRSWNDTLLLVQRCMEKSRIESKPCEPLVRSLERLQDVLHAPCRSVTRSRLEMIAQQQGMGFHVTEDTCYLTADLFYLEVLLPPCGGVQEVKVALHGEGPVPSESFLKTLRSEDFAAFSTRLKDLFTQYNIPGDNEIKLKLLESLQFLVRDLQKMTGEAEDCDPQQQLVNNNRTGCLVAGKEDGLLTVLFYKPPNDGMSNSLMQTAQVTVGASAVPRRLQMASVLPEPLQLDSQGCPVGAPPSEVPGEMLPACFLLRLKPPVPVLSSFVEKLSLITDVAVAQTDQQWAPLHRLLMAGSQSAEETSDQLDLFTVKVLPDGETQRYVFPGASWDAPEQRATVVEAVSFTHPAQVPALLQLLRHQCAVNALLRSCWASQSAAPASPTGTPSDSQLFEVRPESSTSFSVTFTHPRTHSLAVLLVSVCGPQQITCRTFGAETSEAFLEDHMKNFLSIPATMKMLLSRLETASPPHPKSHPTSAEEDPPALMEVSQNAAVPEDSVSKTEVSPNPSVTSHLCSPVGTFAQQAEL
Length573
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-0.202
Instability index61.46
Isoelectric point5.47
Molecular weight62738.00
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	IBA:GO_Central
GO - Biological Function
retinoic acid receptor binding	GO:0042974	IBA:GO_Central
thyroid hormone receptor binding	GO:0046966	IBA:GO_Central
transcription coregulator activity	GO:0003712	IBA:GO_Central
vitamin D receptor binding	GO:0042809	IBA:GO_Central
GO - Biological Process
cellular response to thyroid hormone stimulus	GO:0097067	IBA:GO_Central
regulation of transcription by RNA polymerase II	GO:0006357	IBA:GO_Central

Interaction

Binary Interactions











Repeat regions





Repeats

>MDP22236
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     116.81|      35|      59|     390|     425|       1
---------------------------------------------------------------------------
  390-  425 (59.14/45.04)	VSFTHPaQVPALLQLLRHQCAVNALL.RSCWASQSAA
  451-  486 (57.67/39.05)	VTFTHP.RTHSLAVLLVSVCGPQQITcRTFGAETSEA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      38.62|      11|      15|      70|      82|       2
---------------------------------------------------------------------------
   70-   82 (17.27/14.21)	PCEPLVRSleRLQ
   88-   98 (21.35/10.98)	PCRSVTRS..RLE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      74.53|      26|      64|     171|     199|       3
---------------------------------------------------------------------------
  171-  199 (36.36/35.88)	LFtqYNIPGDNeIKLKLLESLQFLV......RDLQ
  235-  266 (38.16/25.06)	LF..YKPPNDG.MSNSLMQTAQVTVgasavpRRLQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      64.34|      18|     278|     148|     165|       4
---------------------------------------------------------------------------
  148-  165 (31.69/22.31)	PSESFLKTLRSEDFAAFS
  433-  450 (32.65/23.23)	PSDSQLFEVRPESSTSFS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      52.50|      15|     278|     270|     285|       5
---------------------------------------------------------------------------
  270-  285 (26.30/18.00)	VLPEPlQLDSQGC.PVG
  550-  565 (26.20/13.26)	VSPNP.SVTSHLCsPVG
---------------------------------------------------------------------------




































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 MDP22236 with Med1 domain of Kingdom Metazoa


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) LSRLETASPPHPKSHPTSAEEDPPALMEVSQNAAVPEDSVSKTEVSPNPSVTSHLCS
506
562










Molecular Recognition Features






MoRF SequenceStartStop




NANANA