<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 MDP20020

Description Mediator of RNA polymerase II transcription subunit 5
SequenceMATQSAIASWQKFLNHSLVTRLDPEPFTTYIRILSSKSPLSSSYICSIFLRPQSHNDTSIDPRILRYLQILLAEELVDCAGVLRALLKYSSLWTFRHDGNLQQEATGGTEKAKGVKEAAQRWKNSYSAEEMMLYRLAKTVSSGAAPKSAQEAVEILAVCIQWMEMVTTAMGQGAHAMLNPESHAEEIGMLGMALGTLMVAVVGNVKILETLEKGHCQKGTVKELGKALNGFVPLLLQNSPQNAARLDVFRSQTLLTITPVDKKEQAADEEINEIIDSTIGIDSIAVADLPTVNSRAGLYVYLSSLGDIQATMIDLILASFDVLANATFRNEGQQTTTILRSFLVNKLPLLLSTLATSLYPPLTSEYCITEALGHVNTDAFPTLSTLFAESSNNDMFSDSVRQDFCFACCLHGLIPEPSIETLLGDIPMQSLPAGGRYSKHDLVQQCLSDSERTEGLISELENMDGNVGARYNILPNYIMISNKRQVIRHLCSSKETMTLKSLCSQLARNPSTLDVMLLFDKPTSFLQPICDLLDNWHYDEDQGEYQPVYEEFGSILLLVVLFTHRYNLSVVDLGIRAPNSFVARLLTQGHLSRALEPLTEQEQSHLDGWIRGLFEPEGGGLGDELMSSCPPQDFYLLVPTLFHHIVLALSTNNLTEEGLKGGLEFMVEPFLLPCLIPGINWLSAHLWASRGDANAVLQILSALITNPSSSNAEASQLLNSILKIIAKNLEHSLRWLQRAEPVRHDIEPISKALKPNLGWERRGASGHTELESWTATPGGGLVASIKHTISTLVQWGLDPAMNTMPASYTHRQILIGMKILGAKRLLNAIIDEVKTQTQAGNGSVVLDIATSLICAPDPVSFDSSTSASIDLLSGVSSSPQPLQRRLNLREALKVETDKMPKVHKTDTFHAETVIRLFRRVEAQLAQQQSLLPHDDGLGGLNAVMGNGVMGDAGLGAAEQQDIDNMVTANDDLMSGLMGGTGHGDDLLDSFGAGDGLGDGMGF
Length1002
PositionTail
OrganismRutstroemia sp. NJR-2017a WRK4
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Pezizomycotina> Leotiomycetes> Helotiales> Rutstroemiaceae> Rutstroemia> unclassified Rutstroemia.
Aromaticity0.06
Grand average of hydropathy-0.036
Instability index48.31
Isoelectric point5.11
Molecular weight109327.67
Publications









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
transcription coregulator activity	GO:0003712	IEA:InterPro

GO - Biological Process
regulation of transcription by RNA polymerase II	GO:0006357	IEA:InterPro









Interaction





Binary Interactions











Repeat regions





Repeats

>MDP20020
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     158.34|      41|     196|     423|     463|       1
---------------------------------------------------------------------------
  372-  416 (46.38/23.70)	....LGHVNTDAFPTLSTL.........FAESSNNDMFSDSVRQDfcfacclhGLIPE
  419-  459 (70.42/39.32)	IETLLGDIPMQSLPAGGRY.........SKHDLVQQCLSDSERTE........GLISE
  460-  501 (41.54/20.56)	LENMDGNV.......GARYnilpnyimiSNKRQVIRHLCSSKETM........TLKS.
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     174.96|      44|     325|     590|     633|       2
---------------------------------------------------------------------------
  590-  633 (84.62/40.93)	HLSRALEPLTEQE......QSHL...DGWIRGLFEPEGGG.LGDELMSSCPPQD
  749-  781 (28.49/ 9.64)	.ISKALKPNLGWErrgasgHTEL...ESWTA...TP.GGG.L............
  915-  961 (61.85/28.24)	RLFRRVEAQLAQQ......QSLLphdDG.LGGLNAVMGNGvMGDAGLGAAEQQD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      79.36|      25|     142|     691|     715|       3
---------------------------------------------------------------------------
  691-  715 (41.24/24.08)	GDANAVLQILSALITNPSS....SNAEAS
  840-  868 (38.12/21.73)	GNGSVVLDIATSLICAPDPvsfdSSTSAS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     134.38|      46|     625|     148|     206|       5
---------------------------------------------------------------------------
  148-  206 (67.15/57.52)	SAQEAVEILavcIQWmemvttamgqGAHAMLN..PESHAEEIGMLGM.ALGT..LMVAVVGNVK
  784-  834 (67.23/34.44)	SIKHTISTL...VQW..........GLDPAMNtmPASYTHRQILIGMkILGAkrLLNAIIDEVK
---------------------------------------------------------------------------




































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 MDP20020 with Med5 domain of Kingdom Fungi
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