<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 MDP30803

Description Mediator of RNA polymerase II transcription subunit 5
SequenceMDSMVKEWTVLLHRCLERRVHSDVFAAAVAQLHAKSPLPGRKLAALLLRPRVADNSNIDPRIVIYLEQLLSLKKLDASDVLIVALLYSKVRLPVKTEEKSSKDAQWSNPPELEELIFHRLHKVFAAEERPVNNVEGVHTLAVVARWMQAMVTSHTSDTMIQAMAGIQQPQQQSINVREGLAMLVVGVIENSKILRILNHPKAKEVRKELTKSLSSFIPFLSNNSVGSQTSLSLANRLEISQKQHDLYEKLPNVNGEGNESAGLEVAALQLDAVMELPQANTRAGLYVFLNSLLVARPLTDDFVIISHLHTRYKLEPQNMATELITAAFDILANAMYRNEPTQTLFYLKSFLINKIPTLLTQISGSIFPMTVEMCITQALSHVDPNAFPSFSQGFDDIMGSNNSLSDVRQDYLNACVLHGLLPAGTVERLLGEAPMQGPPAKRYERKELFNQCKLNFDKVSVYIDELENLDGNAGAIVAAIADFISHLCDTQTTMYLKQLCCLIFKKPQAMDVMLQFTSPASILRPLCQFLEDWHYDSDQGEYQPVYDEFGAILVLIMAFVYRYDLVCHDIGIAHDTFIAKLLQHGHHSIPPDELTEEQGGHLGSWLKGLYDSDKEGLSNEVFASCRPQDFYLIVPTLFHQTVAACSLGVLSFETVKGGLEYLGETFLMPSLIGGLTWMASYALLQTHNDLDAITRIFNAILLSAPSSGDAQAMHSTIIAMVSSRLEKCFRTLQRREPNRNNLDSFLQAIKVHTHYERTVFATMKELDQWTNAPNSTLNTSLRHTVQQLSQWASTASMQPNPPSYTHRQLYASLKMLGAARTLRAIVDELKTQTDSGNGAAALDVGVSIVCAPTVEDSPISVDWVGSTVPAPTPQRTRMNLREMLKQDFDNAASLVATDPLTAETIVRLHRRVEAHFTSLAESGLQAPPINIPSVNITDMQSQSISEHLNRAMDDAAAASMVEDISNMDNKALQRSMDELASTEGLDLSGIGMGNGDAGTGDMSTDLGNLPDLDLGDMGGMGIDMDMNMDMGGGGGGDDDWGLDFDNM
Length1047
PositionTail
OrganismCochliobolus sativus (strain ND90Pr / ATCC 201652) (Common root rot and spot blotch fungus) (Bipolaris sorokiniana)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Pezizomycotina> Dothideomycetes> Pleosporomycetidae> Pleosporales> Pleosporineae> Pleosporaceae> Bipolaris.
Aromaticity0.06
Grand average of hydropathy-0.114
Instability index40.09
Isoelectric point5.13
Molecular weight115587.60
Publications
PubMed=23236275
PubMed=23357949

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

>MDP30803
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      58.95|      17|      74|     530|     546|       1
---------------------------------------------------------------------------
  530-  546 (35.89/25.23)	LEDW...HYDSD.QGEYQPVY
  602-  622 (23.06/13.46)	LGSWlkgLYDSDkEGLSNEVF
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     128.47|      38|      75|     930|     969|       2
---------------------------------------------------------------------------
  930-  969 (60.54/40.27)	NIPSVNITDMQSQSISEHLNraMDDAAAASMVEDIS.NMDN
 1008- 1046 (67.93/39.72)	NLPDLDLGDMGGMGIDMDMN..MDMGGGGGGDDDWGlDFDN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     127.39|      41|     149|     312|     356|       4
---------------------------------------------------------------------------
  312-  356 (66.55/52.44)	YKLEPQNM...ATELITAAFDILANAMyrnePTQTLFYLKSF..LINKIP
  462-  507 (60.85/38.11)	YIDELENLdgnAGAIVAAIADFISHLC....DTQTTMYLKQLccLIFKKP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      52.43|      16|      53|      22|      39|       5
---------------------------------------------------------------------------
   22-   39 (24.72/23.12)	SDVFaaAVAQLHAKSPLP
   78-   93 (27.71/18.58)	SDVL..IVALLYSKVRLP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      60.94|      18|      27|     237|     254|       6
---------------------------------------------------------------------------
  237-  254 (31.56/21.71)	LEISQKQHDLYEKLPNVN
  263-  280 (29.38/19.69)	LEVAALQLDAVMELPQAN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      75.54|      26|      27|     866|     891|       7
---------------------------------------------------------------------------
  871-  897 (38.99/25.09)	PTPQRTRMNLREMLKQDFDNA.aSLVAT
  899-  926 (36.55/23.06)	PLTAETIVRLHRRVEAHFTSLaeSGLQA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      36.19|      10|      27|     373|     382|       9
---------------------------------------------------------------------------
  373-  382 (18.68/10.33)	MCITQALSHV
  398-  407 (17.51/ 9.27)	MGSNNSLSDV
---------------------------------------------------------------------------




































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 MDP30803 with Med5 domain of Kingdom Fungi
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