<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 MDP27716

Description Mediator of RNA polymerase II transcription subunit 16
SequenceTMDLAYVCEWERWPKSTHCPSVPLACAWSCRNLIAFTTDLRNDDQDLTRMIHILDTEHPWDVHSVNSEHSEAITCLEWDQSGSRLLSADADGQIKCWSMADHLANSWESHVGSLVEGDPIVALSWLHNGVKLALHVEKSGASSFGEKFSRVKFSPSLTLFGGKPMEGWIAVTVSGLVTVSLLKPSGQVLTSTESLCRLRGRVALADIAFTGGGNIVVATADGSSASPVQFYKVCVSVVSEKCRIDTEILPSLFMRCTADLNRKDKFPAITHLKFLARDMSEQVLLCASSQTSSIVECWSLRKEGLPVNNVFQQISPVVGDKQPMILKWRILSATNDLDRVSAVALPKLPISLTNTDLKVASDTQFYPGLGRLALAFHDGSVHIVHRLSLQSMAVFYSSAAPRSADEPAVKRSRTTGPAVHFKAMQLSWTSLALVGIDNHGKLSMLRISPSMGHTLDVSLALRHLLFLLEYCMVTGYDWWDTLLHVQPGMVQSLVEKLHEEYTRQNAALQQVLSTRILAMKASLCKLSPCTVGDYHAKLFLVAVSSTLKSLLRPHFLNTPDKSPGDRLTEVCAKITDADIDKVMINLKTEEFVLDMNTLQALQQLLQWVGDFVLYLLASLPNQGSPLRPGHSFLRDGASLGTLRELMVVIRIWGLLKPSCLPVYSATSDTQDSMSLLFRLLTKLWTCCRDEGPASEPDEALVDECCLLPSQLLIPSLDWLPVSDGLVSRLQPKQPLRLHFGKAPALPASASALQLDGLIRAPGQPKIDHLRRLHLGAYPTEECKTCTRCGCVTMLRSPNKTTAVKQWEQRWIKNCLCGGLWRRVPLSYP
Length828
PositionTail
OrganismAiluropoda melanoleuca (Giant panda)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Mammalia> Eutheria> Laurasiatheria> Carnivora> Caniformia> Ursidae> Ailuropoda.
Aromaticity0.07
Grand average of hydropathy0.013
Instability index48.82
Isoelectric point7.71
Molecular weight91501.94
Publications
PubMed=20010809

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:Ensembl

GO - Biological Function
catalytic activity	GO:0003824	IEA:InterPro
thyroid hormone receptor binding	GO:0046966	IEA:Ensembl
transcription coactivator activity	GO:0003713	IEA:Ensembl

GO - Biological Process
positive regulation of transcription initiation from RNA polymerase II promoter	GO:0060261	IEA:Ensembl









Interaction





Binary Interactions











Repeat regions





Repeats

>MDP27716
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     148.53|      48|     189|      72|     120|       1
---------------------------------------------------------------------------
   72-  120 (86.04/56.52)	AITCLEW...DQSGSRLL..SADADGQIKCWSM.ADHL.ANSWESHVGSLVeGD..PI
  268-  324 (62.49/36.07)	AITHLKFlarDMSEQVLLcaSSQTSSIVECWSLrKEGLpVNNVFQQISPVV.GDkqPM
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     236.61|      77|     346|     367|     449|       2
---------------------------------------------------------------------------
  367-  449 (118.92/82.24)	PGLGRLALAfhDGsvhIVHRLS.LQSMAVFYSSAAPRSADEPAVKRS...RTTG.PAV.HFKAMQL.SWTSLALVGIDNHGKLSMLRiSP
  714-  797 (117.70/65.25)	PSLDWLPVS..DG...LVSRLQpKQPLRLHFGKAPALPASASALQLDgliRAPGqPKIdHLRRLHLgAYPTEECKTCTRCGCVTMLR.SP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     110.19|      34|     371|     147|     184|       3
---------------------------------------------------------------------------
  147-  184 (50.75/51.47)	KFSRVKFSPSLTlfgGKPMEGWIAVTVSGLVTvSLLKP
  520-  553 (59.43/43.93)	KASLCKLSPCTV...GDYHAKLFLVAVSSTLK.SLLRP
---------------------------------------------------------------------------




































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 MDP27716 with Med16 domain of Kingdom Metazoa
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