<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 MDP20922

Description Mediator of RNA polymerase II transcription subunit 1
SequenceMKAQGEAEESEKLNKMSSLLERLHAKFNQNRPWSETIKLVRQVMEKRVVMSSGGHQHLVSCLETLQKALKVTSLPAMTDRLESIARQNGLGSHLSASGTECYITSDMFYVEVQLDPAGQLCDVKVAHHGENPVSCPELVQQLREKNFDEFSKHLKGLVNLYNLPGDNKLKTKMYLALQSLEQDLSKMAIMYWKATNASPLDKILHGSVGYLTPRSGGHLMNLKYYASPSDLLDDKTTSPIILHENTVPRCLGMNASVTIEGTSSMYKLPIAPLIMGSHPVDNKWTPSFSSITSANSVDLPACFFLKFPQPIPVSRAFVQKLQNCTGIPLFEAQPTYVPLYELITQFELSKDPDPIPLNHNMRFYAALPGQQHCYFLNKDAPLPDGRSLQGTLVSKITFQHPGRVPLILNLIRHQVAYNTLIGSCVKRTILKEDSPGLLQFEVCPLSESRFSVSFQHPVNDSLVCVVMDVQDSTHVSCKLYKGLSDALICTDDFIAKVVQRCMSIPVTMRAIRRKAETIQADTPALSLIAETVEDMVKKNLPPASSPGYGMTTGNNPMSGTTTPTNTFPGGPITTLFNMSMSIKDRHESVGHGEDFSKVSQNPILTSLLQITGNGGSTIGSSPTPPHHTPPPVSSMAGNTKNHPMLMNLLKDNPAQDFSTLYGSSPLERQNSSSGSPRMEMCSGSNKTKKKKSSRLPPDKPKHQTEDDFQRELFSMDVDSQNPIFDVNMTADTLDTPHITPAPSQCSTPPTTYPQPIPHPQPSIQRMVRLSSSDSIGPDVTDILSDIAEEASKLPSTSDDCPPIGTPVRDSSSSGHSQSALFDPDVFQTNNNENPYTDPADLIADAAGSPSSDSPTNHFFPDGVDFNPDLLNSQSQSGFGEEYFDESSQSGDNDDFKGFASQALNTLGVPMLGGDNGDTKFKGNSQADTVDFSIIAVAGKALGPADIMEHHSGSQSPLLTTGDLGKEKSQKRVKEGNGTSNSSLSGPGLDSKPGKRSRTPSNDGKSKDKPPKRKKADTEGKSPSHSSSNRPFTPPTSTGGSKSPGSSGRSQTPPGVATPPIPKITIQIPKGTVMVGKSSSHNQYTSSGSVSSSGSKSHHSHSSSSSSSASASGKMKSSKSEGSSSSKLSSSMYSSQGSSGSSQSKNSSQSGGKPGSSPITKHGLSSGSSSTKMKPQGKPSTLMNPSLSKPNISPSHSRPPGASDKLSSPMKPIPGTPPSSKAKSPISSGSGGSHISGTSSSSGMKSSSGLGSSGSLSQKTPPSSNSCTASSSSFSSSGSSMSSSQNQHGSSKGKSPSRNKKPSLTAVIDKLKHGVVTSGPGGEDQMDGQMGVSTNSSHSMSSKHNMSGGEFQGKREKSDKDKSKVSTSGGSVDSSKKTSESKNVGSTGVAKIIISKHDGGSPSIKAKVTLQKPGESSGEGLRPQMASSKNYGSPLISGSTPKHERGSPSHSKSPAYTPQNLDSESESGSSIAEKSYQNSPSSDDGIRPLPEYSTEKHRKHKKEKKKVKDKDRDRDRDKDRDKKKSHSIKPENWSKSPISSDQSLSMTSNTILSADRPSRLSPDFMIGEEDDDLMDVALIGN
Length1580
PositionMiddle
OrganismTrichechus manatus latirostris (Florida manatee)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Mammalia> Eutheria> Afrotheria> Sirenia> Trichechidae> Trichechus.
Aromaticity0.04
Grand average of hydropathy-0.680
Instability index53.47
Isoelectric point8.87
Molecular weight168485.22
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

>MDP20922
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             7|     358.81|      48|      48|    1077|    1124|       1
---------------------------------------------------------------------------
  977- 1022 (43.09/ 9.46)	G........TSNSSLSGPGLDSK..PGKRSRTPSNDGK.SkdkpP.......KRK.......KA..D.....TEGKSP
 1025- 1071 (40.33/ 8.27)	SSSN..RPFTPPT..STGGSKS......PGSSGRSQTP.P....GvatppipKIT.......IQ..I.....PKGT..
 1077- 1124 (86.26/27.99)	SSSH..NQYTSSGSVSSSGSKSH..HSHSSSSSSSASA.S....G.......KMK.......SS..K.....SEGSSS
 1128- 1165 (49.94/12.40)	SSS....MYSSQGSSGSSQSK......NSSQSG...........G.......KPG.......SSpiT.....KHGLSS
 1168- 1231 (42.20/ 9.07)	SSTKmkPQGKPSTLMNPSLSKPNisPSHSRPPGASDKL.S....S.......PMKpipgtppSS..KakspiSSGSGG
 1238- 1280 (59.87/16.67)	SSSS..GMKSSSG.LGSSGSLSQ..KTPPSSNSCTASS.S......................SF..S.....SSGSSM
 1429- 1469 (37.12/ 6.90)	..........NYGSPLISGSTPK..HERGSPSHSKSPAyT....P.......QNL.......DS..E.....SESGSS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     168.08|      45|      50|    1308|    1356|       2
---------------------------------------------------------------------------
 1286- 1324 (47.70/18.35)	.QHGSSKGKSPSRN...........KK..............psltaviDKLKHGVVTSGPGGEDQ
 1327- 1368 (53.58/29.72)	GQMGVSTNSSHSMS...........SKHNmsGGEFQGKREK......sDKDKSKVSTSG......
 1369- 1423 (66.80/26.92)	GSVDSSKKTSESKNvgstgvakiiiSKHD..GGSPSIKAKV.......TLQKPG.ESSGEGLRPQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     221.90|      50|      50|     150|     199|       3
---------------------------------------------------------------------------
  150-  199 (82.76/43.12)	F..SKHLKGLVNLYNLP......GDNKLKTKMYLALQSLEQ....DLSKMAIMYWKATNASP
  200-  248 (72.60/36.92)	L..DKILHGSVG.YLTP....rsGGHLMNLKYYASPSDLLD....DKTTSPIILHE..NTVP
  253-  312 (66.54/33.23)	MnaSVTIEGTSSMYKLPiaplimGSHPVDNKWTPSFSSITSansvDLP..ACFFLKFPQPIP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             7|     354.12|      51|      52|     699|     749|       4
---------------------------------------------------------------------------
  548-  580 (31.75/ 9.89)	..............................YGM.T....TG.NNPMSG..T.T..TPTNTF...PGG.......PITT........LFNM..SM
  581-  629 (47.21/18.87)	SI....KD.......RHESvghGEDFSK......V.....S.QNPILTslL.Q..ITGNGG...STI.......GSSP........TPPH.HTP
  630-  683 (56.23/24.11)	PP....VS.......SMAG...NTKNHPML..MNL....LK.DNPAQD..F.StlYGSSPLerqNSS.......SGSP........RMEM.CSG
  696-  747 (83.17/39.77)	PP...dKP.......KHQT...EDDFQRELFSMDV....DS.QNPIFD..V.N..MTADTL...DTP.......HITP........APSQ.CST
  748-  802 (53.39/22.46)	PPttypQP.......IPHP...QPSIQRMVRLSSS....DS.IGP..D..VtD..ILSDIA...EEA.......SKLP........STSDdCPP
  803-  866 (34.72/11.61)	IG....TPvrdssssGHS........QSALFDPDVfqtnNN.ENPYTD.pA.D..LIADAA...GSPssdsptnHFFP........DGVD.FN.
  867-  928 (47.64/19.12)	PD....LL.......NSQS...QSGFGEEYFDESS....QSgDNDDFKgfA.S..QALNTL...GVP.......MLGGdngdtkfkGNSQ.ADT
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     242.05|      49|      55|     376|     424|       5
---------------------------------------------------------------------------
  328-  373 (49.91/33.38)	.....P..LF.EAQPTYVPLYELITqFelsKDPDPIPLNHNM.RF...YAALPGQqhC
  376-  424 (84.02/62.70)	LNKDAP..LP.DGRSLQGTLVSKIT.F...QHPGRVPLILNLIRHQVAYNTLIGS..C
  430-  477 (63.53/45.09)	LKEDSPglLQfEVCPLSESRFS.VS.F...QHPVNDSLV..CVVMDVQDSTHV.S..C
  479-  514 (44.59/28.80)	LYKG....LS.DALICTDDFIAKVV.....QRCMSIPVTMRAIRRK............
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      40.90|      12|      20|    1494|    1505|       6
---------------------------------------------------------------------------
 1494- 1505 (20.40/12.60)	EKHRKHKKEKKK
 1512- 1523 (20.49/12.69)	DRDRDKDRDKKK
---------------------------------------------------------------------------




































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 MDP20922 with Med1 domain of Kingdom Metazoa
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