+Open data
-Basic information
Entry | Database: PDB / ID: 2ogu | ||||||
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Title | Crystal structure of the isolated MthK RCK domain | ||||||
Components | Calcium-gated potassium channel mthK | ||||||
Keywords | METAL BINDING PROTEIN / K Channel / RCK / KTN | ||||||
Function / homology | Function and homology information monoatomic cation transmembrane transporter activity / potassium ion transport / identical protein binding / metal ion binding / plasma membrane Similarity search - Function | ||||||
Biological species | Methanothermobacter thermautotrophicus (archaea) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 3.23 Å | ||||||
Authors | Kuo, M.M.C. / Baker, K.A. / Wong, L. / Choe, S. | ||||||
Citation | Journal: Proc.Natl.Acad.Sci.Usa / Year: 2007 Title: Dynamic oligomeric conversions of the cytoplasmic RCK domains mediate MthK potassium channel activity. Authors: Kuo, M.M. / Baker, K.A. / Wong, L. / Choe, S. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 2ogu.cif.gz | 56.2 KB | Display | PDBx/mmCIF format |
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PDB format | pdb2ogu.ent.gz | 40.6 KB | Display | PDB format |
PDBx/mmJSON format | 2ogu.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/og/2ogu ftp://data.pdbj.org/pub/pdb/validation_reports/og/2ogu | HTTPS FTP |
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-Related structure data
Related structure data | 1lmqS S: Starting model for refinement |
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Similar structure data |
-Links
-Assembly
Deposited unit |
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Unit cell |
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Details | Dimer is generated by -y, x-y, z |
-Components
#1: Protein | Mass: 25649.166 Da / Num. of mol.: 1 / Fragment: RCK domain: Residues 107-336 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Methanothermobacter thermautotrophicus (archaea) Strain: Delta H / Gene: mthK / Plasmid: pHis9-RCK / Species (production host): Escherichia coli / Production host: Escherichia coli BL21(DE3) (bacteria) / Strain (production host): BL21(DE3) / References: UniProt: O27564 |
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-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
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-Sample preparation
Crystal | Density Matthews: 4.24 Å3/Da / Density % sol: 71.01 % |
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Crystal grow | Temperature: 295 K / Method: vapor diffusion, hanging drop / pH: 6.5 Details: 0.1M Sodium cacodylate pH 6.5, 1.3-1.5M Lithium sulfate, 2% Benzamidine-HCl, VAPOR DIFFUSION, HANGING DROP, temperature 295K |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: SYNCHROTRON / Site: SSRL / Beamline: BL1-5 / Wavelength: 0.97944 Å |
Detector | Type: ADSC QUANTUM 4 / Detector: CCD / Date: Mar 29, 2005 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.97944 Å / Relative weight: 1 |
Reflection | Resolution: 3.2→30 Å / Num. all: 7325 / Num. obs: 6717 / % possible obs: 91.7 % / Redundancy: 6.4 % / Rmerge(I) obs: 0.068 / Net I/σ(I): 21.5 |
Reflection shell | Resolution: 3.2→3.31 Å / Redundancy: 6.4 % / Rmerge(I) obs: 0.293 / Mean I/σ(I) obs: 5.2 / Num. unique all: 434 / % possible all: 59.7 |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT Starting model: PDB entry 1LMQ Resolution: 3.23→30 Å / Cor.coef. Fo:Fc: 0.948 / Cor.coef. Fo:Fc free: 0.913 / SU B: 83.129 / SU ML: 0.569 / TLS residual ADP flag: LIKELY RESIDUAL / Cross valid method: THROUGHOUT / ESU R Free: 0.516 / Stereochemistry target values: MAXIMUM LIKELIHOOD / Details: HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS
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Solvent computation | Ion probe radii: 0.8 Å / Shrinkage radii: 0.8 Å / VDW probe radii: 1.2 Å / Solvent model: MASK | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 122.99 Å2
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Refinement step | Cycle: LAST / Resolution: 3.23→30 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 3.23→3.32 Å / Total num. of bins used: 20
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Refinement TLS params. | Method: refined / Origin x: 8.3074 Å / Origin y: -28.6298 Å / Origin z: 32.7596 Å
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Refinement TLS group |
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