<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 MDP04923

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMSSSSKVTPTNGGTLEDCHTNVFALTELNGLKWKCLTTPLTNRQWTNVENDPILQAYSKCLQSGILCAWRRQPTHTSNQLSTLQLPDYRIDVIKELWIFWYSQDEPEALAQYTSNLACAEDGVGNWSVPGIQYETRTLFFKALHNLIERNLLKNGYIRIGKYFTQPYDLPLADRMHCSPSYITGISFNFFVHGENTVCTSVSVQRQPTIYKLTKQHLNNHKKQPIILGPWSIRAFLIAEQPFIVNNSYGNGGMNSGNNYGGGAMNLGVNMDANQFASSGCAGNAAGIGNMGYASTMDTNNSINMGPTGTGNINSNEKVIDKLYNEWLQFFALPNSGIETGAFQSTVRVGENKENSRENESNELPKMVLVDVDGIHMWYPSSLIVVQACDDLLLRNEGCESSDEDLNMNMNNNNNSANNNGINKPSTSTSNCYYYCNSNNKSNKLHKKYKKHLHNNTNNNNIDNELVNENGERRNLMYNGMVNGARAAQRFFEEACFMPSSSRRHPPQASSIGLLMSSGSMDDDTRWNFSDALRRKEKESDNCSCRQCDYAAVSGQYRSDNLNGNSTSFSTSVLQSGLMSPQSVSRQSAQVVMPTPSTSGLSFAGASYDVKPDSPRGSNLELFHRRSPLFARTPSPPRSPEWEKRLAGLGGDGPGLVGQDNLDGRLSATLQSPNWVHESHVSNPNSNSGGSQSCTPAGASSDRYEYPESPSIPQIETQSSSRLSYRKVNRKRLGPKVNSGSGQDLVNSNDKLVKSEPIYQNISPSTSRPRSPVVATANANNQMSANVVDSLGRLLAGNETGNGSKYGERGMSRRGVKGAEVDYYNESSEREETVGQDKGEEVDGCEYKKRRNRRKQRLKMGNNNGARKLIWNGIDSLDVSFVAKEIGEDERYTEYGSDMEFLKENVESELDTVKTEDRNANKNMQYIANNVNNNNISSTETCQSQRSNMQTYSHGNNNNSNGTNNFNDHCSSPSTVAMIDTSSPMEVVNDSVHLSPPASNERVEPQTIAFGGGAMTNNLLARVGGPPSVGDYMIYPTPPSVDATQSQPFSPQSILMQSTAPNSIYATSLASPYIVQSYAGTPYITNNINNNNNNNSNNSNSTIQEMDYSENLITNIKKEPPEDKTEQTLKNIMETDEKPDEKLERLLGEKPVYGNAKKFEIALSGKFGGDIFKGDPLPIEVKNYRIPQSAYADQLKVVQQALQLRQKRRKIHKPPEYLMLKAERHFGGAHSHHAHHHHHHMPHAICPPSSMINPRFLSPGTSTYRNSYNFAANNSANANNNVSNMNAAVAGMQGSPMCGSNMAPPPHHFQQQQQQQACMSAGGQMLPVGANGPFMTSNNVPYGMNTATMNQQGMMMLGNNINSNNSNNNSMYNNMLPCTSTMPQQHIPSSPQSSQLRPMAMPAAQRPSQLPHLSPYSQQQQQGANNPAAAGFMVSSTHHQNNQYAGGSAVGMPTSSSSTQQMLMQSMQVAGGGNAPGAGPGTCPPMGAGLSMIAAGQPGPMMPHHAAGGTGPQQPGPGGPSPPFQQLNQFVNNTNFNFGNNSNSNQQTAMGSGAAQSMFQQQQQQMMYRNAAMGAGNPNLGTPQQQHSINSPGGYMMDSRCPTPIEPPPPFSQAVTSHYSAAAAIQSSNAAIYSTSSQQQQQMMRSASQSALSSNANNPRAMSAFPQTQSQPGTPYMQQGGPITSMSSMVPSGANSAHLYQQTRPNTVSGPPLGMQAMLDLNTQGTVVPHAAGMQQPQQQHPHGTPTGQMVPAKAVPLHPEGKSLVLAILLQDTVLDLHYDCVFDACPICSCNANIRAKELGMYITPPEVLRQSPAQQQLVVNKPTSGFYNNTSNHCNCGFSAVRHRYLSMKSGLFSEDAKEATDISENQTQPVIPHTIWFDSMSGRDMNFIALLREQTLVRDLGGIVQKVTMLNLQCERATQLERLGSDSSDPTEYIISEIDQRELPLVYQAACEVACMEMNCRRQKSVNRNIVMHEWGVQIANEMREPRESECLAVLNEVAPILEETLRIARSAPLVGTNNIVEGPLTWRFFDRKSLKTGSGMDDDSAPEPVPNILLASERDAIIASPTILRMWDKMQLEPYDQPKDILYIAVIPDNQICVDKSKKFFDDLSRIYEQCRFGRHIPFSRDPFKDGLLRVPSRYLSTTNHSEFDNFLNQVERHMADYKGLIAKLKAYMQYFENEVSRVLLNSDCVFNRDTYRSLIVEQQMHANLAASHNSSNSASYQTGGGAMSGSISSACEQMPPPAAPGSVSAGLGSAGNSQMMDTSQGGPRSVDQGGPLGSSSGAGGLLNCSAGSSGSLVDSIGSSDMSGGLGGGNDANAAMNSGNPGGTGGLTGSQLVTSLIQEQLNDGSIPDDDPGALPHVIVLYLVNPFLMGAEENALVARVVTVALMRSFNALLYRLNVKRRTQLQLEIVSLESIFDYNTNCADFAKDDRGRLNAFDQGRIEKSLNERMTSSDSLKTLALSVYSQSRIVLSDIVRGILPKSMTRFGPASAMNDLLNEIDKKEPIFYKVPCKPYILAPPSPVMQKCSGDIMQLNSDETVLFVSYCLIGNDWLGATVTDHQGHLLDNCLINLRLKPDHKRVNMRYKSSTQIRDSLYRLWSYILGILATSTKNWRLVIGRVGRIGHGEFKFWTQLLSKSYLKQVGSKMKQACRSCHMMPGTTEIPGVLSACLVSLEPEAHLRLFPSSFQHDERFVKNAKYRTLTTPDDCSCTHILVFPTSPELNLDHQGGSGGGECEEDDFSNLLSEEIGEEFSDLIGNGEDLMTNTTQQTQQNGSFRVGGNTGIPSEYADITIENQPLATGYYVSTAPAAELPDWFWCACPSAKRRNPVHLKCSLHLNTPCVQQGDDISSFGSKQSEQSHHQLDSQATVDVLRYVLETYNALSWLNMDFVTGERRSCLPIHIQALMRLCNTANRLIN
Length2921
PositionMiddle
OrganismAnisakis simplex (Herring worm)
KingdomMetazoa
LineageEukaryota> Metazoa> Ecdysozoa> Nematoda> Chromadorea> Rhabditida> Spirurina> Ascaridomorpha> Ascaridoidea> Anisakidae> Anisakis> Anisakis simplex complex.
Aromaticity0.07
Grand average of hydropathy-0.555
Instability index53.74
Isoelectric point6.25
Molecular weight320004.45
Publications









Function






Annotated function

Component of the Mediator complex, a coactivator involved in
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

>MDP04923
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      78.75|      19|      22|    1428|    1446|       1
---------------------------------------------------------------------------
 1428- 1446 (33.61/15.55)	AAGFM...VSSTHHQN.....NQYAGG
 1448- 1471 (23.08/ 7.82)	AVGMP...TSSSSTQQmlmqsMQVAGG
 1574- 1593 (22.07/ 7.07)	AGN.PnlgTPQQQHSI.....N.SPGG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      40.43|      13|      18|    2226|    2243|       3
---------------------------------------------------------------------------
 2226- 2239 (21.36/ 7.14)	QTG......GGAMsGSISSA
 2269- 2287 (19.07/ 6.94)	QGGprsvdqGGPL.GSSSGA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      44.27|      14|      18|    1114|    1131|       4
---------------------------------------------------------------------------
 1118- 1131 (25.04/10.15)	EPPEDKTEQTL..KNI
 1136- 1151 (19.24/12.17)	EKPDEKLERLLgeKPV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             5|     187.94|      29|      44|     405|     433|       5
---------------------------------------------------------------------------
  405-  429 (43.18/21.55)	.....LNMNMNNNNNSANNNGINK..PST...STS
  922-  946 (34.07/14.89)	NMQY.IANNVNNNN.......ISS..TETcqsQRS
  947-  973 (43.74/21.96)	NMQTySH...GNNNNSNGTNNFND..HCS...SPS
 1082- 1101 (29.40/11.47)	...Y.ITNNINNNNN.NNSNNSNS..T........
 1353- 1380 (37.56/17.44)	.MMM.LGNNI.NSNNSNNNSMYNNmlPCT...ST.
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     138.72|      23|      57|    1271|    1293|       6
---------------------------------------------------------------------------
 1271- 1293 (37.55/16.43)	ANN.S.....ANANNNVS.NMNAAVAGMQG
 1329- 1352 (41.98/19.40)	ANG.P.....FMTSNNVPyGMNTATMNQQG
 1530- 1547 (25.98/ 8.68)	VNNtN.....FNFGNN.S.NSN.....QQT
 1655- 1679 (33.21/13.52)	ANN.PramsaFPQTQSQP.G..TPYM.QQG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             5|     108.15|      21|      57|     802|     822|       8
---------------------------------------------------------------------------
  792-  808 (19.41/ 8.65)	....RLLAGNETGN.......GSKYGER
  809-  829 (32.28/20.39)	GMSRRGVKGAEVDY.......YNESSER
  830-  848 (16.77/ 6.24)	EETVGQDKGEEV........dGCEYKK.
  849-  866 (19.13/ 8.39)	...RRNRRKQRLKM.......GNNNGAR
  867-  894 (20.56/ 9.70)	KLIWNGIDSLDVSFvakeigeDERYTEY
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      99.94|      22|     409|    1305|    1326|       9
---------------------------------------------------------------------------
 1305- 1326 (48.52/19.22)	PHHFQQQQQQQACMSAGGQMLP
 1387- 1404 (24.13/ 6.25)	PSSPQSSQLRPMAMPAAQ....
 1734- 1751 (27.30/ 7.94)	....QQPQQQHPHGTPTGQMVP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      43.18|      11|      32|     631|     641|      10
---------------------------------------------------------------------------
  631-  641 (23.70/13.32)	RTPSPPRSPEW
  664-  674 (19.48/ 9.16)	RLSATLQSPNW
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     109.50|      28|     409|    2324|    2351|      11
---------------------------------------------------------------------------
 2324- 2351 (47.91/26.33)	MNSGNPGG..TGGLTG.......SQLVTSLIQEQLND
 2726- 2758 (36.73/18.07)	LNLDHQGG..SGG..GeceeddfSNLLSEEIGEEFSD
 2772- 2800 (24.85/ 9.31)	QQTQQNGSfrVGGNTG.....ipSEYADITIENQ...
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      71.14|      19|     409|    2240|    2258|      12
---------------------------------------------------------------------------
 2240- 2258 (37.99/20.51)	CEQMP.PPAAPGSVSAGLGS
 2658- 2677 (33.15/16.86)	CHMMPgTTEIPGVLSACLVS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      82.01|      25|      44|    1901|    1925|      14
---------------------------------------------------------------------------
 1901- 1925 (42.15/26.60)	RDLGGIVQ...KVTMLNLQCERATQLER
 1944- 1971 (39.86/24.74)	RELPLVYQaacEVACMEMNCRRQKSVNR
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      55.56|      14|      37|    1515|    1528|      15
---------------------------------------------------------------------------
 1515- 1528 (30.59/14.23)	GPGGPSPPFQQLNQ
 1550- 1563 (24.97/10.05)	GSGAAQSMFQQQQQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     107.83|      34|      45|     983|    1026|      16
---------------------------------------------------------------------------
  983- 1026 (47.86/45.47)	PMEVVNDSVHLSppasnervePQTIAFGGGAmTNNLLARVGGPP
 1038- 1071 (59.96/32.44)	PSVDATQSQPFS.........PQSILMQSTA.PNSIYATSLASP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      50.46|      14|      45|    1789|    1802|      17
---------------------------------------------------------------------------
 1789- 1802 (26.69/14.36)	CSCN.ANIRAKELGM
 1836- 1850 (23.77/11.97)	CNCGfSAVRHRYLSM
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      67.83|      19|      45|    2021|    2039|      18
---------------------------------------------------------------------------
 2021- 2039 (34.30/22.06)	NNIVEGPLTWRFFDRKSLK
 2063- 2081 (33.53/21.40)	DAIIASPTILRMWDKMQLE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      48.98|      14|      16|     587|     600|      19
---------------------------------------------------------------------------
  587-  600 (24.41/11.29)	SAQVVMPTPSTSGL
  606-  619 (24.56/11.42)	SYDVKPDSPRGSNL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      82.09|      25|      52|     683|     710|      20
---------------------------------------------------------------------------
  683-  710 (44.17/30.93)	PNSNSGGSQSCTPagaSSDRYEYPE......SPS
  734-  764 (37.92/18.84)	PKVNSGSGQDLVN...SNDKLVKSEpiyqniSPS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      52.78|      17|      45|    1707|    1726|      21
---------------------------------------------------------------------------
 1680- 1706 (20.34/11.59)	GPITSMSSMVpsgansaHLYQQtrpNT
 1709- 1725 (32.44/16.48)	GPPLGMQAML.......DLNTQ...GT
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      88.86|      26|      44|     333|     358|      22
---------------------------------------------------------------------------
  333-  358 (44.21/30.62)	PNSGIETGAFQSTVRVGENKENSREN
  379-  404 (44.65/31.02)	PSSLIVVQACDDLLLRNEGCESSDED
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     132.23|      42|     323|    2537|    2588|      23
---------------------------------------------------------------------------
 2537- 2588 (68.24/74.94)	QLNSDETVLFVSYCL.IGN..DWLGAT.VTDHQghllDNCLinlrlkPDHKRVNMR
 2866- 2911 (64.00/45.73)	QLDSQATVDVLRYVLeTYNalSWLNMDfVTGER....RSCL......PIHIQALMR
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     117.54|      35|     323|     149|     185|      26
---------------------------------------------------------------------------
  149-  185 (60.96/41.31)	RNLLKNGYI...RIG.KYFTQPYDLPLADRMHcsPSYITGI
  473-  511 (56.57/31.53)	RNLMYNGMVngaRAAqRFFEEACFMPSSSRRH..PPQASSI
---------------------------------------------------------------------------




































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 MDP04923 with Med13 domain of Kingdom Metazoa
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