<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 MDP22265

Description Mediator of RNA polymerase II transcription subunit 1
SequenceMATGPVVSVQSGSPAGELPISVQQGGNPTIIDRVKADDVTEAEKQSRTVALLERLHAKHNASRPWQETCKVVRQAMEKRGVMNAAGHQLLLNCLETLQRALKVSSLSSMTDRLESIARQNMLGSHLSPTGTECYITSDMFYVEVQLDSNGQLVDVKVAHQGENPTSCPELIQHLREKKFEEFSKHLKGLVDLYKLPGDNKLKTKMYIALQSLELDLAKMMHMFRLATNANTVETILHGSVGLLTPRSGGNLVTLQCYVSPYDIFQEGSGTQLNLTDSNVPRSLGVSVSVTIEGTSAVYKLPIAPLITGSHPVDNKGTPAFSTVTNSNCVDLPACFFLKMNRPMPFSTAFIKRMSNATLIPVFETAPSLSPLYQLIVQSQLQLLEEGSSLPAPSHNMHFYSILPDQQHCYFLNGNAPIQDSHSLQGAMVSKIPFRHPAHVPLLLDIIRHQAAYNTLIGSCVRQKSIKEDSAALLQFEVCPLTDSSFGVSFQHPVNESLVCVVMEVIDSRQVSCKLYKGQSDALICTDDFITKVVQRCMSIPVTMRAIRRKAETIQADTPALMLIAQTVETMVKNNLQSSGSPTYNMAAGDGSNPGLHGLTGSNTPTGGGLPGDPNFPLFGISRPDRQTQGGECPTSGAASQQQLLQQQGQGHTDNYNKVTQNPILTGLLQITGNVGSSPSSQNAPPPHQTPPPTSSPASNTKNHPMLMNLLKDNPTQDFAALYGSGTIERQNSSSCSPRTDSMAGACPGGNPKGKKKRPRGTEKGGGIPGAGSCGGSGGLSMKSQQSSMPQQQQHHPVSHEDDFHRELFSMDVDASQNSIFDVNLAGDGLDTPHSITPAPSQCGTPPPGSNMPYSQSHIQPQQPPGTVPPRMVRLSSSDSIGPDITEILQDLPEQPGKGSSESHGQHPMGSGGDDVGPLGTPIRDSSSSGQGSAVFDSGDIFNTNSNENPFTDTDLIPTPPDPIQDSDCSSSSFFHDPPDFSPEHSFTQNFFENCSESPDGVMDMVKGFGSQQNTPSGTPQNPTPHGQNTPEPSLKDPFDMGIVFGGNSGSGKPLLGHAPDLGDTHGGGSQSPLMMGLGAACSDFKSAEPKVKQQQGLVRAKEDNGASGGSNSGMGMGTSSTEGKQVKRSRTPSSEGKSKEKPPKRKKVDPDGKSPSHSSGGRPYTPPSGGLSSGVSLSAGGSKSPGSSGRSQTPPGVATPPIPKITIQIPKGTITGGKTSSHSGYTSSSSATSSSGGTGSTSSKSHHSHSSSSGKIKSKESSLSQGNNSKPGGAVGGSGQSQSKGSSQGVGKPGSSPITKHGFSGPGGAGSGNKIKPQGGKPPGSLINPNVKPNISPSHSRSSGSGDKLSSPMKMQQSQVPGTPPSSKAKSPMGSGGSSSGGSKSSSGGGQSSQKPIGGSSSSTASSSSSSSSSSSGSMSFSGGSQSQYVGGGGGSGGAGGSGGGTGQNNSNNPNAKGKSPSRNKKPSLTAVIDKLKSVGGGGVGEDGCDVGPPVGGAGSGAPPGGSGNVSSGPSNVGSTKHTSSSQNVEYKREKSDKEAKAKVSVSGGNSGEKKTMDSKAGGVGGTTLAKIIISKPDGGSPSIKAKVTLQKAGEGSSDSIRPQISSLKASPLFSGSTPKHDRSSPSHSRSPAYTPLNPDSESESGSSSVAEKSHQNSPSSDDDQTMRPLPPQDYMSSIPLGSGEKHKKHKKEKKKQKEKERERDRDRERDREKEKKKSSLSMGLSSHPMKADSWSRSPISASDSSLSMLSSDRPSRSSPMYMRNEEDELMDSALTGKFDPN
Length1782
PositionMiddle
OrganismOryzias latipes (Japanese rice fish) (Japanese killifish)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Actinopterygii> Neopterygii> Teleostei> Neoteleostei> Acanthomorphata> Ovalentaria> Atherinomorphae> Beloniformes> Adrianichthyidae> Oryziinae> Oryzias.
Aromaticity0.04
Grand average of hydropathy-0.662
Instability index57.21
Isoelectric point8.80
Molecular weight185556.93
Publications
PubMed=17554307

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. 
ECO:0000256	RuleBase:RU364059
GO - Cellular Component
mediator complex	GO:0016592	IBA:GO_Central
GO - Biological Function
retinoic acid receptor binding	GO:0042974	IBA:GO_Central
thyroid hormone receptor binding	GO:0046966	IBA:GO_Central
transcription coregulator activity	GO:0003712	IBA:GO_Central
vitamin D receptor binding	GO:0042809	IBA:GO_Central
GO - Biological Process
cellular response to thyroid hormone stimulus	GO:0097067	IBA:GO_Central
regulation of transcription by RNA polymerase II	GO:0006357	IBA:GO_Central

Interaction

Binary Interactions











Repeat regions





Repeats

>MDP22265
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
            12|     589.22|      58|      58|    1344|    1401|       1
---------------------------------------------------------------------------
  630-  691 (48.20/ 9.19)	GecptSGAAS...QQQLLQ..QQGQG.H.T..DN.YN.KVTQNPIL..TGLL.......QIT..GN....V.........GSSPS.SQNAP.....P..PH..QT........PP
  744-  777 (47.63/ 8.97)	G....A...................C.P.G..GN.PK.GKKKRPRG..................................TEKGG.GIPGA.....G..SC..GG........SG
  826-  876 (41.23/ 6.52)	......GDGL...DTPHSItpAPSQC...G..TP.P.......P.................G..SN....M.........PYSQS.HIQPQ.....Q..PP..GTvpprmvrlSS
  879-  931 (41.15/ 6.49)	S....IGPDI...TEILQD..LPEQ..P.G..KG.SSeSHGQHPMG..SGGD.......DVGplGT..piR.........DSSSS.GQ..........................G
  936- 1003 (41.28/ 6.54)	D....SGDIFntnSNENPF..TDTDL.I.P..TP.PD.PIQDSDCS..SSSFfhdppdfSPE..HS....F.........TQNFF.ENCSE.....S..PD..GV........MD
 1007- 1079 (42.37/ 6.96)	G....FGSQQ...NTPSGT..PQNPT.PhGqnTPePS.LKDPFDMGivFGGN.......SGS..GK....PllghapdlgDTHGG.G..SQ.....S..PLmmGL........GA
 1125- 1173 (45.31/ 8.08)	.................QV..KRSRT.P.S..SE.GK.SKEKPPKR..KKVD.......PDG..KS....P.........SHSSG.GRPYT.....P..PS..GG.......lSS
 1174- 1235 (48.36/ 9.25)	G.vslSAGGS...KSPGSS..GRSQTpP.GvaTP.PI.PKITIQIP..K.GT.......ITG..G.....K.........TSSHS.GYTSS.....S..SA..TS........SS
 1237- 1275 (42.90/ 7.16)	G....TG......S..................TS..S....KSH.H..SHSS.......SSGkiKS....K.........ESSLSqGNNS......K..P...GG........AV
 1345- 1401 (103.58/30.38)	.....SGDKL...SSPMKM..QQSQV.P.G..TP.PS.SKAKSPMG..SGGS.......SSG..GS....K.........SSSGG.GQSSQ.....K..PI..GG........SS
 1443- 1499 (40.94/ 6.41)	G....GG...............TGQN.N.S..NN.PN.AKGKSPSR..NKKP.......SLT..AVidklK.........SVGGG.GVGEDgcdvgP..PV..GG........AG
 1565- 1617 (46.26/ 8.45)	G.....GTTL...A...KI..IISKP.D.G..GS.PS.IKAKVTLQ..KAGE............GS....S.........DSIRP.QISSL.....KasPL..FS........GS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     167.85|      32|     130|    1281|    1312|       2
---------------------------------------------------------------------------
  576-  604 (36.70/ 9.93)	QSSGSPTYNMAAGDG.SNPGlhgltGSN...........TP
 1288- 1317 (54.31/19.21)	QGVGKPGSSPITKHGFSGPG.....GAG....SG..NKIKP
 1411- 1433 (34.02/ 8.52)	SSSSSSGS..M...SFSG.........G....SQSQYVGGG
 1627- 1661 (42.83/13.16)	SHSRSPAYTPLNPDSESESG.....SSSvaekS.HQNSPSS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      78.14|      23|     130|       7|      29|       3
---------------------------------------------------------------------------
    7-   29 (41.71/24.31)	VSVQSGSPAGELPISV.QQGGNPT
  142-  165 (36.44/20.13)	VEVQLDSNGQLVDVKVaHQGENPT
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      48.98|      16|     131|    1545|    1560|       5
---------------------------------------------------------------------------
 1528- 1543 (21.43/10.13)	NVEYKREKSDKEAKAK
 1545- 1560 (27.54/15.93)	SVSGGNSGEKKTMDSK
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      65.39|      19|      19|    1721|    1739|       8
---------------------------------------------------------------------------
 1719- 1737 (35.78/15.95)	SSLSMGLSSHPM.KADSWSR
 1738- 1757 (29.61/11.84)	SPISASDSSLSMlSSDRPSR
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     157.90|      46|      71|     330|     379|      11
---------------------------------------------------------------------------
  330-  379 (71.13/66.94)	DLPACFFLKMNRPMPFSTAFIKRMsnATLIPvFEtAPSLSPLYQLIVQSQ
  404-  449 (86.77/63.01)	DQQHCYFLNGNAPIQDSHSLQGAM..VSKIP.FR.HPAHVPLLLDIIRHQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      40.63|      12|      19|    1685|    1702|      12
---------------------------------------------------------------------------
 1685- 1696 (20.53/23.07)	EKHKKHKKEKKK
 1707- 1718 (20.10/ 6.18)	DRERDREKEKKK
---------------------------------------------------------------------------




































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 MDP22265 with Med1 domain of Kingdom Metazoa


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) NNLQSSGSPTYNMAAGDGSNPGLHGLTGSNTPTGGGLPGDPNFPLFGISRPDRQTQGGECPTSGAASQQQLLQQQGQGHTDNYNKVTQNPILTGLLQITGNVGSSPSSQNAPPPHQTPPPTSSPASNTKNHPMLMNLLKDNPTQDFAALYGSGTIERQNSSSCSPRTDSMAGACPGGNPKGKKKRPRGTEKGGGIPGAGSCGGSGGLSMKSQQSSMPQQQQHHPVSHEDDFHRELFSMDVDASQNSIFDVNLAGDGLDTPHSITPAPSQCGTPPPGSNMPYSQSHIQPQQPPGTVPPRMVRLSSSDSIGPDITEILQDLPEQPGKGSSESHGQHPMGSGGDDVGPLGTPIRDSSSSGQGSAVFDSGDIFNTNSNENPFTDTDLIPTPPDPIQDSDCSSSSFFHDPPDFSPEHSFTQNFFENCSESPDGVMDMVKGFGSQQNTPSGTPQNPTPHGQNTPEPSLKDPFDMGIVFGGNSGSGKPLLGHAPDLGDTHGGGSQSPLMMGLGAACSDFKSAEPKVKQQQGLVRAKEDNGASGGSNSGMGMGTSSTEGKQVKRSRTPSSEGKSKEKPPKRKKVDPDGKSPSHSSGGRPYTPPSGGLSSGVSLSAGGSKSPGSSGRSQTPPGVATPPIPKITIQIPKGTITGGKTSSHSGYTSSSSATSSSGGTGSTSSKSHHSHSSSSGKIKSKESSLSQGNNSKPGGAVGGSGQSQSKGSSQGVGKPGSSPITKHGFSGPGGAGSGNKIKPQGGKPPGSLINPNVKPNISPSHSRSSGSGDKLSSPMKMQQSQVPGTPPSSKAKSPMGSGGSSSGGSKSSSGGGQSSQKPIGGSSSSTASSSSSSSSSSSGSMSFSGGSQSQYVGGGGGSGGAGGSGGGTGQNNSNNPNAKGKSPSRNKKPSLTAVIDKLKSVGGGGVGEDGCDVGPPVGGAGSGAPPGGSGNVSSGPSNVGSTKHTSSSQNVEYKREKSDKEAKAKVSVSGGNSGEKKTMDSKAGGVGGTTLAKIIISKPDGGSPSIKAKVTLQKAGEGSSDSIRPQISSLKASPLFSGSTPKHDRSSPSHSRSPAYTPLNPDSESESGSSSVAEKSHQNSPSSDDDQTMRPLPPQDYMSSIPLGSGEKHKKHKKEKKKQKEKERERDRDRERDREKEKKKSSLSMGLSSHPMKADSWSRSPISASDSSLSMLSSDRPSRSSPMYMRNEEDELMDSALTGKFDPN
573
1782










Molecular Recognition Features






MoRF SequenceStartStop




1) EKHKKHKKEKKK
2) GSQSQYV
3) GTTLAKIIISKP
4) IPKITIQIPKG
5) KKKRP
6) RSSPMYMRNEEDELMDSALTGKF
7) SIKAKVTLQK
8) SLTAVIDK
9) SPITKHGFS
10) TEILQD
11) YMSSIPL
1685
1424
1566
1202
754
1757
1583
1468
1296
885
1675
1696
1430
1577
1212
758
1779
1592
1475
1304
890
1681