<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 MDP31736

Description Mediator of RNA polymerase II transcription subunit 5
SequenceMAYLTDDKASGPEWALLLEQCISHRIISTEFRDFSVIMMRRHPISEKALIRIVLEARSATGLMWDPLIPLYVEVLQKLGYVSLPEILKTLLLFSTIYDDSHPVSKAGPNGKGVKRKKKTSTLMTDNKIIQNVMATITMGQGPKATRGATDVLCAVADWISTLLAWSPSGEGPESDQPGDILGHQDGACIFGSLGLLLVALVGTEKGVSALSSLSKKDRKCLGQALSSYTPICASYSLPLRNRLDSIQKDFNIYPSDSSKGLEESMMGDVNVAVLQFESNVVDIPTTSSRAGLYIYINALLAGRPLIDDSMFLNYLNNRYGGDHISMVEELITAAFDVLSNGMYRNESSKTMFLFRAFLVNKLPPFLAYMSASSMSQIPMEVCITRALSRVDPNTFPSFSETFSMQGNSVLSDVRQEFLFSCALHKLIPESSIERLLGENPMQTLPVGGQFMKDTLIAQINNNPERAEQLLNGIESMEGNAGAIVDAIIEVMHNLCSRKETMTLKSICNSLSRRPQTLDIILLFKSPSFILQPLCSLLDAWKWDEDQGESQLVYDEFGSILLLVLAFKYKYDLTPLDLGINKPDSFILRLLDTGASSQQLKDLTEKQNQNLGAWITALFVAEGISDESMSSCSPQEFYLLVATLFSQSLTACEAGKMEFETLKGGFEYLLEPFLLPALVMALTWLGNHIWESESDLETSLKILHGLVKPASISGEAQEIHRTVLCIASRTLEATLKDTRARHPSRTDISPILDVLEQYHSFRRTGATNQTELDSWRANPAGGGLVTSIRNTFSSLVLWSTDPEISMTPPSYTHRQMLAGIGHVGSERVLQGLIDELKLQTETGSGNLAFDIAATLICAPMAESFTLEQILYRQMDQDKYPLPGCRMLTLRDALGIQRESLSKLIEADPHRAELIIRLHRRVEALCSIPQIAPGDVDVGNIMDSIHLEAVGGDDEQREQHQQQQPDADQSNQGVVAPTGNTPGNLDAMLDAAASAVVADPNGTAGAEAAAGAGLLGNGVGGDAGVGIGTGMNDVFSLMDMGNPEFIDLDMEDML
Length1052
PositionTail
OrganismCoccidioides immitis (strain RS) (Valley fever fungus)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Pezizomycotina> Eurotiomycetes> Eurotiomycetidae> Onygenales> Onygenales incertae sedis> Coccidioides.
Aromaticity0.06
Grand average of hydropathy-0.045
Instability index42.23
Isoelectric point4.83
Molecular weight115050.26
Publications
PubMed=19717792
PubMed=20516208

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 (By similarity). 
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

>MDP31736
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     117.23|      35|      57|      34|      68|       1
---------------------------------------------------------------------------
   34-   68 (61.04/41.82)	FSVIMMRRHPISEKALI.RIVLEARSATGLMWDPLI
   93-  128 (56.19/37.91)	FSTIYDDSHPVSKAGPNgKGVKRKKKTSTLMTDNKI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     321.10|      89|     362|     395|     506|       2
---------------------------------------------------------------------------
  395-  488 (134.93/95.47)	FPSFSETFSMQ............GNSVLSDVRQEFlFSCALHKLIPESSIERLLGENPMQTlPvggQFMKDTLIAQINN.NPERAEQ.....LLNGIESMEGNAGAIVDAII
  583-  618 (31.16/ 7.37)	......................................................................DSFILRLLD.TGASSQQ.....LKDLTEKQNQNLGAWITALF
  757-  852 (106.17/58.92)	YHSFRRTGATNqteldswranpaGGGLVTSIRNTF.SSLVLWSTDPEISM......TP....P...SYTHRQMLAGIGHvGSERVLQglideLKLQTETGSGNLAFDIAA..
  878-  916 (48.85/32.41)	YP.......LP............GCRMLT.LRD......ALG..IQRESLSKLIEADPHRA..........ELIIRL...................................
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      65.74|      21|     362|     173|     198|       3
---------------------------------------------------------------------------
  173-  198 (28.53/31.09)	ESDQPGDILGHQDgaciFGSLgLLLV
  543-  563 (37.21/21.63)	DEDQGESQLVYDE....FGSI.LLLV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      71.18|      22|     159|     208|     230|      10
---------------------------------------------------------------------------
  208-  230 (34.86/24.03)	SAlSSLSKKDRK.CLGQALSSYTP
  370-  392 (36.32/20.68)	SA.SSMSQIPMEvCITRALSRVDP
---------------------------------------------------------------------------




































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 MDP31736 with Med5 domain of Kingdom Fungi
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