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- PDB-1t5r: STRUCTURE OF THE PANTON-VALENTINE LEUCOCIDIN S COMPONENT FROM STA... -
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Open data
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Basic information
Entry | Database: PDB / ID: 1t5r | ||||||
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Title | STRUCTURE OF THE PANTON-VALENTINE LEUCOCIDIN S COMPONENT FROM STAPHYLOCOCCUS AUREUS | ||||||
![]() | LukS-PV | ||||||
![]() | UNKNOWN FUNCTION / BI-COMPONENT LEUCOTOXIN / PORE-FORMING TOXIN / STAPHYLOCOCCUS AUREUS / S COMPONENT LEUCOCIDIN | ||||||
Function / homology | ![]() | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Guillet, V. / Roblin, P. / Keller, D. / Prevost, G. / Mourey, L. | ||||||
![]() | ![]() Title: Crystal structure of leucotoxin S component: new insight into the Staphylococcal beta-barrel pore-forming toxins. Authors: Guillet, V. / Roblin, P. / Werner, S. / Coraiola, M. / Menestrina, G. / Monteil, H. / Mourey, L. #1: ![]() Title: CRYSTALLIZATION AND PRELIMINARY CRYSTALLOGRAPHIC DATA OF A LEUCOTOXIN S COMPONENT FROM STAPHYLOCOCCUS AUREUS Authors: GUILLET, V. / KELLER, D. / PREVOST, G. / MOUREY, L. #2: ![]() Title: THE STRUCTURE OF A STAPHYLOCOCCUS AUREUS LEUCOCIDIN COMPONENT (LUKF-PV) REVEALS THE FOLD OF THE WATER-SOLUBLE SPECIES OF A FAMILY OF TRANSMEMBRANE PORE-FORMING TOXINS. Authors: PEDELACQ, J.D. / MAVEYRAUD, L. / PREVOST, G. / BABA MOUSSA, L. / GONZALES, A. / COURCELLE, E. / SHEPARD, W. / MONTEIL, H. / SAMAMA, J.P. / MOUREY, L. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 437.5 KB | Display | ![]() |
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PDB format | ![]() | 358.9 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 480.9 KB | Display | ![]() |
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Full document | ![]() | 512 KB | Display | |
Data in XML | ![]() | 82.2 KB | Display | |
Data in CIF | ![]() | 114.1 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 1pvlS S: Starting model for refinement |
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Similar structure data |
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Links
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Assembly
Deposited unit | ![]()
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Unit cell |
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Components
#1: Protein | Mass: 32355.621 Da / Num. of mol.: 8 / Source method: isolated from a natural source / Source: (natural) ![]() #2: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.7 Å3/Da / Density % sol: 54 % |
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Crystal grow | Temperature: 285 K / Method: vapor diffusion, hanging drop / pH: 8 Details: CRYSTALLIZATION CONDITIONS: VAPOR EQUILIBRIUM USING THE HANGING METHOD AT 285K. THE PROTEINS WERE CONCENTRATED AT 20-25 MG/ML IN MES-NAOH PH 6.0 (50MM), NACL (50MM). DROPS WERE PREPARED BY ...Details: CRYSTALLIZATION CONDITIONS: VAPOR EQUILIBRIUM USING THE HANGING METHOD AT 285K. THE PROTEINS WERE CONCENTRATED AT 20-25 MG/ML IN MES-NAOH PH 6.0 (50MM), NACL (50MM). DROPS WERE PREPARED BY MIXING EQUAL VOLUMES OF PROTEIN AND RESERVOIR SOLUTIONS AND USING RESERVOIR VOLUMES OF 500 microL CONTAINING 30% JEFFAMINE M-600, 0.1 M TRIS-HCL AT PH VALUES RANGING FROM 8.0 TO 8.9. MICRO- AND MACRO-SEEDING TECHNIQUES, INCLUDING CROSS-SEEDINGS, WERE USED TO GROW CRYSTALS. CRYSTAL SIZE (200X200X200 MM3) IN 6-10microL HANGING DROPS. , VAPOR DIFFUSION, HANGING DROP |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: ADSC QUANTUM 4 / Detector: CCD / Date: Nov 8, 2002 / Details: bent multilayer |
Radiation | Monochromator: double crystal monochromator (thin diamond and focusing Germanium crystals) Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.934 Å / Relative weight: 1 |
Reflection | Resolution: 2→35.5 Å / Num. all: 169450 / Num. obs: 169450 / % possible obs: 93.6 % / Redundancy: 5.9 % / Biso Wilson estimate: 34.3 Å2 / Rsym value: 0.055 / Net I/σ(I): 9.1 |
Reflection shell | Resolution: 2→2.11 Å / Redundancy: 2.5 % / Mean I/σ(I) obs: 1.6 / Num. unique all: 16649 / Rsym value: 0.47 / % possible all: 67.5 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: PDB ENTRY 1PVL Resolution: 2→35.5 Å / Isotropic thermal model: anisotropic / Cross valid method: THROUGHOUT / σ(F): 3 / Stereochemistry target values: Engh & Huber
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Displacement parameters | Biso mean: 36.3 Å2
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Refine analyze |
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Refinement step | Cycle: LAST / Resolution: 2→35.5 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 2→2.13 Å
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