<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 MDP00834

Description Mediator of RNA polymerase II transcription subunit 16
SequenceMDLIYAVFRKHTTSSTKSLQNFECLHEGHTLCSVSSQNIVAFTTTTEIEDISGKTWGSHVYVADLNTPWYSHKVVSNKTGVTALEWDLPGDKLLVADTAGNVQLWSFKDHILNDWVCLGTASFPGEHILGAAFFHNGKKISLVSEKKDNVYYNEKFTHLRFPPSVRYFGGRPMEGCLVISTTGMVGVVIASREGHQGSPQLIITSDSLGSTRHRITAVDICYGKNGHFLVAVSSGSVSLPIQCFRVSVKQGDEKCVIMSQALPSFFLQSSPIKENQYRHVSQLKFVVREDADSLVVAANGDSGCLIEIWELREKPLPIHKLFQPKSHSSQTEPFKTVLWQHQSHFMSSSPVVCITTSKLSITTTMPPPCYVMVALADGSIHCLYRDSLKQVATASLNQAWRQEEAPSSKQQRLGLRISHLDMSWLGCVLVATDTQGQLYLYRLLPISEPGGPMTVPYACTLLEYCLVTGLDWWDLLVSLRPSMMDTVCERFTESFNRQLQQVQQFHYVQFLNIKTSLYRLTVNGQSKAADLTSLLMLHSVATAFKSLLRPSDLSSHDKGPAESLATVMMDSLTDVDKVLFHLEAKEFTVEPSTLQSLQQLIQWVADLALNLLARLPEQRQPGKSSGYELLRDYKALNTLRELLVIIRIWGLLRQSCLPVFVRSAENLDVLALLFRLISRLIQTLEADENLLDECCLLPSQVMIPQLNPPTKIVAVASPALFYQSLPIQLEFGVEPECLHFVPELSPVEGSMQTEQTVDSIRHIYLGKQPLVVKQCCRCGCKAQVQSMTRTAAIRAWDQRWARACRCGGHWRIHRFL
Length816
PositionTail
OrganismZootermopsis nevadensis (Dampwood termite)
KingdomMetazoa
LineageEukaryota> Metazoa> Ecdysozoa> Arthropoda> Hexapoda> Insecta> Pterygota> Neoptera> Polyneoptera> Dictyoptera> Blattodea> Blattoidea> Termitoidae> Termopsidae> Zootermopsis.
Aromaticity0.08
Grand average of hydropathy-0.032
Instability index50.24
Isoelectric point7.31
Molecular weight91446.46
Publications
PubMed=24845553

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

>MDP00834
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     136.92|      34|      78|     239|     272|       2
---------------------------------------------------------------------------
  172-  208 (33.43/17.44)	.PM.EgCL..VIST.TGMVGVVIASreghQGSPQLIITSDSL
  239-  272 (59.58/36.83)	LPI.Q.CF..RVSVKQGDEKCVIMS....QALPSFFLQSSPI
  316-  351 (43.90/25.20)	LPIhK.LFqpKSHSSQTEPFKTVLW....QH.QSHFMSSSPV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      62.46|      20|      40|     536|     555|       5
---------------------------------------------------------------------------
  536-  555 (34.12/21.67)	MLHSVATAFKSLLR.........PSDLSS
  568-  596 (28.34/16.76)	MMDSLTDVDKVLFHleakeftvePSTLQS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      57.03|      16|     196|      24|      39|       7
---------------------------------------------------------------------------
   24-   39 (31.36/20.87)	CL.HEGHTLCSVSSQNI
  221-  237 (25.68/15.73)	CYgKNGHFLVAVSSGSV
---------------------------------------------------------------------------




































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 MDP00834 with Med16 domain of Kingdom Metazoa
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