<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 MDP26083

Description Mediator of RNA polymerase II transcription subunit 17
SequenceMSYSVNISVEAPIENQIQEITYDGTEIYQPPLTLSESLTKYAQKIDFSKTSDIDFKKEPGEAIEDNKSDSDSKDAFQSSLWPWDSARNKLRNAFQEVCVLADVLAIAKDKRYMVLDPVQQEPIETKPMVQIYARKKALAGAASVLLTGAERLKTSQNEAARNRTVPDFHIELLRLRQNWRLKKVSNTIIGDLSYRTAGSKYTQTGTFEVTKAEDDDKTNSPPSSPIPGGATTAKTNSALRVSIPSELQGVAYIEVLCQKDQEDLCSVNVNLLGSGPPASNPDMHWQQKLEAAQNVLFCKELFNQLAKEAVQLQAPIPHMVVGNQIMATVFPGIQLIIGLCHSTVGDKKQQNNNSSKTDHDHVLEHSLHQLLREVHHKNTHHPFPHPATGPLGPSKKRMLAGPMAADRYELLEMTKSETLLEQIIKQAQHFFMRLRTEYVLDTIAKEVKDPLISSHWNTLNSPTQSCVKINISTHGYDALCRTPLVIHVGEKSLKCICRDGKVMHMSYEPQELRDLIFCHINQHQILAVQALAKTMGWQFLANSNHLGTGAVEPLGNASSCLLASPTGDRIIAVRCEPQTGIQVCVAHSPRSDFFPSRLVTERKWEHLGGQFRDVRLEKMEGRNFLHKMELLMASLTSSS
Length639
PositionHead
OrganismTribolium castaneum (Red flour beetle)
KingdomMetazoa
LineageEukaryota> Metazoa> Ecdysozoa> Arthropoda> Hexapoda> Insecta> Pterygota> Neoptera> Endopterygota> Coleoptera> Polyphaga> Cucujiformia> Tenebrionidae> Tenebrionidae incertae sedis> Tribolium.
Aromaticity0.06
Grand average of hydropathy-0.396
Instability index45.39
Isoelectric point6.93
Molecular weight71365.63
Publications
PubMed=18362917
PubMed=19820115

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
core mediator complex	GO:0070847	IBA:GO_Central
mediator complex	GO:0016592	IBA:GO_Central

GO - Biological Function
transcription coregulator activity	GO:0003712	IBA:GO_Central

GO - Biological Process
regulation of transcription by RNA polymerase II	GO:0006357	IBA:GO_Central









Interaction





Binary Interactions











Repeat regions





Repeats

>MDP26083
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      53.15|      14|      16|     474|     487|       1
---------------------------------------------------------------------------
  474-  487 (26.65/17.71)	HGYDALCRTPLVIH
  491-  504 (26.50/17.58)	KSLKCICRDGKVMH
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      37.84|      12|      18|     415|     426|       2
---------------------------------------------------------------------------
  415-  426 (18.58/11.61)	KSETLLEQIIKQ
  435-  446 (19.26/12.27)	RTEYVLDTIAKE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      97.28|      28|     161|     378|     407|       3
---------------------------------------------------------------------------
  378-  407 (46.16/34.37)	NTHHpFPHPATGPLGPSKKRMLAGPmAADR
  542-  569 (51.12/28.41)	NSNH.LGTGAVEPLGNASSCLLASP.TGDR
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      41.81|      11|      16|     217|     227|       7
---------------------------------------------------------------------------
  217-  227 (22.37/14.72)	KTNSPPSSPIP
  234-  244 (19.44/11.82)	KTNSALRVSIP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      57.76|      16|      21|     303|     323|       9
---------------------------------------------------------------------------
  308-  323 (28.51/25.65)	EAVQLQAPIPHMVVGN
  331-  346 (29.26/13.57)	PGIQLIIGLCHSTVGD
---------------------------------------------------------------------------




































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 MDP26083 with Med17 domain of Kingdom Metazoa
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