<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 MDP25135

Description Mediator of RNA polymerase II transcription subunit 16
SequenceMTILYKVESRREFGNAKDSSVFPHKVVLCAVSARNIIAFSALQSLSTHVYVCDIVTPWQYYKVCVSKSLINVLAWSASGEQLLLGFIGGRVEIWQPREQALNVWQLHYFAHIPSEDIIEARFFHNGKGVHFNAQKKDHIYYAEKFERLDQRPTLTGFGGVATEGCILLTSSGLLAAFTLSPLQKQSATGNSPPDPATLHLTNNNTNSSNSNSCSGSNNSEQIELIPATHSIGISRSYIEHCSILASASGALNIAYSIGWQQQQQLVHCFKVSLQLDGKRISIKSESLASIFLQPLESSRRISQLLWTRLGNDDVIYVVFAGSEQSSLLEQWTLTRRHQNVHALLQQQSASSASASSAATSSSSALATAAATSAASGASKPSVDCESWEQVAKLQLNANIAQLCCTRLAGDSEQLYVILQDNSVQVLEPGTLKQLQHTQFERGNSSSGNDASDVARFVCADLTPTSQMLLIFDSHAQLHAMQTPVLLKQSATGSMQLLLLLLEYCIVTGVDASDVLLLNLGNLEALVEKLTENFTRQPSYVRQFYYANFLALKSNLCRAQQQEFDNLIILHAISSTFKSLLRPSDLGCQDKGPADNLAMKLAESVPDVDNVMLNLDPKDFTVEPMMLQSLQQLIQWVTDLALNMLNRLPDEVIKCKLAGKRQGSYDISRDIVAISSLRELLVMIRIWGLLNPQCLPVYTKTMENIDVLAILFRLLTRLAQNVAEPDELLLDECSLLSKQLLIPQLARHNPTTLLSAQGYAAVKSGQLTFTSLVEPVGLQDIEMEQVVFANCVKDGVSNLQLGANPSTIRRCARCGFVNSANKVAKTSALKAWCNKWLHCHCGGFWKQIN
Length848
PositionTail
OrganismDrosophila grimshawi (Hawaiian fruit fly) (Idiomyia grimshawi)
KingdomMetazoa
LineageEukaryota> Metazoa> Ecdysozoa> Arthropoda> Hexapoda> Insecta> Pterygota> Neoptera> Endopterygota> Diptera> Brachycera> Muscomorpha> Ephydroidea> Drosophilidae> Drosophila> Hawaiian Drosophila.
Aromaticity0.07
Grand average of hydropathy-0.014
Instability index49.08
Isoelectric point6.48
Molecular weight93351.71
Publications
PubMed=17994087

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
mediator complex	GO:0016592	IEA:EnsemblMetazoa

GO - Biological Function
transcription coregulator activity	GO:0003712	IEA:EnsemblMetazoa

GO - Biological Process
regulation of transcription by RNA polymerase II	GO:0006357	IEA:EnsemblMetazoa
response to heat	GO:0009408	IEA:EnsemblMetazoa
response to lipopolysaccharide	GO:0032496	IEA:EnsemblMetazoa









Interaction





Binary Interactions











Repeat regions





Repeats

>MDP25135
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      60.01|      18|      23|     349|     366|       1
---------------------------------------------------------------------------
  349-  366 (27.01/16.05)	ASSASASSAATSSSSALA
  374-  391 (33.00/21.33)	ASGASKPSVDCESWEQVA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      43.83|      14|      26|     713|     728|       2
---------------------------------------------------------------------------
  713-  728 (18.71/17.61)	LLTRLAQNvaEPDELL
  740-  753 (25.12/16.28)	LIPQLARH..NPTTLL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      33.16|      10|      27|     296|     307|       3
---------------------------------------------------------------------------
  296-  307 (14.38/12.48)	ESSRRISQllWT
  323-  332 (18.79/ 9.48)	EQSSLLEQ..WT
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      33.28|      10|      27|     462|     471|       4
---------------------------------------------------------------------------
  462-  471 (17.52/ 8.36)	TPTSQMLLIF
  491-  500 (15.76/ 6.86)	TGSMQLLLLL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     110.57|      20|      72|     512|     531|       5
---------------------------------------------------------------------------
  512-  531 (29.33/16.55)	SDVLLLNLGNLEALVEKLTE
  538-  557 (28.78/16.11)	SYVRQFYYANFLALKSNLCR
  583-  602 (30.53/17.51)	SDLGCQDKGPADNLAMKLAE
  607-  624 (21.93/10.63)	VDNVMLNLDPKDFTVEPM..
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      54.40|      19|      19|     794|     812|       8
---------------------------------------------------------------------------
  794-  812 (32.69/24.80)	G.VSNLQLGANPSTIRR.CAR
  814-  834 (21.70/13.63)	GfVNSANKVAKTSALKAwCNK
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      77.71|      33|     195|     198|     233|      10
---------------------------------------------------------------------------
  198-  214 (19.46/ 8.26)	........................L.HLTNNNTNSSNSNSCS
  218-  233 (16.18/ 6.93)	NSEQIELIPATHSIGI..........................
  410-  451 (42.07/16.72)	DSEQLYVILQDNSVQVlepgtlkqLqHTQFERGNSSSGNDAS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      89.25|      25|      34|      35|      59|      11
---------------------------------------------------------------------------
   35-   59 (44.96/24.42)	NIIAFSALQSLSTHVYVCDIVTPWQ
   71-   95 (44.28/23.96)	NVLAWSASGEQLLLGFIGGRVEIWQ
---------------------------------------------------------------------------




































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 MDP25135 with Med16 domain of Kingdom Metazoa
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