<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 MDP21130

Description Mediator of RNA polymerase II transcription subunit 1
SequenceMSSGGHQHLVSCLETLQKALKVTSLPAMTDRLESIARQNGLGSHLSASGTECYITSDMFYVEVQLDPAGQLCDVKVAHHGENPVSCPELVQQLREKNFDEFSKHLKGLVNLYNLPGDNKLKTKMYLALQSLEQDLSKMAIMYWKATNASPLDKILHGSVGYLTPRSGGHLMNLKYYASPSDLLDDKTTSPIILHENTVPRCLGMNASVTIEGTSSMYKLPIAPLIMGSHPVDNKWTPSFSSITSANSVDLPACFFLKFPQPIPVSRAFVQKLQNCTGIPLFEAQPTYVPLYELITQFELSKDPDPIPLNHNMRFYAALPGQQHCYFLNKDAPLPDGRSLQGTLVSKITFQHPGRVPLILNLIRHQVAYNTLIGSCVKRTILKEDSPGLLQFEVCPLSESRFSVSFQHPVNDSLVCVVMDVQDSTHVSCKLYKGLSDALICTDDFIAKVVQRCMSIPVTMRAIRRKAETIQADTPALSLIAETVEDMVKKNLPPASSPGYGMTTGNNPMSGTTTPTNTFPGGPITTLFNMSMSIKDRHESVGHGEDFSKVSQNPILTSLLQITGNGGSTIGSSPTPPHHTPPPVSSMAGNTKNHPMLMNLLKDNPAQDFSTLYGSSPLERQNSSSGSPRMEMCSGSNKTKKKKSSRLPPDKPKHQTEDDFQRELFSMDVDSQNPIFDVNMTADTLDTPHITPAPSQCSTPPTTYPQPIPHPQPSIQRMVRLSSSDSIGPDVTDILSDIAEEASKLPSTSDDCPPIGTPVRDSSSSGHSQSALFDPDVFQTNNNENPYTDPADLIADAAGSPSSDSPTNHFFPDGVDFNPDLLNSQSQSGFGEEYFDESSQSGDNDDFKGFASQALNTLGVPMLGGDNGDTKFKGNSQADTVDFSIIAVAGKALGPADIMEHHSGSQSPLLTTGDLGKEKSQKRVKEGNGTSNSSLSGPGLDSKPGKRSRTPSNDGKSKDKPPKRKKADTEGKSPSHSSSNRPFTPPTSTGGSKSPGSSGRSQTPPGVATPPIPKITIQIPKGTVMVGKSSSHNQYTSSGSVSSSGSKSHHSHSSSSSSSASASGKMKSSKSEGSSSSKLSSSMYSSQGSSGSSQSKNSSQSGGKPGSSPITKHGLSSGSSSTKMKPQGKPSTLMNPSLSKPNISPSHSRPPGASDKLSSPMKPIPGTPPSSKAKSPISSGSGGSHISGTSSSSGMKSSSGLGSSGSLSQKTPPSSNSCTASSSSFSSSGSSMSSSQNQHGSSKGKSPSRNKKPSLTAVIDKLKHGVVTSGPGGEDQMDGQMGVSTNSSHSMSSKHNMSGGEFQGKREKSDKDKSKVSTSGGSVDSSKKTSESKNVGSTGVAKIIISKHDGGSPSIKAKVTLQKPGESSGEGLRPQMASSKNYGSPLISGSTPKHERGSPSHSKSPAYTPQNLDSESESGSSIAEKSYQNSPSSDDGIRPLPEYSTEKHRKHKKEKKKVKDKDRDRDRDKDRDKKKSHSIKPENWSKSPISSDQSLSMTSNTILSADRPSRLSPDFMIGEEDDDLMDVALIGN
Length1531
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-0.674
Instability index53.36
Isoelectric point8.78
Molecular weight162704.56
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

>MDP21130
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             6|     339.90|      48|      48|    1028|    1075|       1
---------------------------------------------------------------------------
  928-  973 (44.19/ 8.79)	G.......TSNSSLSGPGLDSKPGKRSRTP.....SNDGKSkdkpP.......KRKKADTEGKSP
  976- 1022 (39.99/ 7.13)	SSS.NRPFTPPT..STGGSKS....PGSSG.....RSQTPP....GvatppipKITIQIPKGT..
 1028- 1075 (84.09/24.60)	SSS.HNQYTSSGSVSSSGSKSHHSHSSSSS.....SSASAS....G.......KMKSSKSEGSSS
 1079- 1120 (62.17/15.91)	SSS...MYSSQGSSGSSQSK....NSSQSG.....GKPGSS....P.......ITKHGLSSGSSS
 1129- 1182 (48.85/10.64)	PSTlMNPSLSKPNISPSHSRPPGASDKLSSpmkpiPGTPPS....S.......KAKSPISSGSGG
 1189- 1231 (60.61/15.29)	SSS.SGMKSSSG.LGSSGSLSQKTPPSSNS.....CTASSS...............SFSSSGSSM
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     242.00|      49|      50|    1259|    1307|       2
---------------------------------------------------------------------------
 1268- 1317 (80.02/33.80)	SGPGGEDQMDGQMGVSTNSSHSMS...........SK..HNMSGGEFQGKREKsD.KDK...SKV....ST
 1318- 1366 (47.28/16.68)	SG........GSVDSSKKTSESKNvgstgvakiiiSK..HD..GGSPSIKAKV.T.LQK...PG.....ES
 1367- 1407 (58.27/22.43)	SGEG....LRPQMASSKNYGSPL..................ISGSTPKHERGS.PsHSK...SPA....YT
 1428- 1484 (56.43/21.46)	NSPSSDDGIRPLPEYSTEK.HRKH...........KKekKKVKDKDRDRDRDK.D.RDKkksHSIkpenWS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     216.64|      50|      50|     101|     150|       3
---------------------------------------------------------------------------
  101-  150 (83.01/48.01)	FSKHLKGLVNLYNLP......GDNKLKTKMYLALQSLEQ....DLSKMAIMYWKATNASP
  151-  199 (73.52/41.61)	LDKILHGSVG.YLTP....rsGGHLMNLKYYASPSDLLD....DKTTSPIILHE..NTVP
  210-  263 (60.11/32.56)	....IEGTSSMYKLPiaplimGSHPVDNKWTPSFSSITSansvDLP..ACFFLKFPQPIP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     190.17|      49|      50|     275|     324|       4
---------------------------------------------------------------------------
  275-  324 (87.72/50.40)	CTGIPLFEAqPTYVPLY.ELITQFELSKDPDPIPLNHNM...............RF...YAALPGQQHC
  334-  375 (42.43/18.75)	..........PDGRSLQgTLVSKITF.QHPGRVPLILNL..............iRHqvaYNTLIGS..C
  385-  440 (60.02/29.71)	SPGLLQFEV....CPLS.E..SRFSVSFQH...PVNDSLvcvvmdvqdsthvscKL...YKGLSDALIC
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     111.19|      18|      20|     492|     509|       5
---------------------------------------------------------------------------
  492-  509 (38.50/18.93)	PPASSPGYGMTTGNNPMS
  514-  530 (26.80/10.35)	PTNTFPGGPITTLFN.MS
  581-  595 (20.91/ 6.03)	PPVSS..MAGNTKNHPM.
  622-  639 (24.98/ 9.02)	SSSGSPRMEMCSGSNKTK
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             5|     348.61|      63|      65|     752|     816|       6
---------------------------------------------------------------------------
  541-  580 (39.45/13.21)	.............GHGED..FS.KV.....SQNPI..LTSLLQ.I........TGNG..GSTigsSPTPpHH....TP.....
  660-  709 (64.83/26.65)	Q......RE..........LFSMDV....DSQNPIFD.VNMTADTldtphitpAPSQ..CST...PPTT.......YPQPIPH
  712-  750 (58.13/23.10)	PSIQRMVRLSSSDSIG.................P..DVTDILSDI........AEEA..SK...............LPSTSDD
  752-  816 (107.87/56.31)	PPIGTPVRDSSSSGHSQSaLFDPDVfQTNNNENPYTDPADLIADA........AGSP..SSD...SPTN.HF....FPDGVDF
  818-  882 (78.33/33.80)	PDL...LNSQSQSGFGEE.YFDESS.QSGDNDD.FKGFASQALNT........LGVPmlGGD...NGDT.KFkgnsQADTVDF
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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 MDP21130 with Med1 domain of Kingdom Metazoa
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