<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 MDP31420

Description Mediator of RNA polymerase II transcription subunit 15
SequenceMSEEDWPSPKFREHVIQRLEPELARNRQNAPNLPVPGDARQVEEYVFAKCMSKDEYMRTIAKVINAINCNSKSAAVPSVLQPSQFHSPPCTTAVLGTGVGTPGYRAPVPPDPQPTSAQARNPPVTTATTQASTTPSAPAVTGTVSASAAVAAAVASFPSPDSAALRAAPGGQTTPGSQPSSGAPGSTTPNAPFPNGAGAQPGAPTMNGGAGGPPMGQPPPQMGAPNMGMNGPGGYGGYGMMNGPPGAGGPMGGNPYGQPMKKEMDQSRGPWDPQGHMYQQQQPWGGMPPQQGHGGYPNRPMNGQQTTPTGTSSVLESLINQPQQYPGHHNQMAPPGGDRNAAGGRAGVPGNPGGVPGAPQRPGAMPVNQGVMSIEDQNVYQMKLRNMRGSCDSLRTRARQCRQEGNHEAAHKLEVMLSVLEGRRVVSLEYLNHLETWIARKQDFLNINPMGGGNPGHMGMNDPVMNGDHGMMSNGQVHNPYGHPGYNHGQYGMGGPPPPHHMQMHQQQMWQQPQQQRMMPTDPMMMGGGGPMHGGPMYRGDMGHEMNSPVNSHRHNPYPSPAAMRNNMRGMQNGPGPIGRDRNSMSGSMSGPSSGAPSLNTMGTPKMGAPGSIGGLSNLDDFTYDDFLPNPIDALQPTLHIGPGSSMGGGPRVNLNDAARKELQAMEGRFEIEPNHQRHDANHIIVSAKMRNQPVPPLRLVVPITYPSGNVTVDRTAIDLDAYLYDDLQNVVHERLSRPGLSSLTDYLNAWEEQVNQYMQQNQTNGGMDAAFGVGNDFFYDNLNL
Length785
PositionTail
OrganismCaenorhabditis briggsae
KingdomMetazoa
LineageEukaryota> Metazoa> Ecdysozoa> Nematoda> Chromadorea> Rhabditida> Rhabditina> Rhabditomorpha> Rhabditoidea> Rhabditidae> Peloderinae> Caenorhabditis.
Aromaticity0.05
Grand average of hydropathy-0.728
Instability index54.67
Isoelectric point6.60
Molecular weight83451.48
Publications
PubMed=14624247

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). Required for activated transcription of the MtnA, MtnB and MtnD genes. 
ECO:0000250
GO - Cellular Component
mediator complex	GO:0016592	IEA:InterPro
nucleus	GO:0005634	IBA:GO_Central
GO - Biological Function
nucleic acid binding	GO:0003676	IBA:GO_Central
transcription coregulator activity	GO:0003712	IEA:InterPro
GO - Biological Process
mRNA splicing, via spliceosome	GO:0000398	IBA:GO_Central
regulation of transcription by RNA polymerase II	GO:0006357	IEA:InterPro

Interaction

Binary Interactions











Repeat regions





Repeats

>MDP31420
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             7|     798.87|     117|     119|     228|     344|       1
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   73-  143 (97.90/20.82)	.........................S..........AAVPSVL.QPSQF...H...SP.P.CTT...AVLGT......GV...............GTP...GYRAPVPPDP..QPTSA...QARNP..PVTTATTQAS.TTPSAPAVTGT
  155-  225 (96.30/20.35)	ASFP.SpdsaalRAAPGGQTTPGSQP..........S.........SGAPGSTTPNAPfP....................NG.A.GAQPGAPTMNG.....GAGGP....PMGQPPP.................QMGA.P..........
  228-  293 (121.25/27.65)	..............................................................................GMNG.P.GGYGGYGMMNGPP...GAGGPMGGNPYGQPMKKEMDQSRGPWDPQGHMYQQQQ.PWGGMPPQQGH
  294-  388 (151.27/36.44)	GGYP.N......RPMNGQQTTPTGTS..........SVLESLINQPQQYPGHHNQMAP.PGGDR...NAAGG....raGVPGnP.GGV.........P...GAPQRPGAMP........VNQ........GVMSIEDQ.NVYQMKLRNMR
  389-  501 (127.91/29.60)	GSCD.S......LRTRARQCRQEGNHeaahklevmlSVLEGRRVVSLEYLNHLETWIA.RKQDFlniNPMGGgnpghmGMND.P.VMNGDHGMM........SNGQV.HNPYGHP...............G..YNHGQyGMGG.PPPPHH
  502-  544 (67.90/12.04)	............MQMHQQQ......................MWQQPQQ.....QRMMP.....................................TDPmmmGGGGPM....HGGP.................MYR......GDM....GH
  545-  647 (136.34/32.07)	...EmN......SPVNSHRHNPYPSP..........AAMRNNMRGMQNGPG......P.IGRDR...NSMSG......SMSG.PsSGAPSLNTM.GTP.kmGAPGSIGG......LSNLDDFTYDDFLP..NPIDALQ.PTLHIGPGSSM
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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 MDP31420 with Med15 domain of Kingdom Metazoa


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) AAVAAAVASFPSPDSAALRAAPGGQTTPGSQPSSGAPGSTTPNAPFPNGAGAQPGAPTMNGGAGGPPMGQPPPQMGAPNMGMNGPGGYGGYGMMNGPPGAGGPMGGNPYGQPMKKEMDQSRGPWDPQGHMYQQQQPWGGMPPQQGHGGYPNRPMNGQQTTPTGTSSVLESLINQPQQYPGHHNQMAPPGGDRNAAGGRAGVPGNPGGVPGAPQRPGAMPVNQGVMSIEDQNV
2) DALQPTLHIGPGSSMGGGPRVNLNDAARKELQAMEGRFEIEPNHQRH
3) MSEEDWPSPKFREHVIQRLEPELARNRQNAPNLPVPGD
4) PSVLQPSQFHSPPCTTAVLGTGVGTPGYRAPVPPDPQPTSAQARNPPVTTATTQASTTPSAPAVTGTVS
5) QDFLNINPMGGGNPGHMGMNDPVMNGDHGMMSNGQVHNPYGHPGYNHGQYGMGGPPPPHHMQMHQQQMWQQPQQQRMMPTDPMMMGGGGPMHGGPMYRGDMGHEMNSPVNSHRHNPYPSPAAMRNNMRGMQNGPGPIGRDRNSMSGSMSGPSSGAPSLNTMGTPKMGAPGSIGGL
6) QMKLRNMRGSCDSLRTRARQCRQEGNHEAAHKLEVM
148
633
1
77
442
381
379
679
38
145
616
416










Molecular Recognition Features






MoRF SequenceStartStop




1) KFREHV
10
15