<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 MDP05589

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMWTNVFKIGSLHQISWFQFLPHEPDLNPLPDKSVKVDQKDAAMLLVLSSHLQLQKEGFLSTWTNSFVGPWDPSQGLHNPDEKIKLWLFLPGRHSSVVETAQTAVSGLRVVASGLWLAPGDSEEVAAALSQALRNCVERALFGLYYMRFGDVFSKFHQFQREELFRGQPAVEFVFAATEEAIFIHVIVSSKHIRMLSTADLEKVLQHSMEFTYRLPVIVSPHGICGSLTGCSPSDLVKQSYFSSTKFRVSNGIIGLPYHVSQGVGCQLRGQNCYVEVSLGFPRSGTDNTLQPNKNSVRNLPKLHVAESPIVGRSDHKGSPDHLLDYDKTFLYPAEAVLVPVLQTSLARSSLRRFWLQNWMGPSLPGSSSFIHCAGNVDCTEDPWTEINGTRTQNSYDSSSNSNSSSISSLSASSSDSDYKTTRPSELEADADSLTCRQSMVSSADQLDSDGPKLGSKRSRTGVTESLSTATNIPVQDAYMSDFGSMEVNNSAITGVGNDPIGSYWDWDDDDRGMEMDIQALLSEFGDFGDFFENDVLPFGEPPGTAESQALMLSAPDCGDVNSSPGGVIDVPGQILLPVGFPSFESFNPPPSTSIEECLNKSQDNLNNSMSLCPTNQTQLLYTREFDHIMKAEAMMTFAPEFGAVDTPTCELSTTLFRSPYFPKSRKAKSSNSSSNNYLYGAAPPTSPCTEGSEGKNGMSANTKTGSGKYDASTTSLHSKYYYTFVESRKEKNDKNPATCNDNSITKSEGIPPLSNIGSNAIVKSAIRKTTEGTHEAEHFLLSAKTLLATDITCVTLQASMCRLRHILLSSGNLMPVGLSRSTGVSFLNQLPSDPSMTTDNISGKYDVKKKENIPIRIAGDIDGGMLDGHLNAPVGVWRTLGASKVVKPSNSPNMEVVPSFPHNSFNEEGILSYGLRKPLQELLDGIALLVQQAISFVDLALDADCGDGPYGLLAMQEQWRRGFCCGPSMVHAGCGGSLASSHSLDIAGLELVDPLSADVDASTVISLLQSDIKTALKSAFSNLEGPLSVTDWCKGRNQLVDTGSIVDGVSAESSINECRDSSEPMSPSQSSVGGSSSIKVSNLMDKVDETSQRRSGQDLCSTELEQLSCSRLKPTLIALPFPSILVGYQDDWLKTSANSLQHWEKAPLEPYALQKPITYHVVCPDIDPLTSAAADFFQQLGTVYETCKLGTHSPQGLGNQMEIESAKLSSCGFVLLDCPQSIKIESSNASLVGSVSDYFLSLSNGWDLTSYLKSLSKALRGLKIGSCFSTNPGEGSNSSCLVIYVVCPFPDPTAILQTVIESSVAIGSVAQQSDRERRSSLHSQVVKALSGLTTVDEASASNILVLSGFSIPKLVLQIVTVDAIFRVTSPSVSELVILKETAFTVYSKARRISRGISSDFAQSAFPRSHSVLTQMPSPISGMWKDCVGPRMAGHSLPREGDIDASLRPGTWDNSWQPTRTGGLSCDPSRTGDNFLYDEIRYMFEPLFILAEPGSLENGISVIGSPTSESSKALADDSSGNYAQSTSTAGNAESASSTDGSGSDPETPPSLHCCYGWTEDWRWLVCIWTDSRGELLDCNIFPFGGISSRQDTKGLQCLFVQILQQGCLILQSCDPGLAKPRDFVIARIGGFYELEYLEWQKAIYSVGVSEMKRWPLQLRKSMSDGMSATSNGSSLQQSDISLIPERTLPSSPSPLYSPHTKSTSFMKGSLGQPTARKQLMGGHSMVDNSRGLLHWAQSISFVAVSMDHTLQLVLPADSSTPGYIEGFTPVKSLGSTSSAYILIPSPSMRFLPPTVLQLPTCLTAESPPLAHLLHSKGSALPLSTGFVVSKAVPSMRKDYRSNQKEEWPSILSVSLIDYYGGTNIPQEKIVRGINKQGGRSLSWEAKDFEIETHLVLESLAAELHALSWMTVSPTYLERRTALPFHCDMVLRLRRLLHFADKELSKQSEKS
Length1949
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-0.222
Instability index53.33
Isoelectric point5.36
Molecular weight211614.15
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

>MDP05589
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     140.29|      45|      57|       2|      58|       1
---------------------------------------------------------------------------
    2-   53 (70.01/75.61)	WTNVFkIGslhqiSW..FQFLpHEPDLNP.....LPDKS...VKVDQKDAAMLLVLSSHLQL
   62-  116 (70.29/41.52)	WTNSF.VG.....PWdpSQGL.HNPDEKIklwlfLPGRHssvVETAQTAVSGLRVVASGLWL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      83.38|      25|      57|     811|     836|       2
---------------------------------------------------------------------------
  811-  836 (43.51/35.19)	GNL.MPVGLSRSTGVSFLNQlPSD.PSM
  868-  894 (39.87/26.56)	GHLnAPVGVWRTLGASKVVK.PSNsPNM
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     129.98|      42|      57|     934|     976|       4
---------------------------------------------------------------------------
  934-  976 (77.64/51.54)	ISFVD.LALDADcGDGPYGLL..AMQEQWRRGFCC..GPSMVHAGCGG
  989- 1035 (52.34/28.16)	LELVDpLSADVD.ASTVISLLqsDIKTALKSAFSNleGPLSVTDWCKG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     195.59|      63|     417|    1365|    1456|       5
---------------------------------------------------------------------------
  228-  290 (117.73/55.05)	TGCSPSDLV..KQSYFS..STKFRVSNGI...............I.GLPYHVS....QGVGCQLRGQNCYVEVSLGFP.RSGT.DNTLQ
 1368- 1456 (77.85/83.17)	TSPSVSELVilKETAFTvySKARRISRGIssdfaqsafprshsvLtQMPSPISgmwkDCVGPRMAGHSLPREGDIDASlRPGTwDNSWQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     212.74|      55|      62|     652|     711|       6
---------------------------------------------------------------------------
  660-  719 (89.13/73.23)	Y...FPKSRKAKSSNSSS...NNYLYGA..APPTSpctEGseGKNGM..SANTKTGSGKYDASTTSLHSK
  720-  776 (51.45/29.27)	YyytFVESRKEKNDKNPAtcnDNSITKSegIPPLS...NI..GSNAIvkSAIRKTTEGTHEA........
 1508- 1553 (72.16/44.85)	......ESSKALADDSSG...N...YAQ..STSTA.......G.NAE..SASSTDGSGSDPETPPSLHCC
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     100.12|      33|      61|    1169|    1205|       9
---------------------------------------------------------------------------
 1169- 1205 (52.46/41.24)	LTSAAADFFQQLGTVYE.TCKLGTHSP..QGLgnqmEIES
 1231- 1266 (47.65/27.40)	LVGSVSDYFLSLSNGWDlTSYLKSLSKalRGL....KIGS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      99.21|      23|      28|     537|     564|      10
---------------------------------------------------------------------------
  518-  534 (23.10/ 7.56)	...........QALLSEFGDFGDFFEND
  539-  564 (37.87/31.75)	G..EPPGtaeSQALMLSAPDCGDVNSSP
  566-  590 (38.24/16.95)	GviDVPG...QILLPVGFPSFESFNPPP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      67.78|      19|      61|     300|     319|      11
---------------------------------------------------------------------------
  300-  318 (35.52/23.31)	PKLHVAESPIVGRSDH.KGS
 1798- 1817 (32.25/14.83)	PTCLTAESPPLAHLLHsKGS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      67.74|      21|      30|     396|     417|      13
---------------------------------------------------------------------------
  396-  417 (30.42/19.34)	DSSSNSNSSSISSlSASSSDSD
  429-  449 (37.32/20.08)	DADSLTCRQSMVS.SADQLDSD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      58.21|      17|      26|     471|     488|      23
---------------------------------------------------------------------------
  471-  488 (28.14/19.88)	NIPVQ...DAYMSDFGsMEVN
  497-  516 (30.07/16.57)	NDPIGsywDWDDDDRG.MEMD
---------------------------------------------------------------------------




































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 MDP05589 with Med13 domain of Kingdom Viridiplantae
Unable to open file!