<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 MDP09983

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMWTNIFKIGELQTVSWFQFLPIEPDASAASEKSSKVEQKDALNSIVLSAYLHLQSEGFLSTWTNSFVGPWDPSQGEHNPDEKIKLWLFLPGCHSSVSEIAQPAVNKLRVASNGLWVAPGNSEEVAAALSQALRNSLERSLKGLSYARFGDVFTKYNPPTRNQNSFRRAQPTVEFVFAATEEAIFVHVVISARYVRNLCSDDIEKVLAHSPPSIGEGLPVVVAPSGMLGRLVGCCPSDLVRQVYSSKSLTPNLPGFSQPTVCQLRGQSYYVEVALGFPAASAKKVSEFEHIHIKKELDPVKDAMVGSDGQRKVESPDGLPILERTFIYPPEAVLVPMVHQAFVRFSSKRMCLQGSLGSSSWEAWPFWNFAPSSYFQNSSFLGSSCGLGVNSNYLRLRRKKNKCNSMASSVSSVSSTSDGSQRAVATEGDIVADADSMSCRQSDMPSNNDTLGSKMVSKRPRSELTEVSSHTGKDVCENIQDPNGQVGHSWGWDDEGVVMDINILLSEFGDFSDFFQQEELDFGEPPGTAESHALVIPASDCGDVTFTDSPSTAMDIPEQRLSPVGFTTLDAFDHQIMAPAQDVVAKVQEPHNDTATPAQSHSQVLSSGRFDYLTKAEAKLTFAPEYAAVEILIAEAPTPLFTNPYFPRSKKPGSSSFSARVYSYDVAQSSQIESTGDKPDKTSKLISGNHLHDISSSNLYTLVQGGNKGSDKILKSTDTQPSKGELSPPISGVTSFNFSLVSQKKSGNMFNAGYFLLSMKTALATEIECITFQAAMCRIRHTLLSLRSKASAEFNSATSSFIQTNVSNKSDLTPRYDMRKKEIMTVRLSSDIDHEMFDRSLMDNVGVWRPVVTPKGPKSLESLSANTLTGASPSLSIQRQPVVDLLCAMTLLVQQSTSFVDMSLDMDDGDGSFFWLSLDEQKRRGFSCDPSMVHAGCGGLLGTCHSKDCAGVDLVDPLSAEVSEPSMISLLQSDIRVALKAAFANMDGPLSVIDWCRGRGNAAESAGTGDAYSFQYSSGDILEPSSSLSIGGDSMSPPQPTSSNRGISELEFQKGYHRVRPTIAVLPSPSMLVGYQDDWLKASVNSLKTWEKAPFEPYALPKPVTYYALCPDIDMLTSAVADFFMQLGTVYEVCKLGTHSPQNNGGQMELSPGKYLPSGLVLVDCPEQLKKVRCGHLGPISSTSDCLQAFSKHWSVKSFVTSISRILKDIKLTSNISTNQKESSSGPCTVIYVVCPFPEPCAILQTLVECSVALGYVISSPERERKLLYSQVAKALNSSASVDEASASNVVMLSGFSIPKLVLQIVTIETVLRMDKPNKELAVLKDIAFTVYNKARRIPRAVSTSDMFQSPTYLGRSQSTMMHVTSPAPTLWKECLVPRMSGPTLSRETDFDASMRSATWDNSWQPARSGGLLDPSKLPDLCAQDDRKYAFEPLFILADPGSADLNALMEPSKSGADASGSRVYGSISGSNSDSGVSPLLDVSESDSAASLHCCYGWTEDWRWLVCIWTDARGELLDSLIFPFGGISSRQDTKVLQSLFIQILQQGCQIMSSSPEASNMRPRDVIITRIGGFLELEIQEWQKAIYSYGGNEVKKWPVQLRRSIPEGIPPSSNGPTLQQQQQQDMALIQDRNMPSSPNPLYSPHPKSSFMKGALGQSGNKKQILVEQSGMDTSRGSLHLVRSISLVAVSQDHSLHLTCQADLLSRPASAGEGSQGSSGPWSYLEGFTPVKSIGSMSASHSYLLVPSPSMRYLSPATLQLPTCLTSESPPLAHLLHSKGTAIPLAMGYVVSKAVPPVRRDSAQLTKDEQPSVLSVSIIDHYGGSSGTVQEKMSRGGGGGSKQARNLSQETTGRECEMEMHSVLEAVAAELHSLSWLTVSPVYTERRTALPFHCDMVLRMRRLLHYADKYLSEPKGETTH
Length1916
PositionKinase
OrganismZea mays (Maize)
KingdomViridiplantae
LineageEukaryota> Viridiplantae> Streptophyta> Embryophyta> Tracheophyta> Spermatophyta> Magnoliopsida> Liliopsida> Poales> Poaceae> PACMAD clade> Panicoideae> Andropogonodae> Andropogoneae> Tripsacinae> Zea.
Aromaticity0.07
Grand average of hydropathy-0.244
Instability index55.37
Isoelectric point5.81
Molecular weight208552.58
Publications
PubMed=19965430

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

>MDP09983
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     101.98|      31|     107|    1403|    1435|       1
---------------------------------------------------------------------------
 1403- 1435 (51.10/37.12)	WQPARsGGLLDPSKLP..DLCAQDDRKyAFEPLFI
 1507- 1539 (50.88/27.90)	WTDAR.GELLDSLIFPfgGISSRQDTK.VLQSLFI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     166.57|      47|     107|     924|     982|       2
---------------------------------------------------------------------------
  924-  973 (80.11/43.76)	GFSCDPSMVHAGCGGLLGTCHSKdcaGVDLVDPLSAEVSEPSMISLLQSD
 1031- 1077 (86.46/39.34)	GDSMSPPQPTSSNRGISELEFQK...GYHRVRPTIAVLPSPSMLVGYQDD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     330.21|     104|     276|       7|     114|       4
---------------------------------------------------------------------------
    7-  114 (165.29/117.07)	KIGELQTVSWFQFL.PIEpDASAASEKSSKVEQKDALnSIVLSAYLHlQSEGFLSTWTN.SFVGPWDPS...QGEHNPD..EKIKLWLFLPGCHSSVSEIAQPAVNkLRVASNGL
  283-  393 (164.92/100.31)	KVSEFEHIHIKKELdPVK.DAMVGSDGQRKVESPDGL.PILERTFIY.PPEAVLVPMVHqAFVRFSSKRmclQGSLGSSswEAWPFWNFAPSSYFQNSSFLGSSCG.LGVNSNYL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      92.55|      28|     868|     845|     874|      10
---------------------------------------------------------------------------
  845-  874 (47.18/28.45)	GVWRPV..VTPkgPKSLESLSA..NTLTGASPSL
 1716- 1747 (45.37/21.78)	GPWSYLegFTP..VKSIGSMSAshSYLLVPSPSM
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      97.34|      32|      41|     671|     708|      14
---------------------------------------------------------------------------
  671-  708 (45.76/33.85)	IESTGDKPDK..TSKLISGnhlhdISSSNlYTLVQGGNKG
  713-  746 (51.58/24.06)	LKSTDTQPSKgeLSPPISG.....VTSFN.FSLVSQKKSG
---------------------------------------------------------------------------




































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 MDP09983 with Med13 domain of Kingdom Viridiplantae
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