Crystal structure of GMPPNP bound KRAS-Y71H in complex with RBD domain of CRAF(RAF1)

entry_id	9ygs
deposition_date	2025-09-29
title	Crystal structure of GMPPNP bound KRAS-Y71H in complex with RBD domain of CRAF(RAF1)
keywords	GTPase Kinase Cell signaling Complex, ONCOPROTEIN; ONCOPROTEIN
method	X-RAY DIFFRACTION

rg_guinier	19.50 Å
rg_electron	18.51 Å
i0	14986700.00
molecular_weight	27867.0 kDa
excluded_volume	34406 ų
envelope_volume	40176 ų
shell_volume	18409 ų
envelope_diameter	67.6 Å
shell_rg	24.57 Å
envelope_rg	18.84 Å
shape_rg	18.53 Å
total_rg	19.31 Å
total_atoms	1951
n_residues	245
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	66.8 Å
rg_real	19.45 Å
rg_real_error	0.48 Å
i0_real	1.4990e+07
i0_real_error	1.7930e+05
rg_reciprocal	19.46 Å
i0_reciprocal	14990000.0000
total_estimate	0.6843
solution_quality	REASONABLE a REASONABLE solution
n_peaks	2
r_peak_primary	24.5 Å
skewness	0.328
kurtosis	-0.230
angular_range	— – 0.4100 Å−1
current_alpha	0.0000
highest_alpha	3874000.0000
n_real_points	72
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.748; Stabil: 1.000; Sysdev: 0.226; Positv: 1.000; Valcen: 0.978; Smooth: 0.991

Unit Cell

length_a	67.265 Å
length_b	71.236 Å
length_c	44.896 Å
angle_alpha	90.00 °
angle_beta	90.00 °
angle_gamma	90.00 °
z_pdb	4

Symmetry

space_group	P 21 21 2
int_tables_number	18
crystal_system	—

Refinement

resolution	1.680 Å
resolution_low	31.480 Å
r_factor	0.2022
r_work	0.2006
r_free	0.2331

Diffraction

temperature

100.0 K

Files (7)

• pr_distribution /app/data/pr_computation/yg/9ygs/pr_distribution.json
• pr_output /app/data/pr_computation/yg/9ygs/9ygs.pr.out
• pr_plot /app/data/visualization/pr_computation/yg/9ygs/9ygs_pr_distribution.png
• saxs_curve_dat /app/data/saxs_computation/yg/9ygs/9ygs.dat
• saxs_fit /app/data/saxs_computation/yg/9ygs/9ygs.fit
• saxs_log /app/data/saxs_computation/yg/9ygs/9ygs.log
• saxs_plot /app/data/visualization/saxs_computation/yg/9ygs/9ygs_saxs_profile.png

Curves (3)

fit	/app/data/saxs_computation/yg/9ygs/9ygs.fit
pddf	/app/data/pr_computation/yg/9ygs/9ygs.pr.out
profile	/app/data/saxs_computation/yg/9ygs/9ygs.dat