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Open data
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Basic information
Entry | Database: PDB / ID: 1lo3 | ||||||
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Title | Retro-Diels-Alderase Catalytic Antibody: Product Analogue | ||||||
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![]() | IMMUNE SYSTEM / Fab / catalytic antibody / product complex | ||||||
Function / homology | ![]() immunoglobulin complex, circulating / immunoglobulin receptor binding / complement activation, classical pathway / antigen binding / antibacterial humoral response / blood microparticle / immune response / extracellular space / extracellular exosome / metal ion binding Similarity search - Function | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() | ||||||
![]() | Hugot, M. / Reymond, J.L. / Baumann, U. | ||||||
![]() | ![]() Title: A structural basis for the activity of retro-Diels-Alder catalytic antibodies: evidence for a catalytic aromatic residue. Authors: Hugot, M. / Bensel, N. / Vogel, M. / Reymond, M.T. / Stadler, B. / Reymond, J.L. / Baumann, U. | ||||||
History |
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Remark 999 | SEQUENCE At the time of processing, this sequence had not yet been deposited in a sequence database. |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 160.7 KB | Display | ![]() |
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PDB format | ![]() | 134.1 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Arichive directory | ![]() ![]() | HTTPS FTP |
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-Related structure data
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Links
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Assembly
Deposited unit | ![]()
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1 | ![]()
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2 | ![]()
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Unit cell |
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Components
#1: Antibody | Mass: 24268.992 Da / Num. of mol.: 2 / Fragment: Fab fragment / Source method: isolated from a natural source Details: The antibodies were isolated from hybridoma cells and Fab fragments were generated by papain digestion. Source: (natural) ![]() ![]() #2: Antibody | Mass: 23704.830 Da / Num. of mol.: 2 / Source method: isolated from a natural source Details: The antibodies were isolated from hybridoma cells and Fab fragments were generated by papain digestion. Source: (natural) ![]() ![]() #3: Chemical | #4: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.49 Å3/Da / Density % sol: 50.7 % | ||||||||||||||||||||||||||||||
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Crystal grow | Temperature: 290 K / Method: vapor diffusion, hanging drop / pH: 3 Details: PEG3350, pH 3.0, VAPOR DIFFUSION, HANGING DROP, temperature 290K | ||||||||||||||||||||||||||||||
Crystal grow | *PLUS Temperature: 20 ℃ / pH: 7.8 / Method: vapor diffusion | ||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 110 K |
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Diffraction source | Source: ![]() |
Detector | Type: RIGAKU RAXIS IV / Detector: IMAGE PLATE / Date: Jan 1, 2000 / Details: yale mirrors |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.5418 Å / Relative weight: 1 |
Reflection | Resolution: 2.3→30.5 Å / Num. obs: 39582 / % possible obs: 89.5 % / Observed criterion σ(I): 0 / Biso Wilson estimate: 25 Å2 / Rmerge(I) obs: 0.063 / Net I/σ(I): 16.7 |
Reflection shell | Resolution: 2.3→2.42 Å / Rmerge(I) obs: 0.337 / Mean I/σ(I) obs: 3 / % possible all: 83.2 |
Reflection | *PLUS Highest resolution: 2.3 Å / Lowest resolution: 30.5 Å / Num. measured all: 393333 |
Reflection shell | *PLUS Highest resolution: 2.3 Å / % possible obs: 83.2 % |
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Processing
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Refinement | Method to determine structure: ![]()
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Displacement parameters |
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Refine analyze |
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Refinement step | Cycle: LAST / Resolution: 2.3→30.3 Å
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Refine LS restraints NCS | NCS model details: RESTRAIN | ||||||||||||||||||
Refinement | *PLUS Rfactor Rfree: 0.251 / Rfactor Rwork: 0.188 | ||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||
Displacement parameters | *PLUS |