<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 MDP20297

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMDINILLSEFGDFSDFFQEEELDFGEPPGTAESHALVIPASDFGDVTFTDSPSTAMDIPEQRLSPVGFTSMDAFDHQTMAPAQDAVSKVQEPQKDIATPAQSQSLVLSSGRFDYLTKAEAMLTFAPEYAAVEVSVAEMPTSLFTNPYLPRSKKPGSSSFSSRVYSYDVTQSSQIEPAGDKPEKPSKLTSGNPLRDVDSSNLYTLVQGRKKESEKSLNSTDMQPSKGEKSPPISGVTSFSSSLVSQKKSDSMFNAGYLLLSMKTALATEIECITFQAALCRIRHTLLSLRSKASAEFNSTMSSFMQTDVSNKSDLTPKYDIRKKEMMPIRLSSDVEHETHDRSLMESVGIWRPIVTPKGSNSLEPLSAKTLTGASPSLSMQRQPVVDLLFAMALLVQQSTSFVDISLDMDDGDGSFFWLSLDEQKRRGFSCDPSMVHAGCGGLLGTCHSKDCAGVDLVDPLCAEVSESSMFSLLQSDIRTALKAAFVNMDGPLSVTDWCRGRSNPAESASSGDAYSFQYSTGDIREPSSTMSIGGDSMSPPQPTSSNRGTSELEHQKGYHRVRPTIAVLPSPSVLVGYQDDWLKASVNGLKTWEKAPFEPYASPKPVTYYALCPDIDMLTSAATDFFLQLGTVYEVCKLGTHSPQNSGGQMELSPGKYLPSGLVLVECPDQLKKVGNNYLSPISSISDYLQAFSKHWSVKSFVTSVSRILRDIKLTSSISTNQKESSSGPCTVIYVVCPFPDPCAILQTLVESSVALGYVILSPERERKSLYFQVAKAQNSSASADEASASNVVMLSGFSIPKLVLQIVTIETVLRIDKPSNELAVLKDIAFTVYNKARRIPRAVSTNDMFQSPTYLGRSQSTMMHVTSPAPTLWKECLVPRMSGPTLSRETDYDAPMRSATWDNSWQPARAGGLLDPSKIPDLFAQDDRKYAFEPLFILADPGSVDPNASMESSKSGSDAGGSGVYGSISGSTSDSSVSPLLDGSESDRAASLHCCYGWTEDWRWLVCIWTDSRGELLDSLIFPFGGISSRQDTKVLQSLFIQILQQGCQIMSSSPEASNMRPRDVIITRTGGFLELEIQEWQKAIYSFGGNEVKKWPVQLRRSIPEGIPSNSNGPTLQQQDMALIQDRNMPSSPNPLYSPHSKASYMKGGLGQSGNKKQILVEQTGMDSSRGSLHLVRSISLVAVSQDHSLHLTCQADLLTRPASGEGNQGGSGPSSYLEGFTPVKSIGSMPASHSYLLVPSPSMRYLSPATLQLPTCLTSESPPLAHLLHSKGTAIPLAMGYVISKAVPPIRRDSAQVTREDRTSVLSVSIIDHYGGSIGTVQEKMSRGPGGSNMSKQARNFTQETSTRDYEMEMHNVLETVAAELHSLSWLTASPVYTERRTALPFHCDMVLRLRRLLHYADRHLTQPAEKGETA
Length1418
PositionKinase
OrganismPanicum hallii var. hallii
KingdomViridiplantae
LineageEukaryota> Viridiplantae> Streptophyta> Embryophyta> Tracheophyta> Spermatophyta> Magnoliopsida> Liliopsida> Poales> Poaceae> PACMAD clade> Panicoideae> Panicodae> Paniceae> Panicinae> Panicum> Panicum sect. Panicum.
Aromaticity0.07
Grand average of hydropathy-0.298
Instability index57.23
Isoelectric point5.54
Molecular weight154474.64
Publications









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

>MDP20297
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      96.09|      28|      60|    1127|    1155|       1
---------------------------------------------------------------------------
 1127- 1155 (48.13/29.03)	QDR..NMPSSPNPLYSPHSKASyMKGGLGQS
 1188- 1217 (47.97/24.53)	QDHslHLTCQADLLTRPASGEG.NQGGSGPS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     142.47|      42|     126|      16|      61|       2
---------------------------------------------------------------------------
   16-   61 (68.55/46.84)	FFQEEELDFGEPPGTAESHALVIPAsdfgDVTFTDSPSTAMDIPEQ
  142-  183 (73.92/41.21)	LFTNPYLPRSKKPGSSSFSSRVYSY....DVTQSSQIEPAGDKPEK
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     263.08|      80|     126|     718|     806|       3
---------------------------------------------------------------------------
  718-  806 (123.20/85.23)	ISTN...QKESSSGPCTVIYVVCPFPDPCAILQTLVESsvalgyvILSPERERKSLYFQVAKAQNSSASADEASASNvvMLSGFSIPKLVLQ
  844-  926 (139.88/78.77)	VSTNdmfQSPTYLGRSQSTMMHVTSPAPTLWKECLVPR.......MSGPTLSRETDYDAPMRSATWDNSWQPARAGG..LLDPSKIPDLFAQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     130.21|      40|      56|     401|     441|       6
---------------------------------------------------------------------------
  401-  441 (72.14/47.77)	FVDiSLDMDDGDGSFFWLSLDEQK...RRGF.SCD.PSMVHAGCGG
  456-  500 (58.07/33.48)	LVD.PLCAEVSESSMFSLLQSDIRtalKAAFvNMDgPLSVTDWCRG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     208.25|      65|     798|     507|     585|       7
---------------------------------------------------------------------------
  507-  585 (99.30/81.75)	SASSGDAYSfqYSTGDIREPsstMS..IGGDSMSpPQPTSSNRGTSELEHQKGYHRVRPTIAV.LPSPSvlvgyqddWLKAS
 1310- 1377 (108.95/58.22)	SVSIIDHYG..GSIGTVQEK...MSrgPGGSNMS.KQARNFTQETSTRDYEMEMHNVLETVAAeLHSLS........WLTAS
---------------------------------------------------------------------------




































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 MDP20297 with Med13 domain of Kingdom Viridiplantae
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