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Open data
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Basic information
Entry | Database: PDB / ID: 1yec | ||||||
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Title | STRUCTURE OF A CATALYTIC ANTIBODY IGG2A FAB FRAGMENT (D2.3) | ||||||
![]() | (IGG2A FAB FRAGMENT (D2.3)) x 2 | ||||||
![]() | CATALYTIC ANTIBODY / TRANSITION STATE ANALOGUE | ||||||
Function / homology | ![]() immunoglobulin complex, circulating / immunoglobulin receptor binding / complement activation, classical pathway / antigen binding / antibacterial humoral response / blood microparticle / extracellular exosome Similarity search - Function | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() | ||||||
![]() | Golinelli-Pimpaneau, B. / Knossow, M. | ||||||
![]() | ![]() Title: Structural convergence in the active sites of a family of catalytic antibodies. Authors: Charbonnier, J.B. / Golinelli-Pimpaneau, B. / Gigant, B. / Tawfik, D.S. / Chap, R. / Schindler, D.G. / Kim, S.H. / Green, B.S. / Eshhar, Z. / Knossow, M. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 99.5 KB | Display | ![]() |
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PDB format | ![]() | 77.7 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 449.2 KB | Display | ![]() |
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Full document | ![]() | 457.1 KB | Display | |
Data in XML | ![]() | 11.5 KB | Display | |
Data in CIF | ![]() | 17.7 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 1yedC ![]() 1yeeC ![]() 1knoS S: Starting model for refinement C: citing same article ( |
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Similar structure data |
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Links
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Assembly
Deposited unit | ![]()
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2 | ![]()
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Unit cell |
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Components
#1: Antibody | Mass: 24005.816 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Details: CATALYTIC ANTIBODY, TRANSITION STATE ANALOGUE / Source: (natural) ![]() ![]() | ||||
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#2: Antibody | Mass: 24189.217 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Details: CATALYTIC ANTIBODY, TRANSITION STATE ANALOGUE / Source: (natural) ![]() ![]() | ||||
#3: Chemical | ChemComp-ZN / #4: Chemical | ChemComp-PNB / | #5: Water | ChemComp-HOH / | |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.91 Å3/Da / Density % sol: 57.7 % |
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Crystal grow | pH: 7 / Details: pH 7.0 |
Crystal grow | *PLUS Method: unknown |
-Data collection
Diffraction | Mean temperature: 278 K |
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Diffraction source | Source: ![]() ![]() |
Detector | Type: MARRESEARCH / Detector: IMAGE PLATE / Date: Jul 27, 1995 / Details: BENT MIRROR |
Radiation | Monochromator: GRAPHITE(002) / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.901 Å / Relative weight: 1 |
Reflection | Resolution: 1.9→20 Å / Num. obs: 44679 / % possible obs: 98 % / Observed criterion σ(I): 1 / Redundancy: 2.1 % / Rmerge(I) obs: 0.063 |
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Processing
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Refinement | Method to determine structure: MOLECULAR REPACEMENT Starting model: PDB ENTRY 1KNO Resolution: 1.9→7 Å / σ(F): 2 Details: RESIDUES POORLY DEFINED BY THE ELECTRON DENSITY: CHAIN L: 212 - 214 CHAIN H: 127 - 134
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Displacement parameters | Biso mean: 35 Å2 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine analyze | Luzzati coordinate error obs: 0.25 Å | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 1.9→7 Å
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Refine LS restraints |
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Software | *PLUS Name: ![]() | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine LS restraints | *PLUS
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