← Back to search

1aoi

COMPLEX BETWEEN NUCLEOSOME CORE PARTICLE (H3,H4,H2A,H2B) AND 146 BP LONG DNA FRAGMENT

Method: X-RAY DIFFRACTION D_max: 137.3 Å Quality: GOOD

SAXS Profile

P(r) Distribution

▼

1. Structure Basics

entry_id	1aoi
deposition_date	1997-07-03
title	COMPLEX BETWEEN NUCLEOSOME CORE PARTICLE (H3,H4,H2A,H2B) AND 146 BP LONG DNA FRAGMENT
keywords	NUCLEOSOME, CHROMATIN, HISTONE, PROTEIN DNA INTERACTION, NUCLEOPROTEIN, SUPERCOILED DNA, DNA BINDING PROTEIN-DNA COMPLEX; DNA BINDING PROTEIN/DNA
method	X-RAY DIFFRACTION

▼

Download Data

SAXS curve (.dat) P(r) distribution (.pr.out) Structure (CIF)

▼

2. SAXS Parameters (CRYSOL)

rg_guinier	40.39 Å
rg_electron	38.07 Å
i0	863873000.00
molecular_weight	181430.0 kDa
excluded_volume	202330 Å³
envelope_volume	304170 Å³
shell_volume	64570 Å³
envelope_diameter	146.7 Å
shell_rg	45.59 Å
envelope_rg	38.32 Å
shape_rg	37.90 Å
total_rg	38.80 Å
total_atoms	12372
n_residues	1097
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

▼

3. P(r) Analysis (GNOM)

dmax	137.3 Å
rg_real	40.23 Å
rg_real_error	1.15 Å
i0_real	8.6390e+08
i0_real_error	1.4420e+07
rg_reciprocal	40.38 Å
i0_reciprocal	864000000.0000
total_estimate	0.8793
solution_quality	GOOD a GOOD solution
n_peaks	3
r_peak_primary	45.8 Å
skewness	0.142
kurtosis	-0.554
angular_range	— – 0.1950 Å⁻¹
current_alpha	0.0000
highest_alpha	84380000.0000
n_real_points	40
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.820; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.999; Smooth: 0.969

▶

4. Crystallography & Experiment

▶

5. Entities & Polymer Info (7)

Entity 1 polymer

description	PALINDROMIC 146 BP DNA REPEAT 8/9 FROM HUMAN X-CHROMOSOME ALPHA SATELLITE DNA
formula_weight	45053.9 kDa
src_method	syn
entity_count	2

Polymer

type	polydeoxyribonucleotide
strand_id	I,J
atom_count	12385

ATCAATATCCACCTGCAGATTCTACCAAAAGTGTATTTGGAAACTGCTCCATCAAAAGGCATGTTCAGCTGAATTCAGCTGAACATGCCTTTTGATGGAGCAGTTTCCAAATACACTTTTGGTAGAATCTGCAGGTGGATATTGAT

Entity 2 polymer

description	HISTONE H3
formula_weight	13244.5 kDa
src_method	man
entity_count	2

Polymer

type	polypeptide(L)
strand_id	A,E

LATKAARKSAPATGGVKKPHRYRPGTVALREIRRYQKSTELLIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVALFEDTNLCAIHAKRVTIMPKDIQLARRIRGERA

Source

organism	Xenopus laevis
common_name	African clawed frog
ncbi_taxonomy_id	8355
host_organism	Escherichia coli

Entity 3 polymer

description	HISTONE H4
formula_weight	9990.8 kDa
src_method	man
entity_count	2

Polymer

type	polypeptide(L)
strand_id	B,F

KRHRKVLRDNIQGITKPAIRRLARRGGVKRISGLIYEETRGVLKVFLENVIRDAVTYTEHAKRKTVTAMDVVYALKRQGRTLYGFGG

Source

organism	Xenopus laevis
common_name	African clawed frog
ncbi_taxonomy_id	8355
host_organism	Escherichia coli

Entity 4 polymer

description	HISTONE H2A
formula_weight	12639.8 kDa
src_method	man
entity_count	2

Polymer

type	polypeptide(L)
strand_id	C,G

GKQGGKTRAKAKTRSSRAGLQFPVGRVHRLLRKGNYAERVGAGAPVYLAAVLEYLTAEILELAGNAARDNKKTRIIPRHLQLAVRNDEELNKLLGRVTIAQGGVLPNIQSVLLPKK

Source

organism	Xenopus laevis
common_name	African clawed frog
ncbi_taxonomy_id	8355
host_organism	Escherichia coli

Entity 5 polymer

description	HISTONE H2B
formula_weight	11180.0 kDa
mutation	A7P
src_method	man
entity_count	2

Polymer

type	polypeptide(L)
strand_id	D,H

KKRRKTRKESYAIYVYKVLKQVHPDTGISSKAMSIMNSFVNDVFERIAGEASRLAHYNKRSTITSREIQTAVRLLLPGELAKHAVSEGTKAVTKYTSAK

Source

organism	Xenopus laevis
common_name	African clawed frog
ncbi_taxonomy_id	8355
host_organism	Escherichia coli

Entity 6 non-polymer

description	MANGANESE (II) ION
formula_weight	54.9 kDa
src_method	syn
entity_count	6

Entity 7 water

description	water
formula_weight	18.0 kDa
src_method	nat
entity_count	13

▶

6. Citations (1)

▶

length_a	106.040 Å
length_b	181.780 Å
length_c	110.120 Å
angle_alpha	90.00 °
angle_beta	90.00 °
angle_gamma	90.00 °
z_pdb	8

space_group	P 21 21 21
int_tables_number	19
crystal_system	—

resolution	2.800 Å
resolution_low	25.000 Å
r_factor	—
r_work	0.2240
r_free	0.3020

fit	/app/data/saxs_computation/ao/1aoi/1aoi.fit
pddf	/app/data/pr_computation/ao/1aoi/1aoi.pr.out
profile	/app/data/saxs_computation/ao/1aoi/1aoi.dat

COMPLEX BETWEEN NUCLEOSOME CORE PARTICLE (H3,H4,H2A,H2B) AND 146 BP LONG DNA FRAGMENT

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

5. Entities & Polymer Info (7)

Entity 1 polymer

Polymer

Entity 2 polymer

Polymer

Source

Entity 3 polymer

Polymer

Source

Entity 4 polymer

Polymer

Source

Entity 5 polymer

Polymer

Source

Entity 6 non-polymer

Entity 7 water

6. Citations (1)

7. Files & Curves (10)

Files (7)

Curves (3)