<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 MDP05594

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMWTNVFKIGSLHQISWFQFLPHEPDLNPLPDKSVKVDQKDAAMLLVLSSHLQLQKEGFLSTWTNSFVGPWDPSQGLHNPDEKIKLWLFLPGRHSSVVETAQTAVSGLRVVASGLWLAPGDSEEVAAALSQALRNCVERALFGLYYMRFGDVFSKFHQFQREELFRRGQPAVEFVFAATEEAIFIHVIVSSKHIRMLSTADLEKVLQHSMEFTYRLPVIVSPHGICGSLTGCSPSDLVKQSYFSSTKFRVSNGIIGLPYHVSQGVGCQLRGQNCYVEVSLGFPRSGTDNTLQPNKNSVRNLPKLHVAESPIVGRSDHKGSPDHLLDYDKTFLYPAEAVLVPVLQTSLARSSLRRFWLQNWMGPSLPGSSSFIHCAGNVDCTEDPWTEINGTRTQNSYDSSSNSNSSSISSLSASSSDSDYKTTRPSELEADADSLTCRQSMVSSADQLDSDGPKLGSKRSRTGVTESLSTATNIPVQDAYMSDFGSMEVNNSAITGVGNDPIGSYWDWDDDDRGMEMDIQALLSEFGDFGDFFENDVLPFGEPPGTAESQALMLSAPDCGDVNSSPGGVIDVPGQILLPVGFPSFESFNPPPSTSIEECLNKSQDNLNNSMSLCPTNQTQLLYTREFDHIMKAEAMMTFAPEFGAVDTPTSPPTSPCTEGSEGKNGMSANTKTGSGKYDASTTSLHSKYYYTFVESRKEKNDKNPATCNDNSITKSEGIPPLSNIGSNAIVKSAIRKTTEGTHEAEHFLLSAKTLLATDITCVTLQASMCRLRHILLSSGNLMPVGLSRSTGVSFLNQLPSDPSMTTDNISGKYDVKKKENIPIRIAGDIDGGMLDGHLNAPVGVWRTLGASKVVKPSNSPNMEVVPSFPHNSFNEEGILSYGLRKPLQELLDGIALLVQQAISFVDLALDADCGDGPYGLLAMQEQWRRGFCCGPSMVHAGCGGSLASSHSLDIAGLELVDPLSADVDASTVISLLQSDIKTALKSAFSNLEGPLSVTDWCKGRNQLVDTGSIVDGVSAESSINECRDSSEPMSPSQSSVGGSSSIKVSNLMDKVDETSQRRSGQDLCSTELEQLSCSRLKPTLIALPFPSILVGYQDDWLKTSANSLQHWEKAPLEPYALQKPITYHVVCPDIDPLTSAAADFFQQLGTVYETCKLGTHSPQGLGNQMEIESAKLSSCGFVLLDCPQSIKIESSNASLVGSVSDYFLSLSNGWDLTSYLKSLSKALRGLKIGSCFSTNPGEGSNSSCLVIYVVCPFPDPTAILQTVIESSVAIGSVAQQSDRERRSSLHSQVVKALSGLTTVDEASASNILVLSGFSIPKLVLQIVTVDAIFRVTSPSVSELVILKETAFTVYSKARRISRGISSDFAQSAFPRSHSVLTQMPSPISGMWKDCVGPRMAGHSLPREGDIDASLRPGTWDNSWQPTRTGGLSCDPSRTGDNFLYDEIRYMFEPLFILAEPGSLENGISVIGSPTSESSKALADDSSGNYAQSTSTAGNAESASSTDGSGSDPETPPSLHCCYGWTEDWRWLVCIWTDSRGELLDCNIFPFGGISSRQDTKGLQCLFVQILQQGCLILQSCDPGLAKPRDFVIARIGGFYELEYLEWQKAIYSVGVSEMKRWPLQLRKSMSDGMSATSNGSSLQQSDISLIPERTLPSSPSPLYSPHTKSTSFMKGSLGQPTARKQLMGGHSMVDNSRGLLHWAQSISFVAVSMDHTLQLVLPADSSTPGYIEGFTPVKSLGSTSSAYILIPSPSMRFLPPTVLQLPTCLTAESPPLAHLLHSKGSALPLSTGFVVSKAVPSMRKDYRSNQKEEWPSILSVSLIDYYGGTNIPQEKIVRGINKQGGRSLSWEAKDFEIETHLVLESLAAELHALSWMTVSPTYLERRTALPFHCDMVLRLRRLLHFADKELSKQSEKS
Length1917
PositionKinase
OrganismGlycine max (Soybean) (Glycine hispida)
KingdomViridiplantae
LineageEukaryota> Viridiplantae> Streptophyta> Embryophyta> Tracheophyta> Spermatophyta> Magnoliopsida> eudicotyledons> Gunneridae> Pentapetalae> rosids> fabids> Fabales> Fabaceae> Papilionoideae> 50 kb inversion clade> NPAAA clade> indigoferoid/millettioid clade> Phaseoleae> Glycine> Glycine subgen. Soja.
Aromaticity0.07
Grand average of hydropathy-0.216
Instability index53.61
Isoelectric point5.29
Molecular weight208099.28
Publications
PubMed=20075913

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

>MDP05594
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     101.43|      28|      55|     582|     611|       1
---------------------------------------------------------------------------
  582-  609 (36.37/22.75)	..............................PSFESFNPPPSTSIEECLNKSQDnlNNS
  610-  665 (35.98/16.70)	MSlcptnqtqllytrefdhimkaeammtfaPEFGAVDTPTSPPTSPCTEGSEG..KNG
 1033- 1054 (29.08/11.32)	MS............................PSQSSVGGSSSIKVSNLMDK........
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      90.74|      27|      61|    1238|    1267|       2
---------------------------------------------------------------------------
 1238- 1267 (46.36/36.51)	TNPGEGSNSSCLVIyvvCPFPDPTAILQTV
 1301- 1327 (44.38/26.53)	TTVDEASASNILVL...SGFSIPKLVLQIV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      72.21|      21|      61|     783|     804|       3
---------------------------------------------------------------------------
  783-  804 (35.59/22.10)	PVGLSRSTGVSFLNQlPSD.PSM
  841-  862 (36.62/18.62)	PVGVWRTLGASKVVK.PSNsPNM
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      76.78|      26|      28|     517|     544|       4
---------------------------------------------------------------------------
  529-  558 (39.62/25.28)	GDFFENDVLPFGEPPG...taESQALMLSapDC
 1149- 1179 (37.16/17.72)	GTVYETCKLGTHSPQGlgnqmEIESAKLS..SC
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      35.27|      10|      28|     746|     755|       6
---------------------------------------------------------------------------
  746-  755 (17.11/12.19)	HFLLSAKTLL
  773-  782 (18.16/13.55)	HILLSSGNLM
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      76.89|      23|      28|      59|      86|       7
---------------------------------------------------------------------------
   59-   81 (45.93/18.19)	LSTWTNSFVGPWDPS.QGLHNPDE
   89-  112 (30.96/16.06)	LPGRHSSVVETAQTAvSGLRVVAS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     127.78|      35|     133|    1391|    1433|       9
---------------------------------------------------------------------------
 1391- 1433 (61.77/43.83)	WKDCVGPRMAGHSLpregdiDASLRPGTWDNSWQPTRtgGLSC
 1530- 1564 (66.00/31.48)	WLVCIWTDSRGELL......DCNIFPFGGISSRQDTK..GLQC
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      67.78|      19|      61|     301|     320|      12
---------------------------------------------------------------------------
  301-  319 (35.52/21.41)	PKLHVAESPIVGRSDH.KGS
 1766- 1785 (32.25/13.58)	PTCLTAESPPLAHLLHsKGS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      70.12|      21|      27|     472|     493|      15
---------------------------------------------------------------------------
  472-  493 (34.18/25.30)	NIPVQ...DAYMSDFGsMEVNNSAI
  498-  521 (35.94/21.75)	NDPIGsywDWDDDDRG.MEMDIQAL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     169.94|      53|     137|    1455|    1517|      17
---------------------------------------------------------------------------
  365-  424 (85.03/44.78)	PGSssfihCAGNVDCTEDPWTEINGTRTQNSYDSSSNSNSSSISSLSASSSD...SDYKTtrP
 1460- 1515 (84.91/56.05)	PGS.....LENGISVIGSPTSESSKALADDSSGNYAQSTSTAGNAESASSTDgsgSDPET..P
---------------------------------------------------------------------------




































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 MDP05594 with Med13 domain of Kingdom Viridiplantae
Unable to open file!