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9vlm

The X-RAY co-crystal structure of human FGFR2 and covalent inhibitor 10a

Method: X-RAY DIFFRACTION D_max: 94.3 Å Quality: GOOD

SAXS Profile

P(r) Distribution

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1. Structure Basics

entry_id	9vlm
deposition_date	2025-06-25
last_revision	2026-05-06
title	The X-RAY co-crystal structure of human FGFR2 and covalent inhibitor 10a
keywords	FGFR2, TRANSFERASE; TRANSFERASE
method	X-RAY DIFFRACTION

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Download Data

SAXS curve (.dat) P(r) distribution (.pr.out) Structure (CIF)

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2. SAXS Parameters (CRYSOL)

rg_guinier	29.09 Å
rg_electron	28.64 Å
i0	127137000.00
molecular_weight	59695.0 kDa
excluded_volume	57760 Å³
envelope_volume	103640 Å³
shell_volume	30780 Å³
envelope_diameter	101.5 Å
shell_rg	35.20 Å
envelope_rg	28.33 Å
shape_rg	28.64 Å
total_rg	29.12 Å
total_atoms	4494
n_residues	558
n_harmonics	20
q_range	— – 0.5000 Å⁻¹
n_points	101
shell_type	directional
solvent_density	0.3340 e/Å³
contrast_shell	0.0300 e/Å³
crysol_version	4.1.3

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3. P(r) Analysis (GNOM)

dmax	94.3 Å
rg_real	29.12 Å
rg_real_error	0.72 Å
i0_real	1.2710e+08
i0_real_error	1.9480e+06
rg_reciprocal	29.11 Å
i0_reciprocal	127100000.0000
total_estimate	0.8935
solution_quality	GOOD a GOOD solution
n_peaks	2
r_peak_primary	29.1 Å
skewness	0.332
kurtosis	-0.510
angular_range	— – 0.2750 Å⁻¹
current_alpha	0.0000
highest_alpha	35330000.0000
n_real_points	56
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.918; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.923; Smooth: 0.935

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4. Crystallography & Experiment

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5. Entities & Polymer Info (4)

Entity 1 polymer

description	Fibroblast growth factor receptor 2
formula_weight	34747.1 kDa
ec_number	2.7.10.1
src_method	man
entity_count	2

Polymer

type	polypeptide(L)
strand_id	A,B
atom_count	4616

GPEYELPEDPKWEFPRDKLTLGKPLGEGCFGQVVMAEAVGIDKDKPKEAVTVAVKMLKDDATEKDLSDLVSEMEMMKMIGKHKNIINLLGACTQDGPLYVIVEYASKGNLREYLRARRPPGMEYSYDINRVPEEQMTFKDLVSCTYQLARGMEYLASQKCIHRDLAARNVLVTENNVMKIADFGLARDINNIDYYKKTTNGRLPVKWMAPEALFDRVYTHQSDVWSFGVLMWEIFTLGGSPYPGIPVEELFKLLKEGHRMDKPANCTNELYMMMRDCWHAVPSQRPTFKQLVEDLDRILTLTT

Source

organism	Homo sapiens
common_name	human
ncbi_taxonomy_id	9606
host_organism	Escherichia coli

Entity 2 non-polymer

description	~{N}-[3-[2-[[3-[2-(dimethylamino)ethylsulfamoylmethyl]phenyl]amino]pyrimidin-4-yl]-1-methyl-indol-6-yl]propanamide
formula_weight	535.7 kDa
src_method	syn
entity_count	2

Entity 3 non-polymer

description	GLYCEROL
formula_weight	92.1 kDa
src_method	syn
entity_count	2

Entity 4 water

description	water
formula_weight	18.0 kDa
src_method	nat
entity_count	122

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6. Citations (1)

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length_a	62.982 Å
length_b	47.563 Å
length_c	108.904 Å
angle_alpha	90.00 °
angle_beta	101.57 °
angle_gamma	90.00 °
z_pdb	4

space_group	P 1 21 1
int_tables_number	4
crystal_system	—

resolution	2.260 Å
resolution_low	53.340 Å
r_factor	0.2092
r_work	0.2070
r_free	0.2537

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

The X-RAY co-crystal structure of human FGFR2 and covalent inhibitor 10a

SAXS Profile

P(r) Distribution

1. Structure Basics

Download Data

2. SAXS Parameters (CRYSOL)

3. P(r) Analysis (GNOM)

4. Crystallography & Experiment

Unit Cell

Symmetry

Refinement

Diffraction