+Open data
-Basic information
Entry | Database: PDB / ID: 1j4u | ||||||
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Title | Structure of Artocarpin Complexed with Me-alpha-Mannose | ||||||
Components | Artocarpin | ||||||
Keywords | PLANT PROTEIN / all Beta / Greek Key motif / Beta prism I fold | ||||||
Function / homology | Function and homology information | ||||||
Biological species | Artocarpus integer (campedak) | ||||||
Method | X-RAY DIFFRACTION / Resolution: 2.9 Å | ||||||
Authors | Pratap, J.V. / Jeyaprakash, A.A. / Rani, P.G. / Sekar, K. / Surolia, A. / Vijayan, M. | ||||||
Citation | Journal: J.Mol.Biol. / Year: 2002 Title: Crystal structures of artocarpin, a Moraceae lectin with mannose specificity, and its complex with methyl-alpha-D-mannose: implications to the generation of carbohydrate specificity. Authors: Pratap, J.V. / Jeyaprakash, A.A. / Rani, P.G. / Sekar, K. / Surolia, A. / Vijayan, M. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1j4u.cif.gz | 116.5 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1j4u.ent.gz | 94.3 KB | Display | PDB format |
PDBx/mmJSON format | 1j4u.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/j4/1j4u ftp://data.pdbj.org/pub/pdb/validation_reports/j4/1j4u | HTTPS FTP |
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-Related structure data
-Links
-Assembly
Deposited unit |
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1 |
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Unit cell |
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-Components
#1: Protein | Mass: 16116.977 Da / Num. of mol.: 4 / Source method: isolated from a natural source / Details: seeds / Source: (natural) Artocarpus integer (campedak) / References: UniProt: Q7M1T4 #2: Sugar | ChemComp-MMA / #3: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
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-Sample preparation
Crystal | Density Matthews: 2.94 Å3/Da / Density % sol: 58.11 % | |||||||||||||||||||||||||||||||||||
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Crystal grow | Temperature: 293 K / Method: vapor diffusion / pH: 7.4 Details: PBS Buffer, methoxy PEG 350, 10Mg/ml protein, pH 7.4, vapor diffusion, temperature 293.0K | |||||||||||||||||||||||||||||||||||
Crystal grow | *PLUS Method: vapor diffusion, hanging drop | |||||||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 293 K |
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Diffraction source | Source: ROTATING ANODE / Wavelength: 1.5418 |
Detector | Type: MARRESEARCH / Detector: IMAGE PLATE |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.5418 Å / Relative weight: 1 |
Reflection | Resolution: 2.9→20 Å / Num. all: 15219 / Num. obs: 15219 / % possible obs: 91.3 % / Redundancy: 2.1 % / Rmerge(I) obs: 0.157 |
Reflection shell | Resolution: 2.9→3 Å / Redundancy: 1.8 % / Rmerge(I) obs: 0.416 / % possible all: 83.7 |
Reflection | *PLUS Num. measured all: 31710 / Rmerge(I) obs: 0.157 |
Reflection shell | *PLUS Lowest resolution: 3 Å / % possible obs: 83.7 % / Rmerge(I) obs: 0.416 |
-Processing
Software |
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Refinement | Resolution: 2.9→20 Å / σ(F): 0 / σ(I): 0 / Stereochemistry target values: Engh & Huber /
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Refinement step | Cycle: LAST / Resolution: 2.9→20 Å
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Refine LS restraints | Type: c_bond_d / Dev ideal: 0.01 | |||||||||||||||||||||
Refinement | *PLUS Rfactor obs: 0.222 / Rfactor Rfree: 0.258 / Rfactor Rwork: 0.222 | |||||||||||||||||||||
Solvent computation | *PLUS | |||||||||||||||||||||
Displacement parameters | *PLUS | |||||||||||||||||||||
Refine LS restraints | *PLUS
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