<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 MDP20570

Description Mediator of RNA polymerase II transcription subunit 1
SequenceMKAQGETEESEKLSKMSSLLERLHAKFNQNRPWSETIKLVRQVMEKRVVMSSGGHQHLVSCLETLQKALKVTSLPAMTDRLESIARQNGLGSHLSASGTECYITSDMFYVEVQLDPAGQLCDVKVAHHGENPVSCPELVQQLREKNFDEFSKHLKGLVNLYNLPGDNKLKTKMYLALQSLEQDLSKMAVMYWKATNAGPLDKILHGSVGYLTPRSGGHLMNLKYYASPSDLLDDKTTSPIILHENNVPRSLGMNASVTIEGTSAMYKLPIAPLIMGSHPVDNKWTPSFSSITSANSVDLPACFFLKFPQPIPVSRAFVQKLQNCTGIPLFETQPTYVPLYELITQFELSKDPDPIPLNHNMRFYAALPGQQHCYFLNKDAPLPDGRSLQGTLVSKITFQHPGRVPLILNLIRHQVAYNTLIGSCVKRTILKEDSPGLLQFEVCPLSESRFSVSFQHPVNDSLVCVVMDVQDSTHVSCKLYKGLSDALICTDDFIAKVVQRCMSIPVTMRAIRRKAETIQADTPALSLIAETVEDMVKKNLPPASSPGYGMTTGNNPMSGTTTPTNTFPGGPITTLFNMSMSIKDRHESVGHGEDFSKVSQNPILTSLLQITGNGGSTIGSSPTPPHHTPPPVSSMAGNTKNHPMLMNLLKDNPAQDFSTLYGSSPLERQNSSSGSPRMEICPGSNKTKKKKSSRLPPDKPKHQTEDDFQRELFSMDVDSQNPIFDVNMTADTLDTPHITPAPSQCSTPPTTYPQPVPHPQPSIQRMVRLSSSDSIGPDVTDILSDIAEEASKLPSTSDDCPPIGTPVRDSSSSGHSQSALFDPDVFQTNNNENPYTDPADLIADAAGSPSSDSPTNHFFPDGVDFNPDLLNSQSQGGFGEEYFDESSQSGDNDDFKGFASQALNTLGVPMLGGDNGETKFKGNSQADTVDFSIISVAGKALGPADLMEHHSGSQSPLLTTGDLGKEKTQKRVKEGNGTSNSSLSGPGLDSKPGKRSRTPSNDGKSKDKPPKRKKADTEGKSPSHSSSNRPFTPPTSTGGSKSPGSSGRSQTPPGVATPPIPKITIQIPKGTVMVGKPSHSQYTSSGSVSSSGSKSHHSHSSSSSSSSSASNSGKMKSSKSEGSSSSKLSSSVYSSQGSSGSSQSKNSSQSGGKPGSSPITKHGLSSGSSSTKMKPQGKPSSLMNPSLSKPNISPSHSRPPAGSDKLASPMKAVPGTPPSSKAKSPISSGSGGSHMSGTSSSTGMKSSSGLGSSGSLSQKTPPSSNSCTASSSSFSSSGSSMSSSQNQHGSSKGKSPSRNKKPSLTAVIDKLKHGVVTSGPGGEDPMDGQMGVSTNSSSHPMSSKHNMSGGEFQGKREKSDKEKSKVSTSGGSVDSSKKTSESKNVGSTGVAKIIISKHDGGSPSIKAKVTLQKPGESSGEGLRPQMASSKNYGSPLISGSTPKHERGSPSHSKSPAYTPQNLDSESESGSSIAEKSYQNSPSSDDGIRPLPEYSTEKHKKHKKEKKKVKDKDRDRDRDKDRDKKKSHSIKPESWSKSPISSDQSLSLTSNTILSTDRPSRLSPDFMIGEEDDDLMDVALIGN
Length1582
PositionMiddle
OrganismLeptonychotes weddellii (Weddell seal) (Otaria weddellii)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Mammalia> Eutheria> Laurasiatheria> Carnivora> Caniformia> Phocidae> Leptonychotes.
Aromaticity0.04
Grand average of hydropathy-0.681
Instability index53.89
Isoelectric point8.88
Molecular weight168527.23
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

>MDP20570
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             9|     461.85|      49|      49|    1371|    1419|       1
---------------------------------------------------------------------------
 1018- 1068 (62.71/16.75)	E..G....K........SPSHSSSNRPF......T.P....P.TS..TG.....GSK.SpgS.SGRSQTPPGVATPPIPKITIQIP
 1069- 1120 (60.38/15.81)	K..GtvmvG........KPS.HSQYTSS......G.S....V.SS..SG.....SKS.H..H.SHSSSSSSSSSASNSGKMKSSKS
 1121- 1162 (58.36/14.99)	E..G....S........SSSKLSSSVYS......S.Q....G..S..SG............S.SQSKNSSQSGGKPGSSP..ITKH
 1214- 1249 (38.19/ 6.79)	P..G....T........PPSSKAKSPIS......SgS....G.GShmSG.................TS.....SSTGMKS...SSG
 1250- 1292 (39.00/ 7.12)	L..G....S........SGSLS.....Q......K.T....P.PS..SNsctasSSS.F..S.SSGSSMSSSQNQHGSSK......
 1293- 1345 (41.32/ 8.06)	...G....K........SPSRNKKPSLTavidklK.H....GvVT..SG....pGGE.D..PmDGQMGVSTNSSSHPMS....SKH
 1346- 1398 (42.51/ 8.54)	NmsG....GefqgkrekSDKEKSKV...................S..TS....gGSV.D..S.SKKTSESKNVGSTGVAKIIISKH
 1399- 1444 (63.32/17.00)	D..G....G........SPSIKAKVTLQ......K.P....G.ES..SG....eG......L.RPQMASSKNYGSPLISGS.TPKH
 1445- 1498 (56.07/14.05)	E..R....G........SPS.HSKSPAY......T.PqnldS.ES.eSG.....SSIaE..K.SYQNSPSSDDGIRPLPEYSTEKH
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      71.49|      16|      20|     982|     997|       2
---------------------------------------------------------------------------
  887-  901 (21.65/ 8.26)	SQSGDNDDFK.GFASQ
  982-  997 (27.47/12.95)	SLSGPGLDSKPGKRSR
 1000- 1014 (22.37/ 8.84)	SNDGKSKD.KPPKRKK
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     126.23|      33|      50|     324|     373|       3
---------------------------------------------------------------------------
  298-  338 (42.96/31.64)	DLPACFFL.KFPQPIPVSRA....FVQKL.......QnctgiplfetqptyVP
  341-  371 (52.34/24.40)	ELITQFELSKDPDPIPLNHNMR..FYAAL....PGQQ................
  374-  405 (30.94/ 9.94)	.....YFLNKDA.PLPDGRSLQgtLVSKItfqhPGR...............VP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      89.48|      17|      20|     541|     558|       4
---------------------------------------------------------------------------
  541-  557 (35.50/13.19)	PPASSPGYGMTTGNNPM
  563-  578 (26.04/ 7.06)	PTNTFPGGPITTLFN.M
  629-  644 (27.94/ 7.88)	PPPVSSMAG.NTKNHPM
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     238.48|      54|      54|     700|     753|       5
---------------------------------------------------------------------------
  700-  751 (91.32/52.34)	...........PKHQTEDDFQRELF.....................SMDV....DSQNPI.........FD.V.NMTADTLDTPHITPAPSQCSTPPTT
  752-  804 (69.06/37.35)	YP......qpvPHPQ..PSIQRMVR.....................LSSS....DSIGP...........D.VtDILSDIAEEASKLPSTSDDC.PPIG
  805-  856 (50.86/25.09)	TP...vrdsssSGHS.....QSALF.....................DPDVfqtnNNENPY.........TDpA.DLIADAAGSP........SSDSPTN
  859-  937 (27.24/ 9.18)	FPdgvdfnpdlLNSQSQGGFGEEYFdessqsgdnddfkgfasqalnTLGV........PMlggdngetkFK.G.NSQADTVDFSIISVA..........
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     145.41|      48|     162|      52|     108|       7
---------------------------------------------------------------------------
   52-  108 (65.36/71.14)	SGGH....QHLVSCLETLQKalKVTSlPAMTDRlESIARQNGLGSHLSASGtecyiTSDMF
  215-  266 (80.05/54.11)	SGGHlmnlKYYASPSDLLDD..KTTS.PIILHE.NNVPRSLGMNASVTIEG.....TSAMY
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      52.43|      15|      23|     662|     676|       8
---------------------------------------------------------------------------
  662-  676 (25.42/ 9.78)	GSSPLERQNSSSGSP
  683-  697 (27.01/10.91)	GSNKTKKKKSSRLPP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      50.82|      14|      23|     451|     464|       9
---------------------------------------------------------------------------
  451-  464 (25.65/14.10)	SVSFQHPVNDSLVC
  476-  489 (25.17/13.70)	SCKLYKGLSDALIC
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     101.23|      32|     237|     938|     973|      10
---------------------------------------------------------------------------
  938-  973 (47.61/32.69)	GKalgPADLMeHHSGSQ...SPLLTTGDLGKEKTQKRVK
 1177- 1211 (53.62/25.91)	GK...PSSLM.NPSLSKpniSPSHSRPPAGSDKLASPMK
---------------------------------------------------------------------------




































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 MDP20570 with Med1 domain of Kingdom Metazoa
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