<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 MDP26518

Description Mediator of RNA polymerase II transcription subunit 16
SequenceMTELDDNSGKTRGCHVYVTDMNMPWHAHKILSNRHNITALEWDLPGDKLVVADVAGNVQLWMLKDHVLNDWILIGSTCFPGEHILGVAWFHNGKKTGLVTEKKDSIHYNEKFNHLLFAPSVRQFGGRAAEGVLVVSTTGMVGAVMITKDLQVPICYSTESLGSTRHRITAVDLCYGKNGHFLVAVSSGNICLPIRCYRVLVRRNDDKCTITSQALPSFFLQDGAPKDNSCTIVTHLKFVVREDADSLVIAANSENGGFIEVWELREKSQPVHKLFQPKSLEPFKTVVWQYQSQYRCQSPVTAIATTKLSIVTTLPPPSYIIIALADSSVHCLNRLDCLKEVTFSSLNMGWRQDEPNSKYFKSSISISHMDLSWLGCVLLACDTHGNLYLYKLLPDGTTGTSMTLSYACTLLEYCLVTGLDWLDILLCLRSSMVETLCERLDVSFNRQPQPTQQYHYVQFLCIKTSLYR
Length468
PositionTail
OrganismHarpegnathos saltator (Jerdon's jumping ant)
KingdomMetazoa
LineageEukaryota> Metazoa> Ecdysozoa> Arthropoda> Hexapoda> Insecta> Pterygota> Neoptera> Endopterygota> Hymenoptera> Apocrita> Aculeata> Formicoidea> Formicidae> Ponerinae> Ponerini> Harpegnathos.
Aromaticity0.09
Grand average of hydropathy-0.037
Instability index46.00
Isoelectric point6.97
Molecular weight52567.99
Publications
PubMed=20798317

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

>MDP26518
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      58.83|      18|      21|     205|     224|       1
---------------------------------------------------------------------------
  205-  224 (27.32/28.36)	DDKCTITSQAlpSFFLQDGA
  227-  244 (31.51/23.62)	DNSCTIVTHL..KFVVREDA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     165.86|      51|     128|      16|      68|       3
---------------------------------------------------------------------------
   16-   68 (89.06/60.85)	VYVT.DMNMP..WHAHKILSNRHNITALewDL...PGDKLVVADVAGNVQLWMLKDHVL
  144-  200 (76.80/45.64)	VMITkDLQVPicYSTESLGSTRHRITAV..DLcygKNGHFLVAVSSGNICLPIRCYRVL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      83.70|      24|      30|     369|     393|       4
---------------------------------------------------------------------------
  369-  393 (43.03/31.08)	MDLSWlGCVLLA.CDTHGNLYLYKLL
  402-  426 (40.67/24.63)	MTLSY.ACTLLEyCLVTGLDWLDILL
---------------------------------------------------------------------------




































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 MDP26518 with Med16 domain of Kingdom Metazoa
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