<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 MDP27426

Description Mediator of RNA polymerase II transcription subunit 1
SequenceMSSLLERLHSKYSQNRPWPETIKLVRQIMEKRTGMMSGSHQHLVSCLETLQKALKVSSLSAMTDRLESIARQNGLTSHLSPNGTECYITTDMFYLEVLLDTEGQLCDVKVAHHRENPVSCPELVEQLREKNFEDFSQHLKGLVNLYKVPGDNKLETKMYLALQSLELDLTKMAAMYWQATNASVLEKILHGTVGYLTPRSGGQVMSLKYYVSPYDLFDDTTGASISLSEGHAVPRSLGMNVSVTIEATSAMYKLPIAPLIMGSHPIDNKGTPSFTSITNANSVDLPACFFLKFPQPIPVSRAFIQKIQHCTGISLIDGSHTFLPHYELVTQFELAKEKEPGTLNHNMRFYASLPGQQHCYFVNKDAPLPDGRSLQGTLLSKIPFQHPGRVPIILSLIRHQVACNTLIGSCVKRTMLKEDCPGLLQFEVAPLSDSCFSISFQHPVNDSLVCVVMDVQDSTHVSCKLYKGLSDALICTDDFITKVVQRCMSIPVTMRAIRRKAETIQADTPALSLIAETVEDMVKKNLPPASSPGYGMASGSTALSGITTPTSSYTSGQISSLFNMGIKERHDSAGHGDDFSKVTQNPILTSLLQITSNSGGTLGSSPTPPQHTPPPASSPASNTKNHPMLMNLLKDNPAQDFSTLYGGSPLERQNSSGSPRTELGSSASGKPKKKRPRTGTEKMKNQTEDDFQRELFSMDVDSQNTIFDVGMAGDALDTPHITPAPSQCGTPPNVYQQAIPHTQANMQRMVRIPSTDAIIPDVTDILSDIAEEASKLPGPGEDCPNLGTPVRDSSSSGHSQSTLFDTDVFQVDGGGGSGGENPYPDPVDLIVDSHGSPNSDSPNTFFNSVDFNPDLLNSQSQSGFTDDLNDDSSQSGDNDFKDFAGPGLASLGIVSGLPVDGGDGKYKMALGADTVDFSIIAGGGSKNLGGPDIQETQSRSQSPLLGSDLGKDRPQKQKVKESGNGGGAGGGLSGMQSAGMEGKSMKRSRTPSSDGKSKDKPPKRKKTESDGKSPSHITNRPFTPPTSTGGSKSPGTSGRSQTPPGMATPPIPKITIQIPKGTMSVGKPSSHSQYSSSGSSSSSSSKSHHGHSSLSSSASGKIKSNKSDGSSGMKIGSSGGGMYSGQSGQSNSQSKNSSQSMGKAGSSPITKHGLSSNVNNSSGSKTKPQGKPSVLMNPSLSKPNISPSHSRPSGGSDKLSSPMKPMPGTPPSSKAKSPIGSGGQHLSGSGSNSTTKSSSGLVSSGSLTQKPNSSSSSSSSSSSSSSSSSSSSSSFSSGVSQNLHSSSKGKSPSRNKKPSLTAVIDKLKHGVGTGGPGSEDPMDGGVGGGSTGAPSHGMSSKHGLGVGEFPTKREKGEKDKSKGSSGGPSDPSKKGGGDSKGSVSTGVAKIIISKHDGGSPSIKAKVTLQKPEGGGEGLRSQMQKNYGSPLISGSTPKHERCSPSHNKSPAYTPQALDSESESGSSSIAEKSYQNSPSSDDGGGSGSRAQTEYSAEKHKKHKKEKKRLKDKDRDREKKKSYTMKPESWSKSPISADPTMAMGGGAMMSSDRASRPTPSFLMGDDDDLIDVPLTL
Length1573
PositionMiddle
OrganismXenopus tropicalis (Western clawed frog) (Silurana tropicalis)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Amphibia> Batrachia> Anura> Pipoidea> Pipidae> Xenopodinae> Xenopus> Silurana.
Aromaticity0.04
Grand average of hydropathy-0.621
Instability index53.70
Isoelectric point8.85
Molecular weight165658.06
Publications
PubMed=20431018

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

>MDP27426
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
            11|     913.86|      92|      97|    1114|    1205|       1
---------------------------------------------------------------------------
  531-  613 (80.44/18.71)	...S...P.................GY...GMASGS.............TALSGITTPT............................SSYTSGQ............I........SS...LF....NM........GIKER........HDS........AG....HG.DDFSKV.......T...QNP.ILtSL..LQIT.....SN........SGGTLG.SSP....TPpqhtP
  614-  683 (61.10/12.37)	PPAS...S.................PA...........................SNTKN............................HPMLMNLlkdnpaqdfstlY........GGS.PLE....RQ......................NS........SG.S........PRT.......E...LGS.SA.SG.....K....PKK..KR...PRTGTEKM..............
  684-  782 (72.54/16.12)	KNQT...E.................DDfqrELFS..................MDVDSQN............................TIFDVGM............A........GDA.LDT....PHitpapsqcGTPPN.......VYQQ........AI.PHTQA.NMQRMV.......R...I.P.ST.DAiiPDVT....DIL..SD...IAEEASKLPGP....GE....D
  791-  952 (60.50/12.18)	RDSS...SsghsqstlfdtdvfqvdGG...GGSGGEnpypdpvdlivdsHGSPNSDSPNtffnsvdfnpdllnsqsqsgftddlnddSSQS.GD............N........DFK.DFA....GP........GLASLgivsglpVDGG........DG.KYKMA.LGADTVdfsiiagG...GSK.NL.GG..PDIQ....ETQ..SRsqsPLLGSD.LG.......K....D
  958- 1021 (63.69/13.22)	KVKE...S...............gnGG...GAGGGL.............SGM...QSAG...........................mEGKSM.K............R........SRT.P..............................SS........DGkSKDKP....PKR.......K...KTE.SD.GK.....S....PSHitNR........................P
 1024- 1104 (100.22/25.18)	PPTS...T.................GG...SKSPGT.............SGRSQTPP...................................GM............A.........TP.PIP....K..........ITIQ.......IPKG.............TMS.VGKPSS.......H...SQY.S..SS..GSSS....SSS..SK...SHHGHSSLSSSasgkIK....S
 1114- 1205 (166.40/46.86)	KIGS...S.................GG...GMYSGQ.............SGQSNSQSKN............................SSQSMGK............A........GSS.PIT....KH........GLSSN.......VNNS........SG.SKTKP.QGKPSV.......L...MNP.SL.SK..PNIS....PSH..SR...PSGGSDKLSSP....MK....P
 1218- 1264 (72.73/16.18)	PIG....S.................GG...QHLSG..............SG.SNSTTK.............................SS..................................................SG.......L.VS........SG.SLTQ...........................K..PNSS....SSS..S............SSS....SS....S
 1267- 1361 (79.87/18.52)	SSSS...S.................SS...SFSSGV.............SQNLHSSSKG............................KSPSRNK............K........PSL.TAVidklKH........GVGTG.......GPGSedpmdggvGG.GST....GAPSH.......G...MS.....SK..HGLGvgefPT...KR...EKGEKDK.S.............
 1362- 1453 (83.28/19.64)	.KGS...S.................GG...P..SDP.............SKKGGGDSKG............................SV.STGV............AkiiiskhdGGS.PSI....KA........KVTLQ.........................KP.EGGGEG.......LrsqMQK.NY.GS..PLIS.gstPKH..ER...CSPSHNK..SP...aYT....P
 1455- 1548 (73.10/16.30)	ALDSeseS.................GS...SSIAEK.............SYQNSPSSDD............................GGGSGSR............A........QTEySAE....KH........KKHKK.......EKKR........LK.DKDRDrEKKKSY.......T...MKPeSW.SK..SPIS....ADP..TM...AMGGGAMMSS............
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     110.02|      35|      51|     139|     175|       2
---------------------------------------------------------------------------
  139-  175 (50.89/41.40)	LKGLVNlYKVP..GDNKLETKMYLALQSLeLDLTKMAAM
  189-  225 (59.13/38.49)	LHGTVG.YLTPrsGGQVMSLKYYVSPYDL.FDDTTGASI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     179.64|      52|      53|     384|     436|       3
---------------------------------------------------------------------------
  288-  351 (58.64/34.90)	......CF.............FlKFPQPIPVSRAFIQKIQHCTGISLIDGSHTFLphyelvtqfelaKEKEPGTLnhnmRFYA
  366-  428 (83.28/53.41)	APLPD...grslqgtllskipF.QHPGRVPIILSLIRHQVACNTLIGSCVKRTML............KEDCPGLL....QFEV
  429-  463 (37.73/24.20)	APLSDsCF..........sisF.QHP..VNDSLVCVVMDVQDSTHV.SC..................................
---------------------------------------------------------------------------




































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 MDP27426 with Med1 domain of Kingdom Metazoa


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) IIAGGGSKNLGGPDIQETQSRSQSPLLGSDLGKDRPQKQKVKESGNGGGAGGGLSGMQSAGMEGKSMKRSRTPSSDGKSKDKPPKRKKTESDGKSPSHITNRPFTPPTSTGGSKSPGTSGRSQTPPGMATPPIPKITIQIPKGTMSVGKPSSHSQYSSSGSSSSSSSKSHHGHSSLSSSASGKIKSNKSDGSSGMKIGSSGGGMYSGQSGQSNSQSKNSSQSMGKAGSSPITKHGLSSNVNNSSGSKTKPQGKPSVLMNPSLSKPNISPSHSRPSGGSDKLSSPMKPMPGTPPSSKAKSPIGSGGQHLSGSGSNSTTKSSSGLVSSGSLTQKPNSSSSSSSSSSSSSSSSSSSSSSFSSGVSQNLHSSSKGKSPSRNKKPSLTAVIDKLKHGVGTGGPGSEDPMDGGVGGGSTGAPSHGMSSKHGLGVGEFPTKREKGEKDKSKGSSGGPSDPSKKGGGDSKGSVSTGVAKIIISKHDGGSPSIKAKVTLQKPEGGGEGLRSQMQKNYGSPLISGSTPKHERCSPSHNKSPAYTPQALDSESESGSSSIAEKSYQNSPSSDDGGGSGSRAQTEYSAEKHKKHKKEKKRLKDKDRDREKKKSYTMKPESWSKSPISADPTMAMGGGAMMSSDRASRPTPSFLMGDDDDL
2) LNSQSQSGFTDDLNDDSSQSGDNDFKDFAG
3) MGIKERHDSAGHGDDFSKVTQNPILTSLLQITSNSGGTLGSSPTPPQHTPPPASSPASNTKNHPMLMNLLKDNPAQDFSTLYGGSPLERQNSSGSPRTELGSSASGKPKKKRPRTGTEKMKNQTEDDFQRELFSMDVDSQNTIFDVGMAGDALDTPHITPAPSQCGTPPNVYQQAIPHTQANMQRMVRIPSTDAI
4) PDVTDILSDIAEEASKLPGPGEDCPNLGTPVRDSSSSGHSQSTLFDTDVFQVDGGGGSGGENPYPDPVDLIVDSHGSPNSDSPNTFFNSVDFN
919
856
564
760
1566
885
758
852










Molecular Recognition Features






MoRF SequenceStartStop




1) AQTEYSAEKHKKHKKEKKRLKDK
2) GVAKIIISKH
3) IKAKVTL
4) IPKITIQIPKGT
5) KKSYTMKPESWS
6) LMGDDDDLID
7) NKKPSLTAVIDKLKHGV
8) SKHGLGVGEFPTKRE
1488
1386
1402
1051
1517
1559
1295
1340
1510
1395
1408
1062
1528
1568
1311
1354