+Open data
-Basic information
Entry | Database: PDB / ID: 3rbz | ||||||
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Title | MthK channel, Ca2+-bound | ||||||
Components | Calcium-gated potassium channel mthK | ||||||
Keywords | TRANSPORT PROTEIN / K+ channel / membrane protein / RCK domain / Ca2+ binding / Rossmann-fold | ||||||
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: 3.4 Å | ||||||
Authors | Taylor, A.B. / Parfenova, L.V. / Rothberg, B.S. | ||||||
Citation | Journal: Proc.Natl.Acad.Sci.USA / Year: 2011 Title: Structures of multiple Ca2+-binding sites in a K+ channel RCK domain Authors: Pau, V.P. / Smith, F.J. / Taylor, A.B. / Samakai, E. / Callaghan, M.M. / Abarca-Heidemann, K. / Parfenova, L.V. / Hart, P.J. / Rothberg, B.S. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 3rbz.cif.gz | 216.5 KB | Display | PDBx/mmCIF format |
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PDB format | pdb3rbz.ent.gz | 169.6 KB | Display | PDB format |
PDBx/mmJSON format | 3rbz.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 3rbz_validation.pdf.gz | 467.4 KB | Display | wwPDB validaton report |
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Full document | 3rbz_full_validation.pdf.gz | 511.4 KB | Display | |
Data in XML | 3rbz_validation.xml.gz | 42.8 KB | Display | |
Data in CIF | 3rbz_validation.cif.gz | 58.1 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/rb/3rbz ftp://data.pdbj.org/pub/pdb/validation_reports/rb/3rbz | HTTPS FTP |
-Related structure data
Related structure data | 3rbxC 1lnqS 2aefS 3ldcS C: citing same article (ref.) 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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Noncrystallographic symmetry (NCS) | NCS domain:
NCS domain segments:
NCS ensembles :
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-Components
#1: Protein | Mass: 37732.699 Da / Num. of mol.: 4 / Mutation: G85A, E92A, E96T, M107I Source method: isolated from a genetically manipulated source Source: (gene. exp.) Methanothermobacter thermautotrophicus (archaea) Strain: Delta H / Gene: mthK, MTH_1520 / Plasmid: PQE80 / Production host: Escherichia coli (E. coli) / Strain (production host): XL1-Blue / References: UniProt: O27564 #2: Chemical | ChemComp-CA / |
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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: 3.41 Å3/Da / Density % sol: 63.94 % |
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Crystal grow | Temperature: 295 K / Method: vapor diffusion, hanging drop / pH: 6.5 Details: 26% PEG 350-MME, 0.2 M CaCl2, 0.1 M MES, VAPOR DIFFUSION, HANGING DROP, temperature 295K, pH 6.5 |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: SYNCHROTRON / Site: ALS / Beamline: 5.0.2 / Wavelength: 1 Å |
Detector | Type: ADSC QUANTUM 315 / Detector: CCD / Date: Nov 19, 2005 |
Radiation | Monochromator: Double-crystal, Si(111) / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1 Å / Relative weight: 1 |
Reflection | Resolution: 3.4→48.5 Å / Num. obs: 28010 / % possible obs: 93.6 % / Redundancy: 11.3 % / Rsym value: 0.132 |
Reflection shell | Resolution: 3.39→3.39 Å / Redundancy: 5.8 % / Mean I/σ(I) obs: 2.1 / Rsym value: 0.421 / % possible all: 56.6 |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT Starting model: PDB ENTRIES 1LNQ, 3LDC, 2AEF Resolution: 3.4→48.5 Å / SU ML: 0.49 / σ(F): 0 / Phase error: 26.35 / Stereochemistry target values: ML
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Solvent computation | Shrinkage radii: 0.83 Å / VDW probe radii: 1.1 Å / Solvent model: FLAT BULK SOLVENT MODEL / Bsol: 94.582 Å2 / ksol: 0.282 e/Å3 | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters |
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Refinement step | Cycle: LAST / Resolution: 3.4→48.5 Å
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Refine LS restraints |
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Refine LS restraints NCS |
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LS refinement shell |
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