<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 MDP24626

Description Mediator of RNA polymerase II transcription subunit 5
SequenceMADTMDLHKLVKNSVRRSLPPKSFLYLFEQLDRRQSISGKELHEYLMKFTNKRAYDNAVQQYILVVASSSSSRMEQFWVNLVELEQEDQKKHFRGLYDMIILKKPQPVVPELVSDIINVHFPKYFEQLVAKNATGNADLISLASTLWATLLDAYSSLVQSDKLKSFVIYIMAHKRFLREDVMEYLLYKSRPVLSASNVELPNDNLNSKDLPLDSNASNSLVRQLSGPITNMKKNTRLFEIKKYFWLLSSMKNWTFNQDNFLKDYEKFCMSKSQSHIVKKSYSLVYDITLSMFNGFAVSLISDEPPYVLFNWNNFIITRLPHILASVKFLASTSDSSDSSQETLEDAILNAFNALNESTVKAITALDSKTFSYTDLRQAFIKSCVYSGILAVPSFHRFFPMEARTTQQMLSHEMHSFGNIESVQKGLEKTLLNISCEFTSLEESGLYEYIQSIPKLLKYSKSKQIEFTNVLSTIFSQLIENNDDEKLYRLLLTLMNNIEAMELFAFNASRGPLDVIEKLIVFLDSSEWGSDDDNFQESYTHFGVILLGIISMINIFALDFSQVSVKTSFTSDYINNFFYRLCDNLSNRASTTTEEETTIVQNYNSLCADWINALFDDTNDGLPDDLIRAVHVKQIYKLIPIVFQQAVTATISKTINFKILTKWH
Length663
PositionTail
OrganismMeyerozyma guilliermondii (strain ATCC 6260 / CBS 566 / DSM 6381 / JCM 1539 / NBRC 10279 / NRRL Y-324) (Yeast) (Candida guilliermondii)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Saccharomycotina> Saccharomycetes> Saccharomycetales> Debaryomycetaceae> Meyerozyma.
Aromaticity0.11
Grand average of hydropathy-0.145
Instability index42.87
Isoelectric point5.80
Molecular weight76222.25
Publications
PubMed=19465905

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

>MDP24626
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             6|     366.02|      72|     186|     308|     379|       1
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  142-  209 (73.10/40.25)	LAS...............TLWA.........TLLD...AYSSLVQSdKL........KSfvIYIMAHKRFLREDVMEYL.................................L..........YKSRPVLSASnveLPNDNLNSK....D
  210-  267 (63.81/34.23)	LPLD...S..........................N...ASNSLVRQ.LS........GP..ITNMKKNTRLF.EIKKYF..................................wllssmknwtFNQDNFLKDY..........EK....F
  268-  328 (66.83/36.19)	CMSK...SQSHivKKSYSLVYD.........ITLS...MFNGFAVS.LI........................................................sdeppyvL..........FNWNNFIITR...LPHILASVK....F
  329-  419 (73.80/40.71)	LAST...SDSS..DSSQETLED.........AILN...AFNALNES.TV........KA..ITALDSKTFSYTDLRQAF....ikscvysgilavpsfhrffpmearttqqmL..............SHEMHS...FGNI..........
  420-  521 (33.14/14.37)	.............ESVQKGLEK.........TLLNiscEFTSLEES.GLyeyiqsipKL..LKYSKSKQIEFTN.....vlstifsqliennddeklyrllltlmnnieameL..........FAFNA...SR...GP..LDVIEklivF
  522-  586 (55.35/28.76)	LDSSewgSD.D..DNFQESYTHfgvillgiiSMIN...IF.......................ALD...FSQVSVKTSF................................tS..........DYINNFFY.R...LCDNLSN.......
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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 MDP24626 with Med5 domain of Kingdom Fungi
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