<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 MDP28041

Description Mediator of RNA polymerase II transcription subunit 16
SequenceMELVYVCEWENWAKNTYCPSLPLACAWSCRNLIAFTTDLRNDDQDLTHMIHILDTEHPWEVHSVNSGHSEAITCLEWDQSGSRLLSADADGHIKCWSMADHLANSWESSVGSQVEGDSIVALSWLHNGVKLALHVEKSGASSFGEKFSRVKFSPSLTLFGGKPMEGWIAVTVSGLVTVSLLKPSGQVLTSTESLCRLRGRVALADIAFTGGGNIVVAAADGSSASPVKFYKVCVSVVSEKCRIDTEILPSLFMRCTTDPNRKDRFPAITHLKFLARDMSEQVLLCASSQTSSLVECWSLRKEGLPVNNIFQQISPVVGDKQPMILKWRILSATNDLDRVSAVALPKLPISLTNTDLKVASETQFYPGLGLVLAFQDGSVQMVHRLSLQTMAAFYSSTPRSLDEPALKRPRTTGPAVHFKAMQLSWTSLALVGIDNHGKLSMLRISPSLGHPLEPKLALQHLLFLLEYCMVTGYDWWDILLHVQPGMVQSLVERLHEEYTRQKPALQQVLSTRILAMKASLCKLSPCTVARVCDYHTKLFLMAITSTLKSLLRPHFLNTPDKSPGDRLAEICAKITDVDIDKVMINLKTEEFVLDMNTLQALQQLLQWVGDFVLYLLVSLPNQGSPLRPGHSFLRDGTSLGTLRELMVVIRIWGLLKPSCLPVYTATSDTQDSMSLLFRLLTKLWICCRDEGPASEPDEGLVDECCLLPSQLLVPSLDWLPASDGLVSRLQPKQPLRLRFGRAPTLPSNTSTLQLDGLARAPGQPKIDHLRRLHLGAYPTEECKACTRCGCVTMLKSPNKATAVKQWEQRWIKNCLCGGLWRRVPLSCP
Length828
PositionTail
OrganismCricetulus griseus (Chinese hamster) (Cricetulus barabensis griseus)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Mammalia> Eutheria> Euarchontoglires> Glires> Rodentia> Myomorpha> Muroidea> Cricetidae> Cricetinae> Cricetulus.
Aromaticity0.07
Grand average of hydropathy-0.000
Instability index49.76
Isoelectric point8.02
Molecular weight91827.62
Publications
PubMed=21804562

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
catalytic activity	GO:0003824	IEA:InterPro

GO - Biological Process








Interaction





Binary Interactions











Repeat regions





Repeats

>MDP28041
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     461.59|     164|     298|     122|     319|       1
---------------------------------------------------------------------------
  122-  319 (211.08/183.23)	LSWlhngVKLALhvekSGASSFGeKFSRVKFSPSLtlfgGKPMEGWIA............VTVSGLVTVSL.LKPsGQVLTSTESLCR..LRGRVALADIAFTgggNIVVAAADGSSASPVKFYKVC.....VSVVSEkcridTEILPSL....FMRcTTDPNRKDRFPAIThLKFLARDMsEQVLLcaSSQTSSLVecwsLRKEGLpvnNIFQQISPVVGD
  423-  610 (250.52/130.19)	LSW....TSLAL....VGIDNHG.KLSMLRISPSL....GHPLEPKLAlqhllflleycmVTGYDWWDILLhVQP.GMVQSLVERLHEeyTRQKPALQQVLST...RILAMKASLCKLSPCTVARVCdyhtkLFLMAI.....TSTLKSLlrphFLN.TPDKSPGDRLAEIC.AKITDVDI.DKVMI..NLKTEEFV....LDMNTL...QALQQLLQWVGD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      52.31|      15|      32|     730|     744|       2
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  730-  744 (30.34/19.03)	QPK.QPL.RLRFGRAPT
  763-  779 (21.97/11.70)	QPKiDHLrRLHLGAYPT
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---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      54.91|      13|     795|       6|      18|       4
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    6-   18 (29.94/17.44)	VCEWEN.WAKNTYC
  803-  816 (24.98/13.46)	VKQWEQrWIKNCLC
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     102.72|      24|      31|     671|     694|       5
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  635-  663 (27.34/11.97)	DGTSLgtLRE..LMVviRI.WGLLKPSClPVY
  671-  694 (43.58/23.68)	DSMSL..LFR..LLT..KL.WICCRDEG.PAS
  702-  727 (31.80/15.19)	DECCL..LPSqlLVP..SLdWLPASD.G.LVS
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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 MDP28041 with Med16 domain of Kingdom Metazoa
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