<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 MDP24053

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMVPMVHQAFVRFSSKRMWSQDWMGSSSWEAWPFWNFSPSSYFRNSSFFGSSRGLGVNSNFLRLRRQRNNNSNGMASSISSVSSTSNGSEHAVAAKGGDLLADADSTACHQSDLPLNNDIAGSKMVSKRSRSEITEDSSHAGKEVRENMQGTNGQGGCSWGWGEEGVVMDINILLSEFGDFSDFFQGDELDFGEPPGTAESHALVSPASEYGDMPFIDSPSVAMDIPEQRLSPVGFTSMEAFNHQTMSPIQDVASKVQEPLKEIASPAGSQSLVLSSSRSDFLTRAEATLTFAPEYAAVEISSCETPATLFTNPYLPGSKKRGSCGFSSRVYSYDVTQSSKVESAGDKSEKSDKLTPANLSRDVGRSSLYTLVQGRKNESEKSLNNADEQSCKGETSRPVSGETSFSSSLTIQKKSDSMLNVGYFLLSMKTALATEIECITFQAAMCRIRHTLVSLRTKASAELKSALSSAMQTESSSNSGLVPKYEMKRKESIPARLSSDVDHDMYDRSQLENVGVWRSVVVPKGAKPLDSLSAKTFTGTSPSVQRQPIVELLSAMALLVQQSTSFVDIALDMDDGDGSFFWLSLDEQRRRGFSCDPSMVHAGCGGLLGTCHSKDCAGVDLVDPLSAEVSESSMIGLLQSDIKSALKTAFANMDGPLSVIDWCRGRSNIAESAAMGDAYSFHYTTGDIRDTSNSIPIGGDAMSPPQSSNDRGTSEEHHKGYHRVRPTIAVLPSPSLLVGYQDDWLKTSANCLKLWEKAPLEPYASAKPVTYYALCPDIDMLTSAATDFFMQLGTIYEVCKLGTHLPQHSGGQIEHSPGKYLPSGLVLVECPDQLKTRGSHSVSISSVTEYFQALSKSWSVKSFVSSLARIIKDIKLTVNISTNQKESSNIPCTVIYVVCPFPEPSAVLQALVESSVALGSILSSERERKSFLYTQVAKALDSSASADEASASNVVMLSGFSIPKLVLQIVTVETLLRLHKPNELAAFKDIAFTVYNKARRIPRFVSMSDMFQSPTYMSRPQSTMMHTASPGPTLWKECLVPRMSGQTLSRETEFDASMRSVSWDNSWQPGRAVGLPDPSKIPELCAQDDRKYAFEPLFILAEPGTADYSDMMESSRFGADASSSRAYSSISGGTDSGASPPLEGSENDSATSLHCCYGWTEDWRWLVCIWTDSRGELLDSLIFPFGGISSRQDTKVLQSLFIQILQQGCQIMSSSPEASNTRSRDVIITRIGGFLELEIQEWQKAIYSFGGNEVKKWPVQLRRSIPDGIPSNSNGPTLQQQDMGLIQDRNMPSSPSTLYSPHSKSSFTKGQSGNKKQILVEQTGMDSSRGSLHLVRSISLVAVSQDSSLHLACQADLMATRPTSGEGNQSSTGSSSYLDGFAPVKSIGSMSASYLLVPSPSMRYLSPATLQLPMCLTSESPPLAHLLHSKGTATPLAMGYVVSKAVPPV
Length1449
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-0.289
Instability index60.82
Isoelectric point5.62
Molecular weight157237.07
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. 
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

>MDP24053
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      53.29|      16|     604|     169|     186|       2
---------------------------------------------------------------------------
  169-  186 (26.56/22.34)	DINILLSEFGDFsdFFQ.G
  777-  793 (26.73/15.29)	DIDMLTSAATDF..FMQlG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      99.72|      29|     394|      63|     130|       4
---------------------------------------------------------------------------
   97-  125 (51.96/66.97)	GDLLADADSTACHQSDL..PLNNDIAGSKMV
  605-  635 (47.76/ 7.53)	GGLLGTCHSKDCAGVDLvdPLSAEVSESSMI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     122.82|      32|      34|     333|     364|       5
---------------------------------------------------------------------------
  336-  371 (46.15/27.38)	TQSSKVESAGDKSE.KSDKLTPANLSRDV.GrsslYTL
  372-  401 (35.15/18.89)	VQGRKNESEKSLNN.ADEQSCKGETSRPVsG.......
  473-  508 (41.51/23.80)	TESSSNSGLVPKYEmKRKESIPARLSSDV.D.hdmYDR
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      61.94|      19|     341|     725|     743|       8
---------------------------------------------------------------------------
  725-  743 (35.18/16.43)	RPTIAV.LPSPSLL..VGYQDD
 1068- 1089 (26.76/10.96)	QPGRAVgLPDPSKIpeLCAQDD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     115.25|      36|     111|    1264|    1301|       9
---------------------------------------------------------------------------
 1264- 1301 (58.39/47.98)	SIPDGI.PSNSNGpTLQQQDMgLIQDRNMPS.SPSTLYSP
 1376- 1413 (56.86/35.95)	SYLDGFaPVKSIG.SMSASYL.LVPSPSMRYlSPATLQLP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     134.12|      31|      31|     207|     237|      10
---------------------------------------------------------------------------
  207-  237 (53.93/25.15)	ASEYG..DM.PFIDSPSVAMDIP....EQRL.SPVGFTS
  240-  271 (39.55/16.70)	AFNHQ..TMsPIQDVASKVQE.P....LKEIaSPAGSQS
  292-  328 (40.63/17.34)	APEYAavEI.SSCETPATLFTNPylpgSKKR.GSCGFSS
---------------------------------------------------------------------------




































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 MDP24053 with Med13 domain of Kingdom Viridiplantae
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