<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 MDP27587

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMGRAWPKNGRIEASFVDSNREFTGATVGSLQLLISLPPTTVGYDYVWMTYGQVFLFFSFILYLFSSQAVDYRDKDYVPVHLSYICPAIVPVDGKLLLENFTKVSSQQNQPLYGEASKIPAGSGPARDSAEDMPSSKEGDKDASRKQKIVKRPEFNNGGSLEDCVSNVYALLDLPGIKWKCFRPKPNAPRGLPLASDLILKAYSKCVLNEILATWRRKPLPPTDNTDMLPAPYFSNDSAKELWVFWFDEEPEELAKHCEGLESDEELSSANQMNIVSYEVRTILFKALHIVLERDLIKDGFVRFGRWFTVPLSARENYLHYLHSNHSPAIRFNFFVHGSHTVCASVQAQRQPTLIALAKRVLLASSSDEEPTTSYETDQANPESVPQRPRWMYEQDAPSEKPRELTYEEKEKRNQAREVRRRRRKNREERRKEQERQRSEVKNPEEYDSDVVTDPEVENKEEESVDSEIPKMVLVEIDNVRMLYPSKLICVTLDDDRQMLESMGLKTNPVPSELHVPGRRPRVKNVVNLSNPVLSTRAVVQYCENEIRQQREEMKRRCKKPIMMRKRRAAVNDTFLTWKTKYQKSYHTPIREYNMLEAADDVYVMGDKLDRYGDLCQEHERVRYQEIALEGRTTLIERKDDFHAYHKKRMMKTLKERQKRRPLKKKVKSKGSKRRQQGNVAKLARIIKPSKKIIEKKAKPAKKIKIPGTVKPSANVKPSKSVKLSRRLKSIEKALILRNKRPLTWIERWKLSKKIRGIRIKRRSIYASKNKKIKLKGKKSFCGYFWVVLRRRKRKRYYGFPGFMIEIINRRIKRKRLRTKSAEQRRERNRKIGSLNADYKKIFEESDEALTSTVRPDNDDEPKSVDKFSIHDWSKCEAEMYTPGKIPDCEIEEIKPVYDMILPNPHHEEAVKPTPFYPIHFLSNNEANNEFEMMSGDEEMSEERFNEVFKDKLNRWKPNFTRGEKIENADYQFDPSNRPVGSPKEYHLKEIPKKSKFEPVLAIPPGNKYFKGSIIKNGLGGFEKLCAEKDAQDAMKKAKYLKKTRRKVTKREIKTARACHLELKRQIVKRSLKKTLKKLRLIISKDTVVEESKKFKQSTTIRINNVRINKFLYEKELARQVLLLCDPSSIFRHVENGGPYGLCDVSGLISPDYSNTPHSFDDEHSDSEIDERYGLGEGTSDKYQDGDSVDMIEPETQVIDELPMEMNSMTDHIRTVGDHLGPDGMLSPPASNEMPKGGPLSVGPPSIESQGLNQIYPTPPSVQMLQGDASQALSPGMHIKMRYTVNTGEDDIERISIPGGGATIVEIKADDDETRNMKKWNNITKKSKLSHFLSSSCHNPIFNARKKKSDTPCTENFQIVNEIETVPSELVYKSMVTRKFDCAPHRAFAVLIQPKASDRRIPPPFTLPQPSTSVHPSLSTPMAPVFQSPALPPQHIPSPFSVGPMGHPSMGPPAYPGTPGTFPPTTPTYPQMTPRPGSNFGPAPGYSYPHQMGAPGYPGQMGQMGQMGVQRQFSNPQMFQHHQHQMQQMQMRMQQMRQMGQGVPPGYGAPGMPPYQPGTPGSGGYVTPVGGPSSVQRLNNFVNQSQFGPTNGPYGSMQPMIPQSPNFNQQYSGMGNPMGSPMVNPMMSPMQQHQFHQQQMMQQQQHHQQQQQQQQIQLQQMQRNQMQLQNSLPPQIAQPPNPQLLLMQQNEQVYNAFHGLSERDKRKFSRRQMQLKSGLMPTSLQPAAIKNLPNPPDANVPYKKQDSSIRPPDLNVPRGDSLTVAIVLSDTLLDLHFDSVFDACPICSCSVSIRSRDLGMYINPHMVLSSRERGHTNMREYTIGNWSGFHVNAPTTCTCGFSAIRHRYLSWCSGLFEEDADEATTSEHAVAPVIPPLDFPKKSTARDMVWFDSKSVHDLALIDQIRKMSYSNSLGKAVAQMGTIKEHNRNIAISVEISSDITVPSEYILSHVDTLELLMLGNSALGPMQKSGVGNQTPFSQFPQKFLNYFHPWGFQTANEITELNSSEWDDLLGLVTPTLEVSMKQVRHISPEVEFKIEGPMTWKEIVMKANRGTPLTEDDDDPALAEPIPAIMRSMPNEAIRAAPNIEQYADQALLGPIDQPKDVMYITIIPDDDLIFEQAVNFMDTVTETYETMRLGRHIPFPVSTGTATRFREVMTSFQSQFPFPEQHQQLVKAANAQLHNVSQNLAAEIDPLSKKPEYWSKKTKRKIAGQEELKQIETEDPEVNWKDKRQFKRGCRHPKLRFPEKHSTGFYDREGILRVGTPMAPVKSHQSIINTVEFENMTKHLTDSNGFVTRLRLYLQQLEDIVFNVLMDTKEAFERSGYRYQMAVEGRLKRQKHRKDIEEERIRYSHAKREDEQGNPQPPDEIEIGVGTEIGEATPEPWVDDELEEKRRQRERENEQYPPEGNQAPSPVPAGMIHIPETLSEQEKLVQPTLADIFSDPTVVAPHNAQNIAWKQRDTRVPNPFPYSNQPPVAFEATGSSDTDEYSTLPHVIVLYIVNPFTYGAEKQTALHMRIAILSFIRAFNSIVGRLPYNYRPQLQLEIIGMESMDPKAVPFPDYLNDPKIPFDILHDNRRKDAPTEYGNHQVARSLSVAVYTHPRVFFPDVYKSVSARCMTAFGPGTQLINTVNSFEKINQESYHRMLKRSKGSDSTEGYGQQGMVPPHQLTKNGYISYQIPSNISCLAPAPPVYQMDENGKPSIAQMDEQTLFVSYCLIGKEYLVATATDSQGKLIDNCLANIKPRRKNNEVYRYTTKTQILDGMGKLWSFILGVMSSDIKNWRLVVGRLGRIGHGEFRAWTHLLNKTSLLRYSSSLKDICGACRSMPTAVGTPAILSACLITLEPEPSIRIMPEIYDDEETCTKKNSVFHTPGDLSCTHILTFPVGTEINLEVQDQTSDIKAEENWEFGDLDIMEGLDDGDTEIMKDLGLETPSSAAIRHGGQTSMFFSEDSSSIEIQNQPLASGYYISTAPAPELPTWFWATCPSAKRHSPVHLKSSLHINISEVKNDDIAMESSKEKEKEKEKEEKDAHPLESRQTEEVLRHVLESYNALSWLNLNHDTGDRYSCLPIHIQHLLRLYHNVARLLG
Length3087
PositionMiddle
OrganismCaenorhabditis brenneri (Nematode worm)
KingdomMetazoa
LineageEukaryota> Metazoa> Ecdysozoa> Nematoda> Chromadorea> Rhabditida> Rhabditina> Rhabditomorpha> Rhabditoidea> Rhabditidae> Peloderinae> Caenorhabditis.
Aromaticity0.08
Grand average of hydropathy-0.675
Instability index53.56
Isoelectric point8.60
Molecular weight351600.28
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

>MDP27587
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      40.99|      13|      17|    1588|    1604|       1
---------------------------------------------------------------------------
 1493- 1506 (21.27/10.26)	APGY.....pGQMGQMGQM
 1581- 1599 (19.72/ 9.05)	VNQSqfgptnGPYGSMQPM
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      77.55|      15|      15|    1630|    1644|       2
---------------------------------------------------------------------------
 1630- 1644 (30.77/15.21)	QQHQFHQQQ..MMQQQQ
 1648- 1662 (26.49/12.03)	QQQQQQQIQ..LQQMQR
 1674- 1690 (20.30/ 7.44)	QIAQPPNPQllLMQQNE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      47.32|      13|      17|    1724|    1740|       3
---------------------------------------------------------------------------
 1724- 1740 (20.90/21.72)	QPAAIKnlpnPPDANVP
 1744- 1756 (26.42/14.29)	QDSSIR....PPDLNVP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      38.17|      14|      15|     436|     450|       4
---------------------------------------------------------------------------
  436-  450 (20.10/18.11)	QrSEVKNPEE..YDSDV
  453-  468 (18.07/ 9.40)	D.PEVENKEEesVDSEI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      44.15|      14|      17|     780|     795|       5
---------------------------------------------------------------------------
  775-  788 (25.65/ 9.43)	KGKKSFCGY..FWV.VL
  791-  807 (18.50/10.51)	RKRKRYYGFpgFMIeII
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      43.50|      13|      15|     698|     710|       6
---------------------------------------------------------------------------
  698-  710 (22.30/13.26)	KPAKKIKIPGTVK
  716-  728 (21.20/12.19)	KPSKSVKLSRRLK
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      39.66|      11|      15|     885|     895|       8
---------------------------------------------------------------------------
  885-  895 (21.55/10.67)	IPDCEIEE.IKP
  901-  912 (18.11/ 7.69)	LPNPHHEEaVKP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     173.37|      32|      32|    1400|    1431|       9
---------------------------------------------------------------------------
 1400- 1431 (61.94/31.32)	IP.PPFTL.PQPST................SVHPSLSTPMAP....VFQSPALP
 1435- 1466 (44.91/20.29)	IP.SPFSVgPMG....................HPSMGPPAYPgtpgTF.PPTTP
 1480- 1521 (25.83/ 7.92)	GPaPGYSY.PHQ..mgapgypgqmgqmgqmGVQRQFSNPQ......MFQHH...
 1535- 1559 (40.70/17.56)	.......M.RQMGQ................GVPPGYGAPGMP....PYQ.PGTP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      81.05|      27|      30|    1139|    1168|      10
---------------------------------------------------------------------------
 1139- 1151 (16.07/ 7.64)	.................YGL..............CDVSGLISPD
 1155- 1194 (36.05/13.55)	TPHSFDDEHSDSEIderYGL....gegtsdkyqdGDSVDMIEPE
 1233- 1274 (28.93/11.38)	MPKGGPLSVGPPSI.esQGLnqiyptppsvqmlqGDASQALSP.
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     201.59|      62|     857|      99|     161|      11
---------------------------------------------------------------------------
   99-  161 (102.95/66.54)	NFTKVSSQQNQPLYGEASKIPAGSgPARDSAEDMP.SSK.EGDKDASRKQKIVKRPEFNNG.GSLE
  958- 1022 (98.65/59.02)	NFTRGEKIENADYQFDPSNRPVGS.PKEYHLKEIPkKSKfEPVLAIPPGNKYFKGSIIKNGlGGFE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     126.83|      37|     855|    1337|    1387|      12
---------------------------------------------------------------------------
 1345- 1383 (61.78/51.20)	KKKSDTPCTENFQIVNEIETVPSelVYKSMVTRKFDCAP
 2049- 2085 (65.05/24.91)	KANRGTPLTEDDDDPALAEPIPA..IMRSMPNEAIRAAP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      57.96|      17|      17|     642|     658|      13
---------------------------------------------------------------------------
  642-  658 (30.84/20.84)	HAYHKKRMMKTLKERQK
  660-  676 (27.12/17.28)	RPLKKKVKSKGSKRRQQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     226.00|     105|     360|    2118|    2292|      14
---------------------------------------------------------------------------
 1024- 1080 (48.71/ 7.48)	LCAEKDAQDamKKAKYL.KKTRRKVT.KREIKTARACHLEL....KRQIvKRSLKKtlKKLRL...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................
 2130- 2187 (52.27/51.28)	...............................................................iiskdtvveeskkfkqsttirinnvrinkflyekelarqvlllcdpssifrhvenggpyglcdvsglispdysntphsfddehsdseideryglgegtsdkyqdgdsvdmiepetqvidelpmemnsmtdhirtvgdhlgpdgmlsppasnempkggplsvgppsiesqglnqiyptppsvqmlqgdasqalspgmhikmrytvntgeddierisipgggativeikadddetrnmkkwnnitkksklshflssschnpifnarkkksdtpctenfqivneietvpselvyksmvtrkfdcaphrafavliqpkasdrripppftlpqpstsvhpslstpmapvfqspalppqhipspfsvgpmghpsmgppaypgtpgtfppttptypqmtprpgsnfgpapgysyphqmgapgypgqmgqmgqmgvqrqfsnpqmfqhhqhqmqqmqmrmqqmrqmgqgvppgygapgmppyqpgtpgsggyvtpvggpssvqrlnnfvnqsqfgptngpygsmqpmipqspnfnqqysgmgnpmgspmvnpmmspmqqhqfhqqqmmqqqqhhqqqqqqqqiqlqqmqrnqmqlqnslppqiaqppnpqlllmqqneqvynafhglserdkrkfsrrqmqlksglmptslqpaaiknlpnppdanvpykkqdssirppdlnvprgdsltvaivlsdtlldlhfdsvfdacpicscsvsirsrdlgmyinphmvlssrerghtnmreytignwsgfhvnapttctcgfsairhrylswcsglfeedadeattsehavapvippldfpkkstardmvwfdsksvhdlalidqirkmsysnslgkavaqmgtikehnrniaisveissditvpseyilshvdtlellmlgnsalgpmqksgvgnqtpfsqfpqkflnyfhpwgfqtaneitelnssewddllglvtptlevsmkqvrhispevefkiegpmtwkeivmkanrgtplteddddpalaepipaimrsmpneairaapnieqyadqallgpidqpkdvmyitiipdddlifeqavnfmdtvtETYETMrlGRHIPFPVSTGtATRFREVMtSFQSQFPFPEQHQQLVKAANAQLHNvSQN
 2188- 2245 (55.21/117.75)	LAAEIDPLS..KKPEYWsKKTKRKIAgQEELKQIETEDPEVnwkdKRQF.KRGCRH..PKLRF...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................
 2402- 2454 (69.82/23.53)	............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................pekhstgfydregilrvgtpmapvkshqsiintvefenmtkhltdsngfvtrlrlylqqledivfnvlmdtkeafersgyryqmavegrlkrqkhrkdieeeriryshakredeqgnpqppdeieigvgteigeatpepwvddeleekrrqrerenEQYPPE..GNQAPSPVPAG.MIHIPETL.SEQEKLVQPTLADIFSDPTVVAPHN.AQN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      71.55|      22|      30|     368|     395|      16
---------------------------------------------------------------------------
  368-  389 (39.42/30.95)	EEP..TTSYETDQANPESVPQRPR
  399-  422 (32.13/10.60)	EKPreLTYEEKEKRNQAREVRRRR
---------------------------------------------------------------------------




































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 MDP27587 with Med13 domain of Kingdom Metazoa
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