<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 MDP00159

Description Mediator of RNA polymerase II transcription subunit 13 (Fragment)
SequenceMWTNIFKIGGLHQISWFQFLPNEFDFNALSDKSSKVDQKDAATSVVLSAHLQLQKEGLLSTWTNSFVGPWDPSQGLHNPDEKIKLWLFIPGQHSSVIEKAQPAVAKLRVLACGLWVSPGDSEEVAAALSQALRNCIERALRGLSYVRFGDVFSKYHPFTQNEELFRRGQPVAEFIFAASEEAIFVHVIISAKHVRALSSGDIGPFLSSSSRRSNDRISVIASPHGMRGKLTGCCPGDLVKQVYMSSAKFRGSNGIIGLPHHAAQGSVLPAQMRGQNCYVEVTIGCQDKMGRNNVYSRSNLPQTHGTEPPPVGLGTQRWPPEKLPFCEKMFVYPAEAVLVPVMQTSFARSSLKSDDKLDSRVGSSPSGARSLHGYRSSSNSNSSSNCSISSSSSDSDRKTLGASDLDADADSIMSRQSGLSSLGQMQNDGLQSGSKRPRSGTSESFGQAGMVLNPSMTDYGAMEVNNVSITGVANEQIGSEWDWDDDERGMGVDIQALLSEFGDFGDFFESDVLPLGEPPGNVESQAPMFPAPEGGELCSSPSNSLMDVSDQMLLPVGFQNFDNNLQISAPLEDIANKNQEATMISTSGQVSSVLSSFSGEFDHVVKAEALMTFAPEYGGVETSKSEISFVIFRSPYIPKSCKVDSASSSNNYVYSATPPSSPCFDGFDEKSILSASMKTCAEKDSTSVLKSMKYYTHVERGKQQIGGSSNRFSKGELGVASSQFSVVSQTNVKAVSTKASEGSLGEDNIPSSRTVLATEIECLMCQASMCRLRHTLLSSSNQSPTGMSGLSESSTPNQANVDSSTMTDNISSKSELKKKEIIPVRIAGDIDGGILDGPLTAPVGVWRSVGIPKVAKSSTSMEICPSIPHNSFIEESMLSYGLRQPLQELLDGIALLVQQATSFVDVALDADCGDGPYGWLALQEQWRRGFSCGPSMVHAGCGGLLASSHSLDIAGMELVDPLSVEVQASLTISLLQSDIKAALKSAFSTVDGPLSVTDWCRGRSPSSESGCDGLSAESIASANECRETSSTVTLSVGDPMSPSLTSVGGSSSLKADGIRGDEAGASLSELDHQQFLRILPTLSVVPFPSILVGYQDDWLKTSASSLQVWEKAPLEPYATAKHMSYYVVCPNIDPLTKAASDFFLQLGTVYETCKLGTHAPQSLGNEMEIDSGKISPGFVLLDCPQSMKIDTNNASMLGSISDYFLCLSNGWDLTSYLKTLSKVLKGLKFGSSPTVNAKDGNGGPCTVVYVVCPFPEPLAVLKTVVESSIAIGSVIRSSDKERRSMMHNQVAKALSYPAAVDESFSNVLTLSGFSIPKLVLQIVTVDAVFRVTSPTLSELIILKEIAFTVYNKARRILRGASGEMTQSSSVSGRSHSALMQMASPVPGMWKDCVGPRSLGPPLQRESELDASLRPGAWDNSWQSARSGGLGCDPNRSGDAFPLDEIRCLFEPLFILAEPGSLERGISPFLGNSGDSSKLLSDDCASTSFAQSSASSGSGDNNGPVSQHEPMDSDGFGTGHQKALPSLHCCYGWTEDWRWMVCVWTDSRGELLDSYVYPFGGVSSRQDTKGLQSLFIQILQQGCQILQACSPDVGIAKPRDLVIARVGCFFELECQEWQKALYSAGGPEVKKWSLQLRRSFPDGIPPNSNGNSLQQQEMSLMQERSSPSPLYSTHAKASAFMKGGIGQPSSRKQIMGGHAVLDNSKGLLQWVQSISFVSVSIDHSLQLVFQADSTSPGTSQGSATSGQSVYLEGYTPVKSLGSTSASYILIPSPRMRFLPPSILQLPTCLTADSPPLAHLLHSKGSAIPLSTGFVVSKAVPSMRKDSKSHSKEEWPSILSVSLVDYYGGNNFSKEKLLAYKGTHVILASIAAELHALSWMTVSPAYLDRRSALPFHCDMVLRLRRLLHFADKD
Length1911
PositionKinase
OrganismErythranthe guttata (Yellow monkey flower) (Mimulus guttatus)
KingdomViridiplantae
LineageEukaryota> Viridiplantae> Streptophyta> Embryophyta> Tracheophyta> Spermatophyta> Magnoliopsida> eudicotyledons> Gunneridae> Pentapetalae> asterids> lamiids> Lamiales> Phrymaceae> Erythranthe.
Aromaticity0.07
Grand average of hydropathy-0.184
Instability index54.32
Isoelectric point5.55
Molecular weight205348.45
Publications
PubMed=24225854

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
>MDP00159
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     253.99|      75|     209|    1378|    1453|       1
---------------------------------------------------------------------------
 1378- 1453 (140.22/76.65)	LMQMASPVPGMWK..DCVGPRsLGPPLQRE.SELDASLRP..GAWDNSW..QSARSGGLGCDPNRSGDAFPLDEIRCLFE.....PLF
 1584- 1670 (113.77/57.93)	ILQACSPDVGIAKprDLVIAR.VGCFFELEcQEWQKALYSagGPEVKKWslQLRRSFPDGIPPNSNGNSLQQQEMSLMQErsspsPLY
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     231.62|      72|     178|    1491|    1576|       2
---------------------------------------------------------------------------
 1060- 1145 (110.12/60.75)	GDEAG.ASLSE.LDHQQFlrilPTLSVVPFPSILV..GYQDDWlktsASSLQVWEKAP...LEPYAtakhMSYYVVCPNIDplTKAASDFFLQ
 1498- 1576 (121.50/104.71)	GDNNGpVSQHEpMDSDGF....GTGHQKALPSLHCcyGWTEDW....RWMVCVWTDSRgelLDSYV....YPFGGVSSRQD..TKGLQSLFIQ
---------------------------------------------------------------------------
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      58.33|      17|      32|     367|     383|       4
---------------------------------------------------------------------------
  367-  383 (29.68/17.80)	GARSLHGYRSSSNSNSS
  401-  417 (28.65/16.88)	GASDLDADADSIMSRQS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     136.54|      41|     209|     300|     358|       5
---------------------------------------------------------------------------
  300-  346 (70.22/48.61)	LPqtHGTEPPPVGLGTQRWP.PEKLPFCEKmfvyPAEAV.......LVPVMQTSF
  513-  561 (66.32/23.77)	LP..LGEPPGNVESQAPMFPaPEGGELCSS....PSNSLmdvsdqmLLPVGFQNF
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     191.40|      58|     178|     992|    1057|       6
---------------------------------------------------------------------------
  925-  985 (89.53/47.85)	QWRRGFScgPSmVHAGCGGLLASSHSLDIAGMELVDPLSVEVQASLTISLLQSDIKAALKS
  998- 1055 (101.88/51.03)	DWCRGRS..PS.SESGCDGLSAESIASANECRETSSTVTLSVGDPMSPSLTSVGGSSSLKA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     138.57|      40|     211|     618|     661|       7
---------------------------------------------------------------------------
  618-  661 (65.66/42.41)	GGVETSKSEISFVIFRSPYIPKSCKvdsaSSSNNYVYSATPPSS
  832-  871 (72.91/39.19)	GGILDGPLTAPVGVWRSVGIPKVAK....SSTSMEICPSIPHNS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     112.56|      37|     248|    1459|    1496|      12
---------------------------------------------------------------------------
 1459- 1496 (60.63/32.23)	GSLE..RGISpFLGNSGDSS.KL.LSDDCASTSFAQSSASSG
 1705- 1745 (51.93/23.05)	GLLQwvQSIS.FVSVSIDHSlQLvFQADSTSPGTSQGSATSG
---------------------------------------------------------------------------




































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 MDP00159 with Med13 domain of Kingdom Viridiplantae


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) NQSPTGMSGLSESSTPNQANVDSSTMTDNI
2) RSSLKSDDKLDSRVGSSPSGARSLHGYRSSSNSNSSSNCSISSSSSDSDRKTLGASDLDADADSIMSRQSGLSSLGQMQNDGLQSGSKRPRSGTSESFGQAGMVLNPSMT
3) VLPLGEPPGNVESQAPMFPAPEGGELCSSPS
781
348
512
810
457
542










Molecular Recognition Features






MoRF SequenceStartStop




NANANA