<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 MDP16280

Description Mediator of RNA polymerase II transcription subunit 16
SequenceMELAFVTNWPKTDVNLCIKKLLGDYVCSLSCRNTFAFTAIASCKNADTKEEREIFIPQVHIIDPDRPWERYSNTGDHKDPITLLEWESTGTRLLSGDAGGRIVLWQMKNHMLNDWSCSTETHISGEPIVATSWLHGVSKLYFDVDNIECPNWLEVFKHIPFQPSLKLHGSSHAEGWIAVTTQGMVTVKLLNLKGENEVSQRLSQTRPIHVAVADIAFQSSGHILIAVADGSTRLPVHVFRITLKWERNKCTMKIDQLPSYFVRCCLDFNTREKYPTISHLKFLNKECMKPQIGSRATEQLVVCASGSNGSCIEICTLEKEPNPLNIPQVFQSTQMNRDKTSSQLEYVFPSSVRKSTITKYNYGWILYEKHECPVSIRLTLRLCDAFKYEKVKPDSQGKRQKVLQGKHVVCMEMSNSCCALMGVDRPGPSVSSGSGPCWASLLIKKSLSLRYVGSQPKFWQGVLQVCSGALRAHTISVVVNLFVYCLVTGFDQWDVILRVTPNMVEAILDKLTNGFKINPRLRRSC
Length525
PositionTail
OrganismStichopus japonicus (Sea cucumber)
KingdomMetazoa
LineageEukaryota> Metazoa> Echinodermata> Eleutherozoa> Echinozoa> Holothuroidea> Aspidochirotacea> Aspidochirotida> Stichopodidae> Apostichopus.
Aromaticity0.08
Grand average of hydropathy-0.181
Instability index42.38
Isoelectric point8.78
Molecular weight59269.89
Publications
PubMed=29023486

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
GO - Biological Process








Interaction





Binary Interactions











Repeat regions





Repeats

>MDP16280
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      64.42|      18|     111|     301|     319|       3
---------------------------------------------------------------------------
  301-  319 (28.86/19.24)	VVCASGSNgSCIEICTLEK
  408-  425 (35.56/19.30)	VVCMEMSN.SCCALMGVDR
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      53.37|      14|      20|     233|     249|       5
---------------------------------------------------------------------------
  233-  246 (25.70/18.38)	RLPVHVFRITLKWE
  256-  269 (27.67/11.51)	QLPSYFVRCCLDFN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      60.65|      16|      16|     128|     143|       8
---------------------------------------------------------------------------
  128-  143 (29.25/17.36)	IVATSWLHGVSKLYFD
  147-  162 (31.40/19.13)	IECPNWLEVFKHIPFQ
---------------------------------------------------------------------------




































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 MDP16280 with Med16 domain of Kingdom Metazoa
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