4YDI
Crystal structure of broad and potently neutralizing VRC01-class antibody Z258-VRC27.01, isolated from human donor Z258, in complex with HIV-1 gp120 from clade A strain Q23.17
Experimental procedure
| Experimental method | SINGLE WAVELENGTH |
| Source type | SYNCHROTRON |
| Source details | APS BEAMLINE 22-ID |
| Synchrotron site | APS |
| Beamline | 22-ID |
| Temperature [K] | 100 |
| Detector technology | CCD |
| Collection date | 2014-02-15 |
| Detector | MARMOSAIC 300 mm CCD |
| Wavelength(s) | 1.0000 |
| Spacegroup name | C 2 2 2 |
| Unit cell lengths | 141.738, 172.253, 91.782 |
| Unit cell angles | 90.00, 90.00, 90.00 |
Refinement procedure
| Resolution | 46.038 - 3.452 |
| R-factor | 0.2246 |
| Rwork | 0.222 |
| R-free | 0.27630 |
| Structure solution method | MOLECULAR REPLACEMENT |
| Starting model (for MR) | 3se9 |
| RMSD bond length | 0.004 |
| RMSD bond angle | 1.021 |
| Data reduction software | HKL-2000 |
| Data scaling software | SCALEPACK |
| Phasing software | PHASER |
| Refinement software | PHENIX |
Data quality characteristics
| Overall | Inner shell | Outer shell | |
| Low resolution limit [Å] | 50.000 | 50.000 | 3.570 |
| High resolution limit [Å] | 3.450 | 7.430 | 3.450 |
| Rmerge | 0.143 | 0.053 | 0.348 |
| Rmeas | 0.157 | 0.058 | 0.395 |
| Rpim | 0.064 | 0.022 | 0.177 |
| Total number of observations | 72734 | ||
| Number of reflections | 13262 | ||
| <I/σ(I)> | 7.8 | ||
| Completeness [%] | 87.6 | 99.6 | 58.1 |
| Redundancy | 5.5 | 6.4 | 3.5 |
| CC(1/2) | 0.998 | 0.863 |
Crystallization Conditions
| crystal ID | method | pH | temperature | details |
| 1 | VAPOR DIFFUSION, HANGING DROP | 8.5 | 293 | 4% PEG 400, 1.9 M (NH4)2SO4, 0.1M Tris-HCl, pH 8.5 |
