<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 MDP14272

Description Mediator of RNA polymerase II transcription subunit 1
SequenceMKAVPGGAEEAEKLNKMSTLLERLHAKYNQNRPWTETMKLVRQVMEKRVVMNSGGHQHLVSCLETLQKALKGSYALCMHSGMSSLPAMTDRLESIARQNGLGSHLSANGTECYITSDMFYVEVQLDPTGLLCDVKVAHHGENPVSCPELVQHLREKNFDEFSKHLRGLVNLYKLPGDNKLKTKMYLALQSLELDLSKMAGMYWQATNANPLDKILHGSVGYLTPRSGGLLMNLKYYVSPYDLFEDGTGAPVILHENNVPRSLGMNVSVTVEGTMAMYKLPIAPLIMGSHPVDNKGTPSFSSITSANSVDLPACFFLKFPRPIPVSRAFIQKLQGCTGIPLFDTAPTFVPLYELITQFELSKEADPVPLNHNMRFYAALPGQQHCYFLNKDAPLPDGRSLQGTLISKIAFQHPGRVPLILNLIRHQVAYNTLIGSCVKRTVLKEDSPGILQFEVCPLSDSCFSVSFQHPVNDSLVCVVMDVQDSTHVNCKLYKGLSDALICTDDFIAKVVQRCMSIPVTMRAIRRKAETIQADTPALSLIAETVEDMVKKNLPPASSPGYGMTTGSNPMSGTTTPTNTFPGGPITTLFNMSISMKERHDSVGHGEDFSKVSQNPILTSLLQITGNVGSAIGSSPTPPHHTPPPLSSPAGNTKNHPMLMNLLKENPPQDFSTLYGSSPLERQNSSSGSPRMEMGPGGSKQKKKKSRMPADKPKHQTEDDFQRELFSMDVDSQNPIFDVNMTADTLDTPHITPAPSQCSTPPTTYPQPIPHSQPGIQRMVRLSSSDSIGADVTDILSDIAEEASKLPATNEDCPPIGTPVRDSSSSGHSQSALFDPDVFQTNNSENPYTDPADLIADAAVSPNSDSSNHFFPDGVDFNPDLLNSQSQSGFAEEYFDESSQSGDTDDFKGYASQALSTLGVQVLGGDGGENKFKGSNQSDTVDFSIIAAASKALGSSDILEHHSGGQSPLLNTGDLGKEKSQKRVKEGNGSGSNMAGSGIDGKPGKRSRTPSSDGKSKEKLPKRKKQETDGKSPSHSSSNRPFTPPASTGGSKSPGSSGRSQTPPGVATPPIPKITIQIPKGTVTVGKPSSHGQYTSSGSVTSSSSKSHHSHSSSSSSSSSSSTSGKIKSSKSEGSSGSKMSSSLYSSQGGSSSGPSKSSAQSVGKPGSSPITKHGLSSGSGSTKMKPQGKPSSLMNPSMSKPNISPSHSRPSGGSDKLASPMKPVPGTPPSSKAKSPISSGSGGSHMSGTGSSSSMKSSSGMGSSGSMSQKPPPSSNSSTASSSSFSSSGSSMSSSQNQHGSSKGKSPSRNKKPSLTAVIDKLKHGVVTSGPGGDDPMDGQMGPSSNSSSHTMSSKHNMSGGEFQGKREKSEKEKSKVSVSGGSIDSSKKTSDSKNVGSTGVAKIIISKHDGGSPSIKAKVTLQKPGEGGGDSLRPQMASSKSYGSPLISGSTPKHERCSPSHSKSPAYTPQNIDSESESGSSIAEKSYQNSPSSDDGIRPLPEYSSEKHKKHKKEKKKVKDKDRDRDRDRDKDRDKKKSHSIKPESWSKSPISADQSLSMASSAILSAERPSRASPEFLIGEEDDDLMDVALIGN
Length1593
PositionMiddle
OrganismColinus virginianus (Northern bobwhite) (Tetrao virginianus)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Archelosauria> Archosauria> Dinosauria> Saurischia> Theropoda> Coelurosauria> Aves> Neognathae> Galloanserae> Galliformes> Odontophoridae> Colinus.
Aromaticity0.05
Grand average of hydropathy-0.632
Instability index55.14
Isoelectric point8.86
Molecular weight169035.15
Publications
PubMed=24621616

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

>MDP14272
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
            13|     865.98|      84|      84|    1165|    1248|       1
---------------------------------------------------------------------------
  551-  613 (44.47/ 7.24)	..........................L....PPAS...SPG...................Y........GM.............................TTG...S.NP.M.SGT....TTPTNTFPG.GPittlfnmsI......SM.K..ERhDS..V...GHG.ED.F.S.KVS.QN.......................P
  631-  694 (63.45/13.73)	SSPTPP..HhtppPL.SSP.A.GNTKN....HPM...................................LMN.....LL..KE...NP...........PQDF...S.TL.Y.GS.........................................SP..LerqNSS.SG.S.P.RMEmGP.......................G
  695-  791 (66.18/14.67)	GSKQKK..K.......KSR.M.PADKP....KHQT...EDDfqrelfsmdvdsqnpifdvN........MTADT...LD..TP...HI...........TPA.......P.S.QCSTP.PTTYPQPIPH.SQ........P......GI.Q..RM.VR..L...SSSdSI.G.A.DVT.D.........................
  793-  867 (45.49/ 7.59)	..............L.SDI.A.EEASK....LPAT...NED...................C...........PP...IG..TPvrdSS...........SSGH...S.QS.AlFDPDV.FQTNNSENPY.TD........P......ADlI..AD.AA..V...SPN.SD.S.SnHF............................
  869-  933 (42.06/ 6.41)	................................PDGvdfNP....................D........LLN.S...QS..QS...GF...........AEEYfdeS.SQ.S.GDTDD.F....KG.YA.SQ........A......LS.T..LG.VQ..V...LGG.DG.GeN.KFK.GS.......................N
  952-  995 (44.02/ 7.08)	SSDILE..H.....................................................................................................hS.GGQ.....SPL...LN.TG........D......LG.K..EK.SQkrV...KEG.NGsG.S.NMA.GS.......................G
  996- 1064 (46.60/ 7.96)	........................IDG....KP.G...KRS...................R..........TPSsdgKS..KE...KLpkrkkqetdgkSPSH...S..............SSNRPF...TP........P......AS.TggSK.SP..G...SSG.RS.Q.T.P.P.GV.......................A
 1065- 1164 (71.36/16.44)	TPPIPK..I....TI.QIP.K.GTVTV.......G...KPS...................ShgqytssgSVTSS...SS..KS...HH...........SHSS...S.SS.S.SSS.....S......S.T................SG.K..IK.SS..K...SEG.SS.G.S.KMS.SSlyssqggsssgpskssaqsvgkpG
 1165- 1248 (153.64/44.60)	SSPITK..H....GL.SSG.S.GSTKM....KPQG...KPS...................S........LMNPS...MS..KP...NI...........SPSH...S.RP.S.GGSDK.LASPMKPVPG.TP........P......SS.K..AK.SP..I...SSG.SG.G.S.HMS.GT.......................G
 1249- 1315 (74.09/17.37)	SSSSMKssS....GMgSSG.S.MSQKP....PPSS...NSS...................T........ASSSS...FS..SS...GS...........SMSS...S.QN.Q.HG......S..........................S.K..GK.SP..........SR.N.K.KPS.LT.......................A
 1316- 1383 (69.43/15.78)	VIDKLK..H....GVvTSGpG.GDDPM....DGQM...GPS...................S............N...SS..SH...TM...........SSKH...N.M..S.GG.E......FQ...GkRE........K......SE.K..EK.SK..V...SV..SG.G.S......I.......................D
 1384- 1478 (71.53/16.50)	SSKKTS..D....SK.NVG.StGVAKIiiskHDGG...SPS...................I........KAKVT...LQ..KP...GE...........GGGD...SlRP.Q.MASSKsYGSPL..ISG.ST........PkhercsPS.H..SK.SP..A...YTP.QN.I.D.SES.ES.......................G
 1479- 1558 (73.66/17.23)	SSIAEK..S....YQ.NSP.S.SDDGI....RPLP...EYS...................S........EKHKK...HKkeKK...KV...........KDKD...R.DR.D.RDRDK..DRDKKKSHS.IK........P......ES.W..SK.SP..I...SAD.QS.L.S..M............................
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      88.19|      29|      37|     180|     216|       2
---------------------------------------------------------------------------
  185-  216 (43.83/39.67)	YLALQS..LELDLSKMAGMY...WQATNAnPLdkILH
  221-  254 (44.37/19.67)	YLTPRSggLLMNLKYYVSPYdlfEDGTGA.PV..ILH
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     261.18|      88|     104|     320|     423|       3
---------------------------------------------------------------------------
  320-  423 (119.57/147.44)	RPIP..VSRAFIQklQGCTGIPLFDTAptfvPLYEliTQFELSKEAdpvPLNHNMrFYAALPGQQ..H..CYfLNKDapLPDGRSLQGTLISKIAfQHPGRVPLILNLIR
  430-  523 (141.60/107.91)	TLIGscVKRTVLK..EDSPGILQFEVC....PLSD..SCFSVSFQH...PVNDSL.VCVVMDVQDstHvnCK.LYKG..LSDALICTDDFIAKVV.QRCMSIPVTMRAIR
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      50.90|      14|     106|     162|     175|       4
---------------------------------------------------------------------------
  162-  175 (25.31/15.23)	SKHLRGLVNLYKLP
  267-  280 (25.59/15.48)	SVTVEGTMAMYKLP
---------------------------------------------------------------------------




































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 MDP14272 with Med1 domain of Kingdom Metazoa
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