<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 MDP29571

Description Mediator of RNA polymerase II transcription subunit 5
SequenceMSEDEAQQLIQKLLLQALSRRLPQSKWLSLLHQLVRRIEAAQNSSSINTVEPLAASYVAGCLVQYILSQSSLDPLLIEYLQALIYGSANRTGLEPDQGPVTDVITATLHLLAANVNSTTASNVPAIETISSVIGQGLLMTFQAPIPFHVSNPSFLYLLQHLFAQSATEREVSSSSTSANGADSTSNDGSIAQSALAFIVSNLRLLALAADRDIASPQNLLAPRVAITVLINVGQNLLAHVIQRLSAAQASKDAKAKPQIAVLQQTRTKSKTSINDIEAVLQSMNPAWKDEIALLRSLTSQIGVIDQLSEALSEASSSSTASSLNARRKKAETLQDAQSRATWDHFLDVSSASSSCKPAVEPETALLMHLLVDHHVSWNTKLDAVKTLFLARRNAAAPSLALEKSLAAFYFELLLAAIDACASVVEMPPAFKGAEVYAAIWRNALCGMIPEIVLQLEQWLDVHQDLPLRGQRLEAPHVRFESALRASLLVMSERLNVCETAGGQLSAGAGDGADAGAAGAEMNNVVGLDTPPSQPIKAWLLRACIEHSLARPEAIADEFPDGHKLASEVQSLSQSLRMDAQLEGMALNTLFETRISTDDPLELLQRVASDSGTHFIFARQLVLQVQGWLEQHDLESVARWCKALSQDACDGAGGVMLDTIMLYLDPAEVVEPLASILDHQDVGQTSDEPSTLSDVLLFVQLVCYRFDVAPSRIKRYSVNQEDDMQLDGSSTQQDSANASSSSPPFLATYLATSSASYPLPSLTGENRLLVSRWIQALFGNEGISDDLISASPPPTLLRLSPLLFSQSISACLYGIIDLETLRGGLSYFLQDLLSFTLPGALNWLLAEIPRVPSQPILDVLNEAGLQAAVVDVPSSDGMLANGLRRNTTSRTVHLEVLALLLDTDACAGVVRELVGKSFDGFVRWVQGRGGALEEGCETFNLASLKRRMESAGVTARLLSGAGSWLRTLANSALHQPQQQQLQLQVSRGQTQPQPQIQVQGDSKLISLLCSGKHASSQHIERLLSTLTSSQSLQMGSGKGNTDQKALAAWLCLVAPSLDTSSTTKPPVLSFIAKHDFVSIEESAIESVIRTVRLVSGLVRASEAIRAPSANGEGDAAAQIHAFARSSAGATGASANKTTEAAEGGLFDEDEPSTPPLPSTTTGAAENRKNAAGASVATLISSSTFRVTSQQILDLLALKLVRFREAVDRRGGARVQAAKWSAVEGALIYNAELFNNAAEGAKSGEATATSAEPENALLGWLNALQS
Length1264
PositionTail
OrganismUstilago hordei (strain Uh4875-4) (Barley covered smut fungus)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Basidiomycota> Ustilaginomycotina> Ustilaginomycetes> Ustilaginales> Ustilaginaceae> Ustilago.
Aromaticity0.05
Grand average of hydropathy0.010
Instability index53.09
Isoelectric point5.10
Molecular weight135074.34
Publications
PubMed=22623492

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

>MDP29571
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     311.43|     111|     140|     151|     290|       1
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   30-  102 (84.76/44.71)	.......................................LLHQLVRRIEAAQNS....................SSINTVEPLAASYVAGCLVQ....yilsqsslDPLLIEYLQALI...................YGSANRTGLEPDQGPVTD
  103-  192 (121.12/67.06)	VITATLHLLAANVNSTTAS..NV..PAIE.TISSVIGQGLL.....................................................mtfqapipfhvsNPSFLYLLQHLFAQ.......SATEREVSSSSTSANGADSTSNDGSIAQ
  197-  319 (105.56/109.57)	FIVSNLRLLALAADRDIASpqNLlaPRVAiTVLINVGQNLLAHVIQRLSAAQASkdakakpqiavlqqtrtkskTSINDIEAVLQSMNPAWKDE................IALLRSLTSQigvidqlSEALSEASSSST................
---------------------------------------------------------------------------
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     308.81|     112|     209|     383|     510|       2
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  383-  448 (63.42/56.89)	......................................................................................AVKTLflarrnAAAPSLALEKSLAAFYFELLLAAIDACASvvEMPPAFK.GAEVYA........AIWRNA.LCG....MI
  449-  585 (158.91/132.15)	PEIVLQLE.........QWLDVHQDLplrGQRLEAPhvrfeSALRASLL...VMSERLNVCETAGGQLSAGAGDgadagaagaemnNVVGL......DTPPSQPIKAWLLRACIEHSLARPEAIAD..EFPDGHKlASEVQS.....lsqSLRMDAqLEG....MA
  618-  656 (35.37/17.76)	RQLVLQVQ.........GWLEQH.DL....................................................................................................................esvarwckALSQDA.CDGaggvML
  657-  721 (51.11/27.28)	DTIMLYLDpaevveplaSILD.HQDV...GQTSDEP.....STLSDVLLfvqLVCYRFDVAPSRIKRYSVNQED............................................................................................
---------------------------------------------------------------------------
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     252.11|      82|     306|     851|     941|       4
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  851-  941 (125.40/103.29)	PSQPILdvlnEAGLQAAVVDVPSSDGMLANGLRRNTTSRTVHLEVLALLldtdACAGV.VRELVGKSFDGFV...RWvQGRGGALEEGCETFNLA
 1150- 1235 (126.71/81.93)	PSTPPL....PSTTTGAAENRKNAAGASVATLISSSTFRVTSQQILDLL....ALKLVrFREAVDRRGGARVqaaKW.SAVEGALIYNAELFNNA
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     217.38|      69|     273|     722|     795|       5
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  722-  795 (108.95/72.46)	DMQLDGS....STQQDSANASSSSPPFLATYLaTSSASYPLPSLTGE.NRLLVSRWIQALfgneGISDDLISASPPPTL
  994- 1067 (108.42/59.88)	QIQVQGDskliSLLCSGKHASSQHIERLLSTL.TSSQSLQMGSGKGNtDQKALAAWLCLV....APSLDTSSTTKPPVL
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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 MDP29571 with Med5 domain of Kingdom Fungi
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