<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 MDP19830

Description Mediator of RNA polymerase II transcription subunit 16
SequenceMMDIAYVCEWEKRPKSNHCPSIPLVCAWSCRNLIAFTTDLKNEEDDKDLSHMIHIIDTDHPWDVYSINSGHNEIISCLEWDQSGSRLLSADGDGQIKCWGMTEHLVNSWECAQSSSVDGDPIVALSWLHNGVKLALHVEKSGSTNFGEKFSRVKFSPSLTLFGGKPMEGWLAVTVSGLVTVSLLKPNGTLLTASESLCRLRGRVALADIAFTGGGNIVVAATDGSSSSPVQFYKVCVSVVNEKCRIDTELLPSLFMRCTTDPLRRDKYPAVTHLKFLTRENSEQVLLCASSQMGSIVECWSLRKEGLPVNNIFQHRSPVVGEKQPMTLKWRILSTTNDLDRVSAVALPKLPISISNTDLKVASDTKFFPGLGLALAFHDGSIQILHRLSLQTVGMFYGSSGSSQRVGEEPAIKRQRAGGPMLHFKALQFSWTSLALVGIDNHGKLHMFRVSPSMGQMLDMNTLLRHLLFLLEYCMVTGYDWWDVLLHAQPGMVHNLLEKLHEEYMRQNQALQQVLSTRIVAVKASLCKLSSATAARACDFHAKLLLIAISSTLKSLLRPHVLNTPDKSPGDRLSEICAKNTDTDIDKVMINLKTEEFVLDGPPLQSLQQLIQWVGDFVLYLLANLPNQGSIVRPGFGFLRDGASLGMLREMLVMIRIWGLLKPGCLPIYTATSDNQDSMFLLFRLLTKLWLCSRDESHPQDPDETLIDECCLLPSQLLVPSMDWLPINDGVITKIQGKHQLRLQFGKPYTLPGVNPNAQVEIFRSPASQRVDHLRCLHLGISPTEDSKACTRCGCVTMLRSPNKTNATRQWEQRWIKNCLCGGLWRRIPSTLS
Length833
PositionTail
OrganismDanio rerio (Zebrafish) (Brachydanio rerio)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Actinopterygii> Neopterygii> Teleostei> Ostariophysi> Cypriniformes> Danionidae> Danioninae> Danio.
Aromaticity0.07
Grand average of hydropathy-0.072
Instability index44.96
Isoelectric point7.90
Molecular weight92825.43
Publications
PubMed=23594743

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	IBA:GO_Central

GO - Biological Function
GO - Biological Process
positive regulation of transcription, DNA-templated	GO:0045893	IBA:GO_Central









Interaction





Binary Interactions











Repeat regions





Repeats

>MDP19830
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     290.79|      91|     510|     186|     293|       2
---------------------------------------------------------------------------
  186-  293 (137.82/123.17)	PNGTLLtasESLCRLRGRVALADIAFTGGGNIVVAATDGSSSSPVQFYK.VCVSVVNEKCRIDTellpslfmrcttdpLRRDKYPAVTHLKFL.....TRENSEQVLLCASSQM
  702-  798 (152.97/100.10)	PDETLI...DECCLLPSQLLVPSMDWLPINDGVITKIQGKHQLRLQFGKpYTLPGVNPNAQVEI..............FRSPASQRVDHLRCLhlgisPTEDSKACTRCGCVTM
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      84.00|      23|     200|      94|     127|       3
---------------------------------------------------------------------------
   58-   80 (45.84/33.99)	TDH...PWDVYSINSGHNEIISCLEW
  102-  127 (38.16/23.37)	TEHlvnSWECAQSSSVDGDPIVALSW
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      42.95|      10|     520|      15|      41|       4
---------------------------------------------------------------------------
    4-   13 (20.84/19.42)	IAYVCEWEKR
   22-   31 (22.11/20.47)	IPLVCAWSCR
---------------------------------------------------------------------------




































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 MDP19830 with Med16 domain of Kingdom Metazoa
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