<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 MDP17794

Description Mediator of RNA polymerase II transcription subunit 16
SequenceMDLIYALFRKHTTNSAKSLQNYEWYTLHEGHTLCSVSSQNIVAFTTTTELEDISGKTWGSHVYVADLNTPWHSHKVVSNKAGVTALEWDMPGDKLLLADTAGNVQLWSFRDHILNDWLCLGTASFPGEHILGAAFFHNGKKISLVSEKKDNIFYNEKFTHLRFPPSVRYFGGRPMEGCLVISTTGMVGVVIASREGHQGSPQLIITSDSLGSTRHRITAVDICYGKNGHFLVAVSSGSVSLPIQCFRVSVKQSDDKCIIMSQALPSFFLQSSPIKENQYRHVVQLKFVVREDADSLVVAANGDSGCLVEIWELREKPMPIHKLFQPKSHSSQPEPFKTVLWQHQSHFMSSSPVVCITTSKLSITTAMPPPCYVMVALADGSIHCLYRDSLKQVATASLNQAWRQEEAPTSKQQRLGLRISHLDMSWLGCILVAADTQGQLYLYRLLPIAEPGGPMTVPYACTLLEYCLVTGLDWWDLLVSLRPSMMDTVCERFTESFNRQLQHVQQFHYVQFLNIKTSLYRLTVNGQSKAADLTSLLMLHSVATAFKSLLRPSDLSSHDKGPAESLAAVMMDSLTDVDKVLFHLEAKEFTVEPSTLQSLQQLIQWVADLALNLLARLPEQRQPGKSSGYELLRDYKALNTLRELLVIIRIWGLLRQSCLPVFVRSAENLDVLALLFKLLSRLIQTSEPDENLLDECCLLPSQVMIPQLNPSTKIVAVASPALFYQSLPIQLEFGVEPESLYFVPELSPVEGAMQTEQTVDSIRHIYLGRQPLVVKQCSRCGCKAQVQSMTRTAAIRAWDQRWARACRCGGHWRIHRFL
Length818
PositionTail
OrganismCryptotermes secundus
KingdomMetazoa
LineageEukaryota> Metazoa> Ecdysozoa> Arthropoda> Hexapoda> Insecta> Pterygota> Neoptera> Polyneoptera> Dictyoptera> Blattodea> Blattoidea> Termitoidae> Kalotermitidae> Cryptotermitinae> Cryptotermes.
Aromaticity0.08
Grand average of hydropathy-0.040
Instability index49.50
Isoelectric point7.33
Molecular weight91777.81
Publications









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

>MDP17794
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      46.41|      12|      61|     270|     281|       5
---------------------------------------------------------------------------
  270-  281 (22.86/13.06)	QSSPIKENQYRH
  332-  343 (23.55/13.66)	QPEPFKTVLWQH
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      39.40|      11|      39|     700|     710|       7
---------------------------------------------------------------------------
  700-  710 (22.11/11.65)	P.SQVMIPQLNP
  737-  748 (17.29/ 7.71)	PeSLYFVPELSP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      34.33|      12|     483|     231|     244|      11
---------------------------------------------------------------------------
  231-  244 (17.52/17.15)	LVAVSSG...svSLPIQ
  714-  730 (16.81/ 8.65)	IVAVASPalfyqSLPIQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      82.91|      26|     146|     195|     224|      13
---------------------------------------------------------------------------
  195-  224 (42.41/35.24)	EGH..QGSPQLIITSDSLGSTrhriTAV.DICY
  344-  372 (40.50/23.64)	QSHfmSSSPVVCITTSKLSIT....TAMpPPCY
---------------------------------------------------------------------------




































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 MDP17794 with Med16 domain of Kingdom Metazoa
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