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- PDB-5uzp: Crystal structure of citrate synthase mutant A348G from homo sapiens -
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Open data
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Basic information
Entry | Database: PDB / ID: 5uzp | ||||||
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Title | Crystal structure of citrate synthase mutant A348G from homo sapiens | ||||||
![]() | Citrate synthase, mitochondrial | ||||||
![]() | TRANSFERASE | ||||||
Function / homology | ![]() citrate (Si)-synthase / citrate (Si)-synthase activity / citrate metabolic process / Citric acid cycle (TCA cycle) / Mitochondrial protein import / tricarboxylic acid cycle / Mitochondrial protein degradation / carbohydrate metabolic process / mitochondrial matrix / mitochondrion ...citrate (Si)-synthase / citrate (Si)-synthase activity / citrate metabolic process / Citric acid cycle (TCA cycle) / Mitochondrial protein import / tricarboxylic acid cycle / Mitochondrial protein degradation / carbohydrate metabolic process / mitochondrial matrix / mitochondrion / RNA binding / extracellular exosome / nucleus Similarity search - Function | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Schlachter, C. / Chruszcz, M. | ||||||
![]() | ![]() Title: Comparative studies of Aspergillus fumigatus 2-methylcitrate synthase and human citrate synthase. Authors: Schlachter, C.R. / Klapper, V. / Radford, T. / Chruszcz, M. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 194.2 KB | Display | ![]() |
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PDB format | ![]() | 152.1 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 450.4 KB | Display | ![]() |
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Full document | ![]() | 454.4 KB | Display | |
Data in XML | ![]() | 37.5 KB | Display | |
Data in CIF | ![]() | 55.5 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 5uqoC ![]() 5uqqC ![]() 5uqrC ![]() 5uqsC ![]() 5uquC ![]() 5uzqC ![]() 5uzrC ![]() 6bolC ![]() 6bomC ![]() 6bonC ![]() 6booC ![]() 6bopC C: citing same article ( |
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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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Noncrystallographic symmetry (NCS) | NCS domain:
NCS domain segments: Component-ID: _ / Ens-ID: 1 / Beg auth comp-ID: ALA / Beg label comp-ID: ALA / End auth comp-ID: SER / End label comp-ID: SER / Refine code: _ / Auth seq-ID: 28 - 463 / Label seq-ID: 24 - 459
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Components
#1: Protein | Mass: 51722.820 Da / Num. of mol.: 2 / Fragment: residues 28-466 / Mutation: A348G Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() #2: Chemical | #3: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.3 Å3/Da / Density % sol: 46.6 % |
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Crystal grow | Temperature: 298 K / Method: vapor diffusion, sitting drop Details: 0.2 M Ammonium Acetate, 0.1 NaCitrate tribasic dihydrate pH 5.6, 15% PEG4000 |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: MARMOSAIC 300 mm CCD / Detector: CCD / Date: Dec 11, 2015 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1 Å / Relative weight: 1 |
Reflection | Resolution: 2.2→50 Å / Num. obs: 40046 / % possible obs: 99.59 % / Observed criterion σ(I): -3 / Redundancy: 3.7 % / Rmerge(I) obs: 0.129 / Rpim(I) all: 0.091 / Rrim(I) all: 0.176 / Rsym value: 0.129 / Net I/σ(I): 10.8 |
Reflection shell | Resolution: 2.2→2.24 Å / Redundancy: 3.7 % / Rmerge(I) obs: 0.768 / Mean I/σ(I) obs: 1.75 / Num. unique obs: 2413 / CC1/2: 0.649 / Rpim(I) all: 0.618 / Rrim(I) all: 1.194 / Rsym value: 0.768 / % possible all: 99.9 |
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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 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 27.633 Å2
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Refinement step | Cycle: 1 / Resolution: 2.29→45.06 Å
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Refine LS restraints |
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