← Back to search

1d0m

THE ESCHERICHIA COLI LYTIC TRANSGLYCOSYLASE SLT35 IN COMPLEX WITH BULGECIN A AND (GLCNAC)2

Method: X-RAY DIFFRACTION D_max: 82.1 Å Quality: GOOD

SAXS Profile

P(r) Distribution

▼

1. Structure Basics

entry_id	1d0m
deposition_date	1999-09-12
title	THE ESCHERICHIA COLI LYTIC TRANSGLYCOSYLASE SLT35 IN COMPLEX WITH BULGECIN A AND (GLCNAC)2
keywords	ALPHA-HELICAL PROTEIN WITH A FIVE STRANDED ANTI-PARALLEL BETA-SHEET, GLYCOSYL TRANSFERASE, EF-HAND, TRANSFERASE; TRANSFERASE
method	X-RAY DIFFRACTION

▼

Download Data

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

▼

2. SAXS Parameters (CRYSOL)

rg_guinier	22.80 Å
rg_electron	21.87 Å
i0	22797000.00
molecular_weight	36037.0 kDa
excluded_volume	44851 Å³
envelope_volume	53044 Å³
shell_volume	20980 Å³
envelope_diameter	82.2 Å
shell_rg	27.89 Å
envelope_rg	22.39 Å
shape_rg	21.86 Å
total_rg	22.67 Å
total_atoms	2541
n_residues	312
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	82.1 Å
rg_real	22.88 Å
rg_real_error	0.67 Å
i0_real	2.2800e+07
i0_real_error	2.8310e+05
rg_reciprocal	22.86 Å
i0_reciprocal	22800000.0000
total_estimate	0.8444
solution_quality	GOOD a GOOD solution
n_peaks	2
r_peak_primary	23.6 Å
skewness	0.481
kurtosis	-0.120
angular_range	— – 0.3500 Å⁻¹
current_alpha	0.0000
highest_alpha	5275000.0000
n_real_points	67
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.698; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.893; Smooth: 0.987

▶

4. Crystallography & Experiment

▶

5. Entities & Polymer Info (5)

Entity 1 polymer

description	35KD SOLUBLE LYTIC TRANSGLYCOSYLASE
formula_weight	36079.7 kDa
mutation	L40M, L41V
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	A
atom_count	2772

MVEPQHNVMQMGGDFANNPNAQQFIDKMVNKHGFDRQQLQEILSQAKRLDSVLRLMDNQAPTTSVKPPSGPNGAWLRYRKKFITPDNVQNGVVFWNQYEDALNRAWQVYGVPPEIIVGIIGVETRWGRVMGKTRILDALATLSFNYPRRAEYFSGELETFLLMARDEQDDPLNLKGSFAGAMGYGQFMPSSYKQYAVDFSGDGHINLWDPVDAIGSVANYFKAHGWVKGDQVAVMANGQAPGLPNGFKTKYSISQLAAAGLTPQQPLGNHQQASLLRLDVGTGYQYWYGLPNFYTITRYNHSTHYAMAVWQLGQAVALARVQ

Source

organism	Escherichia coli
ncbi_taxonomy_id	562
host_organism	Escherichia coli

Entity 2 branched

description	2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-alpha-D-glucopyranose
formula_weight	424.4 kDa
src_method	man
entity_count	1

Entity 3 non-polymer

description	CALCIUM ION
formula_weight	40.1 kDa
src_method	syn
entity_count	1

Entity 4 non-polymer

description	4-O-(4-O-SULFONYL-N-ACETYLGLUCOSAMININYL)-5-METHYLHYDROXY-L-PROLINE-TAURINE
formula_weight	552.6 kDa
src_method	syn
entity_count	1

Entity 5 water

description	water
formula_weight	18.0 kDa
src_method	nat
entity_count	200

▶

6. Citations (1)

▶

length_a	58.631 Å
length_b	67.751 Å
length_c	97.757 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	2.470 Å
resolution_low	20.000 Å
r_factor	0.1790
r_work	0.1740
r_free	0.2410

fit	/app/data/saxs_computation/d0/1d0m/1d0m.fit
pddf	/app/data/pr_computation/d0/1d0m/1d0m.pr.out
profile	/app/data/saxs_computation/d0/1d0m/1d0m.dat