<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 MDP20571

Description Mediator of RNA polymerase II transcription subunit 1
SequenceMYLALQSLEQDLSKMAVMYWKATNAGPLDKILHGSVGYLTPRSGGHLMNLKYYASPSDLLDDKTTSPIILHENNVPRSLGMNASVTIEGTSAMYKLPIAPLIMGSHPVDNKWTPSFSSITSANSVDLPACFFLKFPQPIPVSRAFVQKLQNCTGIPLFETQPTYVPLYELITQFELSKDPDPIPLNHNMRFYAALPGQQHCYFLNKDAPLPDGRSLQGTLVSKITFQHPGRVPLILNLIRHQVAYNTLIGSCVKRTILKEDSPGLLQFEVCPLSESRFSVSFQHPVNDSLVCVVMDVQDSTHVSCKLYKGLSDALICTDDFIAKVVQRCMSIPVTMRAIRRKAETIQADTPALSLIAETVEDMVKKNLPPASSPGYGMTTGNNPMSGTTTPTNTFPGGPITTLFNMSMSIKDRHESVGHGEDFSKVSQNPILTSLLQITGNGGSTIGSSPTPPHHTPPPVSSMAGNTKNHPMLMNLLKDNPAQDFSTLYGSSPLERQNSSSGSPRMEICPGSNKTKKKKSSRLPPDKPKHQTEDDFQRELFSMDVDSQNPIFDVNMTADTLDTPHITPAPSQCSTPPTTYPQPVPHPQPSIQRMVRLSSSDSIGPDVTDILSDIAEEASKLPSTSDDCPPIGTPVRDSSSSGHSQSALFDPDVFQTNNNENPYTDPADLIADAAGSPSSDSPTNHFFPDGVDFNPDLLNSQSQGGFGEEYFDESSQSGDNDDFKGFASQALNTLGVPMLGGDNGETKFKGNSQADTVDFSIISVAGKALGPADLMEHHSGSQSPLLTTGDLGKEKTQKRVKEGNGTSNSSLSGPGLDSKPGKRSRTPSNDGKSKDKPPKRKKADTEGKSPSHSSSNRPFTPPTSTGGSKSPGSSGRSQTPPGVATPPIPKITIQIPKGTVMVGKPSHSQYTSSGSVSSSGSKSHHSHSSSSSSSSSASNSGKMKSSKSEGSSSSKLSSSVYSSQGSSGSSQSKNSSQSGGKPGSSPITKHGLSSGSSSTKMKPQGKPSSLMNPSLSKPNISPSHSRPPAGSDKLASPMKAVPGTPPSSKAKSPISSGSGGSHMSGTSSSTGMKSSSGLGSSGSLSQKTPPSSNSCTASSSSFSSSGSSMSSSQNQHGSSKGKSPSRNKKPSLTAVIDKLKHGVVTSGPGGEDPMDGQMGVSTNSSSHPMSSKHNMSGGEFQGKREKSDKEKSKVSTSGGSVDSSKKTSESKNVGSTGVAKIIISKHDGGSPSIKAKVTLQKPGESSGEGLRPQMASSKNYGSPLISGSTPKHERGSPSHSKSPAYTPQNLDSESESGSSIAEKSYQNSPSSDDGIRPLPEYSTEKHKKHKKEKKKVKDKDRDRDRDKDRDKKKSHSIKPESWSKSPISSDQSLSLTSNTILSTDRPSRLSPDFMIGEEDDDLMDVALIGN
Length1410
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-0.702
Instability index54.54
Isoelectric point8.95
Molecular weight149224.32
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

>MDP20571
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             5|     256.64|      47|      50|     793|     839|       1
---------------------------------------------------------------------------
  793-  839 (77.32/23.57)	KEKTQKRVKEGNGTSNS.SLSGPGLDSKPG.KRSRTPSNDGKSKDKPPK
  840-  882 (54.92/13.98)	RKKADT...EGKSPSHS.SSNRPFTPPTST.GGSKSPGSSGRSQ.TPPG
 1047- 1090 (46.52/10.38)	SSKAKSPISSGSGGSH...MSGTS..SSTGmKSSSGLGSSGSLSQKTPP
 1091- 1125 (40.54/ 7.82)	SSNS......CTASSSSfSSSGSSMSSSQN.QH.......GSSKGKSPS
 1132- 1174 (37.35/ 6.45)	LTAVIDKLKHGVVTSGP.GGEDP.MDGQMG.VSTNSSSHPMSSKH...N
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      57.16|      20|      22|     912|     933|       2
---------------------------------------------------------------------------
  913-  933 (29.79/ 8.97)	SGSVSSSgSKSHHSHSSSSSS
 1292- 1311 (27.37/ 7.30)	SESESGS.SIAEKSYQNSPSS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      47.42|      19|      20|    1177|    1196|       4
---------------------------------------------------------------------------
 1177- 1195 (28.32/ 9.11)	GGEFQGKREK.....SDKEKSKVS
 1262- 1285 (19.10/ 6.31)	SPLISGSTPKhergsPSHSKSPAY
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      59.26|      18|      20|     965|     982|       5
---------------------------------------------------------------------------
  965-  982 (33.18/13.58)	GSSGSSQSKNSSQSGGKP
 1010- 1027 (26.08/ 8.62)	LMNPSLSKPNISPSHSRP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      89.48|      17|      20|     369|     386|       6
---------------------------------------------------------------------------
  369-  385 (35.50/11.78)	PPASSPGYGMTTGNNPM
  391-  406 (26.04/ 6.21)	PTNTFPGGPITTLFN.M
  457-  472 (27.94/ 6.96)	PPPVSSMAG.NTKNHPM
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      64.33|      13|      26|     155|     167|       7
---------------------------------------------------------------------------
  127-  141 (18.07/ 7.81)	LPacFFLKFPQPIPV
  155-  167 (24.14/12.95)	IP..LFETQPTYVPL
  183-  195 (22.11/11.23)	IP..LNHNMRFYAAL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     102.62|      23|      50|     476|     498|       8
---------------------------------------------------------------------------
  476-  498 (37.70/18.25)	LLKDNP....AQDFSTLYGSSPLERQN
  499-  519 (31.60/14.04)	SSSGSP....RMEICP..GSNKTKKKK
  523-  549 (33.32/15.23)	LPPDKPkhqtEDDFQRELFSMDVDSQN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             5|     170.14|      32|      52|     550|     581|      10
---------------------------------------------------------------------------
  550-  571 (30.90/14.08)	......................PIFDV.NM.TADTL.D.TPHITP.......APS
  572-  590 (32.66/15.43)	QCSTPPTTYP..........................qP.VPH..P.......QPS
  596-  625 (35.84/17.87)	RLSSSDSI.G............P..DVtDI.LSDIA.E.EASKLP.......STS
  626-  676 (33.20/15.85)	DDC.PPIGTPvrdssssghsqsALFDP.DVfQTNNN.E.NPYTDPadliadaAGS
  677-  702 (37.53/19.17)	PSSDSPT..N............HFF.......PDGV.DfNPDLLN.......SQS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     182.38|      48|      55|     204|     252|      13
---------------------------------------------------------------------------
  201-  249 (71.21/39.18)	.C...yfLNKDAP..LP.DGRSLQGTLVSKITFQHPGRVPLILNLIRHQVAYNTLI
  251-  303 (60.97/34.18)	SCvkrtiLKEDSPglLQfEVCPLSESRFS.VSFQHPVNDSLV..CVVMDVQDSTHV
  304-  342 (50.20/22.79)	SC....kLYKG....LS.DALICTDDFIAKVV.QRCMSIPVTMRAIRRK.......
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      39.52|      12|      19|    1324|    1335|      14
---------------------------------------------------------------------------
 1324- 1335 (19.60/12.83)	EKHKKHKKEKKK
 1342- 1353 (19.91/13.16)	DRDRDKDRDKKK
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      39.83|      13|      19|    1219|    1231|      15
---------------------------------------------------------------------------
 1219- 1231 (23.35/14.30)	AKIIISK.....HDGGSP
 1235- 1252 (16.48/ 7.56)	AKVTLQKpgessGEGLRP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      48.18|      13|      19|     418|     430|      16
---------------------------------------------------------------------------
  418-  430 (24.17/11.40)	GHGEDFSKVSQNP
  440-  452 (24.01/11.26)	GNGGSTIGSSPTP
---------------------------------------------------------------------------




































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 MDP20571 with Med1 domain of Kingdom Metazoa
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