Structure of CD33 complexed with its mAb-10C8

entry_id	9vl2
deposition_date	2025-06-24
title	Structure of CD33 complexed with its mAb-10C8
keywords	CD33 Siglec-3 HBV infection immune checkpoint, IMMUNE SYSTEM; IMMUNE SYSTEM
method	X-RAY DIFFRACTION

rg_guinier	45.69 Å
rg_electron	46.02 Å
i0	301972000.00
molecular_weight	141160.0 kDa
excluded_volume	176080 ų
envelope_volume	246320 ų
shell_volume	48301 ų
envelope_diameter	157.2 Å
shell_rg	45.07 Å
envelope_rg	45.48 Å
shape_rg	45.95 Å
total_rg	46.20 Å
total_atoms	9952
n_residues	1270
n_harmonics	20
q_range	— – 0.5000 Å−1
n_points	101
shell_type	directional
solvent_density	0.3340 e/ų
contrast_shell	0.0300 e/ų
crysol_version	4.1.3

dmax	155.4 Å
rg_real	45.94 Å
rg_real_error	1.70 Å
i0_real	3.0200e+08
i0_real_error	6.1990e+06
rg_reciprocal	45.69 Å
i0_reciprocal	301900000.0000
total_estimate	0.8424
solution_quality	GOOD a GOOD solution
n_peaks	1
r_peak_primary	44.4 Å
skewness	0.365
kurtosis	-0.484
angular_range	— – 0.1750 Å−1
current_alpha	0.0000
highest_alpha	16600000.0000
n_real_points	36
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.869; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.815; Smooth: 0.524

Unit Cell

length_a	71.408 Å
length_b	71.156 Å
length_c	86.765 Å
angle_alpha	95.89 °
angle_beta	94.16 °
angle_gamma	111.23 °
z_pdb	2

Symmetry

space_group	P 1
int_tables_number	1
crystal_system	—

Refinement

resolution	3.180 Å
resolution_low	28.350 Å
r_factor	0.2088
r_work	0.2047
r_free	0.2523

Diffraction

temperature

100.0 K

Files (7)

• pr_distribution /app/data/pr_computation/vl/9vl2/pr_distribution.json
• pr_output /app/data/pr_computation/vl/9vl2/9vl2.pr.out
• pr_plot /app/data/visualization/pr_computation/vl/9vl2/9vl2_pr_distribution.png
• saxs_curve_dat /app/data/saxs_computation/vl/9vl2/9vl2.dat
• saxs_fit /app/data/saxs_computation/vl/9vl2/9vl2.fit
• saxs_log /app/data/saxs_computation/vl/9vl2/9vl2.log
• saxs_plot /app/data/visualization/saxs_computation/vl/9vl2/9vl2_saxs_profile.png

Curves (3)

fit	/app/data/saxs_computation/vl/9vl2/9vl2.fit
pddf	/app/data/pr_computation/vl/9vl2/9vl2.pr.out
profile	/app/data/saxs_computation/vl/9vl2/9vl2.dat