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1evk

CRYSTAL STRUCTURE OF A TRUNCATED FORM OF THREONYL-TRNA SYNTHETASE WITH THE LIGAND THREONINE

Method: X-RAY DIFFRACTION D_max: 86.8 Å Quality: EXCELLENT

SAXS Profile

P(r) Distribution

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1. Structure Basics

entry_id	1evk
deposition_date	2000-04-20
title	CRYSTAL STRUCTURE OF A TRUNCATED FORM OF THREONYL-TRNA SYNTHETASE WITH THE LIGAND THREONINE
keywords	tRNA-synthetase, threonine, zinc ion, deletion mutant, LIGASE; LIGASE
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	28.70 Å
rg_electron	27.55 Å
i0	144878000.00
molecular_weight	93412.0 kDa
excluded_volume	116130 Å³
envelope_volume	140800 Å³
shell_volume	40981 Å³
envelope_diameter	89.0 Å
shell_rg	36.20 Å
envelope_rg	27.59 Å
shape_rg	27.54 Å
total_rg	28.37 Å
total_atoms	6556
n_residues	802
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	86.8 Å
rg_real	28.53 Å
rg_real_error	0.45 Å
i0_real	1.4490e+08
i0_real_error	1.7410e+06
rg_reciprocal	28.60 Å
i0_reciprocal	144900000.0000
total_estimate	0.9049
solution_quality	EXCELLENT a EXCELLENT solution
n_peaks	2
r_peak_primary	37.9 Å
skewness	0.105
kurtosis	-0.517
angular_range	— – 0.2750 Å⁻¹
current_alpha	0.0000
highest_alpha	46240000.0000
n_real_points	56
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.942; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.985; Smooth: 0.949

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4. Crystallography & Experiment

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5. Entities & Polymer Info (4)

Entity 1 polymer

description	THREONYL-TRNA SYNTHETASE
formula_weight	46725.2 kDa
ec_number	6.1.1.3
src_method	man
entity_count	2

Polymer

type	polypeptide(L)
strand_id	A,B
atom_count	7034

RDHRKIGKQLDLYHMQEEAPGMVFWHNDGWTIFRELEVFVRSKLKEYQYQEVKGPFMMDRVLWEKTGHWDNYKDAMFTTSSENREYCIKPMNCPGHVQIFNQGLKSYRDLPLRMAEFGSCHRNEPSGSLHGLMRVRGFTQDDAHIFCTEEQIRDEVNGCIRLVYDMYSTFGFEKIVVKLSTRPEKRIGSDEMWDRAEADLAVALEENNIPFEYQLGEGAFYGPKIEFTLYDCLDRAWQCGTVQLDFSLPSRLSASYVGEDNERKVPVMIHRAILGSMERFIGILTEEFAGFFPTWLAPVQVVIMNITDSQSEYVNELTQKLSNAGIRVKADLRNEKIGFKIREHTLRRVPYMLVCGDKEVESGKVAVRTRRGKDLGSMDVNEVIEKLQQEIRSRSLKQLEE

Source

organism	Escherichia coli
ncbi_taxonomy_id	562
host_organism	Escherichia coli

Entity 2 non-polymer

description	ZINC ION
formula_weight	65.4 kDa
src_method	syn
entity_count	2

Entity 3 non-polymer

description	THREONINE
formula_weight	119.1 kDa
src_method	syn
entity_count	1

Entity 4 water

description	water
formula_weight	18.0 kDa
src_method	nat
entity_count	478

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6. Citations (2)

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length_a	107.050 Å
length_b	117.340 Å
length_c	87.080 Å
angle_alpha	90.00 °
angle_beta	90.00 °
angle_gamma	90.00 °
z_pdb	8

space_group	P 21 21 2
int_tables_number	18
crystal_system	—

resolution	2.000 Å
resolution_low	12.000 Å
r_factor	0.2138
r_work	0.2120
r_free	0.2410

fit	/app/data/saxs_computation/ev/1evk/1evk.fit
pddf	/app/data/pr_computation/ev/1evk/1evk.pr.out
profile	/app/data/saxs_computation/ev/1evk/1evk.dat

CRYSTAL STRUCTURE OF A TRUNCATED FORM OF THREONYL-TRNA SYNTHETASE WITH THE LIGAND THREONINE

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