<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 MDP11088

Description Mediator of RNA polymerase II transcription subunit 5
SequenceMSTISSWQTFLTNSLATRLPPETFESYVQILNSRHPLSPNRICDIFLHPREGNDYSLDTRATKYIQILLSLKLVNIPAILKTLLKVSSFSKHSEEQIGHNESVKDTQDGNGQKENGPARWWRNSYGAEETLFYRLAKIISSGSAPSKIEEAAELVKACIQWMEVVIAASHAAQEMMGLDQTHTQEKNAQNMALGTLVIAVVENAQVMHALSKGSVPKATRKELSKTLANFVPLLLQNSAQAAARLEVFRTETLVAIEPVDKKEMAADKAIEDILDESIGLAHGVDSMVVEEVPIMNSRAGLYIYLNSLVRITDIPLMPGASADSVQLVARPLIDDNAIFAYLHNRYQGDIETTIIDFILAAFDVLANATFRNEKPQAITILRSFLINKVPVMLTTLCAQLFPPLTSEYCITQALGRVDTTAFPTLSNMFDESSSANNMFSDSVRQDFCFACCLHGLIQESSIEELLGDIPMQSLPAGGRYIKDDLVQQCLSDPERAEVLIGELENMDGNVGAVSQAITEVIGRLCSNKETMSLKTLCSQLSRKPSSLDVILLFEKPVIILQPICELLDNWRYDEDQGEYQPVYEEFGSVLLLALSFTHRYGLSTVDLGIRNADGFLAKFLRQGHLARATEDLTEQENSHLDGWIRGLFDSGGLGDELMSSCPPHDFYMLVPTLFSTIVTACHCKYLSEKALKDGLEYLVDTFLLPSLIPGITWLASHLWESRGDSNACLQILSALITNPASISNNTEASQMLNAILNIVAKNLEIKLRYVQRFEPSRQDVEPLSKALRGNLGWERRGASDHNELEAWTATPGGGLTVAIKHTIASLVQWALNPTANTHPASYTHRQFLACEKIHDAKRLVHTILEEIKTQTEAGNASIVYDVACAIVCSPDSASWDAGIQVDVLGTNTFQPLQRRLNLREALKNEAENAPKLHKTDPFTADTIVRLYRKVEAQLVMPQQTMLEHDALGGLDSGLHQALDSAVLEGAMADAGMGMDGLDDNQHGLGGMNDPHGDLMHGLMGGGDAGDLLDGFGTGNFNSTDDGMGF
Length1045
PositionTail
OrganismPhialocephala subalpina
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Pezizomycotina> Leotiomycetes> Helotiales> Mollisiaceae> Phialocephala> Phialocephala fortinii species complex.
Aromaticity0.07
Grand average of hydropathy-0.104
Instability index43.23
Isoelectric point4.95
Molecular weight114803.27
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

>MDP11088
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     105.97|      36|     480|     135|     182|       1
---------------------------------------------------------------------------
  135-  172 (54.09/55.88)	LAKI...ISSGSAPSKIEEaaELVKACIQWMEVVIAASHAA
  203-  241 (51.88/26.74)	NAQVmhaLSKGSVPKATRK..ELSKTLANFVPLLLQNSAQA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     128.49|      48|     280|     325|     425|       2
---------------------------------------------------------------------------
  327-  349 (27.87/40.16)	.....................................LVARPLIDDNAIFAYLHN.RYQGD
  376-  400 (30.83/40.66)	QAIT.ILRSFLINKVPVMLTTLCAQL...................................
  515-  575 (69.79/31.55)	QAITeVIGRLCSNKETMSLKTLCSQLsrkpssldvilLFEKPVIILQPICELLDNwRYDED
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      93.84|      29|      35|     963|     997|       6
---------------------------------------------------------------------------
  963-  997 (39.99/37.26)	EHdALGGLDSGlHQALdsavLEGAM..ADAGMGMDGL
 1001- 1031 (53.84/29.85)	QH.GLGGMNDP.HGDL....MHGLMggGDAGDLLDGF
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      56.25|      17|      20|     279|     295|       8
---------------------------------------------------------------------------
  279-  295 (30.39/24.15)	GLAHGVDSMV.VEEVPIM
  300-  317 (25.86/19.30)	GLYIYLNSLVrITDIPLM
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      83.84|      23|     639|      11|      33|       9
---------------------------------------------------------------------------
   11-   33 (39.51/25.29)	LTNSLATRLPPETFESYVQILNS
  653-  675 (44.33/29.31)	LGDELMSSCPPHDFYMLVPTLFS
---------------------------------------------------------------------------




































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 MDP11088 with Med5 domain of Kingdom Fungi
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