<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 MDP18227

Description Mediator of RNA polymerase II transcription subunit 1
SequenceMSSGGHQHLVSCLETLQKALKVTSLPAMTDRLESIARQNGLGSHLSASGTECYITSDMFYVEVQLDPAGQLCDVKVAHHGENPVSCPELVQQLREKNFDEFSKHLKGLVNLYNLPGDNKLKTKMYLALQSLEQDLSKMAIMYWKATNAGPLDKILHGSVGYLTPRSGGHLMNLKYYVSPSDLLDDKTASPIILHENNVSRSLGMNASVTIEGTSAMYKLPIAPLIMGSHPVDNKWTPSFSSITSANSVDLPACFFLKFPQPIPVSRACVQKLQNCTGIPLFETQPTYVPLYELITQFELSKDPDPIPLNHNMRFYAALPGQQHCYFLNKDAPLPDGRSLQGTLVSKITFQHPGRVPLILNLIRHQVAYNTLIGSCVKRTILKEDSPGLLQFEVCPLSESRFSVSFQHPVNDSLVCVVMDVQDSTHVSCKLYKGLSDALICTDDFIAKVVQRCMSIPVTMRAIRRKAETIQADTPALSLIAETVEDMVKKNLPPASSPGYGMTTGNNPMSGTTTPTNTFPGGPITTLFNMSMSIKDRHESVGHGEDFSKVSQNPILTSLLQITGNGGSTIGSSPTPPHHTPPPVSSMAGNTKNHPMLMNLLKDNPAQDFSTLYGSSPLERQNSSSGSPRMEICSGSNKTKKKKSSRLPPDKPKHQTEDDFQRELFSMDVDSQNPIFDVNMTADTLDTPHITPAPSQCSTPPATYPQPVPHPQPSIQRMVRLSSSDSIGPDVTDILSDIAEEASKLPSTSDDCPAIGTPLRDSSSSGHSQSTLFDSDVFQTNNNENPYTDPADLIADAAGSPSSDSPTNHFFHDGVDFNPDLLNSQSQSGFGEEYFDESSQSGDNDDFKGFASQALNTLGVPMLGGDNGETKFKGNSQADTVDFSIISVAGKALGPADLMEHHSSSQGPLLATGDLGKEKTQKRVKEGSGTNNSTLSGPGLDSKPGKRSRTPSNDGKSKDKPPKRKKADTEGKSPSHSSSNRPFTPPTSTGGSKSPGSSGRSQTPPGVATPPIPKITIQIPKGTVMVGKPSSHSQYTSSGSVSSSGSKSHHSHSSSSSSSSASTSGKMKSSKSEGSSSSKLSSSIYSSQGSSGSGQSKNSSQSGGKPGSSPITKHGLSSSSSSTKMKPQGKPSSLMNPSLSKPNISPSHSRPPGGCDKLASPMKPVPGTPPSSKAKSPISSGSGGSHMSGTSSSSSMKSSSGLGSSGSLSQKTPPSSNSCTASSSSFSSSGSSMSSSQNQHGSSKGKSPSRNKKPSLTAVIDKLKHGVVTSGPGGEDPMDGQMGVSTNSSSHPMSSKHNMSGGEFQGKREKSDKDKSKVSTSGSSVDSSKKTSESKNVGSTGVAKIIISKHDGGSPSIKAKVTLQKPGESSGEGLRPQMASSKNYGSPLISGSTPKHERGSPSHSKSPAYTPQNLDSESESGSSIAEKSYQNSPSSDDGIRPLPEYSTEKHKKHKKEKKKVKDKDRDRDRDKDRDKKKSHSIKPESWSKSPISSDQSLSMTSNTVLSADRPSRLSPDFMIGEEDDDLMDVALIGN
Length1533
PositionMiddle
OrganismAotus nancymaae (Ma's night monkey)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Mammalia> Eutheria> Euarchontoglires> Primates> Haplorrhini> Platyrrhini> Aotidae> Aotus.
Aromaticity0.04
Grand average of hydropathy-0.668
Instability index54.17
Isoelectric point8.77
Molecular weight162758.61
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

>MDP18227
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             7|     398.25|      50|      51|    1032|    1081|       1
---------------------------------------------------------------------------
  932-  978 (57.57/12.84)	STLSG........PGLDSKPG.KR....SRTPSNDG.......KSKDKP..PKRKKADTEGK.SPSHSSS
  983- 1030 (46.48/ 8.85)	TPPTS........TG.....G.SK.SPGSSGRSQTP.......PGVATPpiPKITIQIPKGTvMVGKPSS
 1032- 1081 (84.11/22.40)	SQYTS........SGSVSSSG.SK.SHHSHSSSSSS.......SSASTS..GKMKSSKSEGS.SSSKLSS
 1082- 1132 (49.55/ 9.95)	SIYSS........QGS.SGSGqSKnSSQSGGKPGSSpitkhglSSSSSS..TKM...KPQG.....KPSS
 1135- 1175 (53.74/11.46)	NPSLS........KPNISPS.......HSRPPGGCD.......KLASP.....MKPVPG.TP.PSSKAKS
 1217- 1264 (57.77/12.91)	SCTAS........SSSFSSSG.SS.MSSSQNQHGSS.......KGKSPS..RNKKPSLT..A.VIDKLKH
 1265- 1322 (49.01/ 9.76)	GVVTSgpggedpmDGQMGVST.NS.SSHPMSSKHNM.......SGGEFQ..GKREKSDKDKS.KVSTSGS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             5|     259.39|      50|      50|     275|     324|       2
---------------------------------------------------------------------------
  176-  216 (29.66/10.81)	................YVSPS.DLLD....DKTASPIILHENnvsrslgM...............NA...SVTIEGTSAM
  223-  268 (50.32/23.72)	....PLIMgSHPVdnkWTPSF.SSIT....SANSVDLPACFF.......L...............KF...PQPIPVSRAC
  275-  324 (91.46/49.42)	CTGIPLFE.TQPT...YVPLY.ELITQFELSKDPDPIPLNHN.......M...............RF...YAALPGQQHC
  334-  375 (35.62/14.53)	...........PD...GRSLQgTLVSKITF.QHPGRVPLILN.......L..............iRHqvaYNTLIGS..C
  385-  440 (52.33/24.97)	SPGLLQFE.V.......CPLS.E..SRFSVSFQH...PVNDS.......LvcvvmdvqdsthvscKL...YKGLSDALIC
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      40.64|      13|      19|    1385|    1401|       3
---------------------------------------------------------------------------
 1385- 1401 (19.48/16.43)	SPLISGSTpkheRGSPS
 1421- 1433 (21.17/ 6.93)	SSIAEKSY....QNSPS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      87.50|      18|      20|     492|     509|       4
---------------------------------------------------------------------------
  492-  509 (36.73/13.88)	PPASSPGYGMTTGNNPMS
  514-  530 (27.16/ 8.37)	PTNTFPGGPITTLFN.MS
  622-  639 (23.61/ 6.33)	SSSGSPRMEICSGSNKTK
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     106.26|      29|      49|     841|     870|       6
---------------------------------------------------------------------------
  841-  870 (48.04/30.46)	GD....NDDFKGFASQAlNTLGVPMLGGDNGETK
  871-  888 (21.76/ 7.79)	.........FKG.NSQA.DTVDFSIIS.....VA
  889-  918 (36.46/18.14)	GKalgpADLMEHHSSSQ....GPLLATGDLGKEK
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      70.52|      21|     117|     534|     555|       7
---------------------------------------------------------------------------
  533-  553 (36.03/18.79)	IKDRHESVGHGEDFSKVSQNP
  555-  575 (34.49/13.44)	LTSLLQITGNGGSTIGSSPTP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      70.21|      20|     116|     653|     676|       8
---------------------------------------------------------------------------
  653-  673 (32.69/24.62)	HQTEDDFQRELFSMDVDSqNP
  799-  818 (37.52/15.88)	SPSSDSPTNHFFHDGVDF.NP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     112.65|      35|     157|     584|     621|       9
---------------------------------------------------------------------------
  584-  621 (54.33/44.21)	SSMAGNTKnhPMLMNLLKDnPAQDFSTLYGSS........PLERQN
  728-  760 (22.71/ 7.62)	..........PDVTDILSD.IAEEASKLPSTSddcpaigtPL.RD.
  761-  781 (35.60/18.06)	SSSSGHSQ.................STLFDSD........VFQTNN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      87.18|      18|      51|    1353|    1370|      11
---------------------------------------------------------------------------
 1192- 1209 (28.12/ 9.29)	SSSMKSSSGLGSSGSLSQ
 1353- 1370 (29.90/10.40)	SPSIKAKVTLQKPGESSG
 1477- 1493 (29.16/ 9.94)	SHSIKPESWSKSP.ISSD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      39.52|      12|      17|    1447|    1458|      15
---------------------------------------------------------------------------
 1447- 1458 (19.60/11.54)	EKHKKHKKEKKK
 1465- 1476 (19.91/11.84)	DRDRDKDRDKKK
---------------------------------------------------------------------------




































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 MDP18227 with Med1 domain of Kingdom Metazoa
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