8XX0
Crystal structure of anti-IgE antibody HMK-12 Fab complexed with IgE F(ab')2
Experimental procedure
Experimental method | SINGLE WAVELENGTH |
Source type | SYNCHROTRON |
Source details | SPRING-8 BEAMLINE BL32XU |
Synchrotron site | SPring-8 |
Beamline | BL32XU |
Temperature [K] | 100 |
Detector technology | PIXEL |
Collection date | 2021-11-29 |
Detector | DECTRIS EIGER X 9M |
Wavelength(s) | 0.99999 |
Spacegroup name | C 1 2 1 |
Unit cell lengths | 282.050, 86.090, 56.060 |
Unit cell angles | 90.00, 97.19, 90.00 |
Refinement procedure
Resolution | 49.600 - 2.900 |
R-factor | 0.2279 |
Rwork | 0.225 |
R-free | 0.26710 |
Structure solution method | MOLECULAR REPLACEMENT |
Starting model (for MR) | 1i9i 2vxq 1o0v |
RMSD bond length | 0.002 |
RMSD bond angle | 0.622 |
Data reduction software | XDS |
Data scaling software | XSCALE |
Phasing software | PHASER |
Refinement software | PHENIX (1.20.1_4487) |
Data quality characteristics
Overall | Outer shell | |
Low resolution limit [Å] | 49.600 | 3.000 |
High resolution limit [Å] | 2.900 | 2.900 |
Rmeas | 0.466 | 2.584 |
Number of reflections | 29738 | 2956 |
<I/σ(I)> | 17.77 | 2.93 |
Completeness [%] | 99.8 | 99.7 |
Redundancy | 63.9 | 65.6 |
CC(1/2) | 0.996 | 0.898 |
Crystallization Conditions
crystal ID | method | pH | temperature | details |
1 | VAPOR DIFFUSION, SITTING DROP | 6.5 | 277 | 14 %(w/v) PEG3350, 0.09 M MES-NaOH(pH6.5), 0.09 M Magnesium acetate, 0.09 %(w/v) beta-octylglucoside, 0.1 M NDSB-256 |