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10zg

Novobiocin Glycosyltransferase (Ngt-1)

Method: X-RAY DIFFRACTION D_max: 77.7 Å Quality: GOOD

SAXS Profile

P(r) Distribution

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1. Structure Basics

entry_id	10zg
deposition_date	2026-02-12
title	Novobiocin Glycosyltransferase (Ngt-1)
keywords	Inactivating enzyme, TRANSFERASE; TRANSFERASE
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	22.01 Å
rg_electron	21.04 Å
i0	31682000.00
molecular_weight	44370.0 kDa
excluded_volume	55937 Å³
envelope_volume	64414 Å³
shell_volume	25094 Å³
envelope_diameter	72.2 Å
shell_rg	28.35 Å
envelope_rg	21.29 Å
shape_rg	21.03 Å
total_rg	22.01 Å
total_atoms	3121
n_residues	370
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	77.7 Å
rg_real	21.93 Å
rg_real_error	0.44 Å
i0_real	3.1680e+07
i0_real_error	4.1500e+05
rg_reciprocal	21.94 Å
i0_reciprocal	31680000.0000
total_estimate	0.7736
solution_quality	GOOD a GOOD solution
n_peaks	2
r_peak_primary	25.5 Å
skewness	0.290
kurtosis	-0.309
angular_range	— – 0.3600 Å⁻¹
current_alpha	0.0000
highest_alpha	13470000.0000
n_real_points	68
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.694; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.971; Smooth: 0.000

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4. Crystallography & Experiment

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5. Entities & Polymer Info (4)

Entity 1 polymer

description	Glycosyl transferase
formula_weight	45348.6 kDa
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	A
atom_count	3336

MANVLVINFPGEGHINPTLAVVSELILRGETVVSYCIEDYRKKVEATGAEFRVFENFLSQINIMERVNEGGSPLTMLSHMIEASERIVTQIVEETKEEKYDYLIYDNHFPVGRIIANILQLPSVSSCTTFAVNQYINFHDEQELRQVDEMDPLYQSCLAGMERWNKQYGMKCNSMYDIMNHPGDITIVYTSKKYQPRSEVFDESYKFVGPSIATRKEVGSFPTEDLKNEKVIFISMGTVFNEQPALYEKCFEAFKDVDATVVLVVGKKINISQFENIPKNFKLYNYVPQLEVLQHADVFVTHGGMNSSSEALYYGVPLVVIPVTGDQPFVAKRLTEVGAGITLNRNELTSELLRETVKKVMDDVTFKENSRKVGESLRNAGGYQRAVEEIFKLKMKPY

Source

organism	Bacillus thuringiensis
ncbi_taxonomy_id	1428
host_organism	Escherichia coli

Entity 2 non-polymer

description	URIDINE-5'-DIPHOSPHATE
formula_weight	404.2 kDa
src_method	syn
entity_count	1

Entity 3 non-polymer

description	NOVOBIOCIN
formula_weight	612.6 kDa
src_method	syn
entity_count	3

Entity 4 water

description	water
formula_weight	18.0 kDa
src_method	nat
entity_count	215

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6. Citations (1)

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length_a	54.029 Å
length_b	95.219 Å
length_c	102.900 Å
angle_alpha	90.00 °
angle_beta	90.00 °
angle_gamma	90.00 °
z_pdb	4

space_group	P 21 21 21
int_tables_number	19
crystal_system	—

resolution	2.000 Å
resolution_low	27.010 Å
r_factor	0.1756
r_work	0.1739
r_free	0.2052

fit	/app/data/saxs_computation/0z/10zg/10zg.fit
pddf	/app/data/pr_computation/0z/10zg/10zg.pr.out
profile	/app/data/saxs_computation/0z/10zg/10zg.dat

Novobiocin Glycosyltransferase (Ngt-1)

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