<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 MDP24255

Description Mediator of RNA polymerase II transcription subunit 13
SequenceAADDVADFTLYCTGRNTGDFIKAVSLPSTLNMWTNIFKIGELQTVSWFQFLPVEPDYSATSDRSSKAEQKDALNSTVLSAYLRLQNEGFLSTWTNSFVGPWDPSQGEHNPDEKIKLWLFLSGRHSSVPEMTQPAVAKLRVVSSGLWVAPGNSEEVAAALCQALRNSLERALRGLSYARFGDVFTKYNPPTRNQNSFRRAQPTVEFVFAATEEAIFVHVIISARYMRNLSSDDIEKVLTHTPRSVGEGLPVIVAPSGMLGRLVGCCPSDLARQVYSSKLSAPNLPGFTQPTICQLRGQSYYVEVALGFPPASTGKTSESENNQIKKELDSVNDPHLGADGQQKLESADGLPVLERTFIYPPEAVMVPMVHQAFVRFSSKRMWSQDCMGSSPCEAWPFWNFSPSSYFRNSSFFGSSRGLGVNSNFLRLRRQRNSNSNGMASSISSVSSTSNGSEHAVAAKGGDLLADADSAACRQSDLPLNNDIAGSKVSKRSRSEITEVSSHAGKEVRENMQGTNGQGGCSWGWGEEGVVMDIDILLSEFGDFSDFFQEDELDFGEPPGTAESHALVTPASEYGDMPFIDSPSVAMDIPEQRLSPVGFTSMEAFNHQTMSPIQDVASKVQEPLKEIASPAGSQSLVLSSSRSDFLTRAEATLTFAPEYAAVEISSCETPAALFTNPYLPRSKKRGSCGFSSRVYSYDVTQSSKVESARDKSEKSDKLTPANLSRDVGRSSLYTLVQGRKNESEKSLNNADEQSCKGETSRPVSGETSFSSSLTMQKKSDNMLNVGYFLLSMKTALATEIECITFQAAMCRIRHTLVSLRTKASAELKSAMQTESSSNSDLVPKYDMKRKESIPARLSSDADHEMYDRSRLENVGVWRSVVVPKGAKPLDSLSAKTFSGTSPSVQRQPIVELLSAMALLVQQSTSFVDIALDMDDGDGSFFWLSLDEQRRRGFSCDPSMVHAGCGGLLGTCHSKDCAGVDLVDPLSAEVSESSMIGLLQSDIKSALKTAFANMDGPLSVIDWCRGRSNIAESVAMGDAYSFHYTGDIRESSNSIPIGGDAMSPPQSSSDRGTSEEHHKGYHRVRPTIAVLPSPSLLVGYQDDWLKTSASCLKLWEKAPLEPYASAKPVTYYALCPDIDMLTSAATDFFMQLGTIYEVCKLGTHSPQHSGGQIEQSPGKYQPSGLVLVECPDQLKSSGSHSVSISSVTEYFQALSKSWSVKSFLSSLARIIKEIKLNLNISTNQKESSNIPCTVVYVVCPFPEPSAVLQTLVESSVALGSILSSERERKSFLYAQVAKALNSSASADEASASNVVMLSGFSIPKLVLQIVTVETLLRLHKPNELAAFKDIAFTVYNKARRIPRFVSTSDMFQSPTYMSRSQSAMMHTASPGPTLWKECLAPRMSGQTLSRETEFDASMRSVSWDNSWQPGRAVGLPDPSKIPELCAQDDRKYAFEPLFILAEPGAVDYNDTMESSRFGVDASSSRVYSSISGGTDSGASPLLEGSENDSAMSLHCCYGWTEDWRWLVCIWTDSRGELLDSLIFPFGGISSRQDTTVLQSLFIQILQQGCQIMSSSPEASNMRSRDVVITRIGGFLELEIQEWQKAIYSFGGNEVKKWPVQLRRSIPDGIPSNSNGPTLEQQDMGLIQDRNMPSSPSTLYSPHPKSSFTKGQPGNKKQILAEQTGIEGSRGSLHLVRSISLVAVSQDSSLHLACQADLLATRPTSGEGNQSSSTGASSYLDGFAPVKSIGSMSASYLLVPSPSMRYLSPATLQLPTCLTSESPPLAHLLHSKGTATPLAMGYVVSKAVPPVRKQPTKEDSRHSVLSVSIVDYYGGTVQDKMSRGSKQAARHETSARDYVTDMHNVLEAVAAELHALSWMTVSPVYMERRSALPFHCDMVLRLRRLLHYADRHLSQPTDKGDVS
Length1919
PositionKinase
OrganismAegilops tauschii subsp. strangulata (Goatgrass)
KingdomViridiplantae
LineageEukaryota> Viridiplantae> Streptophyta> Embryophyta> Tracheophyta> Spermatophyta> Magnoliopsida> Liliopsida> Poales> Poaceae> BOP clade> Pooideae> Triticodae> Triticeae> Triticinae> Aegilops.
Aromaticity0.08
Grand average of hydropathy-0.301
Instability index58.92
Isoelectric point5.77
Molecular weight209291.18
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. 
	RuleBase:RU365082
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
>MDP24255
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     107.30|      22|      54|     368|     389|       1
---------------------------------------------------------------------------
  368-  389 (39.46/27.16)	VHQ.AFVRFSSKRMWSQDCMGSS
  391-  413 (33.85/21.88)	CEAwPFWNFSPSSYFRNSSFFGS
  419-  440 (33.99/22.01)	VNS.NFLRLRRQRNSNSNGMASS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      58.68|      19|      54|     699|     717|       2
---------------------------------------------------------------------------
  699-  717 (32.06/16.03)	QSSKVESARDKSEK...SDKLT
  751-  772 (26.63/12.08)	QSCKGETSRPVSGEtsfSSSLT
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     166.20|      52|      54|     530|     582|       3
---------------------------------------------------------------------------
  530-  582 (88.84/63.43)	MDI.DILLSEFGdFSDF..FQEDELDFGEPPGTAESHALVTPASEYGDMPFIDSPS
  585-  639 (77.35/49.68)	MDIpEQRLSPVG.FTSMeaFNHQTMSPIQDVASKVQEPLKEIASPAGSQSLVLSSS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     388.55|     117|     122|    1276|    1393|       4
---------------------------------------------------------------------------
 1211- 1271 (34.12/12.44)	...LSKSWSVKSFLssLARIIKEikLNLNISTNQK.ESSNipctvVYVVCPFP.EPSAVLQ...TL.VES.....................................................................
 1276- 1393 (196.02/112.95)	GSILSSERERKSFL..YAQVAKA..LNSSASADEA.SASN.....VVMLSGFS.IPKLVLQ...IVTVETLLRLHKPNELaAFKDIA....FTVYNKARRIPRFVS.TSDMFQSPTYM.SRSQSAM.MHTASPGPTLWK
 1402- 1521 (158.42/86.95)	GQTLSRETE...F........DA..SMRSVSWDNSwQPGR.....AVGLPDPSkIPELCAQddrKYAFEPLFILAEPGAV.DYNDTMessrFGVDASSSRVYSSISgGTDSGASPLLEgSENDSAMsLHCCYGWTEDWR
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      81.00|      24|      53|     887|     911|       5
---------------------------------------------------------------------------
  887-  911 (35.43/23.99)	LDSLSAKTFSgTSPSVQRQPIVELL
  943-  966 (45.56/26.66)	LDEQRRRGFS.CDPSMVHAGCGGLL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      54.79|      16|     122|     171|     189|       6
---------------------------------------------------------------------------
  171-  189 (23.26/28.74)	LRGLSYarFGDVFTKYnPP
  294-  309 (31.54/22.50)	LRGQSY..YVEVALGF.PP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      88.26|      25|     626|     228|     256|      12
---------------------------------------------------------------------------
  232-  256 (44.48/29.14)	DIEKVLTHTPRSVG...EGLPVIVAPSG
 1154- 1181 (43.77/19.70)	EVCKLGTHSPQHSGgqiEQSPGKYQPSG
---------------------------------------------------------------------------




































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 MDP24255 with Med13 domain of Kingdom Viridiplantae


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) IPDGIPSNSNGPTLEQQDMGLIQDRNMPSSPSTLYSPHPKSSFTKGQPGNKKQILAEQT
2) KRSRSEITEVSSHAGKEVRENMQGTNGQGGCS
3) NESEKSLNNADEQSCKGETSRPVSGETSFSSSLTM
4) STGKTSESENNQIKKELDSVNDPHLGADGQQKLE
1622
489
739
311
1680
520
773
344










Molecular Recognition Features






MoRF SequenceStartStop




1) FQEDELD
546
552