<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 MDP25345

Description Mediator of RNA polymerase II transcription subunit 5
SequenceMKPIQQWRKLLHECVARRIEVDVFCKLVKILARRAPLQQAYLVGVLLESRAVTADIFPYDPLIPRYATALRKLGLIRTATLLDGLRKQPFIESQSTADAEQSQKTVNSSILMTDTRIVQDLIAPLSSSSPSLDTQDIQSIFAITAEWILDVARWHTSNINDENQMGGLMSSPDALALFESLGILLVALSATAKGHDALASESTSDFKIPLGQALTAYLSTSASISLNLRNRLDSLQKGYQLYGEPPSKDLDVQMMDGMSTNALQFEASVLDGPVINSRAGLYIYINALLIGRPLIDDEMLLSYLSNRYGGQQEVLIQELITATFDVLSNAMYRNESTRNMFVFRSFLVNKLPPFLAGMAATSIEQIPMEMCISHALNRVDPNAFPSFSQMFEMQGNTVLSDVRQEFLFACALHRLIPESSIERLLGENPMQTLPVGGRYVKNDIVAQILSNQGAADRLISEIELMEGNAGAVVAAVTDVINSLCEQKETVTLKSICDSLSRRPQVLDVMLLFCSPKSILQPLCTLLDSWKWDEDQGESQPVYDEFGSILLLVMAFKYRYDLSQYDLGVTASSSFVLKLFERGSTSMKLASLDAKQNKSVGDWISALFMSEGISEETWSSCSPQEFYLLVATLFSQTLGACEMGMLELDTIKGGFEYLLQPFLLPSLVFALKWLGNFIWESPEADLLLLLKVLRALVKPNSISGEAEACHQTVLNIAAQSLEEQLKDVRTRLPGGRSDHQSDIQPNPNQDIQQEIQSLLDILEPYLSFQCNGNSRRSELDSWTTHTDGICGVIRVTFQGLILWSASAEMSMSPHAYTHRLILVGIRLSTASNVLSALLDELRAQAEEASGSLDLAIDIAATLICAPIPESFAQEQTIYHPIDSTKEAFPRCLLLTLRQALMIQHQNVPRLSEKDPTRAEVIVRLTRRVNALLTPPAHVGTIDVTNIIDNMNLEAAAAAAGHDVIDLNNGNGTGNDGGAGAPGESIDQILNNVVAATSNDHHGTGNESQDLDVTGMDTSLDDILNAAHMGNPEFLDLDMDGMF
Length1041
PositionTail
OrganismTalaromyces marneffei (strain ATCC 18224 / CBS 334.59 / QM 7333) (Penicillium marneffei)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Pezizomycotina> Eurotiomycetes> Eurotiomycetidae> Eurotiales> Trichocomaceae> Talaromyces> Talaromyces sect. Talaromyces.
Aromaticity0.06
Grand average of hydropathy0.007
Instability index47.40
Isoelectric point4.70
Molecular weight114449.36
Publications
PubMed=25676766

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

>MDP25345
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     100.00|      26|      27|     988|    1014|       1
---------------------------------------------------------------------------
  965-  985 (32.23/16.89)	LNN.GNGTGND.GGAGA.PGESID....
  988- 1014 (45.43/31.07)	LNNvVAATSNDHHGTGN.ESQDLDVTGM
 1023- 1040 (22.34/ 9.26)	.........NAAH.MGNpEFLDLDMDGM
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      66.60|      21|      27|     476|     498|       2
---------------------------------------------------------------------------
  476-  498 (32.57/30.40)	VTDVINSLCEQKEtvTLKSIC...DS
  505-  528 (34.03/24.20)	VLDVMLLFCSPKS..ILQPLCtllDS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      56.38|      17|      27|     793|     809|       4
---------------------------------------------------------------------------
  793-  809 (29.85/18.31)	RVTFQGLILWSASAEMS
  818-  834 (26.53/15.50)	RLILVGIRLSTASNVLS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      54.38|      17|      25|     349|     370|       5
---------------------------------------------------------------------------
  349-  370 (21.21/29.13)	NKLPPflagMAATSIEQIpMEM
  377-  393 (33.17/21.75)	NRVDP....NAFPSFSQM.FEM
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      44.11|      13|      27|     743|     756|       6
---------------------------------------------------------------------------
  743-  756 (20.30/17.64)	QPNPNQDiQQEIQS
  768-  780 (23.81/15.23)	QCNGNSR.RSELDS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      32.85|      11|      27|     261|     277|       8
---------------------------------------------------------------------------
  261-  276 (13.43/20.37)	NALqfeasVLDGPVIN
  286-  296 (19.42/ 6.36)	NAL.....LIGRPLID
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      50.97|      14|      27|      55|      68|       9
---------------------------------------------------------------------------
   55-   68 (26.62/16.97)	DIFPYDPLIPRYAT
   83-   96 (24.36/14.91)	DGLRKQPFIESQST
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      61.44|      20|      28|     893|     915|      12
---------------------------------------------------------------------------
  893-  915 (30.90/29.34)	LTLR.QALMIQHQNVPRLsekDPT
  923-  943 (30.53/19.91)	LTRRvNALLTPPAHVGTI...DVT
---------------------------------------------------------------------------




































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 MDP25345 with Med5 domain of Kingdom Fungi
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