<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 MDP29850

Description Mediator of RNA polymerase II transcription subunit 16
SequenceMILGEHLMSWSKTGIIAYSDSQSPNANICLTFLESINGINWRFHTPQKYVLHPQLHEVQYPENSSTSSSHSTATSVNGSTAAGIGSTPNFGSSIKSAPQFFYNISSIHWNNWFSLPGDMLAVCDELGNMTMLITGQRPDRATTYEKLTMVFQDNVYKIYNHVMPLKPVDKLKPMNIERKQTRKEYNTSILEFHWLTSSKSVIVSQFCAFDSSSNTYRSRAQQVPPYGVFHPPFIKYACLAIRKNGQIDFWYQFSNSKDHKKITLQLLNTLNQRFKDLQWLEFAKITPMNDDQCMLITTYSILSKKISFYKLHVNWNLNTAKPNILNDPSLKIQYILSTTLDPTDDEGHALKLANLHVVSKSSIEKDPSPEILILYNVCDTSKSLVKRYRLTKTQLSAEYLVILKPDLNIDRSNPKNQIFQSRRYNLRHHTDIVLDKKVTLITSEMFDGFVSFYFEDGTIQSYNQNDWKLETERLISQSQLGKFKNIIASPLSAGFNYGKLPLPSSLEWMQVSPSMCGVIVKQCNKKWPQFYAAAQSNYTDSEKDSINATALAFGYVKSLHQQISAEDLTIAAKTHILKISSFDKKRAKEFITTLLRSLYAFFNISPDAPKEVMDKIITSRPLQKIMLLQLELGSCFEHENIEEMARVILYLKNVLFAFNGVARNFHFAIEQISNNSNQQQNPKLFQTIFSKQDLIHSLIPVAKWFVKFVTYLIQEILILINDPTNKEYTLVHGIFGAKMSRTLILSILNEIKKVTQIVAKFPETSYPILNESSTFLKLVLSESPVDFEKFETFLVDVNNKFIALCEQQPSQEREFSLLVKAEIPLEYAKVGDFLLQYANNAVISHANAAAVYFADTSGLKISNTEFFNSKIFHLLQPLEKGLIVDVDQLPKDCRTSKSFSKLLYDDVTCDKLSKSEISDGKLKRCSRCGSVTRAGNTISSGKTIVPTSIQTKRWPTMYTRLCICSGMLFEMEN
Length973
PositionTail
OrganismSaccharomyces kudriavzevii (strain ATCC MYA-4449 / AS 2.2408 / CBS 8840 / NBRC 1802 / NCYC 2889) (Yeast)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Saccharomycotina> Saccharomycetes> Saccharomycetales> Saccharomycetaceae> Saccharomyces.
Aromaticity0.10
Grand average of hydropathy-0.228
Instability index43.87
Isoelectric point8.85
Molecular weight110939.19
Publications
PubMed=12775844
PubMed=22384314

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

>MDP29850
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     124.57|      44|     173|     683|     744|       1
---------------------------------------------------------------------------
  683-  730 (64.90/77.52)	KLFQ.TIFSKqdLIHSLIPVAkwFVKFVTYLIQ...EILILIND..PTNKEYTL
  768-  817 (59.67/31.11)	ILNEsSTFLK..LVLSESPVD..FEKFETFLVDvnnKFIALCEQqpSQEREFSL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      72.39|      21|     272|      39|      60|       3
---------------------------------------------------------------------------
   39-   60 (37.67/31.04)	INWRFHTPQKYVLH.PQLhEVQY
  313-  334 (34.72/22.47)	VNWNLNTAKPNILNdPSL.KIQY
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     189.59|      59|     447|     449|     516|       6
---------------------------------------------------------------------------
  449-  516 (94.80/67.01)	FVSFYFEDGTIQSYNQNDwkleterlISQSQLGKFKNIiASPLSAG..FNYGKLPLPSSLE...WMQVSPSMC
  899-  962 (94.79/50.08)	FSKLLYDDVTCDKLSKSE........ISDGKLKRCSRC.GSVTRAGntISSGKTIVPTSIQtkrWPTMYTRLC
---------------------------------------------------------------------------




































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 MDP29850 with Med16 domain of Kingdom Fungi
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