<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 MDP26636

Description Mediator of RNA polymerase II transcription subunit 5
SequenceMESMVDEWKVFLSRCIASRIPPDVFAAAVAQLHAKSPLPGRKLAALVLLPRAAGIDPRSIAILEQLLALKKVDASDVLTVTFLHSKDRRPINTGDEKTPKDAQWSNPPELEEIIFHRLHKAFASEERPVNNTEGLRTLIVVTRWMQVMVTSHTSDSMIQAMAGIQQPHQQSINAREGLAMLVIGVIENPRILAILSNPKGKDIRKNFVQSLSSFIPFLHNNSAGSQTSLSLASRLEMSQKQHDFFEKLPNVNGERNDGTGLEVAALQLDAVMELPQVNTRPGLYVFLNALLVARPLTDDFTIISHLHSRYKLEAQNMATDLITAAFDILANAMYRNEQSETLFYLKSFLINKVPILLTKLSGSIFPMTVEMCITQALSHVDPHAFPSFSQGFDDIMGSNNSLSDVRQDFLNACALHGLIAAGTVERLLGEAPMQGPPAKRYERKELLNQCKTNFDKISLYIDELENVDGNAGAIVAAVTDFISHLCETQTTMYLKQLSCLIFRKPQAMDVMLQFTSPPSILRPLCQFLDDWHYDSDQGEHQPVYDEFGAILVCIMTFMYRYDLTYHDIGIGHDSFVAKLMQRGHHGMLPDELTEEQGKHLGNWLKGLYDSDKEGLSNEVFASCRPQEFYLIVPTLFRQTVVACSTGVLSFETVKGGLEYLGETFLLPSLIGGLTWMASYALLQTHNDLDAMIRIFNEVILSTPTSGDAQAMHSTIIAIVSSRLEKCFRTLQRREPNRTTLEPFIQAIKAHSHYERTAYATLKELDQWTNVPHSTLNTSLRHTVQQLSQWASTASLQPNPPSYTHRQIYASLKMLGATRTLRAIVEEVRNQTDAGNGAAALDIGISIICAPMVEDSPVSVDWVASPIAAPAPQRTRMNLREILKQEFDCAANLVATDPLTAETIVRLHRRVEAHFASLNETGLQAPPINIPSVHIADMQSQTISDDLNRAIDDAAAASIVDDISNMDNKALQRSMDELTASEGLDLSSIGMGNGDSGTGDMGTDLGNLPDLDLGDMGSMGMDMDMDMGMGGGGGDDDWGLDFDNM
Length1044
PositionTail
OrganismPyrenophora teres f. teres (strain 0-1) (Barley net blotch fungus) (Drechslera teres f. teres)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Pezizomycotina> Dothideomycetes> Pleosporomycetidae> Pleosporales> Pleosporineae> Pleosporaceae> Pyrenophora.
Aromaticity0.07
Grand average of hydropathy-0.135
Instability index40.60
Isoelectric point5.14
Molecular weight115385.27
Publications
PubMed=21067574

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

>MDP26636
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      56.14|      17|      17|     978|     994|       1
---------------------------------------------------------------------------
  978-  994 (29.83/18.19)	TASEGLDLSSI.GMGNGD
  997- 1014 (26.31/15.13)	TGDMGTDLGNLpDLDLGD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      44.61|      12|      17|     655|     666|       2
---------------------------------------------------------------------------
  655-  666 (21.63/12.86)	GGLEYLGETFLL
  671-  682 (22.98/14.12)	GGLTWMASYALL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      43.19|      13|      17|     934|     946|       3
---------------------------------------------------------------------------
  934-  946 (22.37/13.95)	IADMQSQTISDDL
  950-  962 (20.82/12.48)	IDDAAAASIVDDI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      39.47|      10|      17|     841|     850|       5
---------------------------------------------------------------------------
  841-  850 (19.43/11.65)	DIGISIICAP
  860-  869 (20.04/12.23)	DWVASPIAAP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      53.43|      15|      17|     793|     807|       6
---------------------------------------------------------------------------
  793-  807 (28.95/18.85)	ASLQPNPPSYTHRQI
  809-  823 (24.47/14.77)	ASLKMLGATRTLRAI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      66.01|      18|      19|     750|     767|       7
---------------------------------------------------------------------------
  750-  767 (33.46/24.35)	HSHYERTAYATLKELDQW
  772-  789 (32.56/23.50)	HSTLNTSLRHTVQQLSQW
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      36.56|      10|      17|     357|     366|       8
---------------------------------------------------------------------------
  357-  366 (17.08/10.85)	LTKLSGSIFP
  377-  386 (19.48/13.55)	LSHVDPHAFP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      81.70|      30|     133|      27|      63|       9
---------------------------------------------------------------------------
   27-   63 (40.95/38.05)	AAVAQLHAKSpLPGRK.LAALVllpraaGI..DPRSIAIL
  162-  195 (40.74/21.43)	AGIQQPHQQS.INAREgLAMLV.....iGVieNPRILAIL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      63.35|      18|      27|     235|     252|      13
---------------------------------------------------------------------------
  235-  252 (33.38/24.44)	LEMSQKQHDFFEKLPNVN
  261-  278 (29.97/21.15)	LEVAALQLDAVMELPQVN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      94.07|      25|      27|     527|     551|      14
---------------------------------------------------------------------------
  521-  550 (43.66/27.46)	L..............rplcqFLDDW...HYDSD.QGEHQPVY.....DEFGAI
  551-  578 (32.82/18.81)	L..............vcimtFM..Y...RYDLT.YHDIGIGH.....DSFVAK
  579-  631 (17.59/ 6.67)	LmqrghhgmlpdelteeqgkHLGNWlkgLYDSDkEGLSNEVFascrpQEFYLI
---------------------------------------------------------------------------




































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 MDP26636 with Med5 domain of Kingdom Fungi
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