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1ebf

HOMOSERINE DEHYDROGENASE FROM S. CEREVISIAE COMPLEX WITH NAD+

Method: X-RAY DIFFRACTION D_max: 88.3 Å Quality: GOOD

SAXS Profile

P(r) Distribution

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1. Structure Basics

entry_id	1ebf
deposition_date	2000-01-24
title	HOMOSERINE DEHYDROGENASE FROM S. CEREVISIAE COMPLEX WITH NAD+
keywords	dehydrogenase, dinucleotide, homoserine, NAD, dimer, 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	28.03 Å
rg_electron	27.01 Å
i0	89186400.00
molecular_weight	77451.0 kDa
excluded_volume	98528 Å³
envelope_volume	118790 Å³
shell_volume	36105 Å³
envelope_diameter	92.3 Å
shell_rg	34.94 Å
envelope_rg	27.25 Å
shape_rg	26.98 Å
total_rg	27.92 Å
total_atoms	5466
n_residues	716
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	88.3 Å
rg_real	27.91 Å
rg_real_error	0.53 Å
i0_real	8.9190e+07
i0_real_error	1.3110e+06
rg_reciprocal	27.95 Å
i0_reciprocal	89190000.0000
total_estimate	0.8994
solution_quality	GOOD a GOOD solution
n_peaks	2
r_peak_primary	34.1 Å
skewness	0.238
kurtosis	-0.396
angular_range	— – 0.2850 Å⁻¹
current_alpha	0.0000
highest_alpha	23500000.0000
n_real_points	58
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.917; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.996; Smooth: 0.940

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4. Crystallography & Experiment

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5. Entities & Polymer Info (4)

Entity 1 polymer

description	HOMOSERINE DEHYDROGENASE
formula_weight	38413.8 kDa
ec_number	1.1.1.3
src_method	man
entity_count	2

Polymer

type	polypeptide(L)
strand_id	A,B
atom_count	5719

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	2

Entity 3 non-polymer

description	NICOTINAMIDE-ADENINE-DINUCLEOTIDE
formula_weight	663.4 kDa
src_method	syn
entity_count	1

Entity 4 water

description	water
formula_weight	18.0 kDa
src_method	nat
entity_count	253

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6. Citations (2)

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length_a	80.396 Å
length_b	80.396 Å
length_c	250.165 Å
angle_alpha	90.00 °
angle_beta	90.00 °
angle_gamma	90.00 °
z_pdb	16

space_group	P 43 21 2
int_tables_number	96
crystal_system	—

resolution	2.300 Å
resolution_low	35.960 Å
r_factor	0.2180
r_work	0.2180
r_free	0.2690

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

HOMOSERINE DEHYDROGENASE FROM S. CEREVISIAE COMPLEX WITH NAD+

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