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- PDB-6qa5: Aspartyl/Asparaginyl beta-hydroxylase (AspH) H679A in the apo form -
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Open data
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Basic information
Entry | Database: PDB / ID: 6qa5 | ||||||
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Title | Aspartyl/Asparaginyl beta-hydroxylase (AspH) H679A in the apo form | ||||||
![]() | Aspartyl/asparaginyl beta-hydroxylase | ||||||
![]() | ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() | ||||||
Function / homology | ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() Similarity search - Function | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Chowdhury, R. / Pfeffer, I. / Schofield, C.J. | ||||||
![]() | ![]() Title: Apo aspH-H679A Authors: Pfeffer, I. / Chowdhury, R. / Schofield, C.J. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 256.6 KB | Display | ![]() |
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PDB format | ![]() | 209.9 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Arichive directory | ![]() ![]() | HTTPS FTP |
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-Related structure data
Related structure data | ![]() 6q9fS S: Starting model for refinement |
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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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Components
#1: Protein | Mass: 49338.270 Da / Num. of mol.: 1 / Mutation: H679A Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() ![]() References: UniProt: Q12797, ![]() | ||||
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#2: Chemical | ![]() #3: Chemical | ![]() #4: Water | ChemComp-HOH / | ![]() |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.7 Å3/Da / Density % sol: 54.5 % |
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Crystal grow![]() | Temperature: 277 K / Method: vapor diffusion, sitting drop / pH: 9 Details: 0.1 M PCTP (Propionic acid, Cacodylate, Bis-tris propane) buffer pH 9.0 25 % w/v PEG 1500 |
-Data collection
Diffraction | Mean temperature: 100 K / Serial crystal experiment: N |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: DECTRIS PILATUS 6M-F / Detector: PIXEL / Date: Oct 5, 2014 / Details: MIRRORS |
Radiation | Monochromator: SI 111 / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength![]() |
Reflection | Resolution: 2.65→44.718 Å / Num. obs: 18051 / % possible obs: 100 % / Redundancy: 12.9 % / Biso Wilson estimate: 40.6 Å2 / CC1/2: 0.997 / Rmerge(I) obs: 0.241 / Rpim(I) all: 0.084 / Rrim(I) all: 0.251 / Net I/σ(I): 9 |
Reflection shell | Resolution: 2.65→2.74 Å / Redundancy: 13.3 % / Rmerge(I) obs: 1.319 / Mean I/σ(I) obs: 2 / Num. unique obs: 1770 / CC1/2: 0.608 / Rpim(I) all: 0.478 / % possible all: 100 |
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Processing
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Refinement | Method to determine structure![]() ![]() Starting model: 6Q9F Resolution: 2.655→44.718 Å / SU ML: 0.25 / Cross valid method: THROUGHOUT / σ(F): 1.33 / Phase error: 21.95
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Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.11 Å / Bsol: 56.3 Å2 / ksol: 0.36 e/Å3 | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 50 Å2 | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.655→44.718 Å
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Refine LS restraints |
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LS refinement shell |
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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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