<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 MDP28912

Description Mediator of RNA polymerase II transcription subunit 16
SequenceMELAYVCDWEKRQKNAHCPSIPVVCSWSCRNLVAFTTDLKSDDNEKDVSHMIHIIDTEHPWDVFSINSGHTEVISCLEWDQSGSRLLSADGDGQIKCWSMTDHLVNSWESILSSSLDRDPIIALSWLHNGVKLALHVEMSGSTNFGEKFSRPGGSLLTASESLCRLRGRVALADIAFTGGGNIVVAATDGSSSSPVQFYKVVVSVVSEKCRIDTELLPSLFLRCTTDPMRRDKYPAVTHLKFLTRENSEQVLLCASNQTGSIVECWSLRKEGLPVNNIFQHRSPVVGEKQPTILKWRILTTTGDLERVSAVALPKLPIAISNTDLKVAPDTKFCPGLGLALAFHDGSIQIHHRLSLHFMGIYYSSSSSGPRPGDEATLKRQRTSGPFLHFKALQFSWTSLALVGIDNYGKLHMLRVSPSMCQVLDMNTTLRHLLFLLEYCMVTGYDWWDVLLHVLPNMVHNLVEKLHEEYMRQNQALQQVLATRIVAVKASLCKLSAATAARACDFHAKLLLMAISSTLKSLLRPHVLNTPDKSPGDRLSEICAKNTDTDIDKVMINLKTEEFVLDGPPLQSLQQLIQWVGDFVLYLLANLPNQGSMVRPGFGFMRDGASLGMLREMLVMIRIWGLLKPGCLPTFTAMSDSQDSLQLLFRLLTKLWLCSREDGPTQEPDEGLIDECCLLPSQLLVPSMDWLPVNDGVIVKLQGKNPLKLQFGKASSLPGAAGGAPLEALTRSPGSQKMDNLRCVFLGVCPTEESKACTRCGCVTMLRSPNKTNAMKQWEQRWIKNCLCGGLWRRIPAALS
Length800
PositionTail
OrganismOryzias latipes (Japanese rice fish) (Japanese killifish)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Actinopterygii> Neopterygii> Teleostei> Neoteleostei> Acanthomorphata> Ovalentaria> Atherinomorphae> Beloniformes> Adrianichthyidae> Oryziinae> Oryzias.
Aromaticity0.07
Grand average of hydropathy-0.045
Instability index48.03
Isoelectric point7.70
Molecular weight88768.91
Publications
PubMed=17554307

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

>MDP28912
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     598.64|     179|     186|     143|     326|       2
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   36-  191 (152.07/99.57)	.................................TTDLKSD..DNEKDVSHMIHiidtehpwdvfsinsghteviscLEWDQSGSRLLSADGD.GQI.KCWSM.TDHL...VN....S.................WEsIL.SSS.LDRDPIIALSW........LHNGVKlALHVEmsgsTNFGekfsrPG.GSLLTASESLCRLRGRVAL..ADIAFTGGGNIVVAATDGS
  192-  377 (291.91/180.94)	SSSPVQFYKVVVSVVSEKCRIDTELLPSLFLRCTTDPMRR..DKYPAVTHLKF.......................LTRENSEQVLLCASNQTGSIVECWSLRKEGLP..VNNIFQH.RSPVVGEKQ..PTILKWR.ILTTTGDLERVSAVALPK........LPIAIS.NTDLKvapdTKFC.....PGlGLALAFHDGSIQIHHRLSLhfMGIYYSSSSSGPRPGDEAT
  383-  520 (154.66/90.90)	TSGPFLHFKALQFSWTSLALVGIDNYGKLHMLRVSPSMCQvlDMNTTLRHLLF.......................LLE.......YCMV..TG..YDWWDVLLHVLPnmVHNLVEKlHEEYMRQNQalQQVLATR.IVAVKASLCKLSAATAARacdfhaklLLMAIS.ST.LK........................................................
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      77.45|      23|      31|     600|     624|       3
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  600-  624 (40.09/35.14)	PGFGFMRDGA.SLGMLREMLvmIRIW
  633-  656 (37.37/25.20)	PTFTAMSDSQdSLQLLFRLL..TKLW
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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 MDP28912 with Med16 domain of Kingdom Metazoa
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