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9t0d

Crystal structure of wild-type c-MET bound by glesatinib

Method: X-RAY DIFFRACTION D_max: 68.9 Å Quality: REASONABLE

SAXS Profile

P(r) Distribution

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1. Structure Basics

entry_id	9t0d
deposition_date	2025-10-16
title	Crystal structure of wild-type c-MET bound by glesatinib
keywords	Kinase, c-met, drug discovery, cancer, NSCLC, 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	19.69 Å
rg_electron	18.89 Å
i0	30385300.00
molecular_weight	28967.0 kDa
excluded_volume	28365 Å³
envelope_volume	45268 Å³
shell_volume	19921 Å³
envelope_diameter	68.6 Å
shell_rg	25.33 Å
envelope_rg	19.30 Å
shape_rg	18.88 Å
total_rg	19.58 Å
total_atoms	2194
n_residues	273
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	68.9 Å
rg_real	19.63 Å
rg_real_error	0.45 Å
i0_real	3.0390e+07
i0_real_error	4.2860e+05
rg_reciprocal	19.64 Å
i0_reciprocal	30390000.0000
total_estimate	0.6466
solution_quality	REASONABLE a REASONABLE solution
n_peaks	2
r_peak_primary	23.3 Å
skewness	0.322
kurtosis	-0.258
angular_range	— – 0.4050 Å⁻¹
current_alpha	0.0000
highest_alpha	7578000.0000
n_real_points	72
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.721; Stabil: 1.000; Sysdev: 0.424; Positv: 1.000; Valcen: 0.964; Smooth: 0.000

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4. Crystallography & Experiment

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5. Entities & Polymer Info (3)

Entity 1 polymer

description	Hepatocyte growth factor receptor
formula_weight	33471.9 kDa
ec_number	2.7.10.1
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	A
atom_count	2457

GHIDLSALNPELVQAVQHVVIGPSSLIVHFNEVIGRGHFGCVYHGTLLDNDGKKIHCAVKSLNRITDIGEVSQFLTEGIIMKDFSHPNVLSLLGICLRSEGSPLVVLPYMKHGDLRNFIRNETHNPTVKDLIGFGLQVAKGMKYLASKKFVHRDLAARNCMLDEKFTVKVADFGLARDMYDKEYYSVHNKTGAKLPVKWMALESLQTQKFTTKSDVWSFGVLLWELMTRGAPPYPDVNTFDITVYLLQGRRLLQPEYCPDPLYEVMLKCWHPKAEMRPSFSELVSRISAIFSTFIG

Source

organism	Homo sapiens
common_name	human
ncbi_taxonomy_id	9606
host_organism	Spodoptera frugiperda

Entity 2 non-polymer

description	Glesatinib
formula_weight	619.7 kDa
src_method	syn
entity_count	1

Entity 3 water

description	water
formula_weight	18.0 kDa
src_method	nat
entity_count	255

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6. Citations (1)

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length_a	37.836 Å
length_b	42.144 Å
length_c	88.887 Å
angle_alpha	90.00 °
angle_beta	92.34 °
angle_gamma	90.00 °
z_pdb	2

space_group	P 1 21 1
int_tables_number	4
crystal_system	—

resolution	1.196 Å
resolution_low	23.790 Å
r_factor	0.1996
r_work	0.1985
r_free	0.2213

fit	/app/data/saxs_computation/t0/9t0d/9t0d.fit
pddf	/app/data/pr_computation/t0/9t0d/9t0d.pr.out
profile	/app/data/saxs_computation/t0/9t0d/9t0d.dat

Crystal structure of wild-type c-MET bound by glesatinib

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