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Yorodumi- PDB-2k8y: Solution NMR Structure of Cgi121 from Methanococcus jannaschii. N... -
+Open data
-Basic information
Entry | Database: PDB / ID: 2k8y | ||||||
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Title | Solution NMR Structure of Cgi121 from Methanococcus jannaschii. Northeast Structural Genomics Consortium Target MJ0187 | ||||||
Components | Uncharacterized protein MJ0187 | ||||||
Keywords | structural genomics / unknown function / regulatory subunit of the Bud32 kinase / component of the KEOPS complex / PSI-2 / Protein Structure Initiative / Northeast Structural Genomics Consortium / NESG | ||||||
Function / homology | PF0523-like / CGI121/TPRKB / CGI121/TPRKB / CGI121/TPRKB superfamily / Kinase binding protein CGI-121 / 2-Layer Sandwich / Alpha Beta / Regulatory protein Cgi121 Function and homology information | ||||||
Biological species | Methanocaldococcus jannaschii (archaea) | ||||||
Method | SOLUTION NMR / simulated annealing | ||||||
Authors | Rumpel, S. / Fares, C. / Neculai, D. / Arrowsmith, C. / Montelione, G.T. / Sicheri, F. / Northeast Structural Genomics Consortium (NESG) | ||||||
Citation | Journal: Mol.Cell / Year: 2008 Title: Atomic structure of the KEOPS complex: an ancient protein kinase-containing molecular machine. Authors: Mao, D.Y. / Neculai, D. / Downey, M. / Orlicky, S. / Haffani, Y.Z. / Ceccarelli, D.F. / Ho, J.S. / Szilard, R.K. / Zhang, W. / Ho, C.S. / Wan, L. / Fares, C. / Rumpel, S. / Kurinov, I. / ...Authors: Mao, D.Y. / Neculai, D. / Downey, M. / Orlicky, S. / Haffani, Y.Z. / Ceccarelli, D.F. / Ho, J.S. / Szilard, R.K. / Zhang, W. / Ho, C.S. / Wan, L. / Fares, C. / Rumpel, S. / Kurinov, I. / Arrowsmith, C.H. / Durocher, D. / Sicheri, F. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 2k8y.cif.gz | 482.5 KB | Display | PDBx/mmCIF format |
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PDB format | pdb2k8y.ent.gz | 402.6 KB | Display | PDB format |
PDBx/mmJSON format | 2k8y.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 2k8y_validation.pdf.gz | 344.9 KB | Display | wwPDB validaton report |
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Full document | 2k8y_full_validation.pdf.gz | 397.7 KB | Display | |
Data in XML | 2k8y_validation.xml.gz | 29 KB | Display | |
Data in CIF | 2k8y_validation.cif.gz | 39.5 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/k8/2k8y ftp://data.pdbj.org/pub/pdb/validation_reports/k8/2k8y | HTTPS FTP |
-Related structure data
Related structure data | 3en9C 3encC 3enhC 3enoC 3enpC C: citing same article (ref.) |
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Similar structure data | |
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: 17092.066 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Methanocaldococcus jannaschii (archaea) Genus: Methanococcus / Species: jannaschii / Gene: MJ0187 / Plasmid: pGEX / Species (production host): coli / Production host: Escherichia coli (E. coli) / References: UniProt: Q57646 |
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-Experimental details
-Experiment
Experiment | Method: SOLUTION NMR | ||||||||||||||||||||||||||||||||||||||||
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NMR experiment |
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-Sample preparation
Details | Contents: 1 mM [U-100% 13C; U-100% 15N] protein, 90% H2O/10% D2O Solvent system: 90% H2O/10% D2O |
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Sample | Conc.: 1 mM / Component: protein / Isotopic labeling: [U-100% 13C; U-100% 15N] |
Sample conditions | Ionic strength: 0.1 / pH: 6.3 / Pressure: ambient / Temperature: 298 K |
-NMR measurement
NMR spectrometer |
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-Processing
NMR software |
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Refinement | Method: simulated annealing / Software ordinal: 1 | |||||||||
NMR representative | Selection criteria: lowest energy | |||||||||
NMR ensemble | Conformer selection criteria: structures with the lowest energy Conformers calculated total number: 100 / Conformers submitted total number: 10 |