<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 MDP28889

Description Mediator of RNA polymerase II transcription subunit 16
SequenceMYSLRQNQIAWSRTGIIAYGDSESSEGNLCITFLETVNGSNWRFHPPQRYIIHPQLHEIPTSQGSVGGSNINVGIASPTTVPSASTHVRPNIHFFYNISSIHWNDYFSLPGDMLTVCDEIGNVTMMITGQGLEGATTFEKLTLLFQDNIYKMHNHAMPLSPVNQLQNTLLEKKQTKKEYNTTILDFHWISSSKAIIGSQFCVFDSSVKCYRNKAQQVSPFGVFYPPFMKYACLGIRRNGQIDFWYQFSNSKDHKKITLQLFYSQDQRSKELDWFEFAKLTPINEEQALLITTYSKLSKKLSFYKLNVSWNAPADKSENLLNDPTLSVKLILESNVERVDSEGNIIELMNIHPLFKSPLIKEPSPEILLIYRVCGTNKSIIRRQKITHIDLSTEYLSILKPDLPSTQSGKGGFLKSERYSISQSGELKLDNIVVHVTSELIDGFITFYFENGSVATYNQNDWILETERSKKTTGSSNFSNVIMSILSSGFHYPALPPSGVIEWMTVSPSMAGIITKIVKDPVPKFFPVYQNDVLSKANDNINAVAFAFSFANITHRQLASEDLTIACKTHILKIAKLDVKRAEDFIVILMSNLFSFFNVSPDAPKDIMDKMIMSRPIQKIMLLQLELGSGFGDESIAKIARVILYLKNILFALSGVSRNLQFAVEQMNNSSNSTKSIFPASFSKQDLIHSIIPIAKWFVKFTTYLIQEVLLLINNPLDIGPTLVLGIFGAKMPRHLILTILSEIKKIIQLITKFPENTYPVLNESSHFLKMVLSESPVNFEKFETFLVDVNNKFTALNEQQVPNARETSLAREYSLLIRGVVPTDQSKITEFLLNYSRNAIISRVNAANIFFSDTSGLSISNDELFVPKLHHLLKPIADGLIIEPQDLPAGMKSSRKFSQTAFDGITYDYFSQLEMQTGKLKRCSRCGCVTRAGYVISPDKTIVATSIQTRRWPTMYTRNCVCSGMLYDLESETNSST
Length977
PositionTail
OrganismKazachstania africana (strain ATCC 22294 / BCRC 22015 / CBS 2517 / CECT 1963 / NBRC 1671 / NRRL Y-8276) (Yeast) (Kluyveromyces africanus)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Saccharomycotina> Saccharomycetes> Saccharomycetales> Saccharomycetaceae> Kazachstania.
Aromaticity0.10
Grand average of hydropathy-0.107
Instability index54.84
Isoelectric point8.44
Molecular weight110268.53
Publications
PubMed=22123960

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
core mediator complex	GO:0070847	IEA:EnsemblFungi
mediator complex	GO:0016592	IEA:EnsemblFungi

GO - Biological Function
RNA polymerase II activating transcription factor binding	GO:0001102	IEA:EnsemblFungi

GO - Biological Process
negative regulation of transcription by RNA polymerase II	GO:0000122	IEA:EnsemblFungi
positive regulation of transcription by RNA polymerase II	GO:0045944	IEA:EnsemblFungi
regulation of establishment of protein localization to chromosome	GO:0070202	IEA:EnsemblFungi
RNA polymerase II preinitiation complex assembly	GO:0051123	IEA:EnsemblFungi









Interaction





Binary Interactions











Repeat regions





Repeats

>MDP28889
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      86.41|      27|     148|     303|     352|       2
---------------------------------------------------------------------------
  306-  332 (46.68/67.34)	NVSWNAPADKSENL.LNDPTLSVKLI.LE
  597-  625 (39.73/10.87)	NVSPDAPKDIMDKMiMSRPIQKIMLLqLE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     254.63|      69|      84|     389|     459|       3
---------------------------------------------------------------------------
  389-  447 (77.67/50.47)	...........................DLSTEYLSILKPDLPSTQ...SGKGGFLKSERYSISQSGELkLDNIVVHVTSELIDGFITFY
  449-  528 (95.34/60.51)	ENGSVATYNQNdwileterskkttgssNFSNVIMSILSSGFHYPA...LPPSGVI..EWMTVSPS....MAGIITKIVKDPVPKFFPVY
  529-  596 (81.63/46.28)	QNDVLSKANDN............inavAFAFSFANITHRQLASEDltiACKTHILKIAKLDVKRAEDF....IVI.....LMSNLFSFF
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     165.54|      53|     418|     203|     265|       4
---------------------------------------------------------------------------
  204-  265 (81.24/90.07)	DSSVkcyrNKAQQVspfgVFYPPFMKYACLGIRRNGQIDFwYQFSNSKDH.KKITLQLFYSQD
  632-  685 (84.30/56.60)	DESI....AKIARV....ILYLKNILFALSGVSRNLQFAV.EQMNNSSNStKSIFPASFSKQD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     176.55|      67|      83|     745|     814|       5
---------------------------------------------------------------------------
  745-  769 (21.76/ 7.05)	.........................................................KIIQLI.TKFPENT.YPVLNESSHFLK
  770-  852 (84.73/60.71)	MVLSESPVNFEKFETFLVDVNNKFTaLNEQQVPNARETSlaREYSllirgvvptdqsKITEFL.LNYSRNAiISRVNAANIFFS
  857-  907 (70.06/41.15)	LSISNDELFVPKLHHLLKPIADGLI.IEPQDLPAGMKSS..RKFS..................qTAFDGIT.Y...........
---------------------------------------------------------------------------




































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 MDP28889 with Med16 domain of Kingdom Fungi
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