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9r5j

The structure of CaPGI in complex with fragments

Method: X-RAY DIFFRACTION D_max: 83.4 Å Quality: REASONABLE

SAXS Profile

P(r) Distribution

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1. Structure Basics

entry_id	9r5j
deposition_date	2025-05-08
last_revision	2026-05-20
title	The structure of CaPGI in complex with fragments
keywords	Candida, PGI, fragment, ISOMERASE; ISOMERASE
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	29.03 Å
rg_electron	28.07 Å
i0	448529000.00
molecular_weight	114510.0 kDa
excluded_volume	111320 Å³
envelope_volume	174520 Å³
shell_volume	48227 Å³
envelope_diameter	89.7 Å
shell_rg	38.05 Å
envelope_rg	28.16 Å
shape_rg	28.04 Å
total_rg	28.75 Å
total_atoms	8685
n_residues	1100
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	83.4 Å
rg_real	28.80 Å
rg_real_error	0.28 Å
i0_real	4.4850e+08
i0_real_error	5.3880e+06
rg_reciprocal	28.90 Å
i0_reciprocal	448600000.0000
total_estimate	0.7113
solution_quality	REASONABLE a REASONABLE solution
n_peaks	2
r_peak_primary	37.9 Å
skewness	0.036
kurtosis	-0.551
angular_range	— – 0.2750 Å⁻¹
current_alpha	0.0000
highest_alpha	90350000.0000
n_real_points	56
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.962; Stabil: 1.000; Sysdev: 0.156; Positv: 1.000; Valcen: 0.966; Smooth: 0.923

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4. Crystallography & Experiment

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5. Entities & Polymer Info (6)

Entity 1 polymer

description	Glucose-6-phosphate isomerase
formula_weight	61670.4 kDa
ec_number	5.3.1.9
src_method	man
entity_count	2

Polymer

type	polypeptide(L)
strand_id	A,B
atom_count	9483

GPLGSMASFKLATDLPEWKKLEETYKSVGEKFSVRDAFAKDPKRFEEFSWIYKNYDDSKILFDFSKNLVNKEILDQLVTLAKEAGVEKLRDAMFAGDHINTTEDRAVYHVALRNRALRKMPVDGKDTAQEVDDVLKHMKEFSDSIRDGSWTGYTGKSITDVVNIGIGGSDLGPVMVTEALKAYSKPGLNVHFISNIDGTHTAETLKNLNPETTLFLIASKTFTTAETITNATSAKNWFLATAKDSKHIAKHFAALSTNEKEVVAFGIDAKNMFGFESWVGGRYSVWSAIGLSVAIYIGFENFNDFLKGAEAMDQHFLTTPLENNIPVIGGLLSVWYNNFFGAQTHLVVPFDQYLHRFPAYLQQLSMESNGKSVTRANVFTNYQTGTILFGEPATNAQHSFFQLVHQGTKLIPADFILAAQSHNPIEKNLHQRMLASNFFAQSEALMVGKDEAKVKAEGATGGLVPHKEFSGNRPTTSILAQKITPATLGSLIAYYEHLTFTEGAIWNINSFDQWGVELGKVLAKVIGKELDDKKAVATHDASTNGLINQFKEWEE

Source

organism	Candida albicans
ncbi_taxonomy_id	5476
host_organism	Escherichia coli

Entity 2 non-polymer

description	GLYCEROL
formula_weight	92.1 kDa
src_method	syn
entity_count	10

Entity 3 non-polymer

description	[(2~{R},3~{R},4~{R},5~{S})-3,4,5-tris(oxidanyl)piperidin-2-yl]methyl dihydrogen phosphate
formula_weight	243.2 kDa
src_method	syn
entity_count	2

Entity 4 non-polymer

description	CHLORIDE ION
formula_weight	35.5 kDa
src_method	syn
entity_count	9

Entity 5 non-polymer

description	N-methyl-D-alaninamide
formula_weight	102.1 kDa
src_method	syn
entity_count	1

Entity 6 water

description	water
formula_weight	18.0 kDa
src_method	nat
entity_count	722

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6. Citations (1)

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length_a	86.920 Å
length_b	101.600 Å
length_c	134.090 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	59.250 Å
r_factor	0.1505
r_work	0.1494
r_free	0.1714

fit	/app/data/saxs_computation/r5/9r5j/9r5j.fit
pddf	/app/data/pr_computation/r5/9r5j/9r5j.pr.out
profile	/app/data/saxs_computation/r5/9r5j/9r5j.dat