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9w6y

Crystal structure of L-galactose dehydrogenase from Luteolibacter sp. strain LG18 in complex with L-galactose and NADP+

Method: X-RAY DIFFRACTION D_max: 96.1 Å Quality: GOOD

SAXS Profile

P(r) Distribution

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1. Structure Basics

entry_id	9w6y
deposition_date	2025-08-05
title	Crystal structure of L-galactose dehydrogenase from Luteolibacter sp. strain LG18 in complex with L-galactose and NADP+
keywords	Dehydrogenase, OXIDOREDUCTASE; OXIDOREDUCTASE
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	29.98 Å
rg_electron	29.25 Å
i0	87573300.00
molecular_weight	72643.0 kDa
excluded_volume	90401 Å³
envelope_volume	107700 Å³
shell_volume	31466 Å³
envelope_diameter	95.9 Å
shell_rg	35.76 Å
envelope_rg	29.07 Å
shape_rg	29.23 Å
total_rg	29.92 Å
total_atoms	5100
n_residues	650
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	96.1 Å
rg_real	30.08 Å
rg_real_error	0.60 Å
i0_real	8.7570e+07
i0_real_error	1.3070e+06
rg_reciprocal	30.04 Å
i0_reciprocal	87570000.0000
total_estimate	0.8757
solution_quality	GOOD a GOOD solution
n_peaks	2
r_peak_primary	27.2 Å
skewness	0.362
kurtosis	-0.676
angular_range	— – 0.2650 Å⁻¹
current_alpha	0.0000
highest_alpha	40020000.0000
n_real_points	54
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.850; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.910; Smooth: 0.921

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4. Crystallography & Experiment

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5. Entities & Polymer Info (4)

Entity 1 polymer

description	L-galactose dehydrogenase
formula_weight	37953.0 kDa
src_method	man
entity_count	2

Polymer

type	polypeptide(L)
strand_id	A,B
atom_count	5767

MGSSHHHHHHSSGLVPRGSHMEYRKLGNTGLDVSVLGFGASSLGSVFREVSVEDCIATVHAALAGGINFIDVSPSYGQTLAELRLGRALEGVPRESYLLATKIGSYSEARGDYDFSKASTERSVEHSLMRLGVDYLDLIQCHDIEFADHDQIVEETLPTLLSLKEQGLVRHVGITGLPLGIFRSILDRVPAGTVETILSFCHYELNDTSLGELLPYFKEKGVGVINASPTGMGLLTRRGAPSWHPSSPEIQAGCRKAVDHCNAKGVDIVKLAVQFCCVNPDIATTLVGTANPANIRDNIAYVEEPIDEQLLAEVMEILEPIRNFTFTRGLPQHRDPAEVLRPLALAARA

Source

organism	Luteolibacter sp. LG18
ncbi_taxonomy_id	2819286
host_organism	Escherichia coli BL21(DE3)

Entity 2 non-polymer

description	beta-L-galactopyranose
formula_weight	180.2 kDa
src_method	syn
entity_count	2

Entity 3 non-polymer

description	NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE
formula_weight	743.4 kDa
src_method	syn
entity_count	2

Entity 4 water

description	water
formula_weight	18.0 kDa
src_method	nat
entity_count	653

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6. Citations (1)

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length_a	79.297 Å
length_b	90.510 Å
length_c	96.580 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	1.500 Å
resolution_low	48.290 Å
r_factor	—
r_work	0.1670
r_free	0.1811

fit	/app/data/saxs_computation/w6/9w6y/9w6y.fit
pddf	/app/data/pr_computation/w6/9w6y/9w6y.pr.out
profile	/app/data/saxs_computation/w6/9w6y/9w6y.dat

Crystal structure of L-galactose dehydrogenase from Luteolibacter sp. strain LG18 in complex with L-galactose and NADP+

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