← Back to search

1dje

CRYSTAL STRUCTURE OF THE PLP-BOUND FORM OF 8-AMINO-7-OXONANOATE SYNTHASE

Method: X-RAY DIFFRACTION D_max: 68.4 Å Quality: EXCELLENT

SAXS Profile

P(r) Distribution

▼

1. Structure Basics

entry_id	1dje
deposition_date	1999-12-02
title	CRYSTAL STRUCTURE OF THE PLP-BOUND FORM OF 8-AMINO-7-OXONANOATE SYNTHASE
keywords	BIOTIN BIOSYNTHESIS, 8-AMINO-7-OXONANOATE SYNTHASE, 8-AMINO-7-KETOPELARGONATE SYNTHASE, 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	21.64 Å
i0	32208700.00
molecular_weight	41878.0 kDa
excluded_volume	51780 Å³
envelope_volume	63799 Å³
shell_volume	24416 Å³
envelope_diameter	68.7 Å
shell_rg	28.50 Å
envelope_rg	21.62 Å
shape_rg	21.65 Å
total_rg	22.45 Å
total_atoms	2942
n_residues	383
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	68.4 Å
rg_real	22.66 Å
rg_real_error	0.35 Å
i0_real	3.2210e+07
i0_real_error	4.2750e+05
rg_reciprocal	22.70 Å
i0_reciprocal	32210000.0000
total_estimate	0.9118
solution_quality	EXCELLENT a EXCELLENT solution
n_peaks	2
r_peak_primary	28.0 Å
skewness	0.082
kurtosis	-0.618
angular_range	— – 0.3500 Å⁻¹
current_alpha	0.0000
highest_alpha	5365000.0000
n_real_points	67
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.963; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.990; Smooth: 0.969

▶

4. Crystallography & Experiment

▶

5. Entities & Polymer Info (4)

Entity 1 polymer

description	8-AMINO-7-OXONANOATE SYNTHASE
formula_weight	41539.1 kDa
ec_number	2.3.1.47
src_method	nat
entity_count	1

Polymer

type	polypeptide(L)
strand_id	A
atom_count	3400

MSWQEKINAALDARGAADALRRRYPVAQGAGRWLVADDRQYLNFSSNDYLGLSHHPQIIRAWQQGAEQFGIGSGGSGHVSGYSVVHQALEEELAEWLGYSRALLFISGFAANQAVIAAMMAKEDRIAADRLSHASLLEAASLSPSQLRRFAHNDVTHLARLLASPCPGQQMVVTEGVFSMDGDSAPLAEIQQVTQQHNGWLMVDDAHGTGVIGEQGRGSCWLQKVKPELLVVTFGKGFGVSGAAVLCSSTVADYLLQFARHLIYSTSMPPAQAQALRASLAVIRSDEGDARREKLAALITRFRAGVQDLPFTLADSCSAIQPLIVGDNSRALQLAEKLRQQGCWVTGIRPPTVPAGIARLRLTLTAAHEMQDIDRLLEVLHGNG

Entity 2 non-polymer

description	SULFATE ION
formula_weight	96.1 kDa
src_method	syn
entity_count	3

Entity 3 non-polymer

description	PYRIDOXAL-5'-PHOSPHATE
formula_weight	247.1 kDa
src_method	syn
entity_count	1

Entity 4 water

description	water
formula_weight	18.0 kDa
src_method	nat
entity_count	458

▶

6. Citations (2)

▶

length_a	58.870 Å
length_b	58.870 Å
length_c	200.800 Å
angle_alpha	90.00 °
angle_beta	90.00 °
angle_gamma	120.00 °
z_pdb	6

space_group	P 31 1 2
int_tables_number	151
crystal_system	—

resolution	1.710 Å
resolution_low	10.000 Å
r_factor	0.1860
r_work	0.1860
r_free	0.2450

fit	/app/data/saxs_computation/dj/1dje/1dje.fit
pddf	/app/data/pr_computation/dj/1dje/1dje.pr.out
profile	/app/data/saxs_computation/dj/1dje/1dje.dat

CRYSTAL STRUCTURE OF THE PLP-BOUND FORM OF 8-AMINO-7-OXONANOATE SYNTHASE

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