<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 MDP30310

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMWTNVFKIGSLHQISWFQFLPHEPDLNPLPDKSVKVDQKDAAMLLVLSSHLQLQKEGFLSTWTNSFVGPWDPSQGLHNPDEKIKLWLFLPGRHSSVVETAQTAVSGLRVVASGLWLAPGDSEEVAAALSQALRNCVERALFGLYYMRFGDVFSKFHQFQREELFRRGQPAVEFVFAATEEAIFIHVIVSSKHIRMLSTADLEKVLQHSMEFTYRLPVIVSPHGICGSLTGCSPSDLVKQSYFSSTKFRVSNGIIGLPYHVSQGVGCQLRGQNCYVEVSLGFPRSGTDNTLQPNKNSVRNLPKLHVAESPIVGRSDHKGSPDHLLDYDKTFLYPAEAVLVPVLQTSLARSSLRRFWLQNWMGPSLPGSSSFIHCAGNVDCTEDPWTEINGTRTQNSYDSSSNSNSSSISSLSASSSDSDYKTTRPSELEADADSLTCRQSMVSSADQLDSDGPKLGSKRSRTGVTESLSTATNIPVQDAYMSDFGSMEVNNSAITGVGNDPIGSYWDWDDDDRGMEMDIQALLSEFGDFGDFFENDVLPFGEPPGTAESQALMLSAPDCGDVNSSPGGVIDVPGQILLPVGFPSFESFNPPPSTSIEECLNKSQDNLNNSMSLCPTNQTQLLYTREFDHIMKAEAMMTFAPEFGAVDTPTCELSTTLFRSPYFPKSRKAKSSNSSSNNYLYGAAPPTSPCTEGSEGKNGMSANTKTGSGKYDASTTSLHSKYYYTFVESRKEKNDKNPATCNDNSITKSEGIPPLSNIGSNAIVKSAIRKTTEGTHEAEHFLLSAKTLLATDITCVTLQASMCRLRHILLSSGNLMPVGLSRSTGVSFLNQLPSDPSMTTDNISGKYDVKKKENIPIRIAGDIDGGMLDGHLNAPVGVWRTLGASKVVKPSNSPNMEVVPSFPHNSFNEEGILSYGLRKPLQELLDGIALLVQQAISFVDLALDADCGDGPYGLLAMQEQWRRGFCCGPSMVHAGCGGSLASSHSLDIAGLELVDPLSADVDASTVISLLQSDIKTALKSAFSNLEGPLSVTDWCKGRNQLVDTGSIVDGVSAESSINECRDSSEPMSPSQSSVGGSSSIKVSNLMDKVDETSQRRSGQDLCSTELEQLSCSRLKPTLIALPFPSILVGYQDDWLKTSANSLQHWEKAPLEPYALQKPITYHVVCPDIDPLTSAAADFFQQLGTVYETCKLGTHSPQGLGNQMEIESAKLSSCGFVLLDCPQSIKIESSNASLVGSVSDYFLSLSNGWDLTSYLKSLSKALRGLKIGSCFSTNPGEGSNSSCLVIYVVCPFPDPTAILQTVIESSVAIGSVAQQSDRERRSSLHSQVVKALSGLTTVDEASASNILVLSGFSIPKLVLQIVTVDAIFRVTSPSVSELVILKETAFTVYSKARRISRGISSDFAQSAFPRSHSVLTQMPSPISGMWKDCVGPRMAGHSLPREGDIDASLRPGTWDNSWQPTRTGGLSCDPSRTGDNFLYDEIRYMFEPLFILAEPGSLENGISVIGSPTSESSKALADDSSGNYAQSTSTAGNAESASSTDGSGSDPETPPSLHCCYGWTEDWRWLVCIWTDSRGELLDCNIFPFGGISSRQDTKGLQCLFVQILQQGCLILQSCDPGLAKPRDFVIARIGGFYELEYLEWQKAIYSVGVSEMKRWPLQLRKSMSDGMSATSNGSSLQQSDISLIPERTLPSSPSPLYSPHTKSTSFMKGSLGQPTARKQLMGGHSMVDNSRGLLHWAQSISFVAVSMDHTLQLVLPADSSTPGYIEGFTPVKSLGSTSSAYILIPSPSMRFLPPTVLQLPTCLTAESPPLAHLLHSKGSALPLSTGFVVSKAVPSMRKDYRSNQKEEWPSILSVSLIDYYGGTNIPQEKIVRGINKQGGRSLSWEAKDFEIETHLVLESLAAELHALSWMTVSPTYLERRTALPFHCDMVLRLRRLLHFADKELSKQSEKS
Length1950
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.
Aromaticity0.08
Grand average of hydropathy-0.225
Instability index53.60
Isoelectric point5.38
Molecular weight211770.34
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

>MDP30310
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     140.29|      45|      57|       2|      58|       1
---------------------------------------------------------------------------
    2-   53 (70.01/54.61)	WTNVFkIGslhqiSW..FQFLpHEPDLNP.....LPDKS...VKVDQKDAAMLLVLSSHLQL
   62-  116 (70.29/29.92)	WTNSF.VG.....PWdpSQGL.HNPDEKIklwlfLPGRHssvVETAQTAVSGLRVVASGLWL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     212.74|      55|      62|     653|     712|       2
---------------------------------------------------------------------------
  661-  720 (89.13/57.73)	Y...FPKSRKAKSSNSSS...NNYLYGA..APPTSpctEGseGKNGM..SANTKTGSGKYDASTTSLHSK
  721-  777 (51.45/22.96)	YyytFVESRKEKNDKNPAtcnDNSITKSegIPPLS...NI..GSNAIvkSAIRKTTEGTHEA........
 1509- 1554 (72.16/35.28)	......ESSKALADDSSG...N...YAQ..STSTA.......G.NAE..SASSTDGSGSDPETPPSLHCC
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      83.38|      25|      57|     812|     837|       3
---------------------------------------------------------------------------
  812-  837 (43.51/30.66)	GNL.MPVGLSRSTGVSFLNQlPSD.PSM
  869-  895 (39.87/23.13)	GHLnAPVGVWRTLGASKVVK.PSNsPNM
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     212.96|      57|      61|     967|    1024|       4
---------------------------------------------------------------------------
  967- 1024 (88.59/39.46)	GPSMVHAGCGGS..LASSHSLdIAGLELVDPLSADVDASTVISLLQSDI....KTALKSAFSNL
 1026- 1084 (92.69/38.35)	GPLSVTDWCKGRnqLVDTGSI.VDGVSAESSINECRDSSEPMSPSQSSV....GGSSSIKVSNL
 1664- 1695 (31.68/ 8.70)	.......................DGMSATS......NGS...SLQQSDIslipERTLPSSPSPL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      90.74|      27|      61|    1271|    1300|       5
---------------------------------------------------------------------------
 1271- 1300 (46.36/35.49)	TNPGEGSNSSCLVIyvvCPFPDPTAILQTV
 1334- 1360 (44.38/25.80)	TTVDEASASNILVL...SGFSIPKLVLQIV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     100.12|      33|      61|    1170|    1206|       7
---------------------------------------------------------------------------
 1170- 1206 (52.46/44.30)	LTSAAADFFQQLGTVYE.TCKLGTHSP..QGLgnqmEIES
 1232- 1267 (47.65/29.42)	LVGSVSDYFLSLSNGWDlTSYLKSLSKalRGL....KIGS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      99.21|      23|      28|     538|     565|       8
---------------------------------------------------------------------------
  519-  535 (23.10/ 6.56)	...........QALLSEFGDFGDFFEND
  540-  565 (37.87/28.16)	G..EPPGtaeSQALMLSAPDCGDVNSSP
  567-  591 (38.24/14.95)	GviDVPG...QILLPVGFPSFESFNPPP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      67.78|      19|      61|     301|     320|       9
---------------------------------------------------------------------------
  301-  319 (35.52/25.09)	PKLHVAESPIVGRSDH.KGS
 1799- 1818 (32.25/15.95)	PTCLTAESPPLAHLLHsKGS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      38.29|      15|      29|     438|     456|      10
---------------------------------------------------------------------------
  438-  456 (18.13/16.06)	QSMvSSA......DQLDSDgpkLGS
  465-  485 (20.15/ 6.29)	ESL.STAtnipvqDAYMSD...FGS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     186.52|      56|     426|    1397|    1457|      11
---------------------------------------------------------------------------
 1397- 1457 (97.49/61.91)	ISSDFAQS.AFP......RSHSvLTQMPSPISGMWKDCVGprmaGHSLPREGDIDASLRPGTWDNSWQ
 1822- 1884 (89.03/45.29)	LSTGFVVSkAVPsmrkdyRSNQ.KEEWPSILSVSLIDYYG....GTNIPQEKIVRGINKQGGRSLSWE
---------------------------------------------------------------------------




































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 MDP30310 with Med13 domain of Kingdom Viridiplantae
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