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9sv2

Intertwined dimer of the Acylphosphatase from E. coli

Method: X-RAY DIFFRACTION D_max: 51.1 Å Quality: REASONABLE

SAXS Profile

P(r) Distribution

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1. Structure Basics

entry_id	9sv2
deposition_date	2025-09-30
title	Intertwined dimer of the Acylphosphatase from E. coli
keywords	ALPHA AND BETA PROTEINS, HYDROLASE, AMYLOID, PHOSPHATASE, INTERTWINED-DIMER; 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	14.87 Å
rg_electron	13.78 Å
i0	2700660.00
molecular_weight	10806.0 kDa
excluded_volume	13267 Å³
envelope_volume	15974 Å³
shell_volume	10370 Å³
envelope_diameter	50.5 Å
shell_rg	18.79 Å
envelope_rg	14.33 Å
shape_rg	13.75 Å
total_rg	14.90 Å
total_atoms	1490
n_residues	91
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	51.1 Å
rg_real	14.85 Å
rg_real_error	0.34 Å
i0_real	2.7010e+06
i0_real_error	3.1780e+04
rg_reciprocal	14.85 Å
i0_reciprocal	2701000.0000
total_estimate	0.6867
solution_quality	REASONABLE a REASONABLE solution
n_peaks	2
r_peak_primary	17.4 Å
skewness	0.336
kurtosis	-0.170
angular_range	— – 0.5000 Å⁻¹
current_alpha	0.0000
highest_alpha	619200.0000
n_real_points	80
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.748; Stabil: 1.000; Sysdev: 0.256; Positv: 1.000; Valcen: 0.969; Smooth: 0.943

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4. Crystallography & Experiment

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5. Entities & Polymer Info (5)

Entity 1 polymer

description	Acylphosphatase
formula_weight	11385.9 kDa
ec_number	3.6.1.7
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	A
atom_count	1524

MSKVCIIAWVYGRVQGVGFRYTTQYEAKRLGLTGYAKNLDDGSVEVVACGEEGQVEKLMQWLKSGGPRSARVERVLSEPHHPSGELTDFRIRLEHHHHHH

Source

organism	Escherichia coli
ncbi_taxonomy_id	562
host_organism	Escherichia coli BL21(DE3)

Entity 2 non-polymer

description	GLYCEROL
formula_weight	92.1 kDa
src_method	syn
entity_count	1

Entity 3 non-polymer

description	TRIETHYLENE GLYCOL
formula_weight	150.2 kDa
src_method	syn
entity_count	1

Entity 4 non-polymer

description	SULFATE ION
formula_weight	96.1 kDa
src_method	syn
entity_count	4

Entity 5 water

description	water
formula_weight	18.0 kDa
src_method	nat
entity_count	34

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6. Citations (1)

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length_a	90.787 Å
length_b	90.787 Å
length_c	40.278 Å
angle_alpha	90.00 °
angle_beta	90.00 °
angle_gamma	120.00 °
z_pdb	12

space_group	P 61 2 2
int_tables_number	178
crystal_system	hexagonal

resolution	1.950 Å
resolution_low	19.770 Å
r_factor	0.2103
r_work	0.2076
r_free	0.2628

fit	/app/data/saxs_computation/sv/9sv2/9sv2.fit
pddf	/app/data/pr_computation/sv/9sv2/9sv2.pr.out
profile	/app/data/saxs_computation/sv/9sv2/9sv2.dat