<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 MDP00448

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMTIGCLEGIPIPRPNSPLALVPLSSTMEREKVGVPTDGESHAITYPPAIVVYIVDPFTYEEPEAGSSVWTLGLLRCYLEMLQFLPPHIRNAVSVQVTSTQYERRQNRALYIMYSSFISAVYNVQYPLPSSPLLSSPLLSSPLHLCPLLWPCVRPECLRLYTPPFILAPTKDKQTELGETFGEASQKYNVLFVGYCLSHDQRWLLATCTDLYGELLETCIISIDVPNRARRKKGSARRSGLQKLWDWCLGLVQMTSVPWRVVIGRLGRMGHGELKDWSILLSRRNLQSLSRRLKEVCRMCGISASDTPSILSACLVAMEPQGSFVIMPDSVSTGSVFGRSTTLNMQTSQLSTPQDTSCTHILVFPTSAFVQVASSNYTTDTNIDIAFNPIPDGSDAIGIFDLLDQENDLVDPDIINILPASPTTSPVHSPGGHYHQGGDGSKGQSTDRMESHDEAPNILQQPLALGYLVSTAKAGPLPDWFWSACPQAQNQCPLFLKASLHLHVSSVQSDELLHSKHSHPLDSNQTSDVLRFVLEQYNALSWLTCDPATQDRRSCLPIHFVVLNQMYNFIMKML
Length573
PositionMiddle
OrganismOncorhynchus mykiss (Rainbow trout) (Salmo gairdneri)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Actinopterygii> Neopterygii> Teleostei> Protacanthopterygii> Salmoniformes> Salmonidae> Salmoninae> Oncorhynchus.
Aromaticity0.08
Grand average of hydropathy-0.084
Instability index59.90
Isoelectric point5.89
Molecular weight63593.16
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. 
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

>MDP00448
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     140.38|      59|     113|       3|      65|       1
---------------------------------------------------------------------------
    3-   36 (47.44/21.02)	................................................................................IGCLEGIPIPRPNSPLALVP.LSSTMEREKVGVPT
   37-   65 (19.49/14.61)	DGESHAItYPPAivvYIVDPFTYEEPEAG......................................................................................
  117-  151 (45.31/19.70)	.............................ssvwtlgllrcylemlqflpphirnavsvqvtstqyerrqnralyimyssfISAVYNVQYPLPSSPLLSSPlLSSPLHLCPLLWPC
  153-  177 (28.15/10.12)	RPECLRL.YTPP...FILAPTKDKQTELG......................................................................................
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      48.72|      12|     234|     235|     246|       3
---------------------------------------------------------------------------
  235-  246 (24.31/15.58)	ARRSGLQKLWDW
  265-  276 (24.41/15.67)	LGRMGHGELKDW
---------------------------------------------------------------------------




































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 MDP00448 with Med13 domain of Kingdom Metazoa
Unable to open file!