<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 MDP20295

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMWTNIFKIGELQTVSWFQFLPIEPDASTTKERSSKAEQKDALNNIVLSAYLHLQSEGFLSTWTNSFVGPWDPSQGEHNPDEKIKLWLFLPGRHSSVSEMAQTAVNKLRVASNGLWVAPGNSEEVAAALSQALRNSLERSLRGLSYARFGDVFTKYNPPTRNQNSFRRAQPTVEFVFAATEEAIFVHVVISARYMRNLCSDDIEKVLTHSPRSVGEGLPVVVAPSGMLGRLVGCCPSDLVRQVYPSKSSAASLPGFTQPTVCQLRGQSYYVEVALGFPAASGDKVSESEHIQIKEEMDSAKDSQLGADGQRKVESPDSLPVLERTFIYPPEAVLVPMVHQAFVRFSSKRMCLQGLLGGSLWEAWPFWNFSPSSYFQNSSFLGSSRGLGVNSNFLRLRRKKNKCNGTASSISSVSSTSDGSERAVATEGDLLADADSMACRQSDMPSNNDNAGSKMVSKRPRSEITEVSSHAGKDVSENVRGANGQVGRPWGWDDEGVVMDINILLSEFGDFSDFFQEEELDFGEPPGTAESHALVIPASDFGDVTFTDSPSTAMDIPEQRLSPVGFTSMDAFDHQTMAPAQDAVSKVQEPQKDIATPAQSQSLVLSSGRFDYLTKAEAMLTFAPEYAAVEVSVAEMPTSLFTNPYLPRSKKPGSSSFSSRVYSYDVTQSSQIEPAGDKPEKPSKLTSGNPLRDVDSSNLYTLVQGRKKESEKSLNSTDMQPSKGEKSPPISGVTSFSSSLVSQKKSDSMFNAGYLLLSMKTALATEIECITFQAALCRIRHTLLSLRSKASAEFNSTMSSFMQTDVSNKSDLTPKYDIRKKEMMPIRLSSDVEHETHDRSLMESVGIWRPIVTPKGSNSLEPLSAKTLTGASPSLSMQRQPVVDLLFAMALLVQQSTSFVDISLDMDDGDGSFFWLSLDEQKRRGFSCDPSMVHAGCGGLLGTCHSKDCAGVDLVDPLCAEVSESSMFSLLQSDIRTALKAAFVNMDGPLSVTDWCRGRSNPAESASSGDAYSFQYSTGDIREPSSTMSIGGDSMSPPQPTSSNRGTSELEHQKGYHRVRPTIAVLPSPSVLVGYQDDWLKASVNGLKTWEKAPFEPYASPKPVTYYALCPDIDMLTSAATDFFLQLGTVYEVCKLGTHSPQNSGGQMELSPGKYLPSGLVLVECPDQLKKVGNNYLSPISSISDYLQAFSKHWSVKSFVTSVSRILRDIKLTSSISTNQKESSSGPCTVIYVVCPFPDPCAILQTLVESSVALGYVILSPERERKSLYFQVAKAQNSSASADEASASNVVMLSGFSIPKLVLQIVTIETVLRIDKPSNELAVLKDIAFTVYNKARRIPRAVSTNDMFQSPTYLGRSQSTMMHVTSPAPTLWKECLVPRMSGPTLSRETDYDAPMRSATWDNSWQPARAGGLLDPSKIPDLFAQDDRKYAFEPLFILADPGSVDPNASMESSKSGSDAGGSGVYGSISGSTSDSSVSPLLDGSESDRAASLHCCYGWTEDWRWLVCIWTDSRGELLDSLIFPFGGISSRQDTKVLQSLFIQILQQGCQIMSSSPEASNMRPRDVIITRTGGFLELEIQEWQKAIYSFGGNEVKKWPVQLRRSIPEGIPSNSNGPTLQQQDMALIQDRNMPSSPNPLYSPHSKASYMKGGLGQSGNKKQILVEQTGMDSSRGSLHLVRSISLVAVSQDHSLHLTCQADLLTRPASGEGNQGGSGPSSYLEGFTPVKSIGSMPASHSYLLVPSPSMRYLSPATLQLPTCLTSESPPLAHLLHSKGTAIPLAMGYVISKAVPPIRRDSAQVTREDRTSVLSVSIIDHYGGSIGTVQEKMSRGPGGSNMSKQARNFTQETSTRDYEMEMHNVLETVAAELHSLSWLTASPVYTERRTALPFHCDMVLRLRRLLHYADRHLTQPAEKGETA
Length1915
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.
Aromaticity0.08
Grand average of hydropathy-0.314
Instability index57.16
Isoelectric point5.73
Molecular weight208917.11
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

>MDP20295
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      95.51|      28|      60|    1624|    1652|       1
---------------------------------------------------------------------------
 1624- 1652 (48.25/33.90)	QDR..NMPSSPNPLYSPHSKASyMKGGLGQS
 1685- 1714 (47.27/27.75)	QDHslHLTCQADLLTRPASGEG.NQGGSGPS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     283.55|      90|     126|     514|     639|       2
---------------------------------------------------------------------------
  513-  606 (147.68/80.63)	FFQEEELDFGEPPGTAESHALVIPAsdfgDVTFTDSPSTAMDIPEQ..RL.SPVGFTSMDAFDHQTMAPAQDAVSKVQ......EPQKDIATPAQSQSLVLSS
  639-  737 (135.87/85.22)	LFTNPYLPRSKKPGSSSFSSRVYSY....DVTQSSQIEPAGDKPEKpsKLtSGNPLRDVDSSNLYTLVQGRKKESEKSlnstdmQPSKGEKSPPISGVTSFSS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      77.85|      25|     126|     116|     145|       3
---------------------------------------------------------------------------
   90-  114 (41.93/19.85)	PGRHSSV.SEMAQTAVNKLRVASNGL
  118-  143 (35.92/20.31)	PGNSEEVaAALSQALRNSLERSLRGL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     263.08|      80|     126|    1215|    1303|       4
---------------------------------------------------------------------------
 1215- 1303 (123.20/87.49)	ISTN...QKESSSGPCTVIYVVCPFPDPCAILQTLVESsvalgyvILSPERERKSLYFQVAKAQNSSASADEASASNvvMLSGFSIPKLVLQ
 1341- 1423 (139.88/80.87)	VSTNdmfQSPTYLGRSQSTMMHVTSPAPTLWKECLVPR.......MSGPTLSRETDYDAPMRSATWDNSWQPARAGG..LLDPSKIPDLFAQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     120.53|      27|      34|     367|     393|       7
---------------------------------------------------------------------------
  344-  366 (38.37/20.69)	.FS.SKRMCLQGLL.GGS..LWEAWPFW
  367-  393 (47.56/27.76)	NFSPSSYFQNSSFL.GSSRGLGVNSNFL
  403-  430 (34.60/17.80)	NGTASSISSVSSTSdGSERAVATEGDLL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     130.21|      40|      56|     898|     938|       8
---------------------------------------------------------------------------
  898-  938 (72.14/50.66)	FVDiSLDMDDGDGSFFWLSLDEQK...RRGF.SCD.PSMVHAGCGG
  953-  997 (58.07/35.50)	LVD.PLCAEVSESSMFSLLQSDIRtalKAAFvNMDgPLSVTDWCRG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      73.12|      23|     114|     195|     220|       9
---------------------------------------------------------------------------
  195-  218 (36.18/22.84)	R..NLCSDDIEKVLtHSPRSVGEGLP
  229-  253 (36.93/14.16)	RlvGCCPSDLVRQV.YPSKSSAASLP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     150.64|      48|     731|    1001|    1054|      11
---------------------------------------------------------------------------
 1001- 1054 (72.54/52.07)	PAESASSGDAySFQYstgdIREPSSTMS.IGGDSM.sPPQPTSSNRGTSELEHQKG
 1722- 1772 (78.10/39.43)	PVKSIGSMPA.SHSY....LLVPSPSMRyLSPATLqlPTCLTSESPPLAHLLHSKG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      48.37|      15|     731|     169|     186|      13
---------------------------------------------------------------------------
  169-  186 (22.26/21.63)	QPTVEFVFAAteeAIFVH
  879-  893 (26.12/16.07)	QPVVDLLFAM...ALLVQ
---------------------------------------------------------------------------




































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 MDP20295 with Med13 domain of Kingdom Viridiplantae
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