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Yorodumi- PDB-1c1e: CRYSTAL STRUCTURE OF A DIELS-ALDERASE CATALYTIC ANTIBODY 1E9 IN C... -
+Open data
-Basic information
Entry | Database: PDB / ID: 1c1e | ||||||
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Title | CRYSTAL STRUCTURE OF A DIELS-ALDERASE CATALYTIC ANTIBODY 1E9 IN COMPLEX WITH ITS HAPTEN | ||||||
Components |
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Keywords | IMMUNE SYSTEM / CATALYTIC ANTIBODY / DIELS-ALDER / IMMUNOGLOBULIN | ||||||
Function / homology | Immunoglobulins / Immunoglobulin-like / Sandwich / Mainly Beta / Chem-ENH / D-MALATE Function and homology information | ||||||
Biological species | Mus musculus (house mouse) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / Resolution: 1.9 Å | ||||||
Authors | Xu, J. / Wilson, I.A. | ||||||
Citation | Journal: Science / Year: 1999 Title: Evolution of shape complementarity and catalytic efficiency from a primordial antibody template. Authors: Xu, J. / Deng, Q. / Chen, J. / Houk, K.N. / Bartek, J. / Hilvert, D. / Wilson, I.A. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1c1e.cif.gz | 98.4 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1c1e.ent.gz | 79 KB | Display | PDB format |
PDBx/mmJSON format | 1c1e.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/c1/1c1e ftp://data.pdbj.org/pub/pdb/validation_reports/c1/1c1e | 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 on special symmetry positions |
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-Components
#1: Antibody | Mass: 23865.527 Da / Num. of mol.: 1 / Fragment: FAB FRAGMENT / Source method: isolated from a natural source / Source: (natural) Mus musculus (house mouse) |
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#2: Antibody | Mass: 23624.840 Da / Num. of mol.: 1 / Fragment: FAB FRAGMENT / Source method: isolated from a natural source / Source: (natural) Mus musculus (house mouse) |
#3: Chemical | ChemComp-MLT / |
#4: Chemical | ChemComp-ENH / |
#5: Water | ChemComp-HOH / |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
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-Sample preparation
Crystal | Density Matthews: 2.61 Å3/Da / Density % sol: 52.88 % | ||||||||||||||||||||
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Crystal grow | Temperature: 277.15 K / Method: vapor diffusion, hanging drop / pH: 5.5 Details: PEG 10K, IMIDAZOLIUM MALATE, pH 5.5, VAPOR DIFFUSION, HANGING DROP, temperature 277.15K | ||||||||||||||||||||
Crystal grow | *PLUS Method: unknownDetails: hapten and 1E9 Fab fragment were mixed in a 10:1 molar ratio | ||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 97.15 K |
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Diffraction source | Source: SYNCHROTRON / Site: SSRL / Beamline: BL7-1 / Wavelength: 0.98 |
Detector | Type: MARRESEARCH / Detector: IMAGE PLATE / Date: Jul 14, 1997 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.98 Å / Relative weight: 1 |
Reflection | Resolution: 1.9→19.96 Å / Num. all: 39810 / Num. obs: 39213 / % possible obs: 98.5 % / Observed criterion σ(F): 0 / Observed criterion σ(I): 0 / Redundancy: 3.2 % / Biso Wilson estimate: 15.17 Å2 / Rmerge(I) obs: 0.07 / Net I/σ(I): 14.3 |
Reflection shell | Resolution: 1.9→1.97 Å / Redundancy: 3 % / Rmerge(I) obs: 0.836 / Mean I/σ(I) obs: 1.2 / % possible all: 99.4 |
Reflection | *PLUS Num. measured all: 126249 |
Reflection shell | *PLUS % possible obs: 99.4 % |
-Processing
Software |
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Refinement | Resolution: 1.9→20 Å / σ(F): 2 / σ(I): 0 / Stereochemistry target values: ENGH & HUBER / Details: MAXIMUM LIKELIHOOD TARGET USED
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Refinement step | Cycle: LAST / Resolution: 1.9→20 Å
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Refine LS restraints |
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