<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 MDP00423

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMHISFNFTFCHGACRLGQHRPICKTHTDGILRVGTAEGRNRAEQPLSDWFLKMASSNGNSEAFSKLKLYAQVCRHDLAPYLAGQSLDSSLLNQRGPTVASPQSSSSQSPSSTTPSSGPQSSSSTAQPANTNSTPPSSTGPQAMGGIGGVGMPSAKPSSYTPYGTSGLQGSVSQNGPQSCPQTAGENGPTANQPQASTEPVETTLERDKVGVPTDGESHAVTFPPSIVVYIVDPFSYEDGERDTHSSVWTLGLLRCYVEMLQFLPPHIRNCVSVQIIPCQYLLQPVRIEERHLYGQHLKSLAFSVFTQCRRPLPGNTNIKALTGFGPGLAIDMALRSTERPECLRLYTPPFILAPIKDKQTELGETFGEASQKYNVLFVGYCLSHDQRWLLASCTDQSGELLETCIISIDVPNRARRKKGSARRLGLQKLWEWCLGLVQVTSLPWRVVIGRLGRMGHGELRDWSILLSRRNLQSLSKRLKETCRMCGISAADTPSILSACLVAMEPQGSFVIMPDSVSTGSVFGRSTTLNMQTSQLSTPQDTSCTHILVFPTSAMVQVNNGTTEQNLDIAFNPINPDGSDGMGIFDLFDNDMVDPDLINILPNSPTTSPVHSPGGHYHQGGDGSKGQSTDRMESHEEALNILQQPMALGYFISTAKAGPLPDWFWSACPQAQNQCPLFLKASLHLHVSSVQSDELLHSKHSHPLDSNHTSDVLRFVLEQYNALSWLTCDPATQDRRSCLPVHFVVLNQMYNFIMNML
Length756
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 hydropathy-0.296
Instability index60.60
Isoelectric point6.39
Molecular weight82589.50
Publications
PubMed=24755649

Function

Annotated function Component of the Mediator complex, a coactivator involved in 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:RU364134
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

>MDP00423
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      70.48|      17|      21|     132|     148|       1
---------------------------------------------------------------------------
  119-  140 (25.73/11.18)	QsssstAQPANTN......STPPSSTGP
  141-  161 (23.78/ 9.74)	Q.....AMGGIGG..vgmpSAKPSSYTP
  177-  199 (20.98/ 7.65)	Q.....SCPQTAGengptaNQPQASTEP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      65.08|      19|      21|      28|      46|       2
---------------------------------------------------------------------------
   28-   46 (31.90/24.34)	DGILRVGTAEGRNRAEQPL
   48-   66 (33.18/25.66)	DWFLKMASSNGNSEAFSKL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      40.82|      13|      21|     290|     302|       3
---------------------------------------------------------------------------
  290-  302 (24.73/15.99)	RHLYGQ.HLKSL.AF
  310-  324 (16.10/ 7.81)	RPLPGNtNIKALtGF
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     132.32|      29|      59|     398|     426|       4
---------------------------------------------------------------------------
  398-  416 (21.45/ 7.83)	...............GELLETCII..SIDVPNRARR
  417-  445 (50.04/26.87)	KKGSARRLGL.....QKLWEWCLG..LVQVTSLPWR
  447-  477 (39.97/20.16)	VIGRLGRMGH.....GELRDWSILlsRRNLQSLSKR
  478-  504 (20.87/ 7.44)	LKETCRMCGIsaadtPSILSACLV..AME.......
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      32.31|      10|      15|      96|     106|       5
---------------------------------------------------------------------------
   79-   88 (18.61/ 7.63)	PYLAG.QSLDS
   96-  106 (13.70/ 9.60)	PTVASpQSSSS
---------------------------------------------------------------------------




































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 MDP00423 with Med13 domain of Kingdom Metazoa


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) INILPNSPTTSPVHSPGGHYHQGGDGSKGQSTDRMESHEEA
2) QSLDSSLLNQRGPTVASPQSSSSQSPSSTTPSSGPQSSSSTAQPANTNSTPPSSTGPQAMGGIGGVGMPSAKPSSYTPYGTSGLQGSVSQNGPQSCPQTAGENGPTANQPQASTEPVETTLERDKVGVPTDGES
597
84
637
217










Molecular Recognition Features






MoRF SequenceStartStop




NANANA