<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 MDP13974

Description Mediator of RNA polymerase II transcription subunit 5
SequenceMEMDVDMIMAAGSLDMGPAQDHTQSKEEWARFLDRCISSRLDPDTFESYVELLYSKHPLPPAIIADICLRPQSSNHESLDPRIPRYIQVLSHHKLIDTPSILKALYKYSTSHVQAQKAGNLPSEESEDKVPIRWGSSYASEEVIFYRITKAVALGTGIINAADALEVCKLMAKWMSLFTSASAAFAHEVMGQLQHGQLQIPQSRDEMEAARAAFVMLLLGICENQTVLSALSRPFAKSTRRALSESLASFIPSIIQSASQIATRLELFRTETLASFEPPDKKKDATNPVIDDMESTMALDNFVVPEMPIVNSRAGLYIYLNACLVGRPLIDDSALFTYLHNRYQGDIQTTTIDLILASFDVLANAVFRNEGQQASYVLRSYLINKLPLLLATLATSMYPPLTAQYCITEALSQVDTNAFPTLSAMFDDTHNNNTFTDSVRQDFCFACCLHGLIPESSIEGLLGEITYQTLPQAGRYVKEQLVEECMGDPERIQRLISEMDNMDGNVGAVCQALTEVIGRLCHNKETMTLKLLCSQLAKKPLSLDVMLLFDRPFTILHPLCELLNNWRYEEDQGEYQPVYEEFGSVLLLVLAFIYRYNLSTMDLGIRSDSFVAKLLGIHQVHKPQEELTEQENRHLRGWILGLFDTESGGLADELLSSCPPQDFYLLVPTLFHQMVLASCTNHLDEESLKTGVEYLVNTFLLPSLVPAMLYMSNQLWIELNHGQEHKAVIRILQLILLTKQGSTESQMMLSSVVNIIAIPLEYGLRSYQRYDPKSQAIEPLLKAMRDNLRLSRRTASATNNELESWCGTANGGLAALVRHTIQGFVSWSVHPGLNVMPTSYTHRQILLALKMHGAKRFLYTILEEVKMQTEAGNGSIAHDVATALICAPDVTNMPPPPEIALVMDSSNHPFAPPQLRISLRAALKAEAEDCKVIQKSDPTMAEIIVRLYRKVEAQMLVPPPTESMLQGELANLGLGENAAALNDAIAAAAQSDGLGGDESNMNLDLGSGGSDMGHLGGDSSHHGGLDFGGSDDMFGGLGAGGSSADLLDGWDLS
Length1053
PositionTail
OrganismHypoxylon sp. CO27-5
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Pezizomycotina> Sordariomycetes> Xylariomycetidae> Xylariales> Hypoxylaceae> Hypoxylon.
Aromaticity0.07
Grand average of hydropathy-0.063
Instability index48.99
Isoelectric point4.98
Molecular weight116258.69
Publications
PubMed=28078400

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

>MDP13974
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      60.38|      18|      19|     995|    1013|       1
---------------------------------------------------------------------------
  995- 1013 (33.05/20.36)	GGDESNM.NLDLGsGGSDM.G
 1016- 1035 (27.33/12.48)	GGDSSHHgGLDFG.GSDDMfG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      57.57|      16|      20|      74|      93|       2
---------------------------------------------------------------------------
   77-   92 (30.04/30.41)	ESLDPRIPRYIQVLSH
  245-  260 (27.52/ 9.64)	ESLASFIPSIIQSASQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      55.46|      18|      22|     381|     401|       4
---------------------------------------------------------------------------
  381-  401 (25.34/21.33)	YLINKlplLLATLATSMYPPL
  405-  422 (30.12/16.82)	YCITE...ALSQVDTNAFPTL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      64.97|      20|      22|     492|     513|       5
---------------------------------------------------------------------------
  492-  513 (29.57/25.04)	IQRLISEMDNMdgNVGAVCQAL
  517-  536 (35.40/22.36)	IGRLCHNKETM..TLKLLCSQL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      28.99|       8|      23|     804|     813|       7
---------------------------------------------------------------------------
  804-  813 (11.62/11.89)	SWcgTANGGL
  826-  833 (17.37/ 8.09)	SW..SVHPGL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      60.75|      19|      23|     148|     167|       8
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  148-  167 (26.16/24.56)	ITKAVALGTGiINAADALEV
  171-  189 (34.59/26.99)	MAKWMSLFTS.ASAAFAHEV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      55.90|      17|      23|     912|     928|       9
---------------------------------------------------------------------------
  912-  928 (27.50/15.66)	PPQLRISLRAALKAEAE
  938-  954 (28.40/16.38)	PTMAEIIVRLYRKVEAQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      40.46|      12|      23|     453|     464|      10
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  453-  464 (19.53/11.23)	IPESSIEGLLGE
  477-  488 (20.93/12.57)	VKEQLVEECMGD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      50.84|      16|      23|     270|     291|      11
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  270-  291 (22.06/26.61)	TETLASFEPPDKkkdatnPVID
  296-  311 (28.78/17.84)	TMALDNFVVPEM......PIVN
---------------------------------------------------------------------------




































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 MDP13974 with Med5 domain of Kingdom Fungi
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