4FQR

Crystal structure of broadly neutralizing antibody C05 bound to H3 influenza hemagglutinin


X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 7.5
Temperature 277.0
Details 28% w/v PEG400, 200 mM calcium chloride, 100 mM HEPES, pH 7.5, VAPOR DIFFUSION, SITTING DROP, temperature 277K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 142.02 α = 89.95
b = 158.62 β = 85.44
c = 178.5 γ = 84.37
Symmetry
Space Group P 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARMOSAIC 300 mm CCD -- 2005-10-25
Diffraction Radiation
Monochromator Protocol
double crystal Si(111) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 23-ID-B 1.033 APS 23-ID-B

Data Collection

Overall
Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym I (Observed) Net I Over Average Sigma (I) Redundancy Number Reflections (All) Number Reflections (Observed) Observed Criterion Sigma (F) Observed Criterion Sigma (I) B (Isotropic) From Wilson Plot
4.1 50 78.7 -- 0.16 -- 1.5 121199 89665 -- -3.0 74.2
High Resolution Shell
Resolution (High) Resolution (Low) Percent Possible (All) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All)
4.1 4.2 53.4 -- 0.34 1.9 0.9 --

Refinement

Statistics
Structure Solution Method Refinement High Resolution Refinement Low Resolution Cut-off Sigma (I) Cut-off Sigma (F) Number of Reflections (All) Number of Reflections (Observed) Number of Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Factor (Observed) R-Work R-Free R-Free Selection Details
MOLECULAR REPLACEMENT 4.1 49.07 -- 1.96 -- 89571 4524 73.91 -- 0.3105 0.3093 0.3336 RANDOM
High Resolution Shell
Refinement method Shell Resolution (High) Shell Resolution (Low) # of Reflections (Observed) # of Reflections (R-Free) # of Reflections (R-Work) R-Factor (R-Work) R-Factor (R-Free) R-Factor (R-Free Error) Percent Reflections (Observed)
X Ray Diffraction 4.1 4.1466 -- 102 1828 0.362 0.408 -- 47.0
X Ray Diffraction 4.1466 4.1953 -- 113 1871 0.3551 0.3435 -- 49.0
X Ray Diffraction 4.1953 4.2465 -- 101 1979 0.3448 0.4003 -- 52.0
X Ray Diffraction 4.2465 4.3002 -- 114 2126 0.3329 0.3635 -- 55.0
X Ray Diffraction 4.3002 4.3567 -- 111 2132 0.3496 0.4013 -- 57.0
X Ray Diffraction 4.3567 4.4164 -- 119 2348 0.327 0.3691 -- 60.0
X Ray Diffraction 4.4164 4.4794 -- 135 2332 0.3313 0.3201 -- 62.0
X Ray Diffraction 4.4794 4.5462 -- 123 2460 0.3211 0.3791 -- 64.0
X Ray Diffraction 4.5462 4.6172 -- 132 2504 0.3279 0.3099 -- 66.0
X Ray Diffraction 4.6172 4.6929 -- 129 2527 0.3257 0.3615 -- 66.0
X Ray Diffraction 4.6929 4.7737 -- 155 2593 0.3211 0.3292 -- 68.0
X Ray Diffraction 4.7737 4.8605 -- 152 2609 0.3234 0.3382 -- 68.0
X Ray Diffraction 4.8605 4.9539 -- 150 2685 0.319 0.384 -- 69.0
X Ray Diffraction 4.9539 5.0549 -- 124 2712 0.321 0.3417 -- 71.0
X Ray Diffraction 5.0549 5.1647 -- 146 2669 0.3225 0.3397 -- 71.0
X Ray Diffraction 5.1647 5.2847 -- 175 2772 0.3124 0.3345 -- 72.0
X Ray Diffraction 5.2847 5.4167 -- 137 2744 0.3179 0.3659 -- 71.0
X Ray Diffraction 5.4167 5.5629 -- 136 2848 0.3216 0.3426 -- 74.0
X Ray Diffraction 5.5629 5.7264 -- 155 2864 0.3237 0.3467 -- 75.0
X Ray Diffraction 5.7264 5.9109 -- 162 2979 0.3231 0.3682 -- 77.0
X Ray Diffraction 5.9109 6.1218 -- 169 3055 0.3214 0.3664 -- 80.0
X Ray Diffraction 6.1218 6.3664 -- 176 3146 0.3301 0.33 -- 83.0
X Ray Diffraction 6.3664 6.6555 -- 190 3364 0.3126 0.3589 -- 88.0
X Ray Diffraction 6.6555 7.0055 -- 188 3578 0.3297 0.371 -- 93.0
X Ray Diffraction 7.0055 7.443 -- 175 3732 0.3161 0.3267 -- 96.0
X Ray Diffraction 7.443 8.0154 -- 195 3719 0.3044 0.3217 -- 98.0
X Ray Diffraction 8.0154 8.8178 -- 192 3768 0.2846 0.3199 -- 98.0
X Ray Diffraction 8.8178 10.0841 -- 212 3725 0.2601 0.2617 -- 98.0
X Ray Diffraction 10.0841 12.6686 -- 203 3721 0.2567 0.2655 -- 97.0
X Ray Diffraction 12.6686 49.074 -- 153 3657 0.2941 0.3236 -- 94.0
RMS Deviations
Key Refinement Restraint Deviation
f_angle_d 1.335
f_bond_d 0.008
f_plane_restr 0.006
f_dihedral_angle_d 16.904
f_chiral_restr 0.075
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 87060
Nucleic Acid Atoms 0
Heterogen Atoms 1356
Solvent Atoms 0

Software

Software
Software Name Purpose
Blu-Ice data collection version: Epics
PHASER phasing
PHENIX refinement version: (phenix.refine: 1.8_1069)
HKL-2000 data reduction
XPREP data reduction