<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 MDP21983

Description Mediator of RNA polymerase II transcription subunit 1
SequenceMSSGGHQHLVSCLETLQKALKVTSLPAMTDRLESIARQNGLGSHLSASGTECYITSDMFYVEVQLDPAGQLCDVKVAHHGENPVSCPELVQQLREKNFDEFSKHLKGLVNLYNLPGDNKLKTKMYLALQSLEQDLSKMAVMYWKATNAGPLDKILHGSVGYLTPRSGGHLMNLKYYASPSDLLDDKTTSPIILHENNVPRSLGMNASVTIEGTSAMYKLPIAPLIMGSHPVDNKWTPSFSSVTSANSVDLPACFFLKFPQPIPVSRAFVQKLQNCTGIPLFETQPTYVPLYELITQFELSKDPDPIPLNHNMRFYAALPGQQHCYFLNKDAPLPDGRSLQGTLVSKITFQHPGRVPLILNLIRHQVAYNTLIGSCVKRTILKEDSPGLLQFEVCPLSESRFSVSFQHPVNDSLVCVVMDVQDSTHVSCKLYKGLSDALICTDDFIAKVVQRCMSIPVTMRAIRRKAETIQADTPALSLIAETVEDMVKKNLPPASSPGYGMTTGNNPMSGTTTPTNTFPGGPITTLFNMSMSIKDRHESVGHGEDFSKVSQNPILTSLLQITGNGGSTIGSSPTPPHHTPPPVSSMAGNTKNHPMLMNLLKDNPAQDFSTLYGSSPLERQNSSSGSPRMEMCSGSNKAKKKKSSRLPPDKPKHQTEDDFQRELFSMDVDSQNPIFDVNMTADTLDTPHITPAPSQCSTPPTTYPQPVPHPQSSIQRMVRLSSSDSIGPDVTDILSDIAEEASKLPSTSDDCPPIGTPVRDSSSSGHSQSALFDPDVFQANNNENPYTDPADLIADAAGSPSSDSPTNHFFPDGVDFNPDLLNSQSQSGFGEEYFDESSQSGDNDDFKGFTSQALNTLGVPMLGGDNGETKFKGNSQADTVDFSIIAVAGKALGPTDLMEHHSGSQSPLLTTGDLGKEKTQKRVKEGNGTSNSSLSGPGLDSKPGKRSRTPSNDGKSKDKPPKRKKADTEGKSPSHSSSNRPFTPPTSTGGSKSPGSSGRSQTPPGVATPPIPKITIQIPKGTVMVGKPSSHSQYTSSGSVSSSGSKSHHSHSSSSSASNSGKMKSSKSEGSSSSKLSSSIYSSQGSSGSSQSKNSSQSGGKPGSSPITKHGLSSGSSSTKMKPQGKPSSLMNPSLSKPNISPSHSRPPGGSDKLASPMKPVPGTPPSSKAKSPISSGSGGSHMSGTSSSTGMKSSSGLGSSGSLSQKTPPSSNSCTASSSSFSSSGSSMSSSQNQHGSSKGKSPSRNKKPSLTAVIDKLKHGVVTSGPGGEDPMDGQMGVSTNSSHAVSSKHNMSGGEFQGKREKSDKDKSKVSTLGGSVDTSKKTSESKNVGSTGVAKIIISKHDGGSPSIKAKVTLQKPGESSGEGLRPQMASSKNYGSPLISGSTPKHERGSPSHSKSPAYTPQNLDSESESGSSIAEKSYQNSPSSDDGIRPLPEYSTEKHKKHKKEKKKVKDKDRDRDRDKDRDKKKSHSIKPESWSKSPISSDQSLSMTSNTILSTDRPSRLSPDFMIGEEDDDLMDVALIGN
Length1529
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-0.672
Instability index52.96
Isoelectric point8.79
Molecular weight162405.28
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

>MDP21983
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             8|     379.74|      50|      50|    1029|    1078|       1
---------------------------------------------------------------------------
  929-  966 (45.06/10.19)	TSNSSLS..GPG...L.D.SKPG....KR.S.......RTPSNDGK.........SK.DK..P.........................PKRKKA
  967- 1034 (41.46/ 8.68)	DTEGK.S..PSH...S.S.SNRP...FTP.P.......TS...TG...GSKSPGSSGrSQTP.pgvatppipkitiqipkgtvmvgkpSSHSQY
 1035- 1081 (79.87/24.76)	TSSGSVS..SSG...S.K.SHHS...HSS.S.......SSASNSGKMKSSKSEGSSS.SKLSS............................SIY
 1082- 1134 (38.67/ 7.51)	SSQGSSG..SSQ...S.KnSSQSggkPGS.SpitkhglSSGSSSTKMK...PQGKPS.SLMNP.........................S.....
 1172- 1216 (41.74/ 8.80)	......SpiSSG...SgG.SHMS...GTS.S.......ST....G.MKSSSGLGSSG.S.LSQ.....................ktppSSNSCT
 1217- 1274 (49.59/12.08)	ASSSSFS..SSGssmS.S.SQNQ...HGS.S.......KGKSPSRNKKPSLT..AVI.DKLKH..................gvvtsgpGGEDPM
 1275- 1326 (47.29/11.12)	DGQMGVS..TNS...S.H.AVSS...KHN.M.......SGGEFQGKREKSDKDKSKV.STLGG.......................svDTSKKT
 1385- 1434 (36.06/ 6.42)	..........SG...S.T.PKHE...RGSpS.......HSKSPAYTPQNLDSESESG.SSIAE..................ksyqnspSSDDGI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     126.23|      33|      50|     275|     324|       2
---------------------------------------------------------------------------
  249-  289 (42.96/37.61)	DLPACFFL.KFPQPIPVSRA....FVQKL.......QnctgiplfetqptyVP
  292-  322 (52.34/29.00)	ELITQFELSKDPDPIPLNHNMR..FYAAL....PGQQ................
  325-  356 (30.94/11.80)	.....YFLNKDA.PLPDGRSLQgtLVSKItfqhPGR...............VP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             5|     284.52|      50|      50|     565|     614|       3
---------------------------------------------------------------------------
  500-  552 (43.97/13.14)	.GMTTGNNPmsgtTTPTNTFPggPI...............................................TTL...FNMSMS.IK....DrhesvGHGEDFSKVSQN
  565-  614 (95.06/36.64)	GGSTIGSSP....TPPHHTPP..PV...................................SS......MAGNTKN...HPMLMNLLK....D.....NPAQDFSTLYGS
  685-  747 (52.86/17.24)	DTPHITPAPsqcsTPPTTYPQ..PV...............................phpqSSiqrmvrLSSSDSI...GPDVTDILS....D......IAEEASKLPST
  748-  795 (45.00/13.62)	......SDD....CPPIGTPV..RD...................................SS......SSGHSQSalfDP...DVFQannnE.....NPYTDPADLIAD
  797-  874 (47.63/14.83)	AGSPSSDSP....T.NHFFPD..GVdfnpdllnsqsqsgfgeeyfdessqsgdnddfkgfTS......QALNTLG...VPMLGG.......D.....NGETKFK...GN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     136.12|      44|     340|      52|     101|       4
---------------------------------------------------------------------------
   52-  101 (67.78/57.83)	CYITSDMFYVEVQlDPAGQ..LC...DVKVAHHgenpVSCpELVQQLREK..NFDEF
  394-  444 (68.34/39.64)	CPLSESRFSVSFQ.HPVNDslVCvvmDVQDSTH....VSC.KLYKGLSDAliCTDDF
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      39.52|      12|      19|    1443|    1454|       6
---------------------------------------------------------------------------
 1443- 1454 (19.60/11.58)	EKHKKHKKEKKK
 1461- 1472 (19.91/11.87)	DRDRDKDRDKKK
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      34.61|      10|      19|     618|     627|       8
---------------------------------------------------------------------------
  618-  627 (17.43/ 8.58)	ERQNSSSGSP
  639-  648 (17.18/ 8.31)	KKKKSSRLPP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     101.70|      31|      48|     103|     134|       9
---------------------------------------------------------------------------
  103-  134 (49.83/36.09)	KHLKGLVNlYNLP..GDNKLKTKMYLALQSLEQD
  153-  185 (51.88/33.04)	KILHGSVG.YLTPrsGGHLMNLKYYASPSDLLDD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      68.19|      20|      33|     190|     209|      12
---------------------------------------------------------------------------
  190-  209 (34.99/20.47)	PIILHENNVPRSLGMN.ASVT
  223-  243 (33.20/19.00)	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 MDP21983 with Med1 domain of Kingdom Metazoa
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