← Back to search

9yfs

Protiated E. coli YajL, 100K

Method: X-RAY DIFFRACTION D_max: 68.7 Å Quality: GOOD

SAXS Profile

P(r) Distribution

▼

1. Structure Basics

entry_id	9yfs
deposition_date	2025-09-26
title	Protiated E. coli YajL, 100K
keywords	Hydolase, HYDROLASE; HYDROLASE
method	X-RAY DIFFRACTION

▼

Download Data

SAXS curve (.dat) P(r) distribution (.pr.out) Structure (CIF)

▼

2. SAXS Parameters (CRYSOL)

rg_guinier	21.82 Å
rg_electron	20.69 Å
i0	27441900.00
molecular_weight	41401.0 kDa
excluded_volume	52429 Å³
envelope_volume	58862 Å³
shell_volume	23479 Å³
envelope_diameter	69.4 Å
shell_rg	27.57 Å
envelope_rg	20.97 Å
shape_rg	20.71 Å
total_rg	21.50 Å
total_atoms	5886
n_residues	390
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

▼

3. P(r) Analysis (GNOM)

dmax	68.7 Å
rg_real	21.75 Å
rg_real_error	0.33 Å
i0_real	2.7440e+07
i0_real_error	3.4060e+05
rg_reciprocal	21.76 Å
i0_reciprocal	27440000.0000
total_estimate	0.8978
solution_quality	GOOD a GOOD solution
n_peaks	2
r_peak_primary	25.6 Å
skewness	0.288
kurtosis	-0.348
angular_range	— – 0.3650 Å⁻¹
current_alpha	0.0000
highest_alpha	6558000.0000
n_real_points	68
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.894; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 1.000; Smooth: 0.985

▶

4. Crystallography & Experiment

▶

5. Entities & Polymer Info (4)

Entity 1 polymer

description	Chaperone YajL
formula_weight	21080.3 kDa
src_method	man
entity_count	2

Polymer

type	polypeptide(L)
strand_id	B,A
atom_count	7506

GSHMSASALVCLAPGSEETEAVTTIDLLVRGGIKVTTASVASDGNLAITCSRGVKLLADAPLVEVADGEYDVIVLPGGIKGAECFRDSTLLVETVKQFHRSGRIVAAICAAPATVLVPHDIFPIGNMTGFPTLKDKIPAEQWLDKRVVWDARVKLLTSQGPGTAIDFGLKIIDLLVGREKAHEVASQLVMAAGIYNYYE

Source

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

Entity 2 non-polymer

description	MAGNESIUM ION
formula_weight	24.3 kDa
src_method	syn
entity_count	2

Entity 3 non-polymer

description	CHLORIDE ION
formula_weight	35.5 kDa
src_method	syn
entity_count	2

Entity 4 water

description	water
formula_weight	18.0 kDa
src_method	nat
entity_count	614

▶

6. Citations (2)

▶

length_a	43.767 Å
length_b	78.474 Å
length_c	99.616 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	orthorhombic

resolution	0.940 Å
resolution_low	39.240 Å
r_factor	0.1212
r_work	0.1207
r_free	0.1370

fit	/app/data/saxs_computation/yf/9yfs/9yfs.fit
pddf	/app/data/pr_computation/yf/9yfs/9yfs.pr.out
profile	/app/data/saxs_computation/yf/9yfs/9yfs.dat

Protiated E. coli YajL, 100K

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