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1e1o

lysyl-tRNA Synthetase (LYSU) hexagonal form, complexed with lysine

Method: X-RAY DIFFRACTION D_max: 97.1 Å Quality: GOOD

SAXS Profile

P(r) Distribution

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1. Structure Basics

entry_id	1e1o
deposition_date	2000-05-09
title	lysyl-tRNA Synthetase (LYSU) hexagonal form, complexed with lysine
keywords	LIGASE, AMINOACYL-TRNA SYNTHETASE, PROTEIN BIOSYNTHESIS; 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	29.50 Å
rg_electron	28.80 Å
i0	50310900.00
molecular_weight	54996.0 kDa
excluded_volume	68654 Å³
envelope_volume	88136 Å³
shell_volume	27138 Å³
envelope_diameter	99.5 Å
shell_rg	34.22 Å
envelope_rg	28.72 Å
shape_rg	28.81 Å
total_rg	29.30 Å
total_atoms	3873
n_residues	484
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	97.1 Å
rg_real	29.68 Å
rg_real_error	0.66 Å
i0_real	5.0310e+07
i0_real_error	7.9760e+05
rg_reciprocal	29.60 Å
i0_reciprocal	50310000.0000
total_estimate	0.8614
solution_quality	GOOD a GOOD solution
n_peaks	2
r_peak_primary	27.0 Å
skewness	0.432
kurtosis	-0.603
angular_range	— – 0.2700 Å⁻¹
current_alpha	0.0000
highest_alpha	8731000.0000
n_real_points	55
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.796; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.855; Smooth: 0.950

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4. Crystallography & Experiment

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5. Entities & Polymer Info (4)

Entity 1 polymer

description	LYSYL-TRNA SYNTHETASE, HEAT INDUCIBLE
formula_weight	57767.2 kDa
ec_number	6.1.1.6
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	A
atom_count	4234

SEQETRGANEAIDFNDELRNRREKLAALRQQGVAFPNDFRRDHTSDQLHEEFDAKDNQELESLNIEVSVAGRMMTRRIMGKASFVTLQDVGGRIQLYVARDSLPEGVYNDQFKKWDLGDIIGARGTLFKTQTGELSIHCTELRLLTKALRPLPDKFHGLQDQEVRYRQRYLDLIANDKSRQTFVVRSKILAAIRQFMVARGFMEVETPMMQVIPGGASARPFITHHNALDLDMYLRIAPELYLKRLVVGGFERVFEINRNFRNEGISVRHNPEFTMMELYMAYADYHDLIELTESLFRTLAQEVLGTTKVTYGEHVFDFGKPFEKLTMREAIKKYRPETDMADLDNFDAAKALAESIGITVEKSWGLGRIVTEIFDEVAEAHLIQPTFITEYPAEVSPLARRNDVNPEITDRFEFFIGGREIGNGFSELNDAEDQAERFQEQVNAKAAGDDEAMFYDEDYVTALEYGLPPTAGLGIGIDRMIMLFTNSHTIRDVILFPAMRPQK

Source

organism	ESCHERICHIA COLI
ncbi_taxonomy_id	83333
host_organism	ESCHERICHIA COLI

Entity 2 non-polymer

description	LYSINE
formula_weight	147.2 kDa
src_method	syn
entity_count	1

Entity 3 non-polymer

description	GLYCEROL
formula_weight	92.1 kDa
src_method	syn
entity_count	8

Entity 4 water

description	water
formula_weight	18.0 kDa
src_method	nat
entity_count	361

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6. Citations (1)

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length_a	143.100 Å
length_b	143.100 Å
length_c	176.100 Å
angle_alpha	90.00 °
angle_beta	90.00 °
angle_gamma	120.00 °
z_pdb	12

space_group	P 61 2 2
int_tables_number	178
crystal_system	—

resolution	2.120 Å
resolution_low	20.000 Å
r_factor	0.1950
r_work	0.1950
r_free	0.2330

fit	/app/data/saxs_computation/e1/1e1o/1e1o.fit
pddf	/app/data/pr_computation/e1/1e1o/1e1o.pr.out
profile	/app/data/saxs_computation/e1/1e1o/1e1o.dat

lysyl-tRNA Synthetase (LYSU) hexagonal form, complexed with lysine

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