<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 MDP30991

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMWTNVFRIGGLHNVSWFQFLPSEAELSPASDTTSSRAEQNDAATYLVLSSHLRLQKEGFLTTWTNSFVGPWDPSQGLYNPDEKIKLWLFLPGRHSSIADKAQAAVSKLRVVASGIWVAPGDSEEISVAFSQSLRNCIERALSGLSYMRFGDVFSKFSPQSEDYLRRGQPTVEFIFAATEEAVFVHVIVSAKNVRALSSGDAERLLRSSLKNSSYRLPVIVSPHGMRGSLTGFCPNDLVKQVYFSSGNIGTSSGYIGLPSHVGRGSRLINDNHCYVEVTLGCCQSINDNASQTNSTFAVNLPHNQRPEPSVGSRDHRKGQQDISSVREKKFIYPAEAVLVPILQSAFAKFSLKRFWLQNWIGPSLTGSSLSMHWAGDFEFLGSSGNKSDGFYEKNGYNSSGSSRNSSISSTSSASSGSGWRMASRTGDLDADADSLTCRQSGLTCNDDRPKSGSKRSRTGRTESFGQVDDQIGWDWDDDDDDDDDRGVGMDIKALLSEFGDFGDFFENDALPFGEPPGTAESHTLMIPPDSAEIGCSPVDMMDVSDQIVLPDGFSSFESFNPVPPIIDECLIKSQEVINSSVTSATSNQMSSSSTGEFDHLIKAEAMMTFAPEYGAVEVPMSEISSFKSPYLPKSHKVESSHSRTSNYVYGPTPPATDSDGAADKNLLGSKACIGNNDGRTLFQSRDYYTQVEGRKDQHKMLPTVISDNSSTKEGVSQLKYSNFSAVKTIQGKKSDGISAVVSTLLSSKTLLATDVGSVMFQAFMSRMRHIIISSKHSSPFSLTRLSGKLFLNQLSNEPSSLTDNISARNEIYKKEIPTRIAGGFDGGMIDSHMSAPVGVWRTVSVPKTAKPASSPNIEAGSSLPHSSFSEDSLLSYGQRQPLQELLDGVALLVQQATSFVDLALDSDCGDGPYGWLALEELWRRELSCGPSAGHAGCGGTLASCHSLDIAGVKLVDPLSAEVFPSSVITLLQSDIKTALKSAFGQSDGPLSVTDWCKGRNHAMDGGSISEGSTAESSLREAMSIDSGKREETAQSQDIYSSELLRPTLFVLPSPSILVGYQDDWLKISTNALPHWEKAPFEPYALPKNMSYTVVCPDIDPLTSAATDFFQQLGTVYETCRLGTHLPHILGNQMETDAGRLSSSGFVLLDCPQSMKIESNNTSLLGSLSDYFLSLSNGWNVTSYLKSLSKALKGLKLESCLYTNQKEGSATSPCIVVYIVCPFPDPSAVLRTIVQSSIALGSGIQPDKDRRSLLNSQVARAFASSAAVDEASISHIPVLSGFSVPKLVLQVVSVDSIFRITSPSFNELVILKDTAFSVYNKARKISRGMPNDAFQSSSLSSRSSSALTPMSSISGSWKDCVGSRMTGSTHPRDGERDSSMRTSWDSWQMTRSGGLSCDPNRNEDFYLNDESFYLFEPLFILSEPGSVERGVSPTFGGLGSESSKPVPEDGGRGSGLGVNAMEGIPSGSSSQGDASQVEGKNIPSLHCCYGWTEDWRWLVSIWTDARGELLDTHIFPFGGISSRQDTKGLQCLFVQVLQQGCQILQACSSPDNGSSKPRDFVITRIGNFFELEYLEWQKAIYSAGGPDIKKWPIQLRRSAPSGIATNSSVSSLQPPDMSLIQERASSSSTLYSSHSKPSNFVKGSMGQSAGRKQIMGGQTISGTPRGLFQWVHSISFTSISLDQSLHLVLPAELVSPGGTGMSSSNYIEGFTPVKSLGSTAYSYMMIPSPNMRFLHPSPLQLPTCLTAESPPLAHLLHSKGCAIPLSTGFVVSKAVPSMRKDSRINMKEEWPSVLSVSLIDYYGGYDNAHDKILHGIMKQSGGGTQETRDFEVESHLILESIAAELHALSWMTVSPAYLDRRTALPFHCDKVLRLRRLLHFADKELQTTR
Length1888
PositionKinase
OrganismBrassica rapa subsp. pekinensis (Chinese cabbage) (Brassica pekinensis)
KingdomViridiplantae
LineageEukaryota> Viridiplantae> Streptophyta> Embryophyta> Tracheophyta> Spermatophyta> Magnoliopsida> eudicotyledons> Gunneridae> Pentapetalae> rosids> malvids> Brassicales> Brassicaceae> Brassiceae> Brassica.
Aromaticity0.08
Grand average of hydropathy-0.278
Instability index53.20
Isoelectric point5.67
Molecular weight204935.51
Publications
PubMed=21873998

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

>MDP30991
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     625.97|     160|     288|     222|     396|       1
---------------------------------------------------------------------------
  157-  269 (114.26/60.71)	..........................................SPQSEDYlRRG..QPTV......EFIFAAteEAVFVHVIVSAKNVRALSSGDAERLLRSSLKNSS..YRLP..................................................vivsphGMRGSLTGFCPNDlvkqvyfsSG....NIGTS.......SGYIGLPSHVGRGS.RLIN
  270-  423 (236.34/124.57)	DNHCYVEVTLGCCQS...INDNASQTNSTFAvnlpHNQRPEPSVGSRDH.RKG..QQDISSVREKKFIYPA..EAVLVPILQSAFAKFSLKRFWLQNWIGPSLTGSS..LSMHW..................AGDFEFLGSS...GNkSDG...FYEKNGY...............................nssgSSRNS.......SISSTSSASSGSGW.RMAS
  427-  560 (156.56/74.21)	DLDADAD.SLTCRQSgltCNDDRPKSGSKRS....RTGRTE.SFGQVDD.QIGwdWDDDDDDDDDRGV......GMDIKALLSEFGDFG..DFFEND................................................................alpfgeppGTAESHTLMIPPD........SA....EIGCSpvdmmdvSDQIVLPD..GFSSfESFN
  561-  688 (118.81/51.65)	PVPPIIDECLIKSQE...VI.NSSVTSAT......SNQMSSSSTGEFDH..................LIKA..EAMMT..FAPEYGAVEVPMSEISSFKSPYLPKSHkvESSHSrtsnyvygptppatdsdgAADKNLLGSKaciGN.NDGrtlFQSRDYY..................................................................
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     264.21|      71|      74|     898|     968|       2
---------------------------------------------------------------------------
  898-  968 (131.41/80.32)	SFVDLALDSDCG..DGPYGWLALEELWRRELSCGPSAGHAGCGGT..........LASCHSLDIAGVKLVDPLSAEVFPSSVI
  973- 1044 (91.88/53.67)	SDIKTALKSAFGqsDGP...LSVTD.W.....C.KGRNHAMDGGSisegstaessLREAMSID.SGKREETAQSQDIYSSELL
 1488- 1518 (40.92/19.30)	.................YGW...TEDWRWLVSIWTDA.....RGE..........LLDTHIFPFGG.................
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     114.68|      36|      69|    1612|    1648|       3
---------------------------------------------------------------------------
 1612- 1639 (40.77/20.23)	..........................................QPPDMSLIQERASSSSTL.YSSHSKPSNF
 1640- 1709 (38.52/23.66)	VKgSMGQSAgrkqimggqtisgtprglfqwvhsisftsisldQSLHLVLPAELVSPGGTG.MSSSNYIEGF
 1712- 1758 (35.40/16.65)	VK.SLGSTA...................ysymmipspnmrflHPSPLQLPTCLTAESPPLaHLLHSK....
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      39.51|      10|     124|    1093|    1104|       4
---------------------------------------------------------------------------
 1093- 1104 (16.73/13.08)	VVCPDIDPltSA
 1218- 1227 (22.78/11.43)	IVCPFPDP..SA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     124.38|      38|      60|       2|      43|       5
---------------------------------------------------------------------------
    2-   43 (56.95/43.10)	WTNVFrIGGlHNVSWFQFLPSEA....ELSPASDttSSRAEQNDAA
   63-  104 (67.43/36.59)	WTNSF.VGP.WDPSQGLYNPDEKiklwLFLPGRH..SSIADKAQAA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      47.76|      16|      17|    1449|    1465|       6
---------------------------------------------------------------------------
 1449- 1465 (25.21/19.82)	GGRGSGlGVNAMEG..IPS
 1466- 1483 (22.55/11.42)	GSSSQG.DASQVEGknIPS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      56.81|      16|      17|    1153|    1168|      10
---------------------------------------------------------------------------
 1153- 1168 (27.47/17.50)	SMKIESNNTSLLGSLS
 1173- 1188 (29.35/19.30)	SLSNGWNVTSYLKSLS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     232.07|      74|     622|     755|     837|      11
---------------------------------------------------------------------------
  699-  749 (69.47/33.86)	...........KMLPTVISDNSST.........KEGVSQLKYS.......NFSAVKTIQGKK.....SDGI.SAVVSTLLSSKT
  755-  837 (107.11/78.79)	VgSVMFQAFMSRMRHIIISSKHSSPFSltRLSGKLFLNQLSNEP.SSLTDNISARNEIYKKEiptriAGGFdGGMIDSHMSAPV
  843-  889 (55.49/24.22)	V.SVPKTAKPASSPNIEAGS..SLPHS..SFSEDSLLSYGQRQPlQELLDGV................................
---------------------------------------------------------------------------




































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 MDP30991 with Med13 domain of Kingdom Viridiplantae
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