<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 MDP17859

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMFTNVFRIGGLQQVSWFQLIAEGESLSPKISIGEERSQQDVAAMQVIRAHMWLQEAGTLSSWTLSDSKVKLWLFLPGRHDGLNPRVHAAVAGLKVVGSGLWRAPGECTEVGFALDQALRNRIEKGFQTVSYVRFGDVFVKCLRQSSSELNLRKSLFSCELVFTASNDAIFVHVFVRRKRVRQLAISDLQAALAQQRSNLGMCDNSLAVIVAPNGLSGLLTGCSPDDLVTQLYKSKIQAYDASSLPFHVVGSTSATGTTPVQMCYAEVLLDQLSGSTRATRSSAPEASETKSHGKAFNSADGGHVLIYPLDAVLAPMRSEVPTHPFIRRCWFQDWAGATWLEDGMNEQVPPLNSKNGLDGGESREKSTITEFGANGSVPGHSSGPGTSSNSSGGSTSSSSQGSSGTSSSSDADGDGLGEIEADGDSLGSKAAGVLASKHGPSTSLQGLDMDTSDMKNSLGYSQGTKRGRQVKPTAAFDFPSKALKRSNSIGNDVLELVDGPSNDKKGAGFLGESSGFGGGIMGAGTPRGGGSQSGNPWDQWDNNDTFGMGLGMDIQSDADILAEFGDFGDFFEDDGLGFGEPPDTAESQALMFTLPDYGEVSQTPGTAPLDASDPLVLPILDFPMLGKDQSTGDLLSEMKPITSMEVSQAPIGVPPSPTQQPLELNLRLKSEAMLCFASGFEPVDMTGVPDVGVSTLRDPYVPASKRKAVESVQKETYQYSATPVSYPSIERKDVGKDEQGSTKSPNDFGDSKKKKELTADYIVVTGSHGSKHVNGKLPTTDDKGPDRAAGMTLLSNKQPADISGGGGNGTQIPGNSLAAHSPSSLKHKDGKKSPTRSSVAVLATELECALLQVMICRAQDSSSSNSGNSGAASPGNEAARYSPLPSKDSGSEITQVQSDTLAQSTSGLGKPHQERQKKVPERIAGFADDDMQDGGSRVAQVGVWRPVGVPNPLRSSNTISSKYANAVDLPVGVSNTSPIDPTMDDVMGSAERQCQWQEILEAVPLLAQQASTAVDVSLDGQYEDGPFGWLAAQEVQRQQRKRRSDCSQAGGGGMLASTRCLDQSGMEILDPLSAEISAATIASLLQSDVRMAISNAFGDTAADGPLALIDWCKGCVQGSDGGLCAESTNTEVNSTVTVVGESMTPSQSGGVLKGADIDDIRRNSSSSRAVDSSSLSDQTDPSQRRGLSDDSGFSHADALGYNESSILAIPTPSLLVGYQEDWLKTSSSALHLWEKAPLEPYAPSKQVNYHVICLASEPLVTATADFFQQLSSVYEVCRLGSHMPVGTAAGQSGSIASSSKQALSGFSLVDISGVSHSTARREYFTASNYSLAKAFVADMTANWNMAEYRKALKKACKALPISSGSSVSQREPEQGPCTVVYVVCPVSDPAGILQIMVDACTSLGSGITGADSQRHGPSTPGEDAMSSNILGFSIPRFALQLVTAETIFKNSGPQASSVDVLKEVALGVYNKVRRIPRRSQRTEGLQNAGAAGSRGQGGNIGNPSGIQSNASMPGLWKDCSGQRSSGNPTMATVNSSNNHNMWENSWKQSIQTDLGTASNEITEEKIRYMYEPAYILARSGAQAPARTLSCDATRDAVAVSSHRTSAAASSGPDVDSTATTERLDGDASSAAQQAADLYCCYTWSEDWNWLVSVWTDARGELLDTLLLPLTGIDTTRENCLRLLFDQILQQGLQLLNLAVEAGSCRSRGLNITRLGGFYVRECQEWHRVIILAGADEMRKWPVQIRHPDCYSSNSVGGTGSSSDIGLMTDRGLGLAGSGPTSPSPSSSSFGGRGKPSHYSKSGAEMSSGMNRLQNQATNQMAATEPNSGGFKWVHSISLVSVRVDQSLQIVSTTDGPPEGNSSSGPSWPAGSGSASSGVVSMGVNAVKTLALTGASYLVVPSHVNRPLSSSSLELLLETPYSEQSPLAQLLQSSGVAFPVSTAYAVSAGTSSTINDFAQKGMKEDWPSTMSVGLVAHYGTSSRLGTPVQDSAGVAMSKSFKSTVVESKEQALEVHRVLQAVASDLHALSWLNVGLTYVKRRSPLPFHCIKYQKT
Length2053
PositionKinase
OrganismPhyscomitrella patens subsp. patens (Moss)
KingdomViridiplantae
LineageEukaryota> Viridiplantae> Streptophyta> Embryophyta> Bryophyta> Bryophytina> Bryopsida> Funariidae> Funariales> Funariaceae> Physcomitrium.
Aromaticity0.06
Grand average of hydropathy-0.318
Instability index49.53
Isoelectric point5.31
Molecular weight216767.95
Publications
PubMed=18079367
PubMed=29237241

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. 
ECO:0000256	RuleBase:RU364134
GO - Cellular Component
mediator complex	GO:0016592	IBA:GO_Central
GO - Biological Function
transcription coregulator activity	GO:0003712	IBA:GO_Central
GO - Biological Process
regulation of transcription by RNA polymerase II	GO:0006357	IBA:GO_Central

Interaction

Binary Interactions











Repeat regions





Repeats

>MDP17859
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      67.09|      26|      29|     372|     397|       1
---------------------------------------------------------------------------
  360-  388 (37.81/15.84)	GESREKSTItefGANG.SVPGHSSGPGTSS
  389-  418 (29.27/10.25)	NSSGGSTSSssqGSSGtSSSSDADGDGLGE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     122.28|      27|      29|     543|     569|       2
---------------------------------------------------------------------------
  516-  538 (32.28/14.98)	...FGGGI.MGAGTPRGGGSQSGNPWD
  543-  569 (48.44/27.04)	NDTFGMGLGMDIQSDADILAEFGDFGD
  573-  599 (41.56/21.91)	DDGLGFGEPPDTAESQALMFTLPDYGE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     525.49|     176|     357|    1371|    1587|       3
---------------------------------------------------------------------------
  850-  986 (149.78/61.27)	LLQVMI..CRAQDS..SSSNSGNSGAASPGNEA..........ARYS.PLPS.....KDSGSEITQVqsDTLAQSTSGLgkphQERQKKVPERiaGFADDDMQDGGSrVAQVGVWRPVGVPNPLRSSNTISSKYanavdlPVGVSNTSPIDPTMDDV..........................................................
 1392- 1587 (282.58/154.14)	ILQIMVdaCTSLGSgiTGADSQRHGPSTPGEDAmssnilgfsiPRFAlQLVTaetifKNSGPQASSV..DVLKEVALGV....YNKVRRIPRR..SQRTEGLQNAGA.AGSRGQGGNIGNPSGIQSNASMPGLW......KDCSGQRSSGNPTMATVNSSNNHNMWENSW...KQSIQTDLGTASNEITEEKIRYMYEP.AYILARSGAQAPART
 1855- 1941 (93.13/27.71)	......................................................................................................................GPPEG..NSSSGPS.W......PAGSGSASSGVVSMG.VNAVKTLALTGASYlvvPSHVNRPLSSSSLELLLETPYSEQSPlAQLLQSSGVAFPVST
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     179.57|      49|     357|     424|     473|       4
---------------------------------------------------------------------------
  424-  465 (64.26/33.29)	....................DSLGSKAAGVLASKHGPSTSLQGL.DMDTSD....MK..NSLGYSQGTK
  467-  506 (25.88/10.10)	GRQVKPTaafdfpskalkrsNSIGN...DVLELVDGPSNDKKG..........................
  616-  651 (29.69/10.91)	.............................VLPILDFP...MLGK.DQSTGDllseMKpiTSMEVSQAPI
  652-  705 (59.74/27.77)	GVPPSPT...qqplelnlrlKS...EAMLCFASGFEP.VDMTGVpDVGVST....LR..DP..YVPASK
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     303.25|      96|     238|    1049|    1150|       6
---------------------------------------------------------------------------
 1049- 1150 (151.24/105.87)	AGGGGMLASTRCLDQSGMEILDPLSAEISAATIASLLQSDVRMAisNAF.GDTAADGPL.....ALIDWCKGcVQGSDGGLCAESTNTEVNSTVTVVgesMTP.SQSGG
 1289- 1391 (152.01/89.41)	AGQSGSIASSSKQALSGFSLVDISGVSHSTARREYFTASNYSLA..KAFvADMTANWNMaeyrkALKKACKA.LPISSGSSVSQREPEQGPCTVVYV...VCPvSDPAG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     123.77|      31|      32|    1189|    1219|       7
---------------------------------------------------------------------------
 1171- 1201 (49.86/29.13)	DSSSLSDQTDPSQRRGLSDDSGFSHADALGY
 1202- 1232 (51.26/30.18)	NESSILAIPTPSLLVGYQEDWLKTSSSALHL
 1233- 1250 (22.65/ 8.58)	WEKAPLEPYAPSKQVNYH.............
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      61.24|      19|      32|     996|    1017|       8
---------------------------------------------------------------------------
  996- 1017 (26.56/26.47)	WqeiLEAVPLLAQQASTAVDVS
 1029- 1047 (34.68/24.43)	W...LAAQEVQRQQRKRRSDCS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     302.08|     100|    1589|      25|     133|       9
---------------------------------------------------------------------------
   25-  133 (155.07/97.27)	SLSPKI..SIGEERSQQDV..AAMQVIR...AHMWLQEAGTL.SSWTlsDSKVKLW..LFLPgrHDGLNPRVHAAVAGL..KVVGSGLwRAPGECTEVGFALDQALRNRIEKGFqtvsYVR
 1609- 1720 (147.00/72.76)	SSGPDVdsTATTERLDGDAssAAQQAADlycCYTWSEDWNWLvSVWT..DARGELLdtLLLP..LTGIDTTRENCLRLLfdQILQQGL.QLLNLAVEAGSCRSRGLNITRLGGF....YVR
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     170.57|      54|     960|     783|     838|      10
---------------------------------------------------------------------------
  741-  768 (30.20/ 7.97)	............................STKSPNDF.GD.SKKKKELTADYIVVTGSH
  769-  823 (89.74/43.61)	GSKHVNGkLPTTDDKG..PDRAAGMTLLSNKQPADISGG.GGNGTQIPGNSLAAHSPS
 1751- 1794 (50.63/19.33)	SSNSVGG.TGSSSDIGlmTDRGLGLAGSGPTSPSPSSSSfGGRGK.............
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     117.87|      39|    1841|     144|     190|      14
---------------------------------------------------------------------------
  144-  190 (53.44/58.66)	QSSSELNLRKSLFSceLVFTASNDAIFVHvfvrrkRVRQLAISDLQA
 1988- 2026 (64.43/45.55)	QDSAGVAMSKSFKS..TVVESKEQALEVH......RVLQAVASDLHA
---------------------------------------------------------------------------




































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 MDP17859 with Med13 domain of Kingdom Viridiplantae


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) EDGMNEQVPPLNSKNGLDGGESREKSTITEFGANGSVPGHSSGPGTSSNSSGGSTSSSSQGSSGTSSSSDADGDGLGEIEADGDSLGSKAAGVLASKHGPSTSLQGLDMDTSDMKNSLGYSQGTKRGRQVKPTAAFDFPSKA
2) GFGGGIMGAGTPRGGGSQSGNPWDQWDNNDTF
3) HGSKHVNGKLPTTDDKGPDRAAGMTLLSNKQPADISGGGGNGTQIPGNSLAAHSPSSLKHKDGKKSPTRSSV
4) IPRRSQRTEGLQNAGAAGSRGQGGNIGNPSGIQSNASMPGLWKDCSGQRSSGNPTMATVNSSNNHNMWENSWKQSI
5) LMTDRGLGLAGSGPTSPSPSSSSFGGRGKPSHYSKSGAEMSSGMNRLQNQATNQMAATEPN
6) QDSSSSNSGNSGAASPGNEAARYSPLPSKDSGSEITQVQSDTLAQSTSGLGKPHQERQKKVPERIAGFADDDMQ
7) YSATPVSYPSIERKDVGKDEQGSTKSPNDFGDSK
341
515
768
1475
1766
859
719
482
546
839
1550
1826
932
752










Molecular Recognition Features






MoRF SequenceStartStop




1) DILAEFGDFGDFFEDDGLGF
559
578