<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. 


ECO:0000256	RuleBase:RU364059

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


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) ALGPADLLEHHSGSQSPLMTAGELGKEKTQKRIKEGNGTSNSSLSGPGLDSKPGKRSRTPSNDGKSKDKPPKRKKADTEGKSPSHSSSNRPFTPPTSTGGSKSPGSSGRSQTPPGVSTPPIPKITIQIPKGTVMVGKPSSHSQYTSSGSVSSSGSKSHHSHSSSSSSSSSASTSGKMKSSKSEGSSSSKLSSGMYTSQGSSGSGQSKNSSQSGGKPGSSPITKHGLSSGSSSTKMKPQGKPSSLMNPSLSKPNISPSHSRPPGGSDKLASPMKPVPGTPPSSKAKSPISSGSGGSHMSGTSSSSGMKSSSGLGSSGSLSQKTPPSSNSSCTASSSSFSSSGSSMSSSQNQHGSSKGKSPSRNKKPSLTAVIDKLKHGVVTSGPGGEDPMDGQMGVSTNSSSHPMSSKHNMSGGEFQGKREKSDKDKSKLSTSGGSVDSSKKTSESKNVGSTGVAKIIISKHDGGSPSIKAKVTLQKPGESSGEGLRPQMASSKNYGSPLISGSTPKHERGSPSHSKSPAYTPQNLDSESESGSSIAEKSYQNSPSSDDGIRPLPEYSTEKHKKHKKEKKKKKKSHSIKPESWSKSPISSDQSLSMTSNTILSADRPSRLSPDFMIGEEDDDLMDVALIGN
2) KNLPPASSPGYGMTTGNNPMSGTTTPTNTFPGGP
3) LFNMSMSIKDRHESVGHGEDFSKVSQNPILTSLLQITGNGGSTIGSSPTPPHHTPPPVSSMAGNTKNHPMLMNLLKDNPAQDFSTLYGSSPLERQNSSSGSPRMEICPGSNKTKKKKSSRLPPDKPKHQTEDDFQRELFSMDVDSQNPIFDVNMAADTLDTPHITPAPSQCSTPPTTYPQPVPHPQPSIQRMVRLSSSDSIGPDVTDILSDIAEEASKLPSTSDDCPPIGTPVRDSSSSGHSQSALFDSDVFQTNNNENPYTDPADLIADAAGSPSSDSPTNHFFPDGVDFN
4) QSQSGFGEEYFDESSQSGDNDDFKGFASQALS
929
527
564
862
1558
560
855
893










Molecular Recognition Features






MoRF SequenceStartStop




1) FGEEYFDES
2) IKAKVTL
3) IRPLPEYSTEKHKKHKKEKKKKKKSHSIKPESW
4) ITIQIPK
5) KPSLTAVIDKLKHGV
6) RLSPDFMIGEEDDDLMD
7) VAKIIISKH
867
1396
1478
1052
1292
1536
1381
875
1402
1510
1058
1306
1552
1389