<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 MDP00806

Description Mediator of RNA polymerase II transcription subunit 5
SequenceMSIADLTRNCFQSGVSAPRWVKLCQLYVSKNGIESTPDVEHQISNSVLILYRSYPGEPDLVEYFRQALQESLVSLPVFVSTFLQAAFSPEIRTSASLDMLCRVALDAHYSSNAPPVGSVVPVGATSAAIMATVKDALSLLRSASTLPPSHFHQLSTSASELATLLISCITDLSQVPVAQAMVHLSEVNYLLQTLPLSNTARQIFQTYSLSLDMVAGADVKAAHEAQMMQNINASTYGKGEFSDATSNSDIVSFGLLLHHLVHNRGAKYGSGSGGDPVVLLLETLRWSSWTPAVFYTQLISSAFTCLSQTSGNKIWLWVSFIAGRLPSMISQFEATIKSDSLVNADWRSALQTALSNVLRRSELMAQCDHLIQQLNLETPVLRSASGELLAGLINRSVIDSSFAVGIDVRTAEDSIPRLKTEARDAGHPELQPYITFKISLDASIEEVKLLASRVWLDPTSHETFARVIMEQAAKLTTTLDVESMSHLCKLLLQHETALDIISLHEPISSLVYHALKFIETYDCETVGDPQTAVGHLGDVVLFAQYTMEKYHLDMDTFAHGANAVSSQFIKTVRNIYGLDELTREEMVAFNSWFKTLFDSTSEGIEDSILRSTNPKILLRLAATLVSHAIIARMASKIDNDTLHNGVSFFLSPLLNWTLVGVVKSLLREIKTKGFNAPVHFDILQTILLSPSCPPTVHCLCGAQILTQITLLNVRVQTASSEFKFDVRAVRQLAARAVGYREPATMPTPKQQGLWPNQPRNAILMAIGTARGGKAPHLDVKHCLDVTPPAKFLQLLWSELVVAAGLGEMDMCRRIATYVLTMPQPPQTPPLLPTFLYIVLPSLIVAIDSQNVGEQTLGTELLFNIVTSSLTAALHLEWALRAVGGEPLSPLGGQPSTIMARRLGVNLRMKKNSRTSRSLLHKLTSSQPFMANFPHFMSEINI
Length941
PositionTail
OrganismPleurotus ostreatus PC15
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Basidiomycota> Agaricomycotina> Agaricomycetes> Agaricomycetidae> Agaricales> Pleurotaceae> Pleurotus.
Aromaticity0.07
Grand average of hydropathy0.128
Instability index49.46
Isoelectric point6.28
Molecular weight103168.65
Publications
PubMed=24958869

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

>MDP00806
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     300.10|     102|     136|     684|     799|       1
---------------------------------------------------------------------------
  684-  799 (147.18/127.80)	QTillSPSCPPTVHCLCGAQILTqITLLNVRVQTASSEFKFDV.....RAVRQL..AARAVGyREPATmPTpkqqGlwpNQPRNAILMAIGTA.RGGKAPHL..DVKHCLDVTPP..AKFLQLLwSEL
  826-  939 (152.92/90.26)	QT...PPLLPTFLYIVLPSLIVA.IDSQNVGEQTLGTELLFNIvtsslTAALHLewALRAVG.GEPLS.PL....G...GQPSTIMARRLGVNlRMKKNSRTsrSLLHKLTSSQPfmANFPHFM.SEI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     158.00|      38|     138|     137|     174|       5
---------------------------------------------------------------------------
  111-  142 (26.91/12.45)	.SNAPPvgSVVPVGATSAAIMATV.............kdaLSLLRS
  143-  174 (49.08/29.08)	ASTLPP..SHFHQLSTSASELATLLISCI.TDLSQ...........
  287-  319 (42.71/24.30)	SSWTPA..VFYTQLISSA.......FTC....LSQtsgnkIWLWVS
  322-  359 (39.30/21.74)	AGRLPSmiSQFEATIKSDSLVNADWRSALqTALSN.......VLR.
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      73.45|      24|      32|     623|     648|       6
---------------------------------------------------------------------------
  623-  648 (34.17/31.19)	TLVshAIIARMASKIDNDTLHNGVSF
  657-  680 (39.27/27.77)	TLV..GVVKSLLREIKTKGFNAPVHF
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      88.44|      22|      34|     512|     533|       7
---------------------------------------------------------------------------
  471-  498 (21.50/13.33)	.QAAKLTTTLDvesmshlCKLLLQHETAL
  512-  533 (40.26/32.32)	YHALKFIETYD.......CETVGDPQTAV
  550-  564 (26.68/18.57)	YH.......LD.......MDTFAHGANAV
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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 MDP00806 with Med5 domain of Kingdom Fungi
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