<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 MDP27679

Description Mediator of RNA polymerase II transcription subunit 16
SequenceMSLIGQHPVSWSKNGVIAYADPHSPDANLRITFLETINGINWRFHPPTKYILHPQLHEPQFSHSYTLNTAPSASEHSNSMTSSTIGLHPTPTRTVTTANTTTVSSIPPSAGTSVHSKGNPQFFYSITGVYWNNWLSLPGDMLAVCDELGNLTMMIAGQQPNGANTFERLTMLFQDNVYKIYNHVMSLKPSTSIPLITEKFERKHTKKEYNTTIMDFEWLSATKITMAAKFCALDTTSNTYKNKLQQIPPYGVFHPAFMKYACLGIRKNGQINFWYQFSNSKDHKKITLQLHTSVNQRTKELDWLTFAKITPIVEDQCMLISTYSKLTNKLIFYELHVNWNVNATKPTALNDPTVKIQQILETTIDPVDNEGNPLKLSNIHIMSKTPTENDPSPEILLVYDIMGSRKTLVKRYKLVRTQLPLDFVSILKSENNSGGGQYLRSNRYNFIHQVDLPLEKRVKQVTTELINGFITFYFEDGTTIVYNQGDWKVETERLLNQPLSGNYNNLVTSMLSVNFQFPKLPNLSAIEWVRVSPSLTGIIAKIANKSTPQYFPLMKHDVTDTSKDDLNATAFAFAYVIGTYRQLSAEDLTITCKTHLMQIAKLDENRAKNFVMLIVARIYTFLNVSLDPPKEIMDKFLTGRQFQRITLFQLELGTCFDGSNLDEMARLLLNLKSAHFAFNGVSRNLHFAIEQINTTNAAQQLASGKTFQTVFSKQDLIYSLIPIAKWFVKFITYMIQELLILINNPPNKENTLVIGVFGSKVSRMLILLILVEIKKIVQIITKFPENTYPVLNESSYYLRTVLSDSPVNFEKFETFLVDVNNKFSAYNEQQQKLNPQSQSTQMLRECSLLVRAEVLPEFSKIGEFLLAYSNNVLISHVDAARVYFCDTSGLRISSTELFRPEYCKLLQPLEKGLVIDPDDNPILPLNPGRFSPMVYDGISYDRFTKQEVSEEKIKRCARCGCVTRAGYVVSNDKTITSTIITTKRWPSMYTRNCTCSGMLYELRI
Length1004
PositionTail
OrganismNaumovozyma dairenensis (strain ATCC 10597 / BCRC 20456 / CBS 421 / NBRC 0211 / NRRL Y-12639) (Saccharomyces dairenensis)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Saccharomycotina> Saccharomycetes> Saccharomycetales> Saccharomycetaceae> Naumovozyma.
Aromaticity0.10
Grand average of hydropathy-0.213
Instability index33.44
Isoelectric point8.82
Molecular weight114290.09
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.
ECO:0000256	RuleBase:RU364149
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

>MDP27679
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      71.46|      20|      59|      46|      66|       1
---------------------------------------------------------------------------
   46-   66 (36.84/26.48)	PPTKYI.LHPQlHEPQFSHSYT
  107-  127 (34.62/20.06)	PPSAGTsVHSK.GNPQFFYSIT
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      39.42|      12|      34|     411|     422|       2
---------------------------------------------------------------------------
  411-  422 (21.55/15.08)	RYKLV.RTQLPLD
  443-  455 (17.87/11.10)	RYNFIhQVDLPLE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     128.80|      39|      83|     204|     244|       3
---------------------------------------------------------------------------
  204-  244 (65.03/48.73)	HTKkeYNTTIMDFEWLSATKIT.MAAKFCALDTTSNTYKNKL
  291-  330 (63.77/41.62)	HTS..VNQRTKELDWLTFAKITpIVEDQCMLISTYSKLTNKL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      84.95|      27|      35|     723|     751|       4
---------------------------------------------------------------------------
  723-  751 (42.48/32.82)	IAKWFVKFITYMIQELLILINNPPnkENT
  761-  787 (42.46/26.23)	VSRMLILLILVEIKKIVQIITKFP..ENT
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      43.87|      12|      36|     345|     356|       5
---------------------------------------------------------------------------
  345-  356 (21.23/11.58)	KPTALNDPTVKI
  384-  395 (22.65/12.84)	KTPTENDPSPEI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     167.23|      54|      63|     591|     645|       6
---------------------------------------------------------------------------
  591-  645 (86.70/47.05)	TC..KTHLMQIAKLDEN.RAKNFVMLIVARIYTFLNVSLDpPKEIMDKFLTGRQFQRI
  654-  710 (80.53/39.64)	TCfdGSNLDEMARLLLNlKSAHFAFNGVSRNLHFAIEQIN.TTNAAQQLASGKTFQTV
---------------------------------------------------------------------------




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 MDP27679 with Med16 domain of Kingdom Fungi

Intrinsically Disordered Regions

IDR SequenceStartStop
1) SASEHSNSMTSSTIGLHPTPTRTVTTANTTTVSSIPPSAG
72
111

Molecular Recognition Features

MoRF SequenceStartStop
NANANA