<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. 


ECO:0000256	RuleBase:RU364059

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


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) AGKALGPADLMEHHSSSQGPLLATGDLGKEKTQKRVKEGSGTNNSTLSGPGLDSKPGKRSRTPSNDGKSKDKPPKRKKADTEGKSPSHSSSNRPFTPPTSTGGSKSPGSSGRSQTPPGVATPPIPKITIQIPKGTVMVGKPSSHSQYTSSGSVSSSGSKSHHSHSSSSSSSSASTSGKMKSSKSEGSSSSKLSSSIYSSQGSSGSGQSKNSSQSGGKPGSSPITKHGLSSSSSSTKMKPQGKPSSLMNPSLSKPNISPSHSRPPGGCDKLASPMKPVPGTPPSSKAKSPISSGSGGSHMSGTSSSSSMKSSSGLGSSGSLSQKTPPSSNSCTASSSSFSSSGSSMSSSQNQHGSSKGKSPSRNKKPSLTAVIDKLKHGVVTSGPGGEDPMDGQMGVSTNSSSHPMSSKHNMSGGEFQGKREKSDKDKSKVSTSGSSVDSSKKTSESKNVGSTGVAKIIISKHDGGSPSIKAKVTLQKPGESSGEGLRPQMASSKNYGSPLISGSTPKHERGSPSHSKSPAYTPQNLDSESESGSSIAEKSYQNSPSSDDGIRPLPEYSTEKHKKHKKEKKKVKDKDRDRDRDKDRDKKKSHSIKPESWSKSPISSDQSLSMTSNTVLSADRPSRLSPDFMIGEEDDDLMDVALIGN
2) FNMSMSIKDRHESVGHGEDFSKVSQNPILTSLLQITGNGGSTIGSSPTPPHHTPPPVSSMAGNTKNHPMLMNLLKDNPAQDFSTLYGSSPLERQNSSSGSPRMEICSGSNKTKKKKSSRLPPDKPKHQTEDDFQRELFSMDVDSQNPIFDVNMTADTLDTPHITPAPSQCSTPPATYPQPVPHPQPSIQRMVRLSSSDSIGPDVTDILSDIAEEASKLPSTSDDCPAIGTPLRDSSSSGHSQSTLFDSDVFQTNNNENPYTDPADLIADAAGSPSSDSPTNHFFHDGVDFN
3) KNLPPASSPGYGMTTGNNPMSGTTTPTNTFPGGP
4) QSQSGFGEEYFDESSQSGDNDDFKGFASQALNTLGVPMLGGDNGETKFKGNSQAD
888
527
489
824
1533
817
522
878










Molecular Recognition Features






MoRF SequenceStartStop




1) FGEEYFD
2) IKAKVTLQK
3) IRPLPEYSTEKHKKHKKEKKKVKDKDRDR
4) KITIQIPK
5) KPSLTAVIDKLKHGV
6) RLSPDFMIGEEDDDLMDV
7) VAKIIISKH
829
1356
1438
1013
1252
1511
1341
835
1364
1466
1020
1266
1528
1349