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1dv4

PARTIAL STRUCTURE OF 16S RNA OF THE SMALL RIBOSOMAL SUBUNIT FROM THERMUS THERMOPHILUS

Method: X-RAY DIFFRACTION D_max: 204.9 Å Quality: GOOD

SAXS Profile

P(r) Distribution

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1. Structure Basics

entry_id	1dv4
deposition_date	2000-01-19
title	PARTIAL STRUCTURE OF 16S RNA OF THE SMALL RIBOSOMAL SUBUNIT FROM THERMUS THERMOPHILUS
keywords	RIBOSOMES, 30S, THERMUS THERMOPHILUS, 16S RNA, RIBOSOME; RIBOSOME
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	60.46 Å
rg_electron	62.95 Å
i0	251004000.00
molecular_weight	93588.0 kDa
excluded_volume	100720 Å³
envelope_volume	339130 Å³
shell_volume	50982 Å³
envelope_diameter	213.7 Å
shell_rg	52.74 Å
envelope_rg	59.41 Å
shape_rg	63.93 Å
total_rg	61.20 Å
total_atoms	3676
n_residues	362
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	204.9 Å
rg_real	61.01 Å
rg_real_error	2.38 Å
i0_real	2.5100e+08
i0_real_error	5.5520e+06
rg_reciprocal	59.98 Å
i0_reciprocal	250600000.0000
total_estimate	0.8044
solution_quality	GOOD a GOOD solution
n_peaks	1
r_peak_primary	70.9 Å
skewness	0.508
kurtosis	-0.137
angular_range	— – 0.1300 Å⁻¹
current_alpha	0.0000
highest_alpha	16600000.0000
n_real_points	27
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.706; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 1.000; Smooth: 0.335

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4. Crystallography & Experiment

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5. Entities & Polymer Info (4)

Entity 1 polymer

description	16S RIBOSOMAL RNA
formula_weight	70941.2 kDa
src_method	nat
entity_count	1

Polymer

type	polyribonucleotide
strand_id	A
atom_count	3956

NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN

Entity 2 polymer

description	RIBOSOMAL PROTEIN S5
formula_weight	15240.7 kDa
src_method	nat
entity_count	1

Polymer

type	polypeptide(L)
strand_id	E

INPNKLELEERVVAVNRVAKVVKGGRRLRFSALVVVGDKNGHVGFGTGKAQEVPEAIRKAIEDAKKNLIEVPIVGTTIPHEVIGHFGAGEIILKPASEGTGVIAGGPARAVLELAGISDILSKSIGSNTPINMVRATFDGLKQLK

Entity 3 polymer

description	RIBOSOMAL PROTEIN S7
formula_weight	15342.8 kDa
src_method	nat
entity_count	1

Polymer

type	polypeptide(L)
strand_id	G

LQPDLVYGDVLVTAFINKIMRDGKKNLAARIFYDACKIIQEKTGQEPLKVFKQAVENVKPRMEVRSRRVGGANYQVPMEVSPRRQQSLALRWLVQAANQRPERRAAVRIAHELMDAAEGKGGAVKKKEDVERMAE

Entity 4 non-polymer

description	OCTADECATUNGSTENYL DIPHOSPHATE
formula_weight	4363.0 kDa
src_method	syn
entity_count	1

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6. Citations (4)

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length_a	407.100 Å
length_b	407.100 Å
length_c	176.008 Å
angle_alpha	90.00 °
angle_beta	90.00 °
angle_gamma	90.00 °
z_pdb	8

space_group	P 41 21 2
int_tables_number	92
crystal_system	—

resolution	4.500 Å
resolution_low	30.000 Å
r_factor	—
r_work	—
r_free	—

fit	/app/data/saxs_computation/dv/1dv4/1dv4.fit
pddf	/app/data/pr_computation/dv/1dv4/1dv4.pr.out
profile	/app/data/saxs_computation/dv/1dv4/1dv4.dat

PARTIAL STRUCTURE OF 16S RNA OF THE SMALL RIBOSOMAL SUBUNIT FROM THERMUS THERMOPHILUS

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

5. Entities & Polymer Info (4)

Entity 1 polymer

Polymer

Entity 2 polymer

Polymer

Entity 3 polymer

Polymer

Entity 4 non-polymer

6. Citations (4)

7. Files & Curves (10)

Files (7)

Curves (3)