<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 MDP28308

Description Mediator of RNA polymerase II transcription subunit 5
SequenceMTSSEQWGTFLQQCLLHRIDAAEFKNLTRLLMQRYPIAEAQLLDVLLETRLATGIKWDPLPPLYIDCLCKMGLVRTSTMLNSLLKHSSIHDKLQSPGGSEAVQGKQKRKCYTLMTDIRVVQDAMLSVSTGTAFKTFAEALSIFASIVDWIQAVVAWHNSHLDTSHQTGGLMSSPDAVSLFESLGILLAALSGTAKGLEVLSADSHEGFTDGLIALKIKLGQALSAYLPLCVEVSLPLRNRLDSLQKEFNLFGEPPSKALDVSMMENVNVNALQFEDSVMDGPVINSRAGLYVYINAMLVGRPLVDDSMLLNFLSNRYGGHYQVLIEELITASFDVLSNASYRNESSRTMFLFRSFLVNKLPTFIAAMLAASIVSLPLPMELCISHALSRLDPNTFPSFSQMFAMQSNTVLSDVRQEFLFACASHKLIPESSIERLLGENPMQTLPVGGPYNKDDLVSQINANPERAEQLINEIESMEGNAGAIVGAITEVMHHLCNQKETMTLKNICNSLSRRPQALDVILLFRSLKQVLQPLCALLDAWHWDEDQGESQPVYDEFGSILLLVLTFKFRYDLRPQDMGIGGSNSFVLRLLENGFCSQKLDDLSEKQNKNLGSWINALFMAEGISEETMSACSPQEFYLLVTTLFNQSLGACEAGKLDFDTLKGGFEYLLEPFLLPSLILALNWLGNHIWESESDPSIPLKALHSLISPSSISGEAKEIHRTVLNITARSLEEQLKSVRARQPDDTIKPILEALDPHLSFQRSGSTHRSELESWTAHTPGGLLASIRSTFQSLILWSTSPDMSMAPQSYTHRQFIAGIHIQGSMRVLCALIDELKLQATTSPTNATGSSDLALDIAATMICAPLADSFAVDQNTYSPHHHMDPTNTNKEIPPRNPILTPRGALYQLHESVPKICEKDPLRAEIIVRLWRRVNAALTPPSQLDMNNIIQNMQLGVGVGGPGQMDLDTSGAGGHEEESTINQMLDNAVAAGMDGSGGAGGMGGMGSGGLDTSIDDVLNAADMAVGNPEFLDLDMEGLF
Length1035
PositionTail
OrganismAspergillus niger (strain ATCC 1015 / CBS 113.46 / FGSC A1144 / LSHB Ac4 / NCTC 3858a / NRRL 328 / USDA 3528.7)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Pezizomycotina> Eurotiomycetes> Eurotiomycetidae> Eurotiales> Aspergillaceae> Aspergillus> Aspergillus subgen. Circumdati.
Aromaticity0.07
Grand average of hydropathy-0.023
Instability index46.31
Isoelectric point4.99
Molecular weight113460.55
Publications
PubMed=21543515

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

>MDP28308
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             5|     897.57|     208|     302|     350|     558|       1
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  133-  330 (206.23/133.80)	..FKTF.AEALSIF......ASIVDW...IQAVVAWHNSHLDTSHqtgglmsspdavslFESLGILLAALSG.........................TAKG....LEV...LSA.DSHE....GFTDGLIAlKIkLGQAL..SAYLPlcveVSLPlRNRlDSLQKEF..NlfGEP..........PSK..ALDV.SMMEN.VNVNA.LQFEDSVMD..GPVINSRAGLYV..YINA.MLVG.RPLV......DDSMLL..................NFLSNRY...GGHYQVLIEELIT
  350-  558 (342.99/232.47)	FLFRSFlVNKLPTFIAAMLAASIVSLPLPMELCISHALSRLDPNT..............FPSFSQMFAMQSN.........................TVLSD.VRQEF...LFACASHK....LIPESSIE.RL.LGENP..MQTLP....VGGP.YNK.DDLVSQI..N..ANP..........ERA..EQLI.NEIES.MEGNA.GAIVGAITEVMHHLCNQKETMTL.KNICN.SLSR.RPQA......LDVILLFRSLKQVLQP..LCALLDAWHWDED...QGESQPVYDEFGS
  561-  695 (132.97/83.14)	LLVLTF................................................................................................................KfrydLRPQD..M.GI.GGSNSfvLRLLE....NGFC.SQKlDDLSEKQ..N..KN.............L..GSWI.NALFM.AEG.........ISEETMSACSPQEFYLLvTTLFNqSLGAcEAGK......LDFDTLKGGFEYLLEPflLPSLILALNWLGNhiwESESDP.......
  697-  842 (132.74/82.70)	...........................IPLK..ALHSL..ISPSS......................................................ISG.EAKEI.........HR....TVLNITAR.SL...EEQ..LKSVR....ARQP.....DDTIKPIleA..LDPhlsfqrsgstHR........SELES.WTAHTpGGLLASIRSTFQSLI.......L.WSTSP.DMSM.APQSythrqfIAGI....HIQGSMRV..LCALIDELKL......QATTSPT......
  850-  995 (82.64/48.05)	..............LALDIAATMICAPLADSFAV.......DQNT..............YSPHHHMDPTNTNkeipprnpiltprgalyqlhesvpkICEKDpLRAEIivrLWRRVNAA....LTPPSQLDmNN.IIQNM..QLGVG....VGGP.GQM.DLDTSGA..G..GHE..........EEStiNQMLdNAVAAgMDGSG.GA..........................................................................................
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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 MDP28308 with Med5 domain of Kingdom Fungi
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