6BF4
Crystal Structure of HIV-1 Clade AE Strain CNE55 gp120 Core in Complex with Neutralizing Antibody VRC-PG05 that Targets the Center of the Silent Face on the Outer Domain of gp120
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 | 2013-07-13 |
| Detector | MARMOSAIC 300 mm CCD |
| Wavelength(s) | 1 |
| Spacegroup name | C 1 2 1 |
| Unit cell lengths | 231.438, 89.255, 123.407 |
| Unit cell angles | 90.00, 119.15, 90.00 |
Refinement procedure
| Resolution | 39.847 - 2.382 |
| R-factor | 0.194 |
| Rwork | 0.192 |
| R-free | 0.22840 |
| Structure solution method | MOLECULAR REPLACEMENT |
| Starting model (for MR) | 4ydl |
| RMSD bond length | 0.003 |
| RMSD bond angle | 0.678 |
| Data reduction software | HKL-2000 |
| Data scaling software | SCALEPACK |
| Phasing software | PHASER |
| Refinement software | PHENIX (1.10.1_2155) |
Data quality characteristics
| Overall | Inner shell | Outer shell | |
| Low resolution limit [Å] | 50.000 | 50.000 | 2.420 |
| High resolution limit [Å] | 2.380 | 6.460 | 2.380 |
| Rmerge | 0.092 | 0.058 | 0.447 |
| Rmeas | 0.109 | 0.068 | 0.569 |
| Rpim | 0.058 | 0.036 | 0.346 |
| Total number of observations | 260022 | ||
| Number of reflections | 77984 | 4395 | 2207 |
| <I/σ(I)> | 10.6 | ||
| Completeness [%] | 88.8 | 97.1 | 50.4 |
| Redundancy | 3.3 | 3.5 | 2.1 |
| CC(1/2) | 0.994 | 0.703 |
Crystallization Conditions
| crystal ID | method | pH | temperature | details |
| 1 | VAPOR DIFFUSION, HANGING DROP | 8.5 | 293 | 9.8% PEG 4000, 0.196 M Sodium acetate, 98 mM Tris/Cl-, pH 8.5 and 0.6% 1,6-hexanediol |
