<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 MDP24254

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMRNLSSDDIEKVLTHTPRSVGEGLPVIVAPSGMLGRLVGCCPSDLARQVYSSKLSAPNLPGFTQPTICQLRGQSYYVEVALGFPPASTGKTSESENNQIKKELDSVNDPHLGADGQQKLESADGLPVLERTFIYPPEAVMVPMVHQAFVRFSSKRMWSQDCMGSSPCEAWPFWNFSPSSYFRNSSFFGSSRGLGVNSNFLRLRRQRNSNSNGMASSISSVSSTSNGSEHAVAAKGGDLLADADSAACRQSDLPLNNDIAGSKVVSKRSRSEITEVSSHAGKEVRENMQGTNGQGGCSWGWGEEGVVMDIDILLSEFGDFSDFFQEDELDFGEPPGTAESHALVTPASEYGDMPFIDSPSVAMDIPEQRLSPVGFTSMEAFNHQTMSPIQDVASKVQEPLKEIASPAGSQSLVLSSSRSDFLTRAEATLTFAPEYAAVEISSCETPAALFTNPYLPRSKKRGSCGFSSRVYSYDVTQSSKVESARDKSEKSDKLTPANLSRDVGRSSLYTLVQGRKNESEKSLNNADEQSCKGETSRPVSGETSFSSSLTMQKKSDNMLNVGYFLLSMKTALATEIECITFQAAMCRIRHTLVSLRTKASAELKSAMQTESSSNSDLVPKYDMKRKESIPARLSSDADHEMYDRSRLENVGVWRSVVVPKGAKPLDSLSAKTFSGTSPSVQRQPIVELLSAMALLVQQSTSFVDIALDMDDGDGSFFWLSLDEQRRRGFSCDPSMVHAGCGGLLGTCHSKDCAGVDLVDPLSAEVSESSMIGLLQSDIKSALKTAFANMDGPLSVIDWCRGRSNIAESVAMGDAYSFHYTGDIRESSNSIPIGGDAMSPPQSSSDRGTSEEHHKGYHRVRPTIAVLPSPSLLVGYQDDWLKTSASCLKLWEKAPLEPYASAKPVTYYALCPDIDMLTSAATDFFMQLGTIYEVCKLGTHSPQHSGGQIEQSPGKYQPSGLVLVECPDQLKSSGSHSVSISSVTEYFQALSKSWSVKSFLSSLARIIKEIKLNLNISTNQKESSNIPCTVVYVVCPFPEPSAVLQTLVESSVALGSILSSERERKSFLYAQVAKALNSSASADEASASNVVMLSGFSIPKLVLQIVTVETLLRLHKPNELAAFKDIAFTVYNKARRIPRFVSTSDMFQSPTYMSRSQSAMMHTASPGPTLWKECLAPRMSGQTLSRETEFDASMRSVSWDNSWQPGRAVGLPDPSKIPELCAQDDRKYAFEPLFILAEPGAVDYNDTMESSRFGVDASSSRVYSSISGGTDSGASPLLEGSENDSAMSLHCCYGWTEDWRWLVCIWTDSRGELLDSLIFPFGGISSRQDTTVLQSLFIQILQQGCQIMSSSPEASNMRSRDVVITRIGGFLELEIQEWQKAIYSFGGNEVKKWPVQLRRSIPDGIPSNSNGPTLEQQDMGLIQDRNMPSSPSTLYSPHPKSSFTKGQPGNKKQILAEQTGIEGSRGSLHLVRSISLVAVSQDSSLHLACQADLLATRPTSGEGNQSSSTGASSYLDGFAPVKSIGSMSASYLLVPSPSMRYLSPATLQLPTCLTSESPPLAHLLHSKGTATPLAMGYVVSKAVPPVRKQPTKEDSRHSVLSVSIVDYYGGTVQDKMSRGSKQAARHETSARDYVTDMHNVLEAVAAELHALSWMTVSPVYMERRSALPFHCDMVLRLRRLLHYADRHLSQPTDKGDVS
Length1696
PositionKinase
OrganismAegilops tauschii subsp. strangulata (Goatgrass)
KingdomViridiplantae
LineageEukaryota> Viridiplantae> Streptophyta> Embryophyta> Tracheophyta> Spermatophyta> Magnoliopsida> Liliopsida> Poales> Poaceae> BOP clade> Pooideae> Triticodae> Triticeae> Triticinae> Aegilops.
Aromaticity0.07
Grand average of hydropathy-0.307
Instability index61.53
Isoelectric point5.75
Molecular weight184416.54
Publications
PubMed=25035499
PubMed=29158546

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	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

>MDP24254
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     118.09|      36|      99|     320|     358|       1
---------------------------------------------------------------------------
  320-  358 (59.21/42.18)	SDFFQEDE..LDFGEPPGTAESHALVTPASEYGDmPFIdsP
  418-  455 (58.88/31.89)	SDFLTRAEatLTFAPEYAAVEISSCETPAALFTN.PYL..P
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     200.11|      62|      99|    1114|    1179|       2
---------------------------------------------------------------------------
 1114- 1179 (101.91/67.38)	KPNELAAFKD..IAF.TVYNKARriPRFVSTSDMFQSPTYMSRSQSAMMHTASPGPTlwKECLAPRMSG
 1214- 1278 (98.19/53.53)	KIPELCAQDDrkYAFePLFILAE..PGAVDYNDTMESSRFGVDASSSRVYSSISGGT..DSGASPLLEG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      86.24|      27|     100|     744|     776|       3
---------------------------------------------------------------------------
  528-  555 (44.77/15.73)	QSCKG.ETSRPVSGETSFSSSLTMQkKSD
  749-  776 (41.47/27.19)	KDCAGvDLVDPLSAEVSESSMIGLL.QSD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      79.75|      22|      54|     144|     165|       4
---------------------------------------------------------------------------
  144-  165 (42.00/22.91)	VHQAFVRFSSKRMWSQDCMGSS
  195-  216 (37.76/19.87)	VNSNFLRLRRQRNSNSNGMASS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      81.00|      24|      54|     664|     688|       5
---------------------------------------------------------------------------
  664-  688 (35.43/23.86)	LDSLSAKTFSgTSPSVQRQPIVELL
  720-  743 (45.56/26.54)	LDEQRRRGFS.CDPSMVHAGCGGLL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      40.93|      12|      15|    1465|    1476|       6
---------------------------------------------------------------------------
 1465- 1476 (19.65/11.97)	SLHLVRSISLVA
 1482- 1493 (21.28/13.62)	SLHLACQADLLA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     116.11|      35|     342|     470|     505|       7
---------------------------------------------------------------------------
  470-  505 (54.56/30.77)	YSYDVTQSSKvESARDKSEKSDKLTPANLSRDVGRS
  814-  848 (61.55/31.30)	YSFHYTGDIR.ESSNSIPIGGDAMSPPQSSSDRGTS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      40.03|      11|     344|     859|     869|      10
---------------------------------------------------------------------------
  859-  869 (21.73/10.86)	RPTIAV.LPSPS
 1202- 1213 (18.30/ 7.91)	QPGRAVgLPDPS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      44.98|      12|      53|     305|     319|      13
---------------------------------------------------------------------------
  308-  319 (22.64/19.82)	DIDILLSEFGDF
  911-  922 (22.34/ 9.09)	DIDMLTSAATDF
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      68.00|      25|     344|     998|    1024|      15
---------------------------------------------------------------------------
  998- 1024 (35.61/36.74)	LSS........LARIIKEikLNLNISTNQKESSNI
 1056- 1088 (32.39/24.78)	LSSererksflYAQVAKA..LNSSASADEASASNV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      99.34|      31|     921|      30|      64|      23
---------------------------------------------------------------------------
   30-   64 (45.15/42.54)	PSGMLgrLVgCCPSDLaRQVYSSKLSAPNLPGFTQ
  956-  986 (54.19/33.01)	PSGLV..LV.ECPDQL.KSSGSHSVSISSVTEYFQ
---------------------------------------------------------------------------




































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 MDP24254 with Med13 domain of Kingdom Viridiplantae


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) IPDGIPSNSNGPTLEQQDMGLIQDRNMPSSPSTLYSPHPKSSFTKGQPGNKKQILAEQT
2) NESEKSLNNADEQSCKGETSRPVSGETSFSSSLTM
3) STGKTSESENNQIKKELDSVNDPHLGADGQQKLE
1399
516
87
1457
550
120










Molecular Recognition Features






MoRF SequenceStartStop




1) FQEDELD
323
329