<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 MDP29698

Description Mediator of RNA polymerase II transcription subunit 1
SequenceESEKLSKMSSLLERLHAKFNQNRPWSETIKLVRQVMVRIVLLLNPGSISCLENLLYLPQVTSLPAMTDRLESIARQNGLGSHLSASGTECYITSDMFYVEVQLDPAGQLCDVKVAHHGENPVSCPELVQQLREKNFDEFSKHLKGLVNLYNLPGDNKLKTKMYLALQSLEQDLSKMAIMYWKATNAGPLDKILHGSVGYLTPRSGGHLMNMKYYASPSDLLDDKTASPIILHENNVPRSLGMNASVTIEGTSTMYKLPIAPLIMGSHPVDNKWTPSFSSITSANSVDLPACFFLKFPQPIPVSRTFVQKLQNCTGIPLFETQPTYVPLYELITQFELSKDPDPIPLNHNMRFYAALPGQQHCYFLNKDAPLPDGRSLQGTLVNKITFQHPGRVPLILNIIRHQVAYNTLIGSCVKRTILKEDSPGLLQFEVCPLSESRFSVSFQHPVNDSLVCVVMDVQDSTHVSCKLYKGLSDALICTDDFIAKVVQRCMSIPVTMRAIRRKAETIQADTPALSLIAETVEDMVKKNLPPASSPGYGMTTGNNPMSGTTTPTNTFPGGPITTLFNMSMSIKDRHESVGHGEDFSKVSQNPILTSLLQITGNGGSTIGSSPTPPHHTPPPVSSMAGNTKNHPMLMNLLKDNPAQDFSTLYGSSPLERQNSSSGSPRMEICPGSNKTKKKKSSRLPPDKPKHQTEDDFQRELFSMDVDSQNPIFDVNMAADTLDTPHITPAPSQCSTPPTTYPQPVPHPQPSIQRMVRLSSSDSIGPDVTDILSDIAEEASKLPSTSDDCPPIGTPVRDSSSSGHSQSALFDSDVFQTNNNENPYTDPADLIADAAGSPSSDSPTNHFFPDGVDFNPDLLNSQSQSGFGEEYFDESSQSGDNDDFKGFASQALSSLGVPMLGGDNGETKFKGNSQADTVDFSIISVAGKALGPADLLEHHSGSQSPLMTAGELGKEKTQKRIKEGNGTSNSSLSGPGLDSKPGKRSRTPSNDGKSKDKPPKRKKADTEGKSPSHSSSNRPFTPPTSTGGSKSPGSSGRSQTPPGVSTPPIPKITIQIPKGTVMVGKPSSHSQYTSSGSVSSSGSKSHHSHSSSSSSSSSASTSGKMKSSKSEGSSSSKLSSGMYTSQGSSGSGQSKNSSQSGGKPGSSPITKHGLSSGSSSTKMKPQGKPSSLMNPSLSKPNISPSHSRPPGGSDKLASPMKPVPGTPPSSKAKSPISSGSGGSHMSGTSSSSGMKSSSGLGSSGSLSQKTPPSSNSSCTASSSSFSSSGSSMSSSQNQHGSSKGKSPSRNKKPSLTAVIDKLKHGVVTSGPGGEDPMDGQMGVSTNSSSHPMSSKHNMSGGEFQGKREKSDKDKSKLSTSGGSVDSSKKTSESKNVGSTGVAKIIISKHDGGSPSIKAKVTLQKPGESSGEGLRPQMASSKNYGSPLISGSTPKHERGSPSHSKSPAYTPQNLDSESESGSSIAEKSYQNSPSSDDGIRPLPEYSTEKHKKHKKEKKKKKKSHSIKPESWSKSPISSDQSLSMTSNTILSADRPSRLSPDFMIGEEDDDLMDVALIGN
Length1558
PositionMiddle
OrganismIctidomys tridecemlineatus (Thirteen-lined ground squirrel) (Spermophilus tridecemlineatus)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Mammalia> Eutheria> Euarchontoglires> Glires> Rodentia> Sciuromorpha> Sciuridae> Xerinae> Marmotini> Ictidomys.
Aromaticity0.05
Grand average of hydropathy-0.638
Instability index55.19
Isoelectric point8.86
Molecular weight165612.24
Publications









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	IEA:InterPro

GO - Biological Function
transcription coregulator activity	GO:0003712	IEA:InterPro

GO - Biological Process
regulation of transcription by RNA polymerase II	GO:0006357	IEA:InterPro









Interaction





Binary Interactions











Repeat regions





Repeats

>MDP29698
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             8|     394.53|      48|      50|    1064|    1111|       1
---------------------------------------------------------------------------
  972- 1015 (53.67/12.64)	LSG..PGLDSK....PGKRSR....TPSNDGKSKDKP..P.............KR.....KKADTE...GKSPSH...SS
 1020- 1071 (47.72/10.24)	FTP..PT..ST....GGSKSPGS.SGRSQTPPGVSTPpiP.............KItiqipKGTVMV...GKPSSH...SQ
 1072- 1122 (74.21/20.91)	YTS..SGSVSS....SGSKSHHSHSSSSSSSSSASTS..G.............KM.....KSSKSE...GSSSSKlssGM
 1123- 1162 (51.76/11.87)	YTS..QGS.SG....SGQSKNSSQSGGKPGSSPITKH..G.......................LSS...G..SSS...TK
 1163- 1213 (41.84/ 7.88)	MKP..QGKPSSlmnpSLSKPNISPSHSRPPGGSDKLA..S.............PM.....K....PvpgTPPSSK...AK
 1307- 1369 (39.15/ 6.80)	VTSgpGGEDPM....DGQMGVSTNSSSHPMSSKHNMS..GgefqgkreksdkdKS.....KLSTSG...GSVDSS...KK
 1421- 1467 (46.68/ 9.83)	.KN..YGSPLI....SGSTPKHERGSPSHSKSPAYTP..Q.............NL.....DSESES...GSSIAE...KS
 1468- 1503 (39.50/ 6.93)	YQN..SPS.SD....DGIRPLPEYSTE..........................KH.....KKHKKE...KKKKKK...SH
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      93.22|      22|      22|    1224|    1245|       2
---------------------------------------------------------------------------
  603-  619 (25.70/ 6.19)	.....GGSTIGSSPTPPHHTPP
 1231- 1252 (37.97/13.33)	SSGMKSSSGLGSSGSLSQKTPP
 1275- 1294 (29.55/ 8.43)	SQNQHGSSK.GKSPSRNKKPS.
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             5|     392.42|      77|      77|     739|     815|       3
---------------------------------------------------------------------------
  494-  561 (72.83/37.33)	............PVTMRAIR.RKAE...T....I............QAD.T.....PALSLI..............................................AETVEdmvkkNLPPASS..PGYGMTTGN.NPMSGtTT................................PT.NTFPGGP......I
  562-  713 (27.08/ 7.59)	TT............LFNM.SMSIKDrheS....V..........ghGEDFSkvsqnPILTSLlqitgnggstigssptpphhtpppvssmagntknhpmlmnllkdnpAQDFS.....TLYGSS....PLE...RQ.NSSSG.SPrmeicpgsnktkkkkssrlppdkpkhqteddfQR.ELFSMDVdsqnpiF
  739-  815 (132.54/76.15)	TTYPQ.PVPHPQPSIQRMVRLSSSD...S....I............GPDVT.....DILSDI..............................................AEEAS.....KLPSTSDDCPPIGTPVRD.SSSSG.HS................................QS.ALFDSDV......F
  817-  892 (84.65/45.01)	TNNNEnPYTDPADLIADAAGSPSSD...SptnhF............FPDGV.....DFNPDL.........................................................LNSQSQ..SGFGEEYFDeSSQSG.DN................................DDfKGFASQA......L
  893-  970 (75.33/38.95)	SSLGV.PMLGGDNGETKFKGNSQAD...T....VdfsiisvagkalGP..A.....DLLEHH..............................................SGSQS.....PL.MTAGELGKEKTQKRI.KEGNG.TS................................NS...............
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     227.70|      50|      50|     313|     362|       4
---------------------------------------------------------------------------
  273-  311 (31.62/14.51)	............WTPSFSSITsansvdlpaCFFL.KFPQPIPVSRT..................F...VQKL...Q..
  313-  362 (94.56/60.50)	CTGIPLFETQPTYVPLYELIT.........QFELSKDPDPIPLNHN.M...............RF...YAALPGQQHC
  373-  413 (44.57/23.98)	.......DGRSLQGTLVNKIT..........F...QHPGRVPLILNiI...............RHqvaYNTLIGS..C
  423-  478 (56.95/33.02)	SPGLLQFEV....CPLSE..S.........RFSVSFQH...PVNDS.LvcvvmdvqdsthvscKL...YKGLSDALIC
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     147.06|      45|      49|     141|     188|       5
---------------------------------------------------------------------------
  141-  188 (70.75/59.46)	KHLKGLVNlYNLP..GDNKLKTKMYLALQSLEQDLSKMAIMYWKatNAGP
  191-  237 (76.31/52.75)	KILHGSVG.YLTPrsGGHLMNMKYYASPSDLLDDKTASPIILHE..NNVP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      55.77|      15|     298|    1214|    1228|       7
---------------------------------------------------------------------------
 1214- 1228 (29.03/13.39)	SPISSGSGGSHMSGT
 1513- 1527 (26.74/11.55)	SPISSDQSLSMTSNT
---------------------------------------------------------------------------




































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 MDP29698 with Med1 domain of Kingdom Metazoa
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