<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 MDP30817

Description Mediator of RNA polymerase II transcription subunit 5
SequenceMDSMVKEWSVLLDRCLERRVQSDVFAAAVAQLHAKSPLPGRKLAALLLRPRVADNSNIDPRIVIYLEQLLSLKKLDTSDVLIVALLYSKVRQPIKTEEKPSKDAQWSNPPELEELIFHRLHKVFAAEERPVNNVEGVHTLAVVARWMQAMVTSHTSDTMIQAMAGIQQPQQQSINVREGLAMLVVGVIENSKILRILNHPKAKEVRKELTKSLTSFIPFLSNNSAGSQTSLSLANRLEMSQKQHDLYEKLPNVNGEGNESAGLEVAALQLDAVMELPQANTRAGLYVFLNSLLVARPLTDDFVIISHLHTRYKLEPQNMATDLITAAFDILANAMYRNEPTQTLFYLKSFLINKIPTLLTQISGSIFPMTVEMCITQALSHVDPSAFPSFSQGFDDIMGSNNSLSDVRQDYLNACVLHGLLPAGTVERLLGEAPMQGPPAKRYERKELLNQCKSNFDKVSVYIDELENLDGNAGAIVAAVADFISHLCDTQTTMYLKQLCCLIFKKPQAMDVMLQFTSPASILRPLCQFLEDWHYDSDQGEYQPVYDEFGSILVLVMAFVYRYDLVYHDIGIAHDTFIAKLLQHGHHSIPPDELTEEQGRNLGSWLKGLYDSDKEGLSNEVFASCRPQDFYLIVPTLFHQTVVACSLGVLSFETVKGGLEYLGETFLMPSLIGGLTWMTSYALLQTHNDLDAITRIFNAILLSAPSSGDAQAMHSTIIAMVSSRLEKCFRTLQRREPNRNNLDSFLEAIKVHAHYERTVFATMKELDQWTNAPNSTLNTSLRHTVQQLSQWASTASMQPNPPSYTHRQLYASLKMLGAARTLRAIVDEVKTQTDGGNGAAALDVGVSIICAPTVEDSPISVDWVGSTVPAPTPQRTRMNLREMLKQDFDNAASLVATDPLTAETIVRLHRRVEAHFTSLAENGLQAPPINIPSVNMADMQSQSISEHLNRAMDDAAAASMVEDISNMDNKALQRSMDELASTEGLDLSGIGMGNGDAGSGDMSTDLGNLPDLDLGDMGGMGIDMDMSMDMGGGGGGDDDWGLDFDNM
Length1047
PositionTail
OrganismCochliobolus heterostrophus (strain C5 / ATCC 48332 / race O) (Southern corn leaf blight fungus) (Bipolaris maydis)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Pezizomycotina> Dothideomycetes> Pleosporomycetidae> Pleosporales> Pleosporineae> Pleosporaceae> Bipolaris.
Aromaticity0.06
Grand average of hydropathy-0.138
Instability index39.81
Isoelectric point5.04
Molecular weight115611.51
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

>MDP30817
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      58.95|      17|      74|     530|     546|       1
---------------------------------------------------------------------------
  530-  546 (35.89/25.09)	LEDW...HYDSD.QGEYQPVY
  602-  622 (23.06/13.39)	LGSWlkgLYDSDkEGLSNEVF
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     151.67|      39|      75|     930|     969|       2
---------------------------------------------------------------------------
  930-  969 (61.41/39.53)	NIPSVNMADMQSQSISeHLNRAMDDAAAASMVE....DIS.NMDN
  971-  997 (22.33/ 7.87)	.................ALQRSMDELASTEGLDlsgiGMG.NGDA
 1008- 1046 (67.93/39.88)	NLPDLDLGDMGGMGID..MDMSMDMGGGGGGDD....DWGlDFDN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     133.49|      41|     149|     313|     356|       3
---------------------------------------------------------------------------
  313-  356 (66.90/50.17)	KLEPQNMATDLITAAfdiLANAMYRNEPTQTLFYLKSF..LINKIP
  465-  507 (66.59/41.75)	ELENLDGNAGAIVAA...VADFISHLCDTQTTMYLKQLccLIFKKP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      84.23|      27|     149|     411|     455|       4
---------------------------------------------------------------------------
  425-  453 (45.17/44.17)	TVERL...LGEAPMQ.GPPAkrYERKELLNQCK
  784-  814 (39.06/ 8.54)	TVQQLsqwASTASMQpNPPS..YTHRQLYASLK
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      48.70|      15|      76|      77|      93|       5
---------------------------------------------------------------------------
   77-   93 (20.58/20.80)	TSDVLIVALlySKVRQP
  155-  169 (28.13/19.48)	TSDTMIQAM..AGIQQP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      61.52|      18|      27|     237|     254|       7
---------------------------------------------------------------------------
  237-  254 (32.19/25.29)	LEMSQKQHDLYEKLPNVN
  263-  280 (29.33/22.27)	LEVAALQLDAVMELPQAN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      85.74|      27|      27|     862|     888|       9
---------------------------------------------------------------------------
  862-  888 (49.11/29.15)	DWVGSTVPA.PTPQRTRMNLREMLKQDF
  889-  916 (36.63/20.04)	DNAASLVATdPLTAETIVRLHRRVEAHF
---------------------------------------------------------------------------




































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 MDP30817 with Med5 domain of Kingdom Fungi
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