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11ue

Structure of PDGFRb Kinase Domain Bound to JNJ-PDGFRBi-1

Method: X-RAY DIFFRACTION D_max: 65.5 Å Quality: REASONABLE

SAXS Profile

P(r) Distribution

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1. Structure Basics

entry_id	11ue
deposition_date	2026-03-13
title	Structure of PDGFRb Kinase Domain Bound to JNJ-PDGFRBi-1
keywords	Platelet-derived growth factor beta receptor, kinase domain, inhibitor complex, PDGFR-Beta, 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	20.30 Å
rg_electron	19.41 Å
i0	38982000.00
molecular_weight	32737.0 kDa
excluded_volume	31867 Å³
envelope_volume	51246 Å³
shell_volume	21657 Å³
envelope_diameter	67.5 Å
shell_rg	26.15 Å
envelope_rg	19.68 Å
shape_rg	19.39 Å
total_rg	20.10 Å
total_atoms	2479
n_residues	306
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	65.5 Å
rg_real	20.20 Å
rg_real_error	0.26 Å
i0_real	3.8980e+07
i0_real_error	4.8170e+05
rg_reciprocal	20.22 Å
i0_reciprocal	38980000.0000
total_estimate	0.6736
solution_quality	REASONABLE a REASONABLE solution
n_peaks	1
r_peak_primary	63.7 Å
skewness	0.201
kurtosis	-0.421
angular_range	— – 0.3900 Å⁻¹
current_alpha	0.0001
highest_alpha	8174000.0000
n_real_points	71
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.865; Stabil: 1.000; Sysdev: 0.054; Positv: 1.000; Valcen: 0.995; Smooth: 1.000

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4. Crystallography & Experiment

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5. Entities & Polymer Info (3)

Entity 1 polymer

description	Platelet-derived growth factor receptor beta
formula_weight	48732.6 kDa
ec_number	2.7.10.1
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	A
atom_count	2513

GAMDQKKPRYEIRWKVIESVSSDGHEYIYVDPMQLPYDSTWELPRDQLVLGRTLGSGAFGQVVEATAHGLSHSQATMKVAVKMLKSTARSSEKQALMSELKIMSHLGPHLNVVNLLGACTKGGPIYIITEYCRYGDLVDYLHRNKHTFLQHHSDKRRPPSAELYSNALPVGLPLPSHVSLTGESDGGYMDMSKDESVDYVPMLDMKGDVKYADIESSNYMAPYDNYVPSAPERTCRATLINESPVLSYMDLVGFSYQVANGMEFLASKNCVHRDLAARNVLICEGKLVKICDFGLARDIMRDSNYISKGSTFLPLKWMAPESIFNSLYTTLSDVWSFGILLWEIFTLGGTPYPELPMNEQFYNAIKRGYRMAQPAHASDEIYEIMQKCWEEKFEIRPPFSQLVLLLERLLGEGYKKKYQQVDEEFLRSD

Source

organism	Homo sapiens
common_name	human
ncbi_taxonomy_id	9606
host_organism	Spodoptera frugiperda

Entity 2 non-polymer

description	;N-[2-(2,2-dimethylpyrrolidin-1-yl)ethyl]-6-methyl-5-({1-methyl-6-[(1-methyl-1H-pyrazol-4-yl)amino]-1H-pyrazolo[3,4-d]pyrimidin-3-yl}amino)pyridine-3-carboxamide ;
formula_weight	503.6 kDa
src_method	syn
entity_count	1

Entity 3 water

description	water
formula_weight	18.0 kDa
src_method	nat
entity_count	29

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6. Citations (1)

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length_a	97.400 Å
length_b	97.400 Å
length_c	101.687 Å
angle_alpha	90.00 °
angle_beta	90.00 °
angle_gamma	120.00 °
z_pdb	6

space_group	P 31 2 1
int_tables_number	152
crystal_system	—

resolution	2.320 Å
resolution_low	64.920 Å
r_factor	0.1998
r_work	0.1981
r_free	0.2364

fit	/app/data/saxs_computation/1u/11ue/11ue.fit
pddf	/app/data/pr_computation/1u/11ue/11ue.pr.out
profile	/app/data/saxs_computation/1u/11ue/11ue.dat

Structure of PDGFRb Kinase Domain Bound to JNJ-PDGFRBi-1

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