<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 MDP02013

Description Mediator of RNA polymerase II transcription subunit 1 (Fragment)
SequenceETEKLNKMSTLLERLHAKYNQNRPWTETVKLVRQVMEKRVVMNSGGHQHLVSCLETLQKALKVSSLPAMTDRLESIARQNGLGSHLSANGTECYITSDMFYVEVQLDPTGLLCDVKVAHHGENPVSCPELVQHLREKNFDEFSKHLRGLVNLYKLPGDNKLKTKMYLALQSLELDLSKMAGMYWQATNANPLDKILHGSVGYLTPRSGGLLMNLKYYVSPYDLFEDGTGAPVILHENNVPRSLGMNVSVTVEGTMTMYKLPIAPLIMGSHPVDSKGTPSFSSITSANSVDLPACFFLKFPRPIPVSRAFIQKLQGCTGIPLFDTPPTFVPLYELITQFELSKEADPLTLNHNMRFYAALPGQQHCYFLNKDAPLPDGRSLQGTLISKIAFQHPGRVPLILNLIRHQVAYNTLIGSCVKRTVLKEDSPGILQFEVCPLSDSCFSVSFQHPVNDSLVCVVMDVQDSTHVNCKLYKGLSDALICTDDFIAKVVQRCMSIPVTMRAIRRKAETIQADTPALSLIAETVEDMVKKNLPPASSPGYGMTTGSNPMSGTTTPTNTFPGGPITTLFNMSISMKERHDSVGHGEDFSKVSQNPILTSLLQITGNVGSTIGSSPTPPHHTPPPVSSPASNTKNHPMLMNLLKENPPQDFSTLYGSSPLERQNSSSGSPRMEMGPGGNKQKKKKSRVPADKPKHQTEDDFQRELFSMDVDSQNPIFDVNMTADTLDTPHITPAPSQCSTPPTTYPQPIPHSQPSIQRMVRLSSSDSIGADVTDILSDIAEEASKLPTTNEDCPPIGTPVRDSSSSGHSQSALFDPDVFQTNNSENPYTDPADLIADAAVSPNSDSSNHFFPDGVDFNPDLLNSQSQSGFGEEYFDESSQSGDTDDFKGYASQAITSLGVQVLGGDGGENKFKGSNQSDTVDFSIIAAASKALGSSDIMEHHSGGQSPLLNTGDLGKEKSQKRVKEGNGSGSNMAGPGIDGKPGKRSRTPSSDGKSKEKLPKRKKQETDGKSPSHSSANRPFTPPASTGGSKSPGSSGRSQTPPGVATPPIPKITIQIPKGTVTVGKPSSHGQYTSSGSVTSSSSKSHHSHSSSSSSSSSSSTSGKIKSSKSEGSSGSKMSSSLYSSQGGSSSGQSKSSAQSVGKPGSSPITKHGLSSGSGSTKMKPQGKPSSLMNPSMSKPNISPSHSRPSGGSEKLASPMKPVPGTPPSSKAKSPISSGSGGSHMSGTGSSSSMKSSSGMGSSGSMSQKPPPSSNSSTASSSSFSSSGSSMSSSQNQHGSSKGKSPSRNKKPSLTAVIDKLKHGVVTSGPGGDDPMDGQMGPSSNSSSHTMSSKHNMSGGEFQGKREKSDKEKSKVSVSGGSVDSSKKTSDSKNVGSTGVAKIIISKHDGGSPSIKAKVTLQKPGEGGGDSLRPQMASSKSYGSPLISGSTPKHERCSPSHSKSPAYTPQNIDSESESGSSIAEKSYQNSPSSDDGIRPLPEYSSEKHKKHKKEKKKVKDKDRDRDRDRDKDRDKKKSHSMKPESWSKSPISADQSLSMTSSAILSAERPSRASPEFLIGEEDDDLMDVALIGN
Length1574
PositionMiddle
OrganismCharadrius vociferus (Killdeer) (Aegialitis vocifera)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Archelosauria> Archosauria> Dinosauria> Saurischia> Theropoda> Coelurosauria> Aves> Neognathae> Charadriiformes> Charadriidae> Charadrius.
Aromaticity0.05
Grand average of hydropathy-0.651
Instability index53.96
Isoelectric point8.88
Molecular weight167364.11
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

>MDP02013
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             6|    1048.38|     182|     183|    1090|    1271|       1
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  534-  667 (107.36/26.05)	.........................................................................P.............ASSP.....GY..G.....M.TTGsnpmS.GTttpTNTFPG.....GPITTLFNMSI.S...........MKERHDS.VG..HGedfskvsqnpiltsllqitgnvgS.TIGSSPTP.PHHT.PPPV.S...SPAS..NTKNHPMlMN........................................LL.....KENPPQDFST....L.........YGSSPLERQNS......SSGS
  668-  854 (208.44/58.57)	PRMEMGPGGnkqK...KKKSrvpadKPKHQTEDDFQRELFSMDV.........DSQNPifDVN..MTADTLDTP.............HITPA...P............SQC....S.TP...PTTYPQ.....PIPHS..QPSI.QRmV.......RLSSSDSI.GA..DV.......................T.DILSDIAE.EASK.LPTT.NEDCPPI.......GTP.V..RDSSSSGH.SQSAL.........FDP...........DVF.......QTNNSENPY....TdpadliadaAVSPNSDSSNHFF...PDGVD
  861- 1094 (161.14/43.35)	NSQSQSGFG...EeyfDESS.....QSGDTDDFK....GYASQAitslgvqvlGGDGG..ENKfkGSNQS..DTvdfsiiaaaskalGSSDI...MEHhsGgqsplL.NTG....DlGK...EKSQKRvkegnGSGSNMAGPGIdGK.P.......G...KRSRtPSsdGK.......................SkEKLPKRKKqETDG.KSPShSSANRPFTppASTGGS...KSPGSSGRSQ.TPPGV.........ATPpipkitiqipkGTVT.....VGKPSSHGQY....T.........SSGSVTSSSSKSHhshSSSSS
 1095- 1265 (289.52/84.66)	SSSSSSTSG...K...IKSS.....KSEGSSGSKMSSSLYSSQG.........GSSSG..QSK..SSAQSVGKP.............GSSPI...TKH..G.....L.SSG....S.GS...TKMKPQ.....GKPSSLMNPSM.SK.P.......NISPSHSR.PS..GG.......................S.EKLASPMK.PVPG.TPPS.SKAKSPIS..SGSGGSH.MSGTGSSSSMK.SSSGM.........GSS...........GSMS.....QKPPPSSNSS....T.........ASSSSFS..............
 1266- 1426 (145.07/38.18)	.............................SSGSSMSSS..QNQH.........GSSKG..KSP..SRNK...KP.............SLTAVidkLKH..G.....VvTSG...pG.GD...DPMDGQ.....MGPSS....NS.SS.H.......TMSSKHNM..S..GG.........................E.....FQ....GkREKS.DKEKSKVS..V.SGGSV.DSSKKTSDSKNvGSTGVakiiiskhdGGS...........PSIKakvtlQKPGEGGGDSlrpqM.........ASSKSY...GSPL........
 1429- 1550 (136.85/35.53)	........G........STP.....KHERCSPSHSKSPAYTPQN.........IDSES..ES.........................GSSIA...EKS..Y.....Q.NSP....S.SD...DGIRPL.....PEYSSEKHKKH.KK.EkkkvkdkDRDRDRDR.DK..DR.......................D.KKKSHSMK........PE.SWSKSPIS..AD..................QSLSM.........TSS...........AILS.....AERP.........................................
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     341.12|      95|      98|     307|     404|       2
---------------------------------------------------------------------------
  217-  301 (87.41/54.69)	.......................YVSPYDL....FE...DGTGA.PVILHE...................NnvprslgMNVSVTVEGTMTMYKL.PIAPLIMGShpvDSKGTpSFSSITSANSVDLPacFFLKFPR
  307-  404 (159.66/119.78)	RAFIQKLQGCTGIPLF..DTPptFVPLYEL.ITQFE...LSKEADPLTLNH...................N.......MRFYAALPGQQHCYFLnKDAPLPDGR...SLQGT.LISKIAFQHPGRVP..LILNLIR
  407-  504 (94.04/60.15)	VAYNTLIGSCVKRTVLkeDSP.........gILQFEvcpLSDSCFSVSFQHpvndslvcvvmdvqdsthvN.......CKLYKGLSDALIC..................TDD.FIAKVV.QRCMSIP..VTMRAIR
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     271.18|      90|      98|      17|     114|       3
---------------------------------------------------------------------------
   17-  114 (131.41/110.16)	AKYNQNrPwTETVKLVRQVMEKRVVMNSGGHQHLVScLETL..QKALKVSSLPAMTDrLE.SIARQNGL.GSHLSANGTECYITSDMFYvevqLDP..TGLLCD
  118-  213 (139.77/88.20)	AHHGEN.P.VSCPELVQHLREKNFDEFSKHLRGLVN.LYKLpgDNKLKTKMYLALQS.LElDLSKMAGMyWQATNANPLDKILHGSVGY....LTPrsGGLLMN
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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 MDP02013 with Med1 domain of Kingdom Metazoa
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