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- PDB-9nzb: Crystal Structure of acyl-CoA lyase subunit beta from Pseudomonas... -
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Open data
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Basic information
Entry | Database: PDB / ID: 9nzb | ||||||
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Title | Crystal Structure of acyl-CoA lyase subunit beta from Pseudomonas aeruginosa PAO1 | ||||||
![]() | Acyl-CoA lyase beta chain | ||||||
![]() | LYASE / Center for Structural Biology of Infectious Diseases / CSBID / acyl-CoA lyase / Structural Genomics | ||||||
Function / homology | Citrate lyase beta subunit-like / HpcH/HpaI aldolase/citrate lyase domain / HpcH/HpaI aldolase/citrate lyase / oxaloacetate metabolic process / Pyruvate kinase-like domain superfamily / Pyruvate/Phosphoenolpyruvate kinase-like domain superfamily / lyase activity / magnesium ion binding / Probable acyl-CoA lyase beta chain![]() | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Minasov, G. / Shukla, S. / Shuvalova, L. / Brunzelle, J.S. / Warwzak, Z. / Satchell, K.J.F. / Center for Structural Biology of Infectious Diseases (CSBID) | ||||||
Funding support | ![]()
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![]() | ![]() Title: Crystal Structure of acyl-CoA lyase subunit beta from Pseudomonas aeruginosa PAO1 Authors: Minasov, G. / Shukla, S. / Shuvalova, L. / Brunzelle, J.S. / Warwzak, Z. / Satchell, K.J.F. / Center for Structural Biology of Infectious Diseases (CSBID) | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 616.9 KB | Display | ![]() |
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PDB format | ![]() | 512.8 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 466.1 KB | Display | ![]() |
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Full document | ![]() | 478.1 KB | Display | |
Data in XML | ![]() | 81.4 KB | Display | |
Data in CIF | ![]() | 108.7 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Similar structure data | Similarity search - Function & homology ![]() |
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Other databases |
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Links
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Assembly
Deposited unit | ![]()
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1 | ![]()
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2 | ![]()
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Unit cell |
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Components
#1: Protein | Mass: 29330.590 Da / Num. of mol.: 6 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() #2: Water | ChemComp-HOH / | Has protein modification | N | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.23 Å3/Da / Density % sol: 45 % |
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Crystal grow | Temperature: 292 K / Method: vapor diffusion, sitting drop / pH: 8.5 Details: Protein: 18.0 mg/ml, 0.15M Sodium chloride, 0.01M Tris-HCl (pH 8.0); Screen: Classics II (G1), 0.2M Sodium chloride, 0.1M Tris (pH 8.5), 25% (w/v) PEG 3350; Cryo: Reservoir. |
-Data collection
Diffraction | Mean temperature: 100 K / Serial crystal experiment: N |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: DECTRIS EIGER2 S 16M / Detector: PIXEL / Date: Jul 20, 2023 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.97625 Å / Relative weight: 1 |
Reflection | Resolution: 1.85→30 Å / Num. obs: 134881 / % possible obs: 95 % / Observed criterion σ(I): -3 / Redundancy: 2.9 % / Biso Wilson estimate: 24.5 Å2 / CC1/2: 0.992 / CC star: 0.998 / Rmerge(I) obs: 0.077 / Rpim(I) all: 0.054 / Rrim(I) all: 0.095 / Rsym value: 0.077 / Χ2: 1.001 / Net I/σ(I): 12.6 |
Reflection shell | Resolution: 1.85→1.88 Å / Redundancy: 2.6 % / Rmerge(I) obs: 0.703 / Mean I/σ(I) obs: 2 / Num. unique obs: 5212 / CC1/2: 0.445 / Rpim(I) all: 0.517 / Rrim(I) all: 0.876 / Rsym value: 0.703 / Χ2: 0.995 / % possible all: 73.4 |
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Processing
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Refinement | Method to determine structure: ![]()
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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: 31.819 Å2
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Refinement step | Cycle: 1 / Resolution: 1.85→29.48 Å
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Refine LS restraints |
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