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1byj

GENTAMICIN C1A A-SITE COMPLEX

Method: SOLUTION NMR D_max: 43.7 Å Quality: GOOD

SAXS Profile

P(r) Distribution

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1. Structure Basics

entry_id	1byj
deposition_date	1998-10-16
title	GENTAMICIN C1A A-SITE COMPLEX
keywords	COMPLEX (AMINOGLYCOSIDE-RIBOSOMAL RNA), RNA; RNA
method	SOLUTION NMR

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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	14.08 Å
rg_electron	14.03 Å
i0	4953890000.00
molecular_weight	348910.0 kDa
excluded_volume	332630 Å³
envelope_volume	16347 Å³
shell_volume	10308 Å³
envelope_diameter	50.3 Å
shell_rg	19.09 Å
envelope_rg	14.75 Å
shape_rg	13.91 Å
total_rg	14.24 Å
total_atoms	35606
n_residues	1026
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	43.7 Å
rg_real	14.14 Å
rg_real_error	0.30 Å
i0_real	4.9540e+09
i0_real_error	5.5190e+07
rg_reciprocal	14.14 Å
i0_reciprocal	4954000000.0000
total_estimate	0.8954
solution_quality	GOOD a GOOD solution
n_peaks	2
r_peak_primary	16.0 Å
skewness	0.415
kurtosis	-0.299
angular_range	— – 0.5000 Å⁻¹
current_alpha	0.0000
highest_alpha	126000.0000
n_real_points	80
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.897; Stabil: 0.999; Sysdev: 1.000; Positv: 1.000; Valcen: 0.971; Smooth: 0.976

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4. Crystallography & Experiment

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5. Entities & Polymer Info (4)

Entity 1 polymer

description	RNA (16S RNA)
formula_weight	8656.2 kDa
src_method	syn
entity_count	1

Polymer

type	polyribonucleotide
strand_id	A
atom_count	35606

GGCGUCACACCUUCGGGUGAAGUCGCC

Entity 2 non-polymer

description	2,6-diamino-2,3,4,6-tetradeoxy-alpha-D-erythro-hexopyranose
formula_weight	146.2 kDa
src_method	man
entity_count	1

Entity 3 non-polymer

description	3,5-DIAMINO-CYCLOHEXANOL
formula_weight	130.2 kDa
src_method	syn
entity_count	1

Entity 4 non-polymer

description	3-deoxy-4-C-methyl-3-(methylamino)-beta-L-arabinopyranose
formula_weight	177.2 kDa
src_method	syn
entity_count	1

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6. Citations (1)

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length_a	1.000 Å
length_b	1.000 Å
length_c	1.000 Å
angle_alpha	90.00 °
angle_beta	90.00 °
angle_gamma	90.00 °
z_pdb	1

space_group	P 1
int_tables_number	1
crystal_system	—

fit	/app/data/saxs_computation/by/1byj/1byj.fit
pddf	/app/data/pr_computation/by/1byj/1byj.pr.out
profile	/app/data/saxs_computation/by/1byj/1byj.dat

GENTAMICIN C1A A-SITE COMPLEX

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

5. Entities & Polymer Info (4)

Entity 1 polymer

Polymer

Entity 2 non-polymer

Entity 3 non-polymer

Entity 4 non-polymer

6. Citations (1)

7. Files & Curves (10)

Files (7)

Curves (3)