+Open data
-Basic information
Entry | Database: PDB / ID: 1oay | ||||||
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Title | Antibody multispecificity mediated by conformational diversity | ||||||
Components | (IMMUNOGLOBULIN E) x 2 | ||||||
Keywords | IMMUNE SYSTEM / ANTIBODY-COMPLEX / ANTIBODY / ALLERGY / IGE / CONFORMATIONAL DIVERSITY / MULTISPECIFICITY | ||||||
Function / homology | Function and homology information immunoglobulin complex / adaptive immune response / immune response / extracellular space Similarity search - Function | ||||||
Biological species | MUS MUSCULUS (house mouse) | ||||||
Method | X-RAY DIFFRACTION / MOLECULAR REPLACEMENT / Resolution: 2.66 Å | ||||||
Authors | James, L.C. / Roversi, P. / Tawfik, D. | ||||||
Citation | Journal: Science / Year: 2003 Title: Antibody Multispecificity Mediated by Conformational Diversity Authors: James, L.C. / Roversi, P. / Tawfik, D. | ||||||
History |
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Remark 700 | SHEET THE SHEET STRUCTURE OF THIS MOLECULE IS BIFURCATED. IN ORDER TO REPRESENT THIS FEATURE IN ... SHEET THE SHEET STRUCTURE OF THIS MOLECULE IS BIFURCATED. IN ORDER TO REPRESENT THIS FEATURE IN THE SHEET RECORDS BELOW, TWO SHEETS ARE DEFINED. |
-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1oay.cif.gz | 133.8 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1oay.ent.gz | 113.6 KB | Display | PDB format |
PDBx/mmJSON format | 1oay.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/oa/1oay ftp://data.pdbj.org/pub/pdb/validation_reports/oa/1oay | HTTPS FTP |
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-Related structure data
Related structure data | 1oaqC 1oarC 1oauC 1oaxC 1oazC 1ocwC 1anqS C: citing same article (ref.) S: Starting model for refinement |
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Similar structure data |
-Links
-Assembly
Deposited unit |
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1 |
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2 |
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3 |
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4 |
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Unit cell |
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Noncrystallographic symmetry (NCS) | NCS oper:
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-Components
#1: Antibody | Mass: 13671.359 Da / Num. of mol.: 2 / Fragment: FV REGION, RESIDUES 1-122 Source method: isolated from a genetically manipulated source Source: (gene. exp.) MUS MUSCULUS (house mouse) / Description: EXPRESSED AS RECOMBINANT FV IN E.COLI / Production host: ESCHERICHIA COLI (E. coli) #2: Antibody | Mass: 11572.913 Da / Num. of mol.: 4 / Fragment: FV REGION, RESIDUES 1-110 Source method: isolated from a genetically manipulated source Source: (gene. exp.) MUS MUSCULUS (house mouse) / Description: EXPRESSED AS RECOMBINANT FV IN E.COLI / Production host: ESCHERICHIA COLI (E. coli) / References: UniProt: P01724*PLUS #3: Chemical | #4: 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: 1.5 Å3/Da / Density % sol: 70 % | ||||||||||||||||||||||||
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Crystal grow | pH: 7 Details: 0 22% PEG 8K 0.1 M SODIUM CACODYLATE, 0.2M SODIUM ACETATE, PH 5.0 | ||||||||||||||||||||||||
Crystal grow | *PLUS pH: 5 / Method: vapor diffusion, hanging drop | ||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ROTATING ANODE / Type: RIGAKU RU200 / Wavelength: 1.5418 |
Detector | Type: MARRESEARCH / Detector: IMAGE PLATE / Date: Nov 15, 2001 / Details: MIRRORS |
Radiation | Monochromator: NI FILTER / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.5418 Å / Relative weight: 1 |
Reflection | Resolution: 2.298→37.268 Å / Num. obs: 47811 / % possible obs: 99.4 % / Observed criterion σ(I): 2 / Redundancy: 5.7 % / Rmerge(I) obs: 0.13 / Net I/σ(I): 6.6 |
Reflection shell | Resolution: 2.66→2.81 Å / Redundancy: 5.3 % / Rmerge(I) obs: 0.502 / Mean I/σ(I) obs: 3.1 / % possible all: 99.4 |
Reflection | *PLUS Highest resolution: 2.4 Å / Num. obs: 47809 / % possible obs: 99.2 % / Redundancy: 6.7 % / Rmerge(I) obs: 0.126 |
Reflection shell | *PLUS % possible obs: 94.7 % / Rmerge(I) obs: 0.583 / Mean I/σ(I) obs: 3.1 |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT Starting model: PDB ENTRY 1ANQ Resolution: 2.66→30 Å / SU B: 5.653 / SU ML: 0.149 / Cross valid method: THROUGHOUT / ESU R: 0.071 / ESU R Free: 0.206 Details: THIS ENTRY HAS 4 SETS OF 2 CHAINS WHICH ARE RELATED BY NCS. CHAINS I AND K IN THIS ENTRY ARE MOSTLY DISORDERED AND HENCE NO STRUCTURE WAS CLEARLY DEFINED FOR THESE CHAINS.
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Displacement parameters | Biso mean: 18.638 Å2
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Refinement step | Cycle: LAST / Resolution: 2.66→30 Å
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Refinement | *PLUS Highest resolution: 2.4 Å | ||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||
Displacement parameters | *PLUS | ||||||||||||||||||||
Refine LS restraints | *PLUS
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LS refinement shell | *PLUS Rfactor Rfree: 0.271 / Rfactor Rwork: 0.248 |