<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 MDP29356

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMWTNIFKIGELQTVSWFQFLPVEQDSSAISERSSKAEQKDALNRVVLSAYLHLQSEGFLSTWTNSFVGPWDPSQGEHNPDEKIKLWLFLPGRQLSAPEMSHPAVVKLRVVSNGLWVAPGNSEEVASALCQALRNSLERALRGLSYARFGDVFTKYNPPTRNQNSFRRARPTVEFVFAATEEAIFVHVIISARYMRNLCSDDIEKVLTHSPRSVGEGLPVIVAPSGMLGRLVGCCPSDLARQVYSSKLSAPNLPGFTQPTICQLRGQSYYVEVALGVPAASTAKLSERENNQVKKELGSVEEPHLGADGQQKIESADSLPVIERTFIYPPEAIMVPMVHQAFVRSSSKRMWSQGWMGSSSWEAWPFWNFSPSSYFRNSSYLGSSRGLGVNSNFLRLRRQKNSNCNGMANSISSVSSTSNGSMHAVAAKGGDLLADADSTACHQSDMPNDVSGSKMVSKRSHSEITEVSSHAGKEVRENMQGTNGQGGCSWGWGEKGVVMDINLLLSEFGDFSDFFQEDELDFGEPPGTAESHTLVPSASDYGDVTFIDSPSTAMDIPEQRLSPVGFTSLEAFNHQTMSPIQDVASKVQEPQKDIASPAGSQALVLSSGRFDYLTRAEATLTFAPEYAAVEIPVGDMPATLFTNPYLPGSKKRGSCGFSSRVYSYDGTQSSQTELAGDKLEKPVKLSPANLSRDVGLSNLYTLVQGGKKESDNRLNNTDEQSCKGQTSRPVSGETSFSSSLPLQKKSDSMLNVGHFLLSMKTALATEIECITFQSAMCRIRHTLLSLRTKASAEFKSSSSSFLQTDVSGKLDLVPKYDVKRKENIPARLSSDVDHEMYDRSTLENVGVWRPVGAPKGAKPLESLPAKTFTGANSSLSVQRQPIVDLLSAMALLVQQSTSFVDIALDMDDGDGSFFLLSLDEQKRRGFSCDPSMVHAGCGGLLGTCHSKDCAGVDLLDPLSAEVSESSMIGLLQSDIKTALKAAFANMDGPLSVIDWCRGRSNAADSAAMGDAYSFQYSTGDIRETSSSIPIGGDAMSPPSDRGTSELEHHKGYHRVRPTIAVLPSPSLLVGYQDDWLKTSANCLKLWEKAPLEPFASPKPVTYYALCPDIDMLTSAATDFFQQLGTIYEVCKLGTHSPQHGGGQMEHSPGKYLPSGLVLVECPDQVKTRSSHSISVSSVAEYFQALSKNWSVNSFVTSLARIIKDIKLTSSISTNQKESSNIPCTVVYVVCPFPEPSAVLHTLVESSVALGSVVLLPERERKSFLYAQVAKALNCSASVDEASASNVVMLSGFSIPKLVLQIVTVETLLRLHKPNELAIFKDIAFTVYNKARRIPRVVSTSDMFQSPTYMSRPQSTIMHTASPGPTLWKECLVPRMSGQSLSRETEFDASMRSVSWDNSWQPGRAVLPDPSKIPDLCAQDDRKYAFEPLFILAEPGSVDYNDMTESSRPGVDASSSRVYSSISGGTDSGASPLLEGSENDSAISLHCCYGWTEDWRWLVCIWTDSRGELLDSLIFPFGGISSRQDTKVLQSLFIQILQQGCQIMSSSPEASNTRSRDVIITRIGGFLELEIQEWQKAIYAFGGNEVKKWPVQLRRSIPDGIPSNSNGPTIQQQDMGLIQDRNMPSSPSPLYSPHSKSSFTKGQSGNKKQILVEQTGMDSSRGSLHLVRSISLVAVSQDHSLHLACQADILARPTPGEGNQSSSGVSSYLEGFAPVKSIGSMSASYLLVPSPSMRYLSPATLQLPTCLTSESPPLAHLLHSKGTATPLAMGYVVSKAVPPVRKNSAQLAKEDRHSVLSVSIVDYYGGSTSTAIQEKMNRGGGGGNTSKQARNITHETSARDYEVDMHNVLEAVAAELHSLSWMTASPVYAERRSALPFHCDMVLRLRRLLHYADRHLSQPAEKGEVA
Length1904
PositionKinase
OrganismBrachypodium distachyon (Purple false brome) (Trachynia distachya)
KingdomViridiplantae
LineageEukaryota> Viridiplantae> Streptophyta> Embryophyta> Tracheophyta> Spermatophyta> Magnoliopsida> Liliopsida> Poales> Poaceae> BOP clade> Pooideae> Brachypodieae> Brachypodium.
Aromaticity0.07
Grand average of hydropathy-0.277
Instability index57.66
Isoelectric point6.04
Molecular weight207330.56
Publications
PubMed=20148030

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	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

>MDP29356
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     340.31|     110|     121|    1230|    1349|       1
---------------------------------------------------------------------------
 1234- 1345 (170.31/124.57)	P.SAVLHTlVESSVALGSVVLLPERERKSFLYAQVAKALNCSASVDEA.SASNVVMLSGFSIPKLVLQ...IVTVETLLRLHKPNELAiFKDIAFT....VYNKARRIPRVVS.TSDMFQSP
 1351- 1470 (170.00/97.34)	PqSTIMHT.ASPGPTLWKECLVPRMSGQSLSRETEFDASMRSVSWDNSwQPGRAVLPDPSKIPDLCAQddrKYAFEPLFILAEPGSVD.YNDMTESsrpgVDASSSRVYSSISgGTDSGASP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      78.04|      22|      29|     491|     512|       2
---------------------------------------------------------------------------
  491-  512 (38.59/27.61)	WGEKGVVMDINLLLSEFGDFSD
  521-  542 (39.46/28.44)	FGEPPGTAESHTLVPSASDYGD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     200.61|      66|     121|     140|     213|       3
---------------------------------------------------------------------------
  140-  213 (96.12/98.79)	LRGLSYarFGDVFTKYnPPTRNQNSFRRARPTVEFVFAATEEAifvHviISARYMRNLCSDD....IEKVLTHSPRSV
  263-  332 (104.49/78.12)	LRGQSY..YVEVALGV.PAASTAKLSERENNQVKKELGSVEEP...H..LGADGQQKIESADslpvIERTFIYPPEAI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     175.66|      57|    1093|     551|     734|       6
---------------------------------------------------------------------------
  571-  633 (83.93/194.88)	FNHQTMSPIQ.DVASKVQ.EPQKDIASPAGSQAlVLSSGrFDYLTRAEATLtfapEYAAVEIPVG
  793-  851 (91.73/13.25)	FKSSSSSFLQtDVSGKLDlVPKYDVKRKENIPA.RLSSD.VDHEMYDRSTL....ENVGVWRPVG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      74.32|      21|      66|     653|     673|       7
---------------------------------------------------------------------------
  653-  673 (39.03/21.43)	SC.GFSSRVYSYDGTQSSQTEL
  720-  741 (35.29/18.56)	SCkGQTSRPVSGETSFSSSLPL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      88.60|      27|     602|    1129|    1170|      10
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 1129- 1161 (39.12/40.20)	CKLgTHSPqhGGGQMEHSpgkYLPSGLVLVECP
 1204- 1230 (49.48/17.17)	IKL.TSSI..STNQKESS...NIPCTVVYVVCP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     173.99|      52|     602|    1040|    1091|      15
---------------------------------------------------------------------------
 1040- 1091 (92.65/58.67)	RGTSE.....LEHHKGYHRVRPTIAVLPSPSLLVGYQDDWLKTSANCLKLWEKAPLE
 1639- 1695 (81.33/50.49)	KGQSGnkkqiLVEQTGMDSSRGSLHLVRSISLVAVSQDHSLHLACQADILARPTPGE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      62.50|      18|      26|     748|     765|      16
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  748-  765 (31.03/20.91)	MLNVGHFLLSMKTALATE
  775-  792 (31.48/21.33)	MCRIRHTLLSLRTKASAE
---------------------------------------------------------------------------




































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 MDP29356 with Med13 domain of Kingdom Viridiplantae
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