<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. 
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
Unable to open file!