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Yorodumi- PDB-4ho1: The Crystal structure of Haemophilus influenzae O-acetylserine su... -
+Open data
-Basic information
Entry | Database: PDB / ID: 4ho1 | ||||||
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Title | The Crystal structure of Haemophilus influenzae O-acetylserine sulfhydrylase at 1.85A resolution | ||||||
Components | Cysteine synthase | ||||||
Keywords | TRANSFERASE / alpha/beta fold / Rossmann fold CysK / Enzyme / Rossmann fold / catalytic activity / cysteine synthase activity / transferase activity / serine acetyl transferase | ||||||
Function / homology | Function and homology information cysteine synthase / cystathionine beta-synthase activity / cysteine synthase activity / L-cysteine desulfhydrase activity / cysteine biosynthetic process from serine / cytoplasm Similarity search - Function | ||||||
Biological species | Haemophilus influenzae (bacteria) | ||||||
Method | X-RAY DIFFRACTION / MOLECULAR REPLACEMENT / Resolution: 1.856 Å | ||||||
Authors | Banerjee, S. / Singh, A.K. / Kumaran, S. | ||||||
Citation | Journal: TO BE PUBLISHED Title: The Crystal structure of Haemophilus influenzae O-acetylserine sulfhydrylase at 1.85A resolution Authors: Banerjee, S. / Singh, A.K. / Kumaran, S. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 4ho1.cif.gz | 76.1 KB | Display | PDBx/mmCIF format |
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PDB format | pdb4ho1.ent.gz | 54.9 KB | Display | PDB format |
PDBx/mmJSON format | 4ho1.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/ho/4ho1 ftp://data.pdbj.org/pub/pdb/validation_reports/ho/4ho1 | HTTPS FTP |
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-Related structure data
Related structure data | 1y7lS S: Starting model for refinement |
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Similar structure data |
-Links
-Assembly
Deposited unit |
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1 |
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Unit cell |
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Components on special symmetry positions |
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-Components
#1: Protein | Mass: 33651.465 Da / Num. of mol.: 1 / Fragment: O-acetylserine sulfhydrylase Source method: isolated from a genetically manipulated source Source: (gene. exp.) Haemophilus influenzae (bacteria) / Strain: ATCC 51907 / Gene: cysK, HI_1103 / Plasmid: pET28A / Production host: Escherichia coli (E. coli) / Strain (production host): K-12 / References: UniProt: P45040, cysteine synthase | ||
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#2: Chemical | ChemComp-GOL / | ||
#3: Chemical | #4: Water | ChemComp-HOH / | |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
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-Sample preparation
Crystal | Density Matthews: 2.19 Å3/Da / Density % sol: 43.77 % |
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Crystal grow | Temperature: 292 K / Method: vapor diffusion, sitting drop / pH: 8.5 Details: 0.2M Magnesium chloride,0.1M tris HCL pH 8.5, 30% w/v PEG 4000 , VAPOR DIFFUSION, SITTING DROP, temperature 292K |
-Data collection
Diffraction | Mean temperature: 100 K | |||||||||||||||
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Diffraction source | Source: ROTATING ANODE / Type: RIGAKU MICROMAX-007 HF / Wavelength: 1.5418 Å | |||||||||||||||
Detector | Type: MAR scanner 345 mm plate / Detector: IMAGE PLATE / Date: Apr 6, 2010 | |||||||||||||||
Radiation | Monochromator: Graphite polar / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray | |||||||||||||||
Radiation wavelength | Wavelength: 1.5418 Å / Relative weight: 1 | |||||||||||||||
Reflection twin |
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Reflection | Resolution: 1.856→79.75 Å / Num. all: 24841 / Num. obs: 24451 / % possible obs: 97.7 % / Observed criterion σ(F): 2 / Observed criterion σ(I): 2 / Redundancy: 7.4 % / Rmerge(I) obs: 0.044 / Net I/σ(I): 34.81 |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT Starting model: PDB ENTRY 1Y7L Resolution: 1.856→35.67 Å / Cor.coef. Fo:Fc: 0.969 / Cor.coef. Fo:Fc free: 0.961 / SU B: 2.851 / SU ML: 0.087 / Isotropic thermal model: Isotropic / Cross valid method: THROUGHOUT / ESU R: 0.024 / ESU R Free: 0.021 / Stereochemistry target values: MAXIMUM LIKELIHOOD / Details: HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS
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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: 32.322 Å2
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Refinement step | Cycle: LAST / Resolution: 1.856→35.67 Å
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Refine LS restraints |
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