<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 MDP16047

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMWTNVFKIGGLHQISWFQFLPSESDLNPLPDKSVKAEQKDAATLLVLLSHLQLQKEGFLSTWTNSFVGPWDPSQGMHNPDEKIKLWLFIPGRHSSVLETAQSAVSRLRVVGSGLWVAPGDSEEVAVALSQALRNCIERALRGISYMRYGDVFTRCYPFSQSGKQSRRVQPTVEFIFAATEEALFVHVIISAKHIRSLSRDDMEKILRRCSPRKHGERLPVIVAPHGMRGQLSGCCPSDLVKQVYLSSSKVKASNGFTVVNIPSNVAQASGCQLRGQNCHVEVTLGCPGTGDKAVHLNSNFIWNKPNHHSTESPMVALDRDDQKHGSTDYYRVSERTFIYPAEAVVVPVMQTTFARSSLKRFWLQNWAGAALFGSCFLTNCSGFGRVGSSESMYQPWIDSNGIRSQNSSSNSNNSSVSGITGSSSGSDYQMISGAGDLEADADSFTCRQSGLSSNDQLENDDNKQVCKRARKGTSESFNGAGTVLNTDIEVKTSIVGAVNDQVGSLWDWDAEERVELDIQILLSDFGDFGDFFVSDTLPFGEPPGTDESQAIVYSVLDCGDVNGSPCAGAMDVTDQMLLPALEFPSFDSINPLPLVVTDESQSKQQELEKDTWSSALGSYSSALSAGEFDTLSKAEAMMTFAPEYTAVEAPPNELLAQTFRSPYLPVSRKVERSNFSSSAYAYGATPPSSCLTFPDQNPSMSQNIKTCPAGLESSHAMNYKKCYTHVTMEKEIDGKLIDCNNNIASSEGLRPSSSFSGYNSINTVKSLKRKRAEENTEPRNILLSLEIVIASEVECIMFQASMCRIRHMPSLSSNLLSSVPSNFTGNSALEHPRGDNLTISDKTSSRYDVKKKESIPVRIAGDVDVGMLDGSFNAPVGVWRSVGVPKGAKPTSSSSIDNAPSFHNNSFNEESRHMYGQRQPLQELLNAMTLLVQQATSFVDVALDAEYGDGPFGWLALEEQSRRGFSCGPSMVHAGCGGVLATCHSLDIAGVELLDPLSSNVHASSVISLLHSDIKVALKSAFGNLDGPLLVTDWCKGRNQLSDTGNPNDVYSGESATGDAKDSLSAVTLAAGEPMSPTNSSGGSSCLKDGVRVDETTQRRLNQEIGSSESDQQLNSSRLRPTLLLLPMPAILVGYQDDWLKTSTSSLQLWEKAPLEPYAAPKPTTYYVVCPDIDPLASAAADFFQQLGTVYETCKLGTHTPQNMGAQTDLLSGKWASSGFVMIDCPQSMKMESGKASIMGSISDYLLALSNAWDVRSFLKSLSNVIKALRLGPNSTTNPKEGSSGPGMVIYVVCPFPEPVAVLQTVIESSTALGSTIVSSDKERRSLLHNQVARALSCSVAVDEASLSNILTISGFSIPKLVLQIVTVEAILRVTSPALNELVLLKEIAFTVYNKSRRLARVSNNDVVQSPGVSVRPQSTMMHMASPISGMWKDCIAPRITGSLPREGELDTSLRGGTWENSWQAARTGGLSCDQNRLGDKICQDDVRYLFEPLFVLAEPGSVEQGVSPMMVSNAMVDSPRPAVDDGSSGGFVQCSTSVGADIGPSSLHEGSESDGCGHSHPKTTSLHCCYGWTEDWRWLVCVWTDSRGEFLDSQIFPFGGIGSRQDTKGLQCLFVQVLHQGCQILSCSSPDAGSIKPRDIIITRIGSFYELERQEWQKAIYLVGGNEVKKWPLQLRRSVPDGISASNGNSLHQQGMSLIQDRTLSSSPNPSMYSPQTKASGYIKGGLGQMNARKTGGQAAVDNSRGLFLWVRSISLIGVSVDHSLHLILQADTPLSGGGAQGAAATGPVGYLEGFSPVKSLGSTSASYILIPSPSMHFLPPKPLQLPTCLTSDSPPLAHLLHSKGSAIPLSTGFVVSKAVPSIQKDTRSSMKEEWPSILSVSLVDYYGSSNIPQEKIARGSIKHARSINSDARDHEIETHLILESVAAELHALSWMTASPAYLERRTALPFHCDMILRLRRLIHYADKEICQKPDKVQM
Length1980
PositionKinase
OrganismAquilegia coerulea (Rocky mountain columbine)
KingdomViridiplantae
LineageEukaryota> Viridiplantae> Streptophyta> Embryophyta> Tracheophyta> Spermatophyta> Magnoliopsida> Ranunculales> Ranunculaceae> Thalictroideae> Aquilegia.
Aromaticity0.07
Grand average of hydropathy-0.230
Instability index49.80
Isoelectric point5.74
Molecular weight214538.65
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

>MDP16047
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     426.18|     140|     151|    1622|    1771|       1
---------------------------------------------------------------------------
 1621- 1770 (219.32/108.65)	QGCQILSCSSPD.AGSIKPrdiiITRIGSFYELERQEWQKAIY.LVGGNEVK...KWPLQLRRSVPDGiSASNGNSLHQQGMSL.IQDRTLSSSPNPSMySPQTKAS......GYIKGGLGQMNARKTGGQAAVdnSRGLFLWVRSISliGVSVDHSL..HLIL
 1771- 1924 (206.87/84.53)	QADTPLSGGGAQgAAATGP....VGYLEGFSPVKSLGSTSASYiLIPSPSMHflpPKPLQLPTCLTSD.SPPLAHLLHSKGSAIpLSTGFVVSKAVPSI.QKDTRSSmkeewpSILSVSLVDYYGSSNIPQEKI..ARGSIKHARSIN..SDARDHEIetHLIL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      73.66|      20|     151|     372|     391|       2
---------------------------------------------------------------------------
  372-  391 (39.21/21.86)	FGSCFLTNCSGFGRV.GSSES
  528-  548 (34.45/18.25)	FGDFFVSDTLPFGEPpGTDES
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     132.45|      42|     158|    1013|    1087|       3
---------------------------------------------------------------------------
  593-  637 (66.56/18.63)	PLVVTDESQSKQQELE....KDTWS..SALGSYSSALSAgefDTLSKAEAM
 1028- 1075 (65.89/67.44)	PLLVTDWCKGRNQLSDtgnpNDVYSgeSATGDAKDSLSA...VTLAAGEPM
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     123.98|      27|     309|    1217|    1244|       6
---------------------------------------------------------------------------
  253-  275 (34.30/14.51)	SNGFTVVNIPSNVAQASG.CQLR.G...
 1217- 1243 (49.10/25.78)	SSGFVMIDCPQSMKMESGKASIM.GSIS
 1529- 1554 (40.58/19.29)	SGGFV..QCSTSVGADIGPSSLHeGSES
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      78.14|      24|     159|     174|     199|       8
---------------------------------------------------------------------------
  174-  199 (35.94/30.78)	FIFAAteEALFVHVIISAKHIRSLSR
  337-  360 (42.20/29.16)	FIYPA..EAVVVPVMQTTFARSSLKR
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     118.03|      26|     315|     410|     438|      10
---------------------------------------------------------------------------
  410-  435 (46.03/25.21)	NSNNSSVSGITGSSSGSDYQMISGAG
  459-  481 (38.15/20.20)	NDDNKQVC..KRARKGTS.ESFNGAG
  740-  762 (33.84/13.70)	NNNIASSEGLRPSSSFSGYNSIN...
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     153.22|      53|     315|     950|    1018|      11
---------------------------------------------------------------------------
  950- 1018 (68.94/69.51)	GPfgwlALEEQSRRGfSCGPSMVhagcggVLATCHSLDIAGV.....ElldplSSNVHASSVI.......SLLHSDIKVAL
 1272- 1336 (84.28/43.76)	GP....NSTTNPKEG.SSGPGMV......IYVVCPFPEPVAVlqtviE.....SSTALGSTIVssdkerrSLLHNQVARAL
---------------------------------------------------------------------------




































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 MDP16047 with Med13 domain of Kingdom Viridiplantae
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