<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 MDP29028

Description Mediator of RNA polymerase II transcription subunit 16
SequenceMELAYVCEWEKRPKCTHCPSIPLVCSWSCRNLVAFTTDLKNDDEDKEISHMIHIIDTEHPWDVYCISSGHTEVISCLEWDQSGSRLLSADGDGQIKCWSMSDHLVNSWENILLSSVDGDPIVALTWLHNGVKLALHVEMSGSTNFGEKFSRVKFSPSLTLFGGKPMEGWLAVTVSGLVTVSLLKPGGTLLTASESLCRLRGRVALADIAFTGGGNIVVAASDGSSSSPVQFYKVVVSVVNEKCRIDTELLPSLFLRCTTDPLRRDKYPAVTHLKFLTRENSEQVLLCASNQNGSIVECWSLRKEGLPVNNIFQHRSPVVGEKQPTILKWRILTTTSDLERVSAVALPKLPISISNTDLKVATDTKFCPGLGLALAFNDGSIQILHRLSLHTMGVFYGSSTASTGQRPGDESAIKRQRTGSPAVHFKALQFSWTSLALAGIDNHGKLYMLRVSPSMGQVLEMNTTLRHLLFLLEYCMVTGYDWWDVLLHVQPTMVHNLVEKLHEEYMRQNLALQQVLATRILAVKASLCKLSTATAARACDFYAKLLLIAISSTLKSLLRPHVLNTPDKSPGDRLSEICAKNTDTEIDKVMINLKTEEFVLDGPPLQSLQQLIQWVGDFVLYLLANLPNQGSMVRPGFGFMRDGASLGMLREMLVMIRIWGLLKPGCLPTFTAMSDNQDSMQLLFRLLTKLWLCSREDGPPQDPDESLIDECCLLPSQLLVPSMDWLPVNDGIIGKLQGKHPLRLQFGKASSLSGGGATAPLELFNRSPGSQKMDNLRCVHMGVCPTEESKACTRCGCVTMLRSPNKTNAMKQWEQRWIKNCLCGGLWRRIPPTVA
Length835
PositionTail
OrganismTakifugu rubripes (Japanese pufferfish) (Fugu rubripes)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Actinopterygii> Neopterygii> Teleostei> Neoteleostei> Acanthomorphata> Eupercaria> Tetraodontiformes> Tetradontoidea> Tetraodontidae> Takifugu.
Aromaticity0.07
Grand average of hydropathy-0.027
Instability index49.58
Isoelectric point7.69
Molecular weight92465.24
Publications
PubMed=21551351

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:InterPro

GO - Biological Function
catalytic activity	GO:0003824	IEA:InterPro

GO - Biological Process








Interaction





Binary Interactions











Repeat regions





Repeats

>MDP29028
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     179.85|      56|      82|     266|     324|       2
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  266-  324 (93.85/55.86)	KYP...AVTHLKFLTRENSEQVL.LCASNQNGSIvecWSLRKEGLPVNNIFQHRSPVVGEKQP
  348-  407 (86.00/44.42)	KLPisiSNTDLKVATDTKFCPGLgLALAFNDGSI...QILHRLSLHTMGVFYGSSTASTGQRP
---------------------------------------------------------------------------
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      96.60|      26|      44|      61|      86|       3
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   61-   86 (49.98/29.28)	WDVYCISSGHTEVISCLEWDQSGSRL
  108-  133 (46.63/26.86)	WENILLSSVDGDPIVALTWLHNGVKL
---------------------------------------------------------------------------
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     309.60|     114|     350|     135|     253|       4
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  135-  185 (57.45/36.16)	................................................................................................................................................................................................................................................................................................................LHVEMSGSTNFGEKFSRVKFSPSLTLFGGKPMEG.WLAVTVS..GLVTV...SLLKP
  186-  253 (69.41/62.73)	GGTLLTASESLCR..LRGRVaLADIAFTGGGNIV.VAASDgsssSPVQFYKVVVSVVNEKCRIDTELLPSL..................................................................................................................................................................................................................................................................................................
  487-  538 (33.00/16.24)	.......................................................................flrcttdplrrdkypavthlkfltrenseqvllcasnqngsivecwslrkeglpvnnifqhrspvvgekqptilkwriltttsdlervsavalpklpisisntdlkvatdtkfcpglglalafndgsiqilhrlslhtmgvfygsstastgqrpgdesaikrqrtgspavhfkalqfswtslalagidnhgklymlrvspsmgqvlemnttlrhllflleycmvtgydwwdvlLHVQPTMVHNLVEKLHEEYMRQNLAL..QQVLATrILAVKASlcKLSTA...TAARA
  543-  664 (149.74/113.01)	AKLLLIAISSTLKslLRPHV.LNTPDKSPGDRLSeICAKN....TDTEIDKVMINLKTEEFVLDGPPLQSL..............................................................................................................................................................................................................................qqliqwvgdfvLYL.LANLPNQG...SMVR..PG...FGFMRDGA.SLGMLRE..MLVMIriwGLLKP
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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 MDP29028 with Med16 domain of Kingdom Metazoa
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