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9qoi

;APH(2'')-IVa with an inhibitor ;

Method: X-RAY DIFFRACTION D_max: 111.9 Å Quality: GOOD

SAXS Profile

P(r) Distribution

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1. Structure Basics

entry_id	9qoi
deposition_date	2025-03-26
last_revision	2026-03-04
title	;APH(2'')-IVa with an inhibitor ;
keywords	inhibitor, complex, enzyme, ANTIBIOTIC; ANTIBIOTIC
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	33.70 Å
rg_electron	33.55 Å
i0	138655000.00
molecular_weight	64151.0 kDa
excluded_volume	62796 Å³
envelope_volume	114640 Å³
shell_volume	30098 Å³
envelope_diameter	119.7 Å
shell_rg	37.90 Å
envelope_rg	33.19 Å
shape_rg	33.55 Å
total_rg	33.81 Å
total_atoms	4900
n_residues	594
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	111.9 Å
rg_real	33.93 Å
rg_real_error	0.95 Å
i0_real	1.3870e+08
i0_real_error	1.9670e+06
rg_reciprocal	33.79 Å
i0_reciprocal	138600000.0000
total_estimate	0.8337
solution_quality	GOOD a GOOD solution
n_peaks	2
r_peak_primary	31.0 Å
skewness	0.465
kurtosis	-0.502
angular_range	— – 0.2350 Å⁻¹
current_alpha	0.0000
highest_alpha	8546000.0000
n_real_points	48
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.815; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.696; Smooth: 0.692

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4. Crystallography & Experiment

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5. Entities & Polymer Info (4)

Entity 1 polymer

description	APH(2'')-Id
formula_weight	37596.8 kDa
src_method	man
entity_count	2

Polymer

type	polypeptide(L)
strand_id	A,B
atom_count	5148

MGSSHHHHHHSSGLVPRGSHMRTYTFDQVEKAIEQLYPDFTINTIEISGEGNDCIAYEINRDFIFKFPKHSRGSTNLFNEVNILKRIHNKLPLPIPEVVFTGMPSETYQMSFAGFTKIKGVPLTPLLLNNLPKQSQNQAAKDLARFLSELHSINISGFKSNLVLDFREKINEDNKKIKKLLSRELKGPQMKKVDDFYRDILENEIYFKYYPCLIHNDFSSDHILFDTEKNTICGIIDFGDAAISDPDNDFISLMEDDEEYGMEFVSKILNHYKHKDIPTVLEKYRMKEKYWSFEKIIYGKEYGYMDWYEEGLNEIRSIKIK

Source

organism	Enterococcus casseliflavus
ncbi_taxonomy_id	37734
host_organism	Escherichia coli

Entity 2 non-polymer

description	4-(1~{H}-pyrazol-3-yl)pyridin-2-amine
formula_weight	160.2 kDa
src_method	syn
entity_count	2

Entity 3 non-polymer

description	DIMETHYL SULFOXIDE
formula_weight	78.1 kDa
src_method	syn
entity_count	7

Entity 4 water

description	water
formula_weight	18.0 kDa
src_method	nat
entity_count	225

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6. Citations (1)

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length_a	75.771 Å
length_b	64.565 Å
length_c	76.986 Å
angle_alpha	90.00 °
angle_beta	91.61 °
angle_gamma	90.00 °
z_pdb	4

space_group	P 1 21 1
int_tables_number	4
crystal_system	—

resolution	1.810 Å
resolution_low	49.460 Å
r_factor	0.2031
r_work	0.2013
r_free	0.2393

fit	/app/data/saxs_computation/qo/9qoi/9qoi.fit
pddf	/app/data/pr_computation/qo/9qoi/9qoi.pr.out
profile	/app/data/saxs_computation/qo/9qoi/9qoi.dat

;APH(2'')-IVa with an inhibitor ;

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