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Yorodumi- PDB-4d7x: Solution Structure of the Mediator Gall11 KIX Domain of C. Glabrata -
+Open data
-Basic information
Entry | Database: PDB / ID: 4d7x | |||||||||
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Title | Solution Structure of the Mediator Gall11 KIX Domain of C. Glabrata | |||||||||
Components | MEDIATOR OF RNA POLYMERASE II TRANSCRIPTION SUBUNIT 15 | |||||||||
Keywords | TRANSCRIPTION | |||||||||
Function / homology | Function and homology information TFIIE-class transcription factor complex binding / regulation of establishment of protein localization to chromosome / RNA polymerase II-specific DNA-binding transcription factor binding => GO:0061629 / cellular response to xenobiotic stimulus => GO:0071466 / positive regulation of invasive growth in response to glucose limitation / TFIIH-class transcription factor complex binding / response to xenobiotic stimulus => GO:0009410 / core mediator complex / mediator complex / RNA polymerase II preinitiation complex assembly ...TFIIE-class transcription factor complex binding / regulation of establishment of protein localization to chromosome / RNA polymerase II-specific DNA-binding transcription factor binding => GO:0061629 / cellular response to xenobiotic stimulus => GO:0071466 / positive regulation of invasive growth in response to glucose limitation / TFIIH-class transcription factor complex binding / response to xenobiotic stimulus => GO:0009410 / core mediator complex / mediator complex / RNA polymerase II preinitiation complex assembly / transcription coactivator activity / negative regulation of transcription by RNA polymerase II / positive regulation of transcription by RNA polymerase II Similarity search - Function | |||||||||
Biological species | CANDIDA GLABRATA (fungus) | |||||||||
Method | SOLUTION NMR / CYANA, AMBER | |||||||||
Authors | Boeszoermenyi, A. / Wagner, G. / Naar, A.M. / Arthanari, H. | |||||||||
Citation | Journal: Nature / Year: 2016 Title: Inhibiting Fungal Multidrug Resistance by Disrupting an Activator-Mediator Interaction. Authors: Nishikawa, J.L. / Boeszoermenyi, A. / Vale-Silva, L.A. / Torelli, R. / Posteraro, B. / Sohn, Y. / Ji, F. / Gelev, V. / Sanglard, D. / Sanguinetti, M. / Sadreyev, R.I. / Mukherjee, G. / ...Authors: Nishikawa, J.L. / Boeszoermenyi, A. / Vale-Silva, L.A. / Torelli, R. / Posteraro, B. / Sohn, Y. / Ji, F. / Gelev, V. / Sanglard, D. / Sanguinetti, M. / Sadreyev, R.I. / Mukherjee, G. / Bhyravabhotla, J. / Buhrlage, S.J. / Gray, N.S. / Wagner, G. / Naar, A.M. / Arthanari, H. | |||||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 4d7x.cif.gz | 268.4 KB | Display | PDBx/mmCIF format |
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PDB format | pdb4d7x.ent.gz | 227.2 KB | Display | PDB format |
PDBx/mmJSON format | 4d7x.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/d7/4d7x ftp://data.pdbj.org/pub/pdb/validation_reports/d7/4d7x | HTTPS FTP |
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-Related structure data
Similar structure data | |
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Other databases |
-Links
-Assembly
Deposited unit |
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1 |
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NMR ensembles |
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-Components
#1: Protein | Mass: 9743.164 Da / Num. of mol.: 1 / Fragment: KIX DOMAIN, RESIDUES 1-86 Source method: isolated from a genetically manipulated source Source: (gene. exp.) CANDIDA GLABRATA (fungus) / Plasmid: PET24B / Production host: ESCHERICHIA COLI (E. coli) / Strain (production host): BL21(DE3) / References: UniProt: Q6FRS9 |
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-Experimental details
-Experiment
Experiment | Method: SOLUTION NMR | ||||||||||||||||||||||||
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NMR experiment |
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NMR details | Text: BACKBONE AND SIDE-CHAIN RESONANCES WERE ASSIGNED USING TRIPLE-RESONANCE MNR SPECTROSCOPY. THE STRUCTURE WAS CALCULATED FROM NOES FROM 15N - AND 13C - FILTERED NOESY EXPERIMENTS. |
-Sample preparation
Details |
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Sample conditions |
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-NMR measurement
NMR spectrometer |
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-Processing
NMR software |
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Refinement | Method: CYANA, AMBER / Software ordinal: 1 Details: STRUCTURE REFINEMENT WAS PERFORMED THROUGH THE WENMR WEB-INTERACE WITH AMBER. BERTINI, I., CASE, D. A., FERELLA, L., GIACHETTI, A. & ROSATO, A., 2011, A GRID-ENABLED WEB PORTAL FOR NMR ...Details: STRUCTURE REFINEMENT WAS PERFORMED THROUGH THE WENMR WEB-INTERACE WITH AMBER. BERTINI, I., CASE, D. A., FERELLA, L., GIACHETTI, A. & ROSATO, A., 2011, A GRID-ENABLED WEB PORTAL FOR NMR STRUCTURE REFINEMENT WITH AMBER. BIOINFORMATICS 27, 2384- -2390 | ||||||||||||||||||||||||||||||||
NMR ensemble | Conformer selection criteria: LOWEST ENERGY / Conformers calculated total number: 10 / Conformers submitted total number: 10 |