← Back to search

1eb3

YEAST 5-AMINOLAEVULINIC ACID DEHYDRATASE 4,7-DIOXOSEBACIC ACID COMPLEX

Method: X-RAY DIFFRACTION D_max: 89.8 Å Quality: REASONABLE

SAXS Profile

P(r) Distribution

▼

1. Structure Basics

entry_id	1eb3
deposition_date	2001-07-18
title	YEAST 5-AMINOLAEVULINIC ACID DEHYDRATASE 4,7-DIOXOSEBACIC ACID COMPLEX
keywords	DEHYDRATASE, ALDOLASE, TIM BARREL, TETRAPYRROLE SYNTHESIS; DEHYDRATASE
method	X-RAY DIFFRACTION

▼

Download Data

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

▼

2. SAXS Parameters (CRYSOL)

rg_guinier	22.90 Å
rg_electron	22.11 Å
i0	24119100.00
molecular_weight	37738.0 kDa
excluded_volume	47326 Å³
envelope_volume	61518 Å³
shell_volume	23336 Å³
envelope_diameter	92.5 Å
shell_rg	28.33 Å
envelope_rg	25.44 Å
shape_rg	22.12 Å
total_rg	22.88 Å
total_atoms	2652
n_residues	340
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	89.8 Å
rg_real	23.22 Å
rg_real_error	0.71 Å
i0_real	2.4120e+07
i0_real_error	3.4250e+05
rg_reciprocal	23.14 Å
i0_reciprocal	24120000.0000
total_estimate	0.7413
solution_quality	REASONABLE a REASONABLE solution
n_peaks	2
r_peak_primary	26.3 Å
skewness	0.945
kurtosis	1.168
angular_range	— – 0.3450 Å⁻¹
current_alpha	0.0000
highest_alpha	6642000.0000
n_real_points	66
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.314; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.709; Smooth: 0.982

▶

4. Crystallography & Experiment

▶

5. Entities & Polymer Info (4)

Entity 1 polymer

description	5-AMINOLAEVULINIC ACID DEHYDRATASE
formula_weight	37541.9 kDa
ec_number	4.2.1.24
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	A
atom_count	3074

MHTAEFLETEPTEISSVLAGGYNHPLLRQWQSERQLTKNMLIFPLFISDNPDDFTEIDSLPNINRIGVNRLKDYLKPLVAKGLRSVILFGVPLIPGTKDPVGTAADDPAGPVIQGIKFIREYFPELYIICDVCLCEYTSHGHCGVLYDDGTINRERSVSRLAAVAVNYAKAGAHCVAPSDMIDGRIRDIKRGLINANLAHKTFVLSYAAKFSGNLYGPFRDAACSAPSNGDRKCYQLPPAGRGLARRALERDMSEGADGIIVKPSTFYLDIMRDASEICKDLPICAYHVSGEYAMLHAAAEKGVVDLKTIAFESHQGFLRAGARLIITYLAPEFLDWLDE

Source

organism	SACCHAROMYCES CEREVISIAE
common_name	;BAKER'S YEAST ;
ncbi_taxonomy_id	4932
host_organism	ESCHERICHIA COLI

Entity 2 non-polymer

description	4,7-DIOXOSEBACIC ACID
formula_weight	230.2 kDa
src_method	syn
entity_count	1

Entity 3 non-polymer

description	ZINC ION
formula_weight	65.4 kDa
src_method	syn
entity_count	1

Entity 4 water

description	water
formula_weight	18.0 kDa
src_method	nat
entity_count	402

▶

6. Citations (1)

▶

length_a	104.300 Å
length_b	104.300 Å
length_c	167.200 Å
angle_alpha	90.00 °
angle_beta	90.00 °
angle_gamma	90.00 °
z_pdb	16

space_group	I 4 2 2
int_tables_number	97
crystal_system	—

resolution	1.750 Å
resolution_low	36.300 Å
r_factor	0.2390
r_work	—
r_free	0.3080

fit	/app/data/saxs_computation/eb/1eb3/1eb3.fit
pddf	/app/data/pr_computation/eb/1eb3/1eb3.pr.out
profile	/app/data/saxs_computation/eb/1eb3/1eb3.dat

YEAST 5-AMINOLAEVULINIC ACID DEHYDRATASE 4,7-DIOXOSEBACIC ACID COMPLEX

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