<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 MDP32433

Description Mediator of RNA polymerase II transcription subunit 5
SequenceMTATMAHSMTLAGSSSPVASVRNKSGGSYVYVPNIYHAQQWTKFIRRCLRTRLDIERFAKFAPIQRRRHPISPVILVDIFLRPSARIQPQLRVSSSNVCEAPIDPRIPAYLKILLQLGYVDVISILQGLYRYSSSQAARREAAVAAAAIEEQSKNAEITTDGGNYSPVGSKKNSASGAGSVIWGSSFYNEETMFYRIARAVRQENAIRGKKSALAAATTMAAWMQLFVAAASSFATATLVSTDLSEQAFKQDGTESCRTAFVLLLLAVLEDPVVLDTLKQPYAKAARRALSQTLPSFMPIVSHSSAVAVARLDQFHSGFLSQFDQDKEKKEEVNDNIHDLLDSTVGLQNLAIPELPISNSRAGLYIYLNAALVGRPLVDDASIFAYLHNRYQGDLQSTAIDLILASFDVLANAVFRREGQTSAHLLRSYLINKVPVLLASLAASPLYPFDSQFCISEALSRVDTNAFPTMSSMFDDNQNANTFTDSVRQDFCFACCLHGLIPESSIETLLGEMTYQSLPAGGRFTKQSLVQQCMGDYGQIDVLIGQLDSMDGNVGAVSQALVEILGHLCRTRDTATLKTLCNNLVKKPLAFDVLLLFDRPSAILYPLCQLLDGWRYEDDQSEYQPVYEEFGSVLILLLAFVYRYDLSIVDLGIQWSADSFVAKVLSVGPQSRTLVELSDQERENLGSWIRGLFDTEAGGLSDDLMASCPPQQFYMLTPTLFQQIIQATSTGALKEEALKIGIEYLVDTFLLPSLVTALVYLSSALKVDKPVEQKAIIRILQLILQPASISSEASLMLTALLNIVAKPLEHALHIFQAQDPRNEDIDPLLNALKQSIPRSRRTAAAEHNELVNWARSSAGSSGKNMSSSGRVPTAGGLYTAVCQTMQGFVQWSLHPGANAMPTSYTHRQFVAGLGLIGAPRTLQLILDEVQRQTEAGNGSVVYDVACALICAADVTNEPSPDSLYVLVDGESSSDNGENGDADGTHNERAVAGTVVANTAAVQRRITLRQFLTFKAEEWKKIQRSRDPVDIAMAEAIVRLHRKVEAQMAPPPAPPPPAQSDLSAGLDAAVAAAAAGLDDAAMDMVAAAAGVPGQDDGMALDGVDLTSLQGGGVDGGPGTAGPSGSAGDLGDLGDLGDLGSLNGLGDLGDLSDLGMGGSGGDRSSQDLGDQSMFGEIDLLNSWMNLQ
Length1185
PositionTail
OrganismOphiostoma piceae (strain UAMH 11346) (Sap stain fungus)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Pezizomycotina> Sordariomycetes> Sordariomycetidae> Ophiostomatales> Ophiostomataceae> Ophiostoma.
Aromaticity0.07
Grand average of hydropathy-0.009
Instability index51.02
Isoelectric point4.96
Molecular weight127663.35
Publications
PubMed=23725015

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

>MDP32433
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     143.27|      33|      36|    1103|    1137|       1
---------------------------------------------------------------------------
 1060- 1095 (35.19/17.34)	DLSA....GLDAavAAAAAGLDDAAMDMvaAAAGVPGqDD
 1103- 1137 (54.03/38.26)	DLTSLQggGVDG..GPGTAGPSGSAGDL..GDLGDLG.DL
 1145- 1175 (54.06/31.40)	DLGDLS....DL..GMGGSGGDRSSQDL..GDQSMFG.EI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     113.79|      35|      36|     842|     877|       2
---------------------------------------------------------------------------
  842-  877 (56.54/30.52)	TAAAEH.NELVNWARSSaGSSGKNMSSSGRVPTAG.GL
  879-  915 (57.25/27.48)	TAVCQTmQGFVQWSLHP.GANAMPTSYTHRQFVAGlGL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     142.35|      35|      36|      62|      97|       3
---------------------------------------------------------------------------
   62-   97 (57.07/34.34)	APIQRRrHPISPVILVDI.FLRPSARIQP..QL....RVSSSN
  101-  136 (54.52/28.63)	APIDPR.IPAYLKILLQLgYVDVISILQG..LY....RYSSSQ
  588-  620 (30.76/13.00)	........PLAFDVLL.L.FDRPSAILYPlcQLldgwRYEDDQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     117.27|      37|      40|     371|     408|       4
---------------------------------------------------------------------------
  371-  408 (58.86/41.32)	ALVGRPLVDDASIF.AYLHNRYQGDLQSTAIDlILASFD
  413-  450 (58.41/36.52)	AVFRREGQTSAHLLrSYLINKVPVLLASLAAS.PLYPFD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      66.80|      23|      38|     757|     781|       5
---------------------------------------------------------------------------
  757-  781 (32.48/32.70)	ALVYLSSALK.VDKPVEQkaIIRILQ
  793-  816 (34.32/26.51)	ASLMLTALLNiVAKPLEH..ALHIFQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      67.03|      20|      38|     919|     938|       6
---------------------------------------------------------------------------
  919-  938 (33.19/20.42)	PRTLQLILDEVQRQTEAGNG
  960-  979 (33.85/20.98)	PDSLYVLVDGESSSDNGENG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      74.20|      24|      32|     506|     531|       8
---------------------------------------------------------------------------
  506-  531 (35.47/27.33)	IETLLGEMTYQSLPAGGrfTKQSLVQ
  540-  563 (38.74/22.82)	IDVLIGQLDSMDGNVGA..VSQALVE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      86.28|      27|      38|     168|     194|       9
---------------------------------------------------------------------------
  168-  194 (46.62/31.25)	VGSKKNSASGAGSV.IWGSSFYNEETMF
  207-  234 (39.66/25.44)	IRGKKSALAAATTMaAWMQLFVAAASSF
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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 MDP32433 with Med5 domain of Kingdom Fungi
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