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1e1t

LYSYL-TRNA SYNTHETASE (LYSU) HEXAGONAL FORM COMPLEXED WITH THE LYSYL_ADENYLATE INTERMEDIATE

Method: X-RAY DIFFRACTION D_max: 92.2 Å Quality: GOOD

SAXS Profile

P(r) Distribution

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1. Structure Basics

entry_id	1e1t
deposition_date	2000-05-10
title	LYSYL-TRNA SYNTHETASE (LYSU) HEXAGONAL FORM COMPLEXED WITH THE LYSYL_ADENYLATE INTERMEDIATE
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	29.01 Å
rg_electron	28.45 Å
i0	52300300.00
molecular_weight	55735.0 kDa
excluded_volume	69390 Å³
envelope_volume	86768 Å³
shell_volume	26938 Å³
envelope_diameter	95.8 Å
shell_rg	34.03 Å
envelope_rg	28.52 Å
shape_rg	28.48 Å
total_rg	28.92 Å
total_atoms	3919
n_residues	485
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	92.2 Å
rg_real	29.19 Å
rg_real_error	0.79 Å
i0_real	5.2300e+07
i0_real_error	7.9760e+05
rg_reciprocal	29.12 Å
i0_reciprocal	52300000.0000
total_estimate	0.8542
solution_quality	GOOD a GOOD solution
n_peaks	2
r_peak_primary	25.1 Å
skewness	0.443
kurtosis	-0.598
angular_range	— – 0.2750 Å⁻¹
current_alpha	0.0000
highest_alpha	10800000.0000
n_real_points	56
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.837; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.798; Smooth: 0.793

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4. Crystallography & Experiment

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5. Entities & Polymer Info (6)

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	4256

SEQETRGANEAIDFNDELRNRREKLAALRQQGVAFPNDFRRDHTSDQLHEEFDAKDNQELESLNIEVSVAGRMMTRRIMGKASFVTLQDVGGRIQLYVARDSLPEGVYNDQFKKWDLGDIIGARGTLFKTQTGELSIHCTELRLLTKALRPLPDKFHGLQDQEVRYRQRYLDLIANDKSRQTFVVRSKILAAIRQFMVARGFMEVETPMMQVIPGGASARPFITHHNALDLDMYLRIAPELYLKRLVVGGFERVFEINRNFRNEGISVRHNPEFTMMELYMAYADYHDLIELTESLFRTLAQEVLGTTKVTYGEHVFDFGKPFEKLTMREAIKKYRPETDMADLDNFDAAKALAESIGITVEKSWGLGRIVTEIFDEVAEAHLIQPTFITEYPAEVSPLARRNDVNPEITDRFEFFIGGREIGNGFSELNDAEDQAERFQEQVNAKAAGDDEAMFYDEDYVTALEYGLPPTAGLGIGIDRMIMLFTNSHTIRDVILFPAMRPQK

Source

organism	ESCHERICHIA COLI
ncbi_taxonomy_id	83333
host_organism	ESCHERICHIA COLI

Entity 2 non-polymer

description	ADENOSINE-5'-[LYSYL-PHOSPHATE]
formula_weight	475.4 kDa
src_method	syn
entity_count	1

Entity 3 non-polymer

description	PYROPHOSPHATE 2-
formula_weight	176.0 kDa
src_method	syn
entity_count	1

Entity 4 non-polymer

description	MAGNESIUM ION
formula_weight	24.3 kDa
src_method	syn
entity_count	2

Entity 5 non-polymer

description	GLYCEROL
formula_weight	92.1 kDa
src_method	syn
entity_count	7

Entity 6 water

description	water
formula_weight	18.0 kDa
src_method	nat
entity_count	337

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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	2.400 Å
resolution_low	15.000 Å
r_factor	0.1860
r_work	0.1860
r_free	0.2670

fit	/app/data/saxs_computation/e1/1e1t/1e1t.fit
pddf	/app/data/pr_computation/e1/1e1t/1e1t.pr.out
profile	/app/data/saxs_computation/e1/1e1t/1e1t.dat