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- PDB-1xr4: X-ray crystal structure of putative citrate lyase alpha chain/cit... -
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Open data
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Basic information
Entry | Database: PDB / ID: 1xr4 | ||||||
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Title | X-ray crystal structure of putative citrate lyase alpha chain/citrate-ACP transferase [Salmonella typhimurium] | ||||||
![]() | putative citrate lyase alpha chain/citrate-ACP transferase | ||||||
![]() | HYDROLASE/TRANSFERASE / The Midwest Center for Structural Genomics / MCSG / structural genomics / protein structure initiative / PSI / citrate lyase / HYDROLASE-TRANSFERASE COMPLEX | ||||||
Function / homology | ![]() citrate CoA-transferase / citrate CoA-transferase activity / ATP-independent citrate lyase complex / citrate (pro-3S)-lyase / citrate (pro-3S)-lyase activity / acetyl-CoA metabolic process Similarity search - Function | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Osipiuk, J. / Quartey, P. / Moy, S. / Collart, F. / Joachimiak, A. / Midwest Center for Structural Genomics (MCSG) | ||||||
![]() | ![]() Title: X-ray crystal structure of putative citrate lyase alpha chain/citrate-ACP transferase from Salmonella typhimurium. Authors: Osipiuk, J. / Quartey, P. / Moy, S. / Collart, F. / Joachimiak, A. | ||||||
History |
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Remark 300 | BIOMOLECULE: 1 THIS ENTRY CONTAINS THE CRYSTALLOGRAPHIC ASYMMETRIC UNIT WHICH CONSISTS OF 2 CHAIN(S) ...BIOMOLECULE: 1 THIS ENTRY CONTAINS THE CRYSTALLOGRAPHIC ASYMMETRIC UNIT WHICH CONSISTS OF 2 CHAIN(S). THE BIOLOGICAL MOLECULE FOR THE PROTEIN IS UNKNOWN. |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 198.3 KB | Display | ![]() |
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PDB format | ![]() | 167 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 444.4 KB | Display | ![]() |
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Full document | ![]() | 458.2 KB | Display | |
Data in XML | ![]() | 38.4 KB | Display | |
Data in CIF | ![]() | 55.1 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Similar structure data | |
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Other databases |
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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: 55445.934 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() #2: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.9 Å3/Da / Density % sol: 57.9 % |
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Crystal grow | Temperature: 294 K / Method: vapor diffusion, hanging drop / pH: 8.5 Details: Tris_HCl, PEG 8000, pH 8.5, VAPOR DIFFUSION, HANGING DROP, temperature 294K |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: SBC-3 / Detector: CCD / Date: Mar 27, 2004 |
Radiation | Monochromator: double crystal monochromator / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.979565 Å / Relative weight: 1 |
Reflection | Resolution: 2.37→40 Å / Num. all: 53458 / Num. obs: 49002 / % possible obs: 91.7 % / Observed criterion σ(F): 0 / Observed criterion σ(I): 0 / Redundancy: 12.1 % / Rmerge(I) obs: 0.184 / Net I/σ(I): 13.34 |
Reflection shell | Resolution: 2.4→2.47 Å / Redundancy: 5 % / Rmerge(I) obs: 0.524 / Mean I/σ(I) obs: 1.85 / Num. unique all: 2256 / % possible all: 51.5 |
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Processing
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Refinement | Method to determine structure: ![]() Details: HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS. The test data set was not used in last round of refinement. The deposited pdb file is from the last round of refinement. R-factor-obs and R- ...Details: HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS. The test data set was not used in last round of refinement. The deposited pdb file is from the last round of refinement. R-factor-obs and R-factor-all correspond to deposited file. R-factor-work and R-factor-free are taken from second to last round of refinement which used test data set.
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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: 35.982 Å2
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Refinement step | Cycle: LAST / Resolution: 2.37→40 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 2.373→2.435 Å / Total num. of bins used: 20
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Refinement TLS params. | Method: refined / Refine-ID: X-RAY DIFFRACTION
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Refinement TLS group |
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