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Open data
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Basic information
Entry | Database: PDB / ID: 1keh | ||||||
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Title | Precursor structure of cephalosporin acylase | ||||||
![]() | precursor of cephalosporin acylase | ||||||
![]() | HYDROLASE / cephalosporin acylase / precursor / glutaryl-7-ACA | ||||||
Function / homology | ![]() glutaryl-7-aminocephalosporanic-acid acylase / glutaryl-7-aminocephalosporanic-acid acylase activity / antibiotic biosynthetic process / periplasmic space / response to antibiotic Similarity search - Function | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Kim, Y. / Kim, S. | ||||||
![]() | ![]() Title: Precursor structure of cephalosporin acylase. Insights into autoproteolytic activation in a new N-terminal hydrolase family Authors: Kim, Y. / Kim, S. / Earnest, T.N. / Hol, W.G. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 151.3 KB | Display | ![]() |
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PDB format | ![]() | 118.4 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 368.2 KB | Display | ![]() |
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Full document | ![]() | 378.4 KB | Display | |
Data in XML | ![]() | 15 KB | Display | |
Data in CIF | ![]() | 24.9 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
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: 76609.883 Da / Num. of mol.: 1 / Fragment: residues 1-689 / Mutation: S170A,R428A Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() References: UniProt: Q9L5D6, Hydrolases; Acting on carbon-nitrogen bonds, other than peptide bonds; In linear amides |
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#2: Water | ChemComp-HOH / |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 3.37 Å3/Da / Density % sol: 63.55 % | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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Crystal grow | Temperature: 290 K / Method: vapor diffusion, hanging drop / pH: 6.5 Details: PEG8000, MgAcetate, Sodium Cacodylate, DTT, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 290K | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Crystal grow | *PLUS Temperature: 21 ℃ / pH: 7 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 125 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: CUSTOM-MADE / Detector: CCD / Date: Jan 7, 2001 |
Radiation | Monochromator: graphite / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.91 Å / Relative weight: 1 |
Reflection | Resolution: 2.5→20 Å / Num. all: 39792 / Num. obs: 38001 / % possible obs: 95.5 % / Observed criterion σ(F): 0 / Observed criterion σ(I): 3.2 |
Reflection shell | Resolution: 2.5→2.59 Å / % possible all: 70.4 |
Reflection | *PLUS Lowest resolution: 20 Å / Num. measured all: 838095 / Rmerge(I) obs: 0.108 |
Reflection shell | *PLUS Highest resolution: 2.5 Å / % possible obs: 70.4 % / Rmerge(I) obs: 0.548 / Mean I/σ(I) obs: 3.2 |
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Processing
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Refinement | Method to determine structure: ![]()
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Refinement step | Cycle: LAST / Resolution: 2.5→20 Å
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Refinement | *PLUS Lowest resolution: 20 Å / % reflection Rfree: 3.5 % / Rfactor obs: 0.203 | |||||||||||||||||||||||||
Solvent computation | *PLUS | |||||||||||||||||||||||||
Displacement parameters | *PLUS | |||||||||||||||||||||||||
Refine LS restraints | *PLUS
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