Crystal structure of Xyn10A from Thermoascus crustaceus

Method: X-RAY DIFFRACTION D_max: 79.6 Å Quality: EXCELLENT

SAXS Profile

P(r) Distribution

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1. Structure Basics

entry_id	9vk4
deposition_date	2025-06-22
title	Crystal structure of Xyn10A from Thermoascus crustaceus
keywords	native, TcrXyn10A, xylanase, HYDROLASE; HYDROLASE
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	26.46 Å
rg_electron	25.58 Å
i0	69775100.00
molecular_weight	65195.0 kDa
excluded_volume	81400 Å³
envelope_volume	94250 Å³
shell_volume	30103 Å³
envelope_diameter	79.0 Å
shell_rg	33.61 Å
envelope_rg	25.22 Å
shape_rg	25.56 Å
total_rg	26.47 Å
total_atoms	4604
n_residues	598
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	79.6 Å
rg_real	26.35 Å
rg_real_error	0.41 Å
i0_real	6.9780e+07
i0_real_error	9.8690e+05
rg_reciprocal	26.39 Å
i0_reciprocal	69780000.0000
total_estimate	0.9143
solution_quality	EXCELLENT a EXCELLENT solution
n_peaks	2
r_peak_primary	30.5 Å
skewness	0.167
kurtosis	-0.635
angular_range	— – 0.3000 Å⁻¹
current_alpha	0.0000
highest_alpha	18600000.0000
n_real_points	61
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.973; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 1.000; Smooth: 0.963

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4. Crystallography & Experiment

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5. Entities & Polymer Info (2)

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6. Citations (1)

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length_a	63.618 Å
length_b	87.745 Å
length_c	101.991 Å
angle_alpha	90.00 °
angle_beta	90.00 °
angle_gamma	90.00 °
z_pdb	8

space_group	P 21 21 21
int_tables_number	19
crystal_system	—

resolution	2.100 Å
resolution_low	45.980 Å
r_factor	0.1866
r_work	0.1839
r_free	0.2252

description	Beta-xylanase
formula_weight	35574.9 kDa
ec_number	3.2.1.8
src_method	man
entity_count	2

type	polypeptide(L)
strand_id	A,B
atom_count	4952

Crystal structure of Xyn10A from Thermoascus crustaceus

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

5. Entities & Polymer Info (2)

Entity 1 polymer

Polymer

Source

Entity 2 water

6. Citations (1)

7. Files & Curves (10)

Files (7)

Curves (3)

organism	Thermoascus crustaceus
ncbi_taxonomy_id	5088
host_organism	Escherichia coli BL21(DE3)

description	water
formula_weight	18.0 kDa
src_method	nat
entity_count	348

fit	/app/data/saxs_computation/vk/9vk4/9vk4.fit
pddf	/app/data/pr_computation/vk/9vk4/9vk4.pr.out
profile	/app/data/saxs_computation/vk/9vk4/9vk4.dat