<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. 
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..................................
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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 MDP27426 with Med1 domain of Kingdom Metazoa
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