<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 MDP21985

Description Mediator of RNA polymerase II transcription subunit 1
SequenceMKAQGETEESEKLSKMSSLLERLHAKFNQNRPWSETIKLVRQVMEKRVVMSSGGHQHLVSCLETLQKALKVTSLPAMTDRLESIARQNGLGSHLSASGTECYITSDMFYVEVQLDPAGQLCDVKVAHHGENPVSCPELVQQLREKNFDEFSKHLKGLVNLYNLPGDNKLKTKMYLALQSLEQDLSKMAVMYWKATNAGPLDKILHGSVGYLTPRSGGHLMNLKYYASPSDLLDDKTTSPIILHENNVPRSLGMNASVTIEGTSAMYKLPIAPLIMGSHPVDNKWTPSFSSVTSANSVDLPACFFLKFPQPIPVSRAFVQKLQNCTGIPLFETQPTYVPLYELITQFELSKDPDPIPLNHNMRFYAALPGQQHCYFLNKDAPLPDGRSLQGTLVSKITFQHPGRVPLILNLIRHQVAYNTLIGSCVKRTILKEDSPGLLQFEVCPLSESRFSVSFQHPVNDSLVCVVMDVQDSTHVSCKLYKGLSDALICTDDFIAKVVQRCMSIPVTMRAIRRKAETIQADTPALSLIAETVEDMVKKNLPPASSPGYGMTTGNNPMSGTTTPTNTFPGGPITTLFNMSMSIKDRHESVGHGEDFSKVSQNPILTSLLQITGNGGSTIGSSPTPPHHTPPPVSSMAGNTKNHPMLMNLLKDNPAQDFSTLYGSSPLERQNSSSGSPRMEMCSGSNKAKKKKSSRLPPDKPKHQTEDDFQRELFSMDVDSQNPIFDVNMTADTLDTPHITPAPSQCSTPPTTYPQPVPHPQSSIQRMVRLSSSDSIGPDVTDILSDIAEEASKLPSTSDDCPPIGTPVRDSSSSGHSQSALFDPDVFQANNNENPYTDPADLIADAAGSPSSDSPTNHFFPDGVDFNPDLLNSQSQSGFGEEYFDESSQSGDNDDFKGFTSQALNTLGVPMLGGDNGETKFKGNSQADTVDFSIIAVAGKALGPTDLMEHHSGSQSPLLTTGDLGKEKTQKRVKEGNGTSNSSLSGPGLDSKPGKRSRTPSNDGKSKDKPPKRKKADTEGKSPSHSSSNRPFTPPTSTGGSKSPGSSGRSQTPPGVATPPIPKITIQIPKGTVMVGKPSSHSQYTSSGSVSSSGSKSHHSHSSSSSASNSGKMKSSKSEGSSSSKLSSSIYSSQGSSGSSQSKNSSQSGGKPGSSPITKHGLSSGSSSTKMKPQGKPSSLMNPSLSKPNISPSHSRPPGGSDKLASPMKPVPGTPPSSKAKSPISSGSGGSHMSGTSSSTGMKSSSGLGSSGSLSQKTPPSSNSCTASSSSFSSSGSSMSSSQNQHGSSKGKSPSRNKKPSLTAVIDKLKHGVVTSGPGGEDPMDGQMGVSTNSSHAVSSKHNMSGGEFQGKREKSDKDKSKVSTLGGSVDTSKKTSESKNVGSTGVAKIIISKHDGGSPSIKAKVTLQKPGESSGEGLRPQMASSKNYGSPLISGSTPKHERGSPSHSKSPAYTPQNLDSESESGSSIAEKSYQNSPSSDDGIRPLPEYSTEKHKKHKKEKKKVKDKDRDRDRDKDRDKKKSHSIKPESWSKSPISSDQSLSMTSNTILSTDRPSRLSPDFMIGEEDDDLMDVALIGN
Length1578
PositionMiddle
OrganismBalaenoptera acutorostrata scammoni (North Pacific minke whale) (Balaenoptera davidsoni)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Mammalia> Eutheria> Laurasiatheria> Artiodactyla> Whippomorpha> Cetacea> Mysticeti> Balaenopteridae> Balaenoptera.
Aromaticity0.04
Grand average of hydropathy-0.678
Instability index53.05
Isoelectric point8.88
Molecular weight168188.94
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

>MDP21985
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             7|     343.68|      50|      50|    1078|    1127|       1
---------------------------------------------------------------------------
  978- 1015 (45.06/ 9.37)	TSNSSLS..GPG...L.D.SKPG....KRS.......RTPSNDGK.........SK.DK..P.........................PKRKKA
 1016- 1083 (41.46/ 7.96)	DTEGK.S..PSH...S.S.SNRP...FTPP.......TS...TG...GSKSPGSSGrSQTP.pgvatppipkitiqipkgtvmvgkpSSHSQY
 1084- 1130 (79.87/23.06)	TSSGSVS..SSG...S.K.SHHS...HSSS.......SSASNSGKMKSSKSEGSSS.SKLSS............................SIY
 1131- 1183 (38.67/ 6.86)	SSQGSSG..SSQ...S.KnSSQSggkPGSSpitkhglSSGSSSTKMK...PQGKPS.SLMNP.........................S.....
 1221- 1265 (41.74/ 8.07)	......SpiSSG...SgG.SHMS...GTSS.......ST....G.MKSSSGLGSSG.S.LSQ.....................ktppSSNSCT
 1266- 1323 (49.59/11.15)	ASSSSFS..SSGssmS.S.SQNQ...HGSS.......KGKSPSRNKKPSLT..AVI.DKLKH..................gvvtsgpGGEDPM
 1324- 1375 (47.29/10.25)	DGQMGVS..TNS...S.H.AVSS...KHNM.......SGGEFQGKREKSDKDKSKV.STLGG.......................svDTSKKT
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             7|     452.49|      64|      64|     801|     864|       2
---------------------------------------------------------------------------
  563-  621 (82.23/33.55)	PTN.TFPG......GPITTLFNMSMSI.KDR.....HESVGHGEDF.SKVSQN..PILT........SLLQITGN........GGST..IGS..S
  622-  682 (61.22/23.06)	PTPP......H.htPP...PV..SSMA.GNT.....KN...HP.MLMNLLKDN..PAQDfstlygssPLERQNSS........SGSP..RMEmcS
  683-  748 (57.79/21.35)	GSNKAKKKKSS.rlPP.DKP........KHQteddfQRELFSMDV....DSQN..PIFD.........VNMTADTldtphitpAPSQ..CST..P
  749-  792 (46.90/15.91)	PTT..YPQPVPhpqSSIQRMVRLSSSD.S...........IGPDV............TD...........ILSDI........AEEA..SK....
  793-  853 (90.37/37.62)	.....LPSTSD.dcPPIGTPVRDSSSS.GHS.....QSALFDPDVFQANNNEN..PYTD........PADLIADA........AGSP..SSD..S
  854-  915 (68.06/26.48)	PTNHFFPDGVD.fnPDL...LNSQSQS.GFG.....E.EYFDESS.QSGDNDDfkGFTS........QA...LNT........LGVPmlGGD..N
  916-  955 (45.90/15.41)	GETKF......................kGNS.....QADTVDFSIIAVAGKA.....LG........PTDLMEHH........SG.....SQ..S
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     126.23|      33|      50|     324|     373|       3
---------------------------------------------------------------------------
  298-  338 (42.96/43.54)	DLPACFFL.KFPQPIPVSRA....FVQKL.......QnctgiplfetqptyVP
  341-  371 (52.34/33.62)	ELITQFELSKDPDPIPLNHNMR..FYAAL....PGQQ................
  374-  405 (30.94/13.81)	.....YFLNKDA.PLPDGRSLQgtLVSKItfqhPGR...............VP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     150.26|      40|      49|    1378|    1418|       4
---------------------------------------------------------------------------
 1378- 1418 (63.49/32.27)	SKNVGSTGVAKiIISKHDGGSPSIKAKVTLQKPGESSGEGL
 1425- 1457 (54.38/23.45)	SKNYGSPLISG.STPKHERGSPS.HSKSPAYTPQN......
 1460- 1483 (32.39/10.40)	..............SESESGS.SIAEKSYQNSP..SSDDGI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     118.56|      37|      48|     146|     183|       5
---------------------------------------------------------------------------
  146-  183 (59.64/39.54)	NFDEFSKHLKGLVNlYNLP..GDNKLKTKMYLALQSLEQD
  196-  234 (58.93/34.95)	NAGPLDKILHGSVG.YLTPrsGGHLMNLKYYASPSDLLDD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      50.82|      14|      22|     451|     464|       6
---------------------------------------------------------------------------
  451-  464 (25.65/18.26)	SVSFQHPVNDSLVC
  476-  489 (25.17/17.74)	SCKLYKGLSDALIC
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      68.19|      20|      32|     239|     258|      12
---------------------------------------------------------------------------
  239-  258 (34.99/19.48)	PIILHENNVPRSLGMN.ASVT
  272-  292 (33.20/18.07)	PLIMGSHPVDNKWTPSfSSVT
---------------------------------------------------------------------------




































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 MDP21985 with Med1 domain of Kingdom Metazoa
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