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- PDB-8hwo: Crystal Structure of mutant GDSL Esterase of Photobacterium sp. J15 -
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Open data
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Basic information
Entry | Database: PDB / ID: 8hwo | ||||||
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Title | Crystal Structure of mutant GDSL Esterase of Photobacterium sp. J15 | ||||||
![]() | GDSL-family esterase | ||||||
![]() | HYDROLASE / GDSL esterase | ||||||
Function / homology | GDSL lipase/esterase / GDSL-like Lipase/Acylhydrolase / SGNH hydrolase superfamily / hydrolase activity, acting on ester bonds / extracellular region / GDSL-family esterase![]() | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() | ||||||
![]() | Rahman, N.N.A. / Leow, T.C. / Jonet, M.A. | ||||||
Funding support | 1items
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![]() | ![]() Title: X-ray crystallography of mutant GDSL esterase S12A of Photobacterium marinum J15. Authors: Rahman, N.N.A. / Sharif, F.M. / Kamarudin, N.H.A. / Ali, M.S.M. / Aris, S.N.A.M. / Jonet, M.A. / Rahman, R.N.Z.R.A. / Sabri, S. / Leow, T.C. #1: ![]() Title: Crystallization and structure elucidation of GDSL esterase of Photobacterium sp. J15 Authors: Mazlan, S.N.H.S. / Ali, M.S.M. / Rahman, N.N.A. / Sabri, S. / Jonet, M.A. / Leow, T.C. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 73.5 KB | Display | ![]() |
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PDB format | ![]() | 53.5 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 401.3 KB | Display | ![]() |
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Full document | ![]() | 404.7 KB | Display | |
Data in XML | ![]() | 8.6 KB | Display | |
Data in CIF | ![]() | 11.8 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 5xtuS S: Starting model for refinement |
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Similar structure data | Similarity search - Function & homology ![]() |
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Links
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Assembly
Deposited unit | ![]()
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1 |
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Unit cell |
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Components
#1: Protein | Mass: 35643.965 Da / Num. of mol.: 1 / Mutation: S12A Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.59 Å3/Da / Density % sol: 52.55 % |
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Crystal grow | Temperature: 293.15 K / Method: vapor diffusion, sitting drop Details: 0.2 M ammonium acetate as salt, 30% (w/v) polyethylene glycol 4,000 as precipitant in 0.1 M sodium acetate trihydrate buffer at pH 4.6 |
-Data collection
Diffraction | Mean temperature: 100 K / Serial crystal experiment: N |
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Diffraction source | Source: ![]() |
Detector | Type: RIGAKU / Detector: CCD / Date: Oct 2, 2019 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.5418 Å / Relative weight: 1 |
Reflection | Resolution: 1.96→40 Å / Num. obs: 25427 / % possible obs: 98.6 % / Redundancy: 1.8 % / CC1/2: 1 / Net I/σ(I): 13.4 |
Reflection shell | Resolution: 1.96→1.96 Å / Redundancy: 1.8 % / Mean I/σ(I) obs: 2.1 / Num. unique obs: 25427 / CC1/2: 1 / % possible all: 98.38 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: 5XTU Resolution: 1.96→40 Å / Cross valid method: FREE R-VALUE
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Refinement step | Cycle: LAST / Resolution: 1.96→40 Å
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