+Open data
-Basic information
Entry | Database: PDB / ID: 1lfw | ||||||
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Title | Crystal structure of pepV | ||||||
Components | pepV | ||||||
Keywords | HYDROLASE / Dipeptidase | ||||||
Function / homology | Function and homology information Hydrolases; Acting on peptide bonds (peptidases); Dipeptidases / dipeptidase activity / metallopeptidase activity / zinc ion binding / cytoplasm Similarity search - Function | ||||||
Biological species | Lactobacillus delbrueckii (bacteria) | ||||||
Method | X-RAY DIFFRACTION / Resolution: 1.8 Å | ||||||
Authors | Jozic, D. / Bourenkow, G. / Bartunik, H. / Scholze, H. / Dive, V. / Henrich, B. / Huber, R. / Bode, W. / Maskos, K. | ||||||
Citation | Journal: Structure / Year: 2002 Title: Crystal Structure of the Dinuclear Zinc Aminopeptidase PepV from Lactobacillus delbrueckii Unravels Its Preference for Dipeptides Authors: Jozic, D. / Bourenkow, G. / Bartunik, H. / Scholze, H. / Dive, V. / Henrich, B. / Huber, R. / Bode, W. / Maskos, K. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1lfw.cif.gz | 115.9 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1lfw.ent.gz | 87.7 KB | Display | PDB format |
PDBx/mmJSON format | 1lfw.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/lf/1lfw ftp://data.pdbj.org/pub/pdb/validation_reports/lf/1lfw | HTTPS FTP |
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-Related structure data
Similar structure data |
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-Links
-Assembly
Deposited unit |
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1 |
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Unit cell |
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-Components
#1: Protein | Mass: 52045.113 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Lactobacillus delbrueckii (bacteria) / Strain: lactis / Plasmid: pKV104 / Production host: Escherichia coli (E. coli) / Strain (production host): JM83 / References: UniProt: P45494, Xaa-His dipeptidase | ||||
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#2: Chemical | #3: Chemical | ChemComp-AEP / | #4: Water | ChemComp-HOH / | |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION |
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-Sample preparation
Crystal | Density Matthews: 2.23 Å3/Da / Density % sol: 44.94 % | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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Crystal grow | *PLUS Temperature: 18 ℃ / pH: 8 / Method: vapor diffusion, sitting drop | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
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Radiation wavelength | Relative weight: 1 |
-Processing
Refinement | Resolution: 1.8→11 Å /
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Refinement step | Cycle: LAST / Resolution: 1.8→11 Å
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Refinement | *PLUS Lowest resolution: 15 Å / % reflection Rfree: 10 % / Rfactor Rfree: 0.2046 / Rfactor Rwork: 0.1743 | ||||||||||||
Solvent computation | *PLUS | ||||||||||||
Displacement parameters | *PLUS | ||||||||||||
Refine LS restraints | *PLUS
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