<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 MDP11900

Description Mediator of RNA polymerase II transcription subunit 1
SequenceMKAQGETEESEKLSKMSSLLERLHAKFNQNRPWSETIKLVRQVMEKRVVMSSGGHQHLVSCLETLQKALKVTSLPAMTDRLESIARQNGLGSHLSASGTECYITSDMFYVEVQLDPAGQLCDVKVAHHGENPVSCPELVQQLRXVIFNSFSPHLFSSKLKTKMYLALQSLEQDLSKMAIMYWKATNAGPLDKILHGSVGYLTPRSGGHLMNMKYYASPSDLLDDKTASPIILHENNVPRSLGMNASVTIEGTSAMYKLPIAPLIMGSHPVDNKWTPSFSSITSANSVDLPACFFLKFPQPIPVSRAFVQKLQNCTGIPLFETQPTYVPLYELITQFELSKDPDPIPLNHNMRFYAALPGQQHCYFLNKDAPLPDGRSLQGTLVSKITFQHPGRVPLILNMIRHQVAYNTLIGSCVKRTILKEDCPGLLQFEVCPLSESRFSVSFQHPVNDSLVCVVMDVQDSTHVSCKLYKGLSDALICTDDFIAKVVQRCMSIPVTMRAIRRKAETIQADTPALSLIAETVEDMVKKNLPPASSPGYGMTTGNNPMSGTTTPTNTFPGGPITTLFNMSMSIKDRHESVGHGEDFSKVSQNPILTSLLQITGNGGSTIGSSPTPPHHTPPPVSSMAGNTKNHPMLMNLLKDNPAQDFSTLYGSSPLERQNSSSGSPRMEMCPGSNKTKKKKSSRLPPDKPKHQTEDDFQRELFSMDVDSQNPIFDVNMTADTLDTPHITPAPSQCSTPPTTYPQPVPHPQPSIQRMVRLSSSDSIGPDVTDILSDIAEEASKLPSTSDDCPPIGTPVRDSSSSGHSQSALFDSDVFQTNNNENPYTDPADLIADAAGSPSSDSPTNHFFPDGVDFNPDLLNSQSQSGFGEEYFDESSQSGDNDDFKGFASQALNTLGVPMLGGDNGETKFKGNSQADTVDFSIISVAGKALGPADLMEHHSGSQSPLLATGDLGKEKAQKRVKEGNGTSNSSLSGPDSKPGKRSRTPSNDGKSKDKPPKRKKADTEGKSPSHSSSNRPFTPPTSTGGSKSPGSSGRSQTPPGVATPPIPKITIQIPKGTVMVGKPSSHSQYASSGSVSSSGSKSHHSHSSSSSSASTSGKMKSSKSEGSSSSKLSSSMYSSQGSSGSSQSKNSSQSGGKPGSSPITKHGLSSGSSSSKMKPQGKPSSLMNPSLSKPNISPSHSRPPGGSDKLASPMKPVPGTPPSSKAKSPISSGSGGSHMSGTSSSSGMKSSSGLGSSASLSQKTPPSSNTCTTSSSSFSSSGSSMSSSQNQHGSSKGKSPSRNKKPSLTAVIDKLKHGVVTSGPGGEDPMDGQMGMSTNSSSHPMSSKHNMSGGEFQGKREKSDKDKSKVSTSGGSVDSSKKTSESKNVGSTGVAKIIISKHDGGSPSIKAKVTLQKPGESTGEGLRPQMASSKNYGSPMISGSTPKHERGSPSHSKSPAYTPQNLDSESESGSSIAEKSYQNSPSSDDGIRPLPEYSTEKHKKHKKEKKKVKDKDRDRDKDRDKKKSHSIKSESWSKSPISSDQSLSLTSNTILSADRPSRLSPEFMIGEEDDDLMDVALIGS
Length1566
PositionMiddle
OrganismDipodomys ordii (Ord's kangaroo rat)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Mammalia> Eutheria> Euarchontoglires> Glires> Rodentia> Castorimorpha> Heteromyidae> Dipodomyinae> Dipodomys.
Aromaticity0.04
Grand average of hydropathy-0.661
Instability index55.19
Isoelectric point8.91
Molecular weight166643.42
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

>MDP11900
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             7|     987.24|     136|     138|    1009|    1144|       1
---------------------------------------------------------------------------
  531-  676 (136.19/29.59)	.......................................PP..AS.....spgygmtTGNNPM.........SGTT..TPT.NTF....PGG..PITTLFNMSMS..................IKDRHE..SVGHGEDFSKVSqnpiltsllqitgnGGS.......TIGSSPTPP........HHTPPPVSSMAGNT.K..NhpmlmnlL.KDNP....AQDFSTLYGS...SPLERQNSSS...GSPRMEMC......P...GSNK
  689-  828 (137.41/29.92)	KPK.HQTED.......DFqrelfsmdvdsqnpifdvnmTAD..TL............DTPHIT.........PAPS...QC.STP....PTT..YPQPVPH.......................PQPSIqrMVRLSSSDSIGP..............DVT.......DILSDIAEE........ASKLPSTSDDCPPI.G.tP.......V.RDSS....SSGHSQSAL.......FDSDVFQ...TNNNEN........P...YTDP
  838-  998 (134.02/29.00)	SPSsDSPTNHffpdgvDF....................NPD..LL............NSQSQSgfgeeyfdeSSQS..GDN.DDF....KGF..ASQALN..TLG..................VP......MLGGDNGETKFK..............GNSqadtvdfSIISVAGKAlgpadlmeHHSGSQSPLLATGDlG..K.......E.KAQKrvkeGNGTSNSSLS...GP..DSKPGK...RSRTPSNDGKSKDKP......P
 1009- 1144 (231.48/55.47)	SPS.HSSSNR......PF....................TPP..TS............TGGSKS.........PGSS..GRS.QTP....PGV..ATPPIPKITIQ..................IPKGTV..MVGKPSSHSQYA..............SSG.......SVSSSGSKS........HHSHSSSSSSASTS.G..K.......M.KSSK....SEGSSSSKLS...SSMYSSQGSS...GSSQSKNSSQSGGKP...GSSP
 1152- 1292 (152.88/34.12)	SGS.SSSKMK......PQ....................GKP..SSlmnpslskpnisPSHSRP.........PGGS..DKL.ASPmkpvPG....TPPSSK.......................AKSPI..SSGSGGSH..................MSG.......TSSSSGMKS........S...SGLGSSASLS.Q..K.......TpPSSN....TCTTSSSSFSssgSSMSSSQNQH...GSSKGKSPSRN.KKP...SLTA
 1302- 1428 (135.59/29.43)	VTS.GPGGED......PM....................DGQmgMS............TNSSSH.........PMSS..KHN.MS..........................................GGE..FQGKREKSDKDK..............SKV.......S.TSGGSVD........SSKKTSESKNVGST.GvaK.......I.IISK....HDGGSPSIKA...KVTLQKPGEStgeGLRPQMASSKNYGSPmisGSTP
 1434- 1533 (59.66/ 8.81)	SPS.HSKS.P......AY....................TPQ..NL............DSESES..........GSSiaEKSyQNS....PSSddGIRPLPEYSTEkhkkhkkekkkvkdkdrdRDKDR.....DKKKSHS..I..............KSE.......SWSKSPISS........DQSLSLTS............................................................................
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      64.28|      13|      25|     290|     302|       2
---------------------------------------------------------------------------
  290-  302 (27.76/18.75)	PA...............CFFLKFPQPIP
  318-  328 (20.69/11.68)	P.................LFETQPTYVP
  346-  373 (15.83/ 6.84)	PLnhnmrfyaalpgqqhCYFLNKDAPLP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      87.93|      26|      53|     386|     414|       5
---------------------------------------------------------------------------
  386-  414 (39.67/46.82)	ITFQHPGRVPLIlnMIRHQVAYNTLIgSC
  442-  467 (48.26/40.38)	VSFQHPVNDSLV..CVVMDVQDSTHV.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 MDP11900 with Med1 domain of Kingdom Metazoa


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) AGKALGPADLMEHHSGSQSPLLATGDLGKEKAQKRVKEGNGTSNSSLSGPDSKPGKRSRTPSNDGKSKDKPPKRKKADTEGKSPSHSSSNRPFTPPTSTGGSKSPGSSGRSQTPPGVATPPIPKITIQIPKGTVMVGKPSSHSQYASSGSVSSSGSKSHHSHSSSSSSASTSGKMKSSKSEGSSSSKLSSSMYSSQGSSGSSQSKNSSQSGGKPGSSPITKHGLSSGSSSSKMKPQGKPSSLMNPSLSKPNISPSHSRPPGGSDKLASPMKPVPGTPPSSKAKSPISSGSGGSHMSGTSSSSGMKSSSGLGSSASLSQKTPPSSNTCTTSSSSFSSSGSSMSSSQNQHGSSKGKSPSRNKKPSLTAVIDKLKHGVVTSGPGGEDPMDGQMGMSTNSSSHPMSSKHNMSGGEFQGKREKSDKDKSKVSTSGGSVDSSKKTSESKNVGSTGVAKIIISKHDGGSPSIKAKVTLQKPGESTGEGLRPQMASSKNYGSPMISGSTPKHERGSPSHSKSPAYTPQNLDSESESGSSIAEKSYQNSPSSDDGIRPLPEYSTEKHKKHKKEKKKVKDKDRDRDKDRDKKKSHSIKSESWSKSPISSDQSLSLTSNTILSADRPSRLSPEFMIGEEDDDL
2) KNLPPASSPGYGMTTGNNPMSGTTTPTNTFPGGP
3) LFNMSMSIKDRHESVGHGEDFSKVSQNPILTSLLQITGNGGSTIGSSPTPPHHTPPPVSSMAGNTKNHPMLMNLLKDNPAQDFSTLYGSSPLERQNSSSGSPRMEMCPGSNKTKKKKSSRLPPDKPKHQTEDDFQRELFSMDVDSQNPIFDVNMTADTLDTPHITPAPSQCSTPPTTYPQPVPHPQPSIQRMVRLSSSDSIGPDVTDILSDIAEEASKLPSTSDDCPPIGTPVRDSSSSGHSQSALFDSDVFQTNNNENPYTDPADLIADAAGSPSSDSPTNHFFPDGVDFN
4) QSQSGFGEEYFDESSQSGDNDDFKGFASQALNTLGVPMLGGDNGETKFKGNSQADT
927
528
565
863
1558
561
856
918










Molecular Recognition Features






MoRF SequenceStartStop




NANANA