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1ebu

HOMOSERINE DEHYDROGENASE COMPLEX WITH NAD ANALOGUE AND L-HOMOSERINE

Method: X-RAY DIFFRACTION D_max: 139.8 Å Quality: GOOD

SAXS Profile

P(r) Distribution

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1. Structure Basics

entry_id	1ebu
deposition_date	2000-01-24
title	HOMOSERINE DEHYDROGENASE COMPLEX WITH NAD ANALOGUE AND L-HOMOSERINE
keywords	homoserine, dehydrogenase, dinucleotide, ternary, analogue, OXIDOREDUCTASE; OXIDOREDUCTASE
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	44.40 Å
rg_electron	44.46 Å
i0	317682000.00
molecular_weight	154340.0 kDa
excluded_volume	196560 Å³
envelope_volume	266620 Å³
shell_volume	50886 Å³
envelope_diameter	142.1 Å
shell_rg	47.96 Å
envelope_rg	43.50 Å
shape_rg	44.43 Å
total_rg	44.72 Å
total_atoms	10895
n_residues	1432
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	139.8 Å
rg_real	44.59 Å
rg_real_error	1.17 Å
i0_real	3.1770e+08
i0_real_error	5.6730e+06
rg_reciprocal	44.40 Å
i0_reciprocal	317600000.0000
total_estimate	0.8272
solution_quality	GOOD a GOOD solution
n_peaks	2
r_peak_primary	38.8 Å
skewness	0.304
kurtosis	-0.829
angular_range	— – 0.1800 Å⁻¹
current_alpha	0.0000
highest_alpha	38860000.0000
n_real_points	37
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.848; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.891; Smooth: 0.316

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4. Crystallography & Experiment

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5. Entities & Polymer Info (5)

Entity 1 polymer

description	HOMOSERINE DEHYDROGENASE
formula_weight	38413.8 kDa
ec_number	1.1.1.3
src_method	man
entity_count	4

Polymer

type	polypeptide(L)
strand_id	A,B,C,D
atom_count	11246

STKVVNVAVIGAGVVGSAFLDQLLAMKSTITYNLVLLAEAERSLISKDFSPLNVGSDWKAALAASTTKTLPLDDLIAHLKTSPKPVILVDNTSSAYIAGFYTKFVENGISIATPNKKAFSSDLATWKALFSNKPTNGFVYHEATVGAGLPIISFLREIIQTGDEVEKIEGIFSGTLSYIFNEFSTSQANDVKFSDVVKVAKKLGYTEPDPRDDLNGLDVARKVTIVGRISGVEVESPTSFPVQSLIPKPLESVKSADEFLEKLSDYDKDLTQLKKEAATENKVLRFIGKVDVATKSVSVGIEKYDYSHPFASLKGSDNVISIKTKRYTNPVVIQGAGAGAAVTAAGVLGDVIKIAQRL

Source

organism	Saccharomyces cerevisiae
common_name	;baker's yeast ;
ncbi_taxonomy_id	4932
host_organism	Escherichia coli

Entity 2 non-polymer

description	SODIUM ION
formula_weight	23.0 kDa
src_method	syn
entity_count	4

Entity 3 non-polymer

description	3-AMINOMETHYL-PYRIDINIUM-ADENINE-DINUCLEOTIDE
formula_weight	649.4 kDa
src_method	syn
entity_count	1

Entity 4 non-polymer

description	L-HOMOSERINE
formula_weight	119.1 kDa
src_method	syn
entity_count	1

Entity 5 water

description	water
formula_weight	18.0 kDa
src_method	nat
entity_count	351

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6. Citations (2)

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length_a	58.780 Å
length_b	104.090 Å
length_c	120.640 Å
angle_alpha	90.00 °
angle_beta	91.93 °
angle_gamma	90.00 °
z_pdb	8

space_group	P 1 21 1
int_tables_number	4
crystal_system	—

resolution	2.600 Å
resolution_low	39.400 Å
r_factor	0.2150
r_work	0.2150
r_free	0.2830

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