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Yorodumi- PDB-1jvm: KCSA POTASSIUM CHANNEL WITH TBA (TETRABUTYLAMMONIUM) AND RUBIDIUM -
+Open data
-Basic information
Entry | Database: PDB / ID: 1jvm | ||||||
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Title | KCSA POTASSIUM CHANNEL WITH TBA (TETRABUTYLAMMONIUM) AND RUBIDIUM | ||||||
Components | Voltage-gated potassium channel | ||||||
Keywords | MEMBRANE PROTEIN / POTASSIUM CHANNEL / METAL TRANSPORT | ||||||
Function / homology | Function and homology information delayed rectifier potassium channel activity / voltage-gated potassium channel complex / identical protein binding Similarity search - Function | ||||||
Biological species | Streptomyces lividans (bacteria) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 2.8 Å | ||||||
Authors | Morais-Cabral, J.H. / Zhou, Y. / MacKinnon, R. | ||||||
Citation | Journal: Nature / Year: 2001 Title: Energetic optimization of ion conduction rate by the K+ selectivity filter. Authors: Morais-Cabral, J.H. / Zhou, Y. / MacKinnon, R. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1jvm.cif.gz | 84.2 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1jvm.ent.gz | 62.8 KB | Display | PDB format |
PDBx/mmJSON format | 1jvm.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 1jvm_validation.pdf.gz | 468.4 KB | Display | wwPDB validaton report |
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Full document | 1jvm_full_validation.pdf.gz | 484.5 KB | Display | |
Data in XML | 1jvm_validation.xml.gz | 17.5 KB | Display | |
Data in CIF | 1jvm_validation.cif.gz | 23.1 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/jv/1jvm ftp://data.pdbj.org/pub/pdb/validation_reports/jv/1jvm | HTTPS FTP |
-Related structure data
Related structure data | 1bl8S S: Starting model for refinement |
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Similar structure data |
-Links
-Assembly
Deposited unit |
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2 |
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Unit cell |
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-Components
#1: Protein | Mass: 13358.756 Da / Num. of mol.: 4 / Fragment: Residues 1-125 / Mutation: P2A,L90C Source method: isolated from a genetically manipulated source Source: (gene. exp.) Streptomyces lividans (bacteria) / Plasmid: pQE-60 / Production host: Escherichia coli (E. coli) / Strain (production host): XL1-Blue / References: UniProt: P0A334 #2: Chemical | #3: Chemical | ChemComp-TBA / | #4: Water | ChemComp-HOH / | |
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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: 3.86 Å3/Da / Density % sol: 68.14 % | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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Crystal grow | Temperature: 293 K / Method: vapor diffusion, sitting drop / pH: 7.5 Details: PEG400,calcium chloride, Hepes, potassium chloride, pH 7.5, VAPOR DIFFUSION, SITTING DROP, temperature 293K | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Crystal grow | *PLUS Temperature: 20 ℃ | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: SYNCHROTRON / Site: ESRF / Beamline: ID13 / Wavelength: 0.964 Å |
Detector | Type: MARRESEARCH / Detector: IMAGE PLATE / Date: Jun 25, 2000 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.964 Å / Relative weight: 1 |
Reflection | Resolution: 2.7→50 Å / Num. all: 22300 / Num. obs: 14799 / % possible obs: 0.664 % / Observed criterion σ(F): 1 / Observed criterion σ(I): 1 / Redundancy: 2.5 % / Rmerge(I) obs: 0.048 / Net I/σ(I): 21 |
Reflection shell | Resolution: 2.7→2.8 Å / Rmerge(I) obs: 0.088 / % possible all: 0.167 |
Reflection | *PLUS Lowest resolution: 50 Å / Rmerge(I) obs: 0.048 |
Reflection shell | *PLUS Rmerge(I) obs: 0.088 |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT Starting model: PDB Entry 1BL8 Resolution: 2.8→30 Å / Isotropic thermal model: isotropic / Cross valid method: THROUGHOUT / σ(F): 0 / Stereochemistry target values: Engh & Huber
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Refinement step | Cycle: LAST / Resolution: 2.8→30 Å
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Refine LS restraints |
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Refinement | *PLUS % reflection Rfree: 10 % / Rfactor all: 0.29 / Rfactor obs: 0.281 / Rfactor Rfree: 0.3021 / Rfactor Rwork: 0.281 | |||||||||||||||||||||||||
Solvent computation | *PLUS | |||||||||||||||||||||||||
Displacement parameters | *PLUS |