<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 MDP02626

Description Mediator of RNA polymerase II transcription subunit 5
SequenceMTVSRWLALARKCLLHRISVQQFGDLLRNHGGRIDGKQLFGALVECRECFCQPGDPLISLYIDYLAITGLITISDGLIILTKRWNDAKSPTSEAALACYNDTLQDLTMVIVSPKYTENAFETRLALQISSRWLSALARQASQGDAESLRLELNGTIELLAFLMASITATDAGLDALSPADSQGQKIKHGSVNDLRTSVKQSFELCLPLYSMLSSQLMERINTVLKHISLLDEGISQAGNAPAPASEIQALQFQVSIADSQIVASKAGTMLYLEGLLFTGSTIDDGGMVHWLSSRHQNDYQSMFNDVFTSSFSILKAQSTVPGRALCTQQCQIFIQNKLPALLSMISASSFNSFSTEQAITEAWQQVVSLLSSQDLLLTGVRLLHVCTLHHLIPAQVASQLVGTEDMLKGLSKGLFGKDDLVAQVNANHIRGPKLVEELIRSDGSASFISQAIVEIMHSYCQNKETQYLKDLANAILRRPAAINCIALFVRPASFLGPLCGLLDEWRWDEIHGEAQPVYDDFGAIFLLILVTRGRLGLSNSSLGIRKKDGFLAQYLEHENNEESLENLSEEKKSHLGNWINALYLAEGLSDELFTNCSPHDFYLLIPTLLRQSMTAHQQGKLTHDSLQAGLDYLLEPFLLPSLIPAMNWVAEVFQHERMVAGKVLEALIKPPGSLESRDIHHTILTLCAPRLKIHLRSVGSQDTNVDSILKTLGQCPDFSFFSERERETHGTGVINILHHSLVTLITSTTALDIGAAAPVGDILALVGRAVEVRGAHTTLRAIVGVLVQLSGNHVFLYALDALTTIVCMAGTSLRDALRLQYNDLGSLLKSGETLTAEGVVRLHRQVETYTNLLAVPEIGLDSFNFAQQLTNMDTANPNLDAATAVSGGMDIQTEQGQTDGIDQVLDEVAAMGNLDSNDADMSFDALYDLQGNDMDLNDLDLDMF
Length944
PositionTail
OrganismCladophialophora immunda
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Pezizomycotina> Eurotiomycetes> Chaetothyriomycetidae> Chaetothyriales> Herpotrichiellaceae> Cladophialophora.
Aromaticity0.06
Grand average of hydropathy0.055
Instability index40.78
Isoelectric point5.02
Molecular weight103335.76
Publications









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

>MDP02626
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      80.11|      26|     125|       4|      35|       1
---------------------------------------------------------------------------
    4-   35 (42.43/43.67)	SRWL.ALARKcllhriSVQQFGDLLR.NHGGRID
  130-  157 (37.68/23.83)	SRWLsALARQ......ASQGDAESLRlELNGTIE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      52.81|      19|      27|     584|     609|       2
---------------------------------------------------------------------------
  584-  608 (21.06/26.87)	LAEGLsDELFtncSPhdFYL..LIPTL
  626-  646 (31.75/11.58)	LQAGL.DYLL...EP..FLLpsLIPAM
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      57.08|      18|      25|     757|     779|       3
---------------------------------------------------------------------------
  757-  774 (28.89/10.46)	APVGDILALVGRAVEVRG
  781-  798 (28.20/18.16)	AIVGVLVQLSGNHVFLYA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      57.62|      12|      26|     879|     890|       5
---------------------------------------------------------------------------
  879-  890 (20.95/11.71)	LDAATAVSGG.MD
  905-  915 (18.96/ 9.88)	LDEVAAM.GN.LD
  923-  935 (17.70/ 8.73)	FDALYDLQGNdMD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      49.12|      15|      27|     365|     379|       6
---------------------------------------------------------------------------
  365-  379 (23.80/16.63)	QVVSLLSSQDLLLTG
  395-  409 (25.32/18.25)	QVASQLVGTEDMLKG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      72.79|      24|      25|     685|     709|       9
---------------------------------------------------------------------------
  685-  709 (38.00/24.73)	TL..CaPRLK.IHLRSVGSQDTNVDSIL
  711-  737 (34.79/18.31)	TLgqC.PDFSfFSERERETHGTGVINIL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      56.20|      16|      37|     296|     311|      11
---------------------------------------------------------------------------
  296-  311 (29.61/19.19)	QNDYQSMFNDVFTSSF
  335-  350 (26.59/16.51)	QNKLPALLSMISASSF
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      55.42|      16|     208|      60|      76|      12
---------------------------------------------------------------------------
   60-   76 (25.37/16.06)	LYIDYLAITGLiTISDG
  270-  285 (30.06/15.11)	LYLEGLLFTGS.TIDDG
---------------------------------------------------------------------------




































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 MDP02626 with Med5 domain of Kingdom Fungi
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