<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 MDP21984

Description Mediator of RNA polymerase II transcription subunit 1
SequenceMSSLLERLHAKFNQNRPWSETIKLVRQVMEKRVVMSSGGHQHLVSCLETLQKALKVTSLPAMTDRLESIARQNGLGSHLSASGTECYITSDMFYVEVQLDPAGQLCDVKVAHHGENPVSCPELVQQLREKNFDEFSKHLKGLVNLYNLPGDNKLKTKMYLALQSLEQDLSKMAVMYWKATNAGPLDKILHGSVGYLTPRSGGHLMNLKYYASPSDLLDDKTTSPIILHENNVPRSLGMNASVTIEGTSAMYKLPIAPLIMGSHPVDNKWTPSFSSVTSANSVDLPACFFLKFPQPIPVSRAFVQKLQNCTGIPLFETQPTYVPLYELITQFELSKDPDPIPLNHNMRFYAALPGQQHCYFLNKDAPLPDGRSLQGTLVSKITFQHPGRVPLILNLIRHQVAYNTLIGSCVKRTILKEDSPGLLQFEVCPLSESRFSVSFQHPVNDSLVCVVMDVQDSTHVSCKLYKGLSDALICTDDFIAKVVQRCMSIPVTMRAIRRKAETIQADTPALSLIAETVEDMVKKNLPPASSPGYGMTTGNNPMSGTTTPTNTFPGGPITTLFNMSMSIKDRHESVGHGEDFSKVSQNPILTSLLQITGNGGSTIGSSPTPPHHTPPPVSSMAGNTKNHPMLMNLLKDNPAQDFSTLYGSSPLERQNSSSGSPRMEMCSGSNKAKKKKSSRLPPDKPKHQTEDDFQRELFSMDVDSQNPIFDVNMTADTLDTPHITPAPSQCSTPPTTYPQPVPHPQSSIQRMVRLSSSDSIGPDVTDILSDIAEEASKLPSTSDDCPPIGTPVRDSSSSGHSQSALFDPDVFQANNNENPYTDPADLIADAAGSPSSDSPTNHFFPDGVDFNPDLLNSQSQSGFGEEYFDESSQSGDNDDFKGFTSQALNTLGVPMLGGDNGETKFKGNSQADTVDFSIIAVAGKALGPTDLMEHHSGSQSPLLTTGDLGKEKTQKRVKEGNGTSNSSLSGPGLDSKPGKRSRTPSNDGKSKDKPPKRKKADTEGKSPSHSSSNRPFTPPTSTGGSKSPGSSGRSQTPPGVATPPIPKITIQIPKGTVMVGKPSSHSQYTSSGSVSSSGSKSHHSHSSSSSASNSGKMKSSKSEGSSSSKLSSSIYSSQGSSGSSQSKNSSQSGGKPGSSPITKHGLSSGSSSTKMKPQGKPSSLMNPSLSKPNISPSHSRPPGGSDKLASPMKPVPGTPPSSKAKSPISSGSGGSHMSGTSSSTGMKSSSGLGSSGSLSQKTPPSSNSCTASSSSFSSSGSSMSSSQNQHGSSKGKSPSRNKKPSLTAVIDKLKHGVVTSGPGGEDPMDGQMGVSTNSSHAVSSKHNMSGGEFQGKREKSDKDKSKVSTLGGSVDTSKKTSESKNVGSTGVAKIIISKHDGGSPSIKAKVTLQKPGESSGEGLRPQMASSKNYGSPLISGSTPKHERGSPSHSKSPAYTPQNLDSESESGSSIAEKSYQNSPSSDDGIRPLPEYSTEKHKKHKKEKKKVKDKDRDRDRDKDRDKKKSHSIKPESWSKSPISSDQSLSMTSNTILSTDRPSRLSPDFMIGEEDDDLMDVALIGN
Length1563
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-0.669
Instability index52.78
Isoelectric point8.92
Molecular weight166512.10
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

>MDP21984
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             7|     343.68|      50|      50|    1063|    1112|       1
---------------------------------------------------------------------------
  963- 1000 (45.06/ 8.90)	TSNSSLS..GPG...L.D.SKPG....KRS.......RTPSNDGK.........SK.DK..P.........................PKRKKA
 1001- 1068 (41.46/ 7.58)	DTEGK.S..PSH...S.S.SNRP...FTPP.......TS...TG...GSKSPGSSGrSQTP.pgvatppipkitiqipkgtvmvgkpSSHSQY
 1069- 1115 (79.87/21.63)	TSSGSVS..SSG...S.K.SHHS...HSSS.......SSASNSGKMKSSKSEGSSS.SKLSS............................SIY
 1116- 1168 (38.67/ 6.56)	SSQGSSG..SSQ...S.KnSSQSggkPGSSpitkhglSSGSSSTKMK...PQGKPS.SLMNP.........................S.....
 1206- 1250 (41.74/ 7.68)	......SpiSSG...SgG.SHMS...GTSS.......ST....G.MKSSSGLGSSG.S.LSQ.....................ktppSSNSCT
 1251- 1308 (49.59/10.55)	ASSSSFS..SSGssmS.S.SQNQ...HGSS.......KGKSPSRNKKPSLT..AVI.DKLKH..................gvvtsgpGGEDPM
 1309- 1360 (47.29/ 9.71)	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|     786|     849|       2
---------------------------------------------------------------------------
  548-  606 (82.23/34.30)	PTN.TFPG......GPITTLFNMSMSI.KDR.....HESVGHGEDF.SKVSQN..PILT........SLLQITGN........GGST..IGS..S
  607-  667 (61.22/23.62)	PTPP......H.htPP...PV..SSMA.GNT.....KN...HP.MLMNLLKDN..PAQDfstlygssPLERQNSS........SGSP..RMEmcS
  668-  733 (57.79/21.88)	GSNKAKKKKSS.rlPP.DKP........KHQteddfQRELFSMDV....DSQN..PIFD.........VNMTADTldtphitpAPSQ..CST..P
  734-  777 (46.90/16.35)	PTT..YPQPVPhpqSSIQRMVRLSSSD.S...........IGPDV............TD...........ILSDI........AEEA..SK....
  778-  838 (90.37/38.43)	.....LPSTSD.dcPPIGTPVRDSSSS.GHS.....QSALFDPDVFQANNNEN..PYTD........PADLIADA........AGSP..SSD..S
  839-  900 (68.06/27.10)	PTNHFFPDGVD.fnPDL...LNSQSQS.GFG.....E.EYFDESS.QSGDNDDfkGFTS........QA...LNT........LGVPmlGGD..N
  901-  940 (45.90/15.84)	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|     309|     358|       3
---------------------------------------------------------------------------
  283-  323 (42.96/43.26)	DLPACFFL.KFPQPIPVSRA....FVQKL.......QnctgiplfetqptyVP
  326-  356 (52.34/33.38)	ELITQFELSKDPDPIPLNHNMR..FYAAL....PGQQ................
  359-  390 (30.94/13.64)	.....YFLNKDA.PLPDGRSLQgtLVSKItfqhPGR...............VP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     150.26|      40|      49|    1363|    1403|       4
---------------------------------------------------------------------------
 1363- 1403 (63.49/30.12)	SKNVGSTGVAKiIISKHDGGSPSIKAKVTLQKPGESSGEGL
 1410- 1442 (54.38/21.86)	SKNYGSPLISG.STPKHERGSPS.HSKSPAYTPQN......
 1445- 1468 (32.39/ 9.65)	..............SESESGS.SIAEKSYQNSP..SSDDGI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     118.56|      37|      48|     131|     168|       5
---------------------------------------------------------------------------
  131-  168 (59.64/35.19)	NFDEFSKHLKGLVNlYNLP..GDNKLKTKMYLALQSLEQD
  181-  219 (58.93/31.09)	NAGPLDKILHGSVG.YLTPrsGGHLMNLKYYASPSDLLDD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      50.82|      14|      22|     436|     449|       6
---------------------------------------------------------------------------
  436-  449 (25.65/16.21)	SVSFQHPVNDSLVC
  461-  474 (25.17/15.75)	SCKLYKGLSDALIC
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      68.19|      20|      32|     224|     243|      12
---------------------------------------------------------------------------
  224-  243 (34.99/18.84)	PIILHENNVPRSLGMN.ASVT
  257-  277 (33.20/17.47)	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 MDP21984 with Med1 domain of Kingdom Metazoa
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