<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 MDP01679

Description Mediator of RNA polymerase II transcription subunit 1 (Fragment)
SequenceETEKLNKMSTLLERLHAKYNQNRPWTETMKLVRQVMEKRVVMNSGGHQHLVSCLETLQKALKVSSLPAMTDRLESIARQNGLGSHLSANGTECYITSDMFYVEVQLDPTGLLCDVKVAHHGENPVSCPELVQHLREKNFDEFSKHLRGLVNLYKLPGDNKLKTKMYLALQSLELDLSKMAGMYWQATNANPLDKILHGSVGYLTPRSGGLLMNLKYYVSPYDLFEDGTGAPVILHENNVPRSLGMNVSVTVEGTMAMYKLPIAPLIMGSHPVDSKGTPSFSSITSANSVDLPACFFLKFPRPIPVSRAFIQKLQACTGIPLFDTPPTFVPLYELITQFELSKEADPLPLNHNMRFYAALPGQQHCYFLNKDAPLPDGRSLQGTLISKIAFQHPGRVPLILNLIRHQVAYNTLIGSCVKRTVLKEDSPGILQFEVCPLSDSCFSVSFQHPVNDSLVCVVMDVQDSTHVNCKLYKGLSDALICTDDFIAKVVQRCMSIPVTMRAIRRKAETIQADTPALSLIAETVEDMVKKNLPPASSPGYGMTTGSNPMSGTTTPTNTFPGGPITTLFNMSISMKERHDSVGHGEDFSKVSQNPILTSLLQITGNVGSTIGSSPTPPHHTPPPVSSPASNTKNHPMLMNLLKENAPQDFSTLYGSSPLERQNSSSGSPRMEMGPGGNKQKKKKSRMPADKPKHQTEDDFQRELFSMDVDSQNPIFDVNMTADTLDTPHITPAPSQCSTPPTTYPQPIPHSQPSIQRMVRLSSSDSIGADVTDILSDIAEEASKLPATNEDCPPIGTPVRDSSSSGHSQSALFDPDVFQTNNSENPYTDPADLIADAAVSPNSDSSNHFFPDGVDFNPDLLNSQSQSGFGEEYFDESSQSGDTDDFKGYASQALTTLGVQVLGADGGESKFKGGNQSDTVDFSIIAAASKALGSSDIMEHHSGGQSPLLNTGDLGKEKSQKRVKEGNGSGSNMAGPGVDGKPGKRSRTPSSDGKSKEKLPKRKKQETDGKSPSHSSSNRPFTPPASTGGSKSPGSSGRSQTPPGVATPPIPKITIQIPKGTVTVGKPSSHGQYTSSGSVTSSSSKSHHSHSSSSSSSSSSSTSGKMKSSKSEGSSGSKMSSSLYSSQGGSSSGQSKSSAQSVGKPGSSPITKHGLSSGSGSTKMKPQGKPSSLMNPSMSKPNISPSHSRPSGGSDKLASPMKPVPGTPPSSKAKSPISSGSGGSHMSGTGSSSSMKSSSGMGSSGSMSQKPPPSSNSSTASSSSFSSSGSSMSSSQNQHGSSKGKSPSRNKKPSLTAVIDKLKHGVVTSGPGGDDPMDGQMGPSSNSSSHTMSSKHNMSGGEFQGKREKSDKEKSKVSVSGGSVDSSKKTSDSKNVGSTGVAKIIISKHDGGSPSIKAKVTLQKPGEGGGDSLRPQMASSKSYGSPLISGSTPKHERCSPSHSKSPAYTPQNIDSESESGSSIAEKSYQNSPSSDDGIRPLPEYSSEKHKKHKKEKKKVKDKDRDRDRDRDKDRDKKKSHSMKPESWSKSPISAEQSLSMTSSAILSAERPSRASPEFLIGEEDDDLMDVALIGN
Length1574
PositionMiddle
OrganismEgretta garzetta (Little egret)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Archelosauria> Archosauria> Dinosauria> Saurischia> Theropoda> Coelurosauria> Aves> Neognathae> Pelecaniformes> Ardeidae> Egretta.
Aromaticity0.05
Grand average of hydropathy-0.649
Instability index54.98
Isoelectric point8.88
Molecular weight167343.20
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

>MDP01679
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             7|     290.39|      41|      41|    1075|    1115|       1
---------------------------------------------------------------------------
  962- 1004 (38.29/ 8.74)	VKEG.............NG.......SGS......nmagpgVDGKPGK..RSR...TPSSDGKSKEKLP..KRKKQ
 1075- 1108 (49.72/14.15)	..........................SGS............VTSSSSKSHHSH...SSSSSSSSSSSTSG.KMKSS
 1109- 1137 (36.16/ 7.73)	KSEG............SSG..................................skmSSSLYSSQGGSSSG.QSKSS
 1139- 1202 (35.98/ 7.65)	QSVGkpgsspitkhglSSG.......SGStkmkpqgkpsslMNPSMSKPNISP...SHSRPSGGSDKLAS.PMKP.
 1204- 1232 (33.08/ 6.27)	..........................PG..............TPPSSK...AK...SPISSGSGGSHMSG.TGSSS
 1233- 1274 (52.65/15.54)	SMKS............SSG.......MGS............SGSMSQKPPPSS...NSSTASSSSFSSSGsSMSSS
 1373- 1419 (44.50/11.68)	KNVG............STGvakiiisKHD............GGSPSIKAKVT....LQKPGEGGGDSLRP.QMASS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             5|     490.49|     108|     109|     527|     635|       2
---------------------------------------------------------------------------
  527-  609 (129.29/49.93)	..................................M....VKKN.........LPPASSPGYGMTTGSNPM....S..GTTTPTNTF.PGGPITTLFNMSISMKERH..DSVGHG..ED.F.SKV.......SQNPI.....LTSLLQITGNVGST
  610-  726 (128.41/52.48)	IGSSP......TPPHHTPPPVsSPASNTKNH..PMlmnlLKEN.........APQDFSTLYG....SSPLerqnS..SSGSPRMEMgPGGNKQK......KKKSRMpaDKPKHQteDD.F.QRElfsmdvdSQNPI.....FDV..NMTADTLDT
  727-  838 (112.97/42.72)	PHITPapsqcsTPPTTYPQPI..PHSQPSIQ..RM....VR...........LSSSDSIGADVTDILSDI....AeeASKLPATNE.DCPPIGTPVRDSSSSGHSQ..SALFDP..DV.FqTNN.......SENPYtdpadLIADAAV.......
  839-  930 (87.27/30.89)	......................SPNSDSSNHffP.........dgvdfnpdlLNSQSQSGFGEEYFDE......S..SQSGDTDDF.KGYASQALTTLGVQVL......GADGG..ESkF.KGG.......NQSD.......TVDFSIIAAASKA
 1308- 1344 (32.55/ 6.10)	........................................................SGPG.....GDDPM....D..GQMGPSSNS.SSHTMSSKHNMS.............GG..E..F.QG................................
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     146.75|      48|     100|     106|     156|       4
---------------------------------------------------------------------------
  106-  156 (80.27/58.65)	LDPT..GLLCDVK..VAHHG..ENPVSCPeLVQHlrEKNFD.....EFSKHLRGLVNLYKLP
  203-  261 (66.48/38.99)	LTPRsgGLLMNLKyyVSPYDlfEDGTGAP.VILH..ENNVPrslgmNVSVTVEGTMAMYKLP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     143.53|      29|      98|     323|     351|       5
---------------------------------------------------------------------------
  273-  307 (36.53/17.97)	DSK.GT..PSF.SS.ITsansvdlpaCFF...L.KFPR.PIPVS...R
  323-  351 (53.75/30.22)	DTP.PTFVPLY.EL.IT.........QFE...LSKEAD.PLPLN...H
  371-  405 (29.12/12.69)	DAPlPDGRSLQgTL.IS.........KIA...FQHPGRvPLILNlirH
  425-  448 (24.13/ 9.15)	DSP...........gIL.........QFEvcpLSDSCF.SVSFQ...H
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     183.19|      38|      81|    1434|    1471|       6
---------------------------------------------------------------------------
 1009- 1042 (42.63/12.90)	............KSPSHSSSnrP..FTPPASTGG...SKSpGSS....GRS.QTPP
 1434- 1471 (70.55/26.01)	HER.........CSPSHSKS..P.AYTPQNIDSE...SES.GSSI..AEKSYQNSP
 1481- 1502 (30.18/ 7.05)	PEY.........SSEKHKK..............H...KKE.KKKV..KDK.....D
 1503- 1555 (39.83/11.58)	RDRdrdrdkdrdKKKSHSMK..PeSWSKSPISAEqslSMT.SSAIlsAERPSRASP
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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 MDP01679 with Med1 domain of Kingdom Metazoa
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