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1c8y

Endo-Beta-N-Acetylglucosaminidase H, D130A Mutant

Method: X-RAY DIFFRACTION D_max: 62.4 Å Quality: GOOD

SAXS Profile

P(r) Distribution

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1. Structure Basics

entry_id	1c8y
deposition_date	1999-07-30
title	Endo-Beta-N-Acetylglucosaminidase H, D130A Mutant
keywords	(BETA/ALPHA)8-BARREL, HYDROLASE; 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	19.36 Å
rg_electron	17.92 Å
i0	14905500.00
molecular_weight	28518.0 kDa
excluded_volume	35383 Å³
envelope_volume	39136 Å³
shell_volume	18284 Å³
envelope_diameter	62.6 Å
shell_rg	24.06 Å
envelope_rg	18.17 Å
shape_rg	17.89 Å
total_rg	18.86 Å
total_atoms	2014
n_residues	265
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	62.4 Å
rg_real	19.27 Å
rg_real_error	0.31 Å
i0_real	1.4910e+07
i0_real_error	1.7450e+05
rg_reciprocal	19.28 Å
i0_reciprocal	14910000.0000
total_estimate	0.8945
solution_quality	GOOD a GOOD solution
n_peaks	1
r_peak_primary	23.7 Å
skewness	0.210
kurtosis	-0.397
angular_range	— – 0.4100 Å⁻¹
current_alpha	0.0000
highest_alpha	3097000.0000
n_real_points	72
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.880; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 1.000; Smooth: 0.984

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4. Crystallography & Experiment

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5. Entities & Polymer Info (3)

Entity 1 polymer

description	ENDO-BETA-N-ACETYLGLUCOSAMINIDASE H
formula_weight	28481.4 kDa
ec_number	3.2.1.96
mutation	D130A
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	A
atom_count	2300

KQGPTSVAYVEVNNNSMLNVGKYTLADGGGNAFDVAVIFAANINYDTGTKTAYLHFNENVQRVLDNAVTQIRPLQQQGIKVLLSVLGNHQGAGFANFPSQQAASAFAKQLSDAVAKYGLDGVDFADEYAEYGNNGTAQPNDSSFVHLVTALRANMPDKIISLYNIGPAASRLSYGGVDVSDKFDYAWNPYYGTWQVPGIALPKAQLSPAAVEIGRTSRSTVADLARRTVDEGYGVYLTYNLDGGDRTADVSAFTRELYGSEAVRT

Source

organism	Streptomyces plicatus
ncbi_taxonomy_id	1922
host_organism	Escherichia coli

Entity 2 non-polymer

description	ZINC ION
formula_weight	65.4 kDa
src_method	syn
entity_count	1

Entity 3 water

description	water
formula_weight	18.0 kDa
src_method	nat
entity_count	286

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6. Citations (1)

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length_a	61.400 Å
length_b	61.400 Å
length_c	140.900 Å
angle_alpha	90.00 °
angle_beta	90.00 °
angle_gamma	90.00 °
z_pdb	8

space_group	P 43 21 2
int_tables_number	96
crystal_system	—

resolution	2.000 Å
resolution_low	10.000 Å
r_factor	0.2070
r_work	0.2070
r_free	—

fit	/app/data/saxs_computation/c8/1c8y/1c8y.fit
pddf	/app/data/pr_computation/c8/1c8y/1c8y.pr.out
profile	/app/data/saxs_computation/c8/1c8y/1c8y.dat

Endo-Beta-N-Acetylglucosaminidase H, D130A Mutant

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