<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 MDP20298

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMWTNIFKIGELQTVSWFQFLPIEPDASTTKERSSKAEQKDALNNIVLSAYLHLQSEGFLSTWTNSFVGPWDPSQGEHNPDEKIKLWLFLPGRHSSVSEMAQTAVNKLRVASNGLWVAPGNSEEVAAALSQALRNSLERSLRGLSYARFGDVFTKYNPPTRNQNSFRRAQPTVEFVFAATEEAIFVHVVISARYMRNLCSDDIEKVLTHSPRSVGEGLPVVVAPSGMLGRLVGCCPSDLVRQVYPSKSSAASLPGFTQPTVCQLRGQSYYVEVALGFPAASGDKVSESEHIQIKEEMDSAKDSQLGADGQRKVESPDSLPVLERTFIYPPEAVLVPMVHQAFVRFSSKRMCLQGLLGGSLWEAWPFWNFSPSSYFQNSSFLGSSRGLGVNSNFLRLRRKKNKCNGTASSISSVSSTSDGSERAVATEGDLLADADSMACRQSDMPSNNDNAGSKMVSKRPRSEITEVSSHAGKDVSENVRGANGQVGRPWGWDDEGVVMDINILLSEFGDFSDFFQEEELDFGEPPGTAESHALVIPASDFGDVTFTDSPSTAMDIPEQRLSPVGFTSMDAFDHQTMAPAQDAVSKVQEPQKDIATPAQSQSLVLSSGRFDYLTKAEAMLTFAPEYAAVEVSVAEMPTSLFTNPYLPRSKKPGSSSFSSRVYSYDVTQSSQIEPAGDKPEKPSKLTSGNPLRDVDSSNLYTLVQGRKKESEKSLNSTDMQPSKGEKSPPISGVTSFSSSLVSQKKSDSMFNAGYLLLSMKTALATEIECITFQAALCRIRHTLLSLRSKASAEFNSTMSSFMQTDVSNKSDLTPKYDIRKKEMMPIRLSSDVEHETHDRSLMESVGIWRPIVTPKGSNSLEPLSAKTLTGASPSLSMQRQPVVDLLFAMALLVQQSTSFVDISLDMDDGDGSFFWLSLDEQKRRGFSCDPSMVHAGCGGLLGTCHSKDCAGVDLVDPLCAEVSESSMFSLLQSDIRTALKAAFVNMDGPLSVTDWCRGRSNPAESASSGDAYSFQYSTGDIREPSSTMSIGGDSMSPPQPTSSNRGTSELEHQKGYHRVRPTIAVLPSPSVLVGYQDDWLKASVNGLKTWEKAPFEPYASPKPVTYYALCPDIDMLTSAATDFFLQLGTVYEVCKLGTHSPQNSGGQMELSPGKYLPSGLVLVECPDQLKKVGNNYLSPISSISDYLQAFSKHWSVKSFVTSVSRILRDIKLTSSISTNQKESSSGPCTVIYVVCPFPDPCAILQTLVESSVALGYVILSPERERKSLYFQVAKAQNSSASADEASASNVVMLSGFSIPKLVLQIVTIETVLRIDKPSNELAVLKDIAFTVYNKARRIPRAVSTNDMFQSPTYLGRSQSTMMHVTSPAPTLWKECLVPRMSGPTLSRETDYDAPMRSATWDNSWQPARAGGLLDPNAGGSGVYGSISGSTSDSSVSPLLDGSESDRAASLHCCYGWTEDWRWLVCIWTDSRGELLDSLIFPFGGISSRQDTKVLQSLFIQILQQGCQIMSSSPEASNMRPRDVIITRTGGFLELEIQEWQKAIYSFGGNEVKKWPVQLRRSIPEGIPSNSNGPTLQQQDMALIQDRNMPSSPNPLYSPHSKASYMKGGLGQSGNKKQILVEQTGMDSSRGSLHLVRSISLVAVSQDHSLHLTCQADLLTRPASGEGNQGGSGPSSYLEGFTPVKSIGSMPASHSYLLVPSPSMRYLSPATLQLPTCLTSESPPLAHLLHSKGTAIPLAMGYVISKAVPPIRRDSAQVTREDRTSVLSVSIIDHYGGSIGTVQEKMSRGPGGSNMSKQARNFTQETSTRDYEMEMHNVLETVAAELHSLSWLTASPVYTERRTALPFHCDMVLRLRRLLHYADRHLTQPAEKGETA
Length1874
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-0.310
Instability index57.72
Isoelectric point5.84
Molecular weight204502.30
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

>MDP20298
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      95.51|      28|      60|    1583|    1611|       1
---------------------------------------------------------------------------
 1583- 1611 (48.25/29.38)	QDR..NMPSSPNPLYSPHSKASyMKGGLGQS
 1644- 1673 (47.27/24.03)	QDHslHLTCQADLLTRPASGEG.NQGGSGPS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     283.55|      90|     126|     514|     639|       2
---------------------------------------------------------------------------
  513-  606 (147.68/71.58)	FFQEEELDFGEPPGTAESHALVIPAsdfgDVTFTDSPSTAMDIPEQ..RL.SPVGFTSMDAFDHQTMAPAQDAVSKVQ......EPQKDIATPAQSQSLVLSS
  639-  737 (135.87/75.66)	LFTNPYLPRSKKPGSSSFSSRVYSY....DVTQSSQIEPAGDKPEKpsKLtSGNPLRDVDSSNLYTLVQGRKKESEKSlnstdmQPSKGEKSPPISGVTSFSS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      77.85|      25|     126|     116|     145|       3
---------------------------------------------------------------------------
   90-  114 (41.93/25.70)	PGRHSSV.SEMAQTAVNKLRVASNGL
  118-  143 (35.92/26.29)	PGNSEEVaAALSQALRNSLERSLRGL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      46.87|      13|     126|    1099|    1111|       4
---------------------------------------------------------------------------
 1099- 1111 (27.89/14.93)	SPKPVT.YYALC..PD
 1223- 1238 (18.98/ 7.87)	SSGPCTvIYVVCpfPD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      85.04|      24|      56|    1377|    1404|       6
---------------------------------------------------------------------------
 1377- 1404 (42.02/31.21)	PRMSGptlsRETDYDAPMRSA.TWDNSWQ
 1436- 1460 (43.02/22.67)	PLLDG....SESDRAASLHCCyGWTEDWR
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     519.17|     184|     731|     169|     365|       8
---------------------------------------------------------------------------
  169-  260 (119.85/64.90)	..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................QPTVEFVFAAT....EEAI...................FVHVVISARYMRNLCSDDIEK.....VLTHSPRSVGEGL...PVVVAPSGMLGRLVGCCPS......DLVRQV...YP..SKSSAAS..LPGFTQPTV
  261-  365 (98.41/86.63)	CqlRGQSYYVEV.....ALGFPAASGDKVSESEHIQIKEEMDSAKDSQLGADGQRKVESPDSLpvlERtfIYPPEAVL.VPMVhqaFVRFSSK..RMCLQGLlggSLWEAWPF.........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................
  879-  974 (68.53/31.87)	.................................................................................................................wnfspssyfqnssflgssrglgvnsnflrlrrkknkcngtassissvsstsdgseravategdlladadsmacrqsdmpsnndnagskmvskrprseitevsshagkdvsenvrgangqvgrpwgwddegvvmdinillsefgdfsdffqeeeldfgeppgtaeshalvipasdfgdvtftdspstamdipeqrlspvgftsmdafdhqtmapaqdavskvqepqkdiatpaqsqslvlssgrfdyltkaeamltfapeyaavevsvaemptslftnpylprskkpgsssfssrvysydvtqssqiepagdkpekpskltsgnplrdvdssnlytlvqgrkkesekslnstdmqpskgeksppisgvtsfssslvsqkksdsmfnagylllsmktalateiecitfqaalcrirhtllslrskasaefnstmssfmqtdvsnksdltpkydirkkemmpirlssdvehethdrslmesvgiwrpivtpkgsnsleplsaktltgaspslsmqrQPVVDLLFAMAllvqQSTS...................FVDI........SLDMDDGDGsffwlSLDEQKRRGFSCD...PSMV.HAG.CGGLLGTCHSkdcagvDLVD......PlcAEVSESS..MFSLLQSDI
  995- 1191 (232.37/140.65)	C..RGRSNPAESassgdAYSFQYSTGDIREPSSTMSIGGDSMSPPQPTSSNRGTSELEHQKGY...HR..VRPTIAVLpSPSV...LVGYQDDwlKASVNGL...KTWEKAPF....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................epyaspkpvtyyalcpdidMLTSAATDFFLQLGTVYEVCK.....LGTHSPQNSGGQMelsPGKYLPSGLV..LV.ECPD......QL.KKVgnnYL..SPISSISdyLQAFSK...
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      86.87|      30|      30|     410|     439|      12
---------------------------------------------------------------------------
  381-  417 (39.62/23.04)	GSSRGLGVNSNFLrlrrkkNKCNGTASSiSSVSSTSD
  418-  448 (47.25/29.12)	GSERAVATEGDLL......ADADSMACRqSDMPSNND
---------------------------------------------------------------------------




































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 MDP20298 with Med13 domain of Kingdom Viridiplantae
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