<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 MDP33031

Description Mediator of RNA polymerase II transcription subunit 5
SequenceMSIVELTRNCFQSGVSASSWVGLCKLFLEEDVTVQSQETIESEISNSVLLLFRSYPGDPDLHGYLKYAVQNKMVSLAVFVATLLQAARSSKLHNAATLDMLCRIALDAHYASGLPAIGSLVAAEDSLMDILSIVQDALALLRTAHSVRMTHFHQLTTSASELVVALLTCIPDLSQLPTGQAMVHFADVNDLLQNFRLTPELRQLLETFFFSLSLVIGDEAKSTREAQMIQTVPMVRGKGELVGMGSNTDIVTLSLILNHIVTFRGCESGAGDGDYPVALILGTFRWTSWTPVVFYTQLVLSAFSCLAQCSSVDAGLIWKAFMVGRLPRLLVSFQKHVNTESNADTDWKIALQGALSNLLRRNDLLTSCHKVLSEMEGTEGQRPLTCSFIHQLLSYGLVDQRIAVGLDSGISNYSVPSLQSEAEDSGQTPESFIEWKINRDTEETEQWLEKLWRNPGSHALFTELLLKKLSTCISQLDLESLSQCCKVLHLSNHAVDILALHTNIANLVSQLLGFLEEYNCETVGDPQSAISLLGMIVLFLQSNVTRFNLQQSTFIVKNRTLSCEYLLPNLSQAVAYDKVSPEDATAFNAWFKTLFDNSSEGIDDTILRCTNPKTLLRISPALLLHAIKMTSEGKIESDILNNGVMYFIDPVLNWTLVNAIKYLTLEIQQRVLNAPMHLEVLQTIVTSASCPRPVLLLCGPYVLSLVAQRKKENLLSATFDNEEVQQVIGEILGPKQAGHINALLQTSRSWQDQPRQAIQDALTLARTGKGPFIDIEHCLKVASPSRFLQLLWSQLVISAGLGGPIEGIKRLAIHVLTMPQPGPPLLPIFINTVLPSLITFIDGQQSSEQTTQADLLYSIVSSLFTAAVSMEVAMRTVMGHQAPALGQHSSVLARRLVTDLCSHKFSYTSTILSQRLSASPPCVANFPIFMELSV
Length934
PositionTail
OrganismMoniliophthora roreri (strain MCA 2997) (Cocoa frosty pod rot fungus) (Crinipellis roreri)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Basidiomycota> Agaricomycotina> Agaricomycetes> Agaricomycetidae> Agaricales> Marasmiaceae> Moniliophthora.
Aromaticity0.07
Grand average of hydropathy0.183
Instability index48.27
Isoelectric point5.52
Molecular weight102787.39
Publications
PubMed=24571091

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

>MDP33031
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      25.88|       8|      27|     167|     176|       1
---------------------------------------------------------------------------
  167-  176 (10.54/13.00)	LTciPDLSQL
  197-  204 (15.34/ 8.04)	LT..PELRQL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      81.57|      27|      30|     599|     628|       2
---------------------------------------------------------------------------
  599-  628 (42.46/28.02)	SEG.IDDTILrctNPKTLLRISPAL...LLHAIK
  631-  661 (39.11/18.58)	SEGkIESDIL...NNGVMYFIDPVLnwtLVNAIK
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      88.46|      25|     511|       9|      33|       3
---------------------------------------------------------------------------
    9-   33 (48.74/37.35)	NCFQSG..VSASSWVGLCKLFLEEDVT
  519-  545 (39.72/28.83)	NCETVGdpQSAISLLGMIVLFLQSNVT
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      76.10|      24|      32|     310|     335|       4
---------------------------------------------------------------------------
  310-  335 (38.89/37.17)	SSVDAGliWKAFMVGRLPR......LLVSFQK
  341-  370 (37.21/27.74)	SNADTD..WKIALQGALSNllrrndLLTSCHK
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      86.11|      27|     621|     117|     143|       5
---------------------------------------------------------------------------
  117-  143 (43.24/26.19)	IGSLVAAEDSLMD.ILSIVQDALALLRT
  740-  767 (42.87/25.90)	INALLQTSRSWQDqPRQAIQDALTLART
---------------------------------------------------------------------------




































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 MDP33031 with Med5 domain of Kingdom Fungi
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