← Back to search

9ubl

The structure of type III CRISPR-associated deaminase in complex cA6 and ATP, state 3

Method: ELECTRON MICROSCOPY D_max: 157.4 Å Quality: REASONABLE

SAXS Profile

P(r) Distribution

▼

1. Structure Basics

entry_id	9ubl
deposition_date	2025-04-03
title	The structure of type III CRISPR-associated deaminase in complex cA6 and ATP, state 3
keywords	deaminase, complex, ATP, HYDROLASE/RNA, HYDROLASE-RNA complex; HYDROLASE/RNA
method	ELECTRON MICROSCOPY

▼

Download Data

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

▼

2. SAXS Parameters (CRYSOL)

rg_guinier	48.08 Å
rg_electron	48.15 Å
i0	1307270000.00
molecular_weight	293720.0 kDa
excluded_volume	365080 Å³
envelope_volume	490030 Å³
shell_volume	85069 Å³
envelope_diameter	170.2 Å
shell_rg	51.95 Å
envelope_rg	48.53 Å
shape_rg	48.16 Å
total_rg	48.28 Å
total_atoms	20725
n_residues	2612
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	157.4 Å
rg_real	48.32 Å
rg_real_error	1.56 Å
i0_real	1.3070e+09
i0_real_error	2.4740e+07
rg_reciprocal	48.08 Å
i0_reciprocal	1307000000.0000
total_estimate	0.5981
solution_quality	REASONABLE a REASONABLE solution
n_peaks	1
r_peak_primary	57.2 Å
skewness	0.556
kurtosis	0.097
angular_range	— – 0.1650 Å⁻¹
current_alpha	0.0000
highest_alpha	101800000.0000
n_real_points	34
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.801; Stabil: 1.000; Sysdev: 0.044; Positv: 1.000; Valcen: 0.999; Smooth: 0.238

▶

4. Crystallography & Experiment

▶

5. Entities & Polymer Info (5)

Entity 1 polymer

description	adenosine deaminase
formula_weight	70328.0 kDa
ec_number	3.5.4.4
src_method	man
entity_count	6

Polymer

type	polypeptide(L)
strand_id	A,B,C,D,E,F
atom_count	20725

MRILLCSVGTSWAVVPEAMQLLGSQGFDEVHVLTTASSKISPGVEQLLRYFEMHPGPRFSISRVQDFEDLRSEQDHMLFEEVLWRWLLQRAPQAAHRYICLAGGYKTISAAMQRAAALFGACEVFHVLCEPRFGPQGNREASTLEEVEQAIATNALRFVRLGPEPGWPQLRLLSAPSFPLESTLQGPVHWVRASDMRLRQHVEGVLERSRHILAAWEGISELPIPALAAWPPSHLRWLHEPLDPVQDKAWVQALPKVELHCHLGGFATHGELLHKVRQEAANPESLPPVRAIPLPPGWPIPEEPIGLERYMRLGDNNGSALLKDPGCLRAQCRLLYEALLADHVAYAEIRCSPANYASASRSPWVVLQEIRNHFQQAMEETPEDRRCHVNLLLTATREEGGDRSRIARHLALAITAAEHWKNGCRVVGVDLAGFEDRTTRAAMFATDFEPVHRVGLAVTVHAGENDDVEGIWQAVFKLSARRLGHALHLSRSPDLLRVVAERGIAVELCPYANLQIKGFPLDEEQEGSETYPLRGYLAAGVAVTLNTDNLGISQASLTDNLLLTARLCPGITRLEVLKTQVFAAQAAFANQAERKALWARLAQVPVPTDTEQKNGNDAKASHQPRHHHHHH

Source

organism	Thermoanaerobaculum aquaticum
ncbi_taxonomy_id	1312852
host_organism	Escherichia coli BL21(DE3)

Entity 2 polymer

description	;RNA (5'-R(PAPAPAPAPAPA)-3') ;
formula_weight	1930.3 kDa
src_method	syn
entity_count	1

Polymer

type	polyribonucleotide
strand_id	J

AAAAAA

Entity 3 non-polymer

description	ADENOSINE-5'-TRIPHOSPHATE
formula_weight	507.2 kDa
src_method	syn
entity_count	6

Entity 4 non-polymer

description	MAGNESIUM ION
formula_weight	24.3 kDa
src_method	syn
entity_count	6

Entity 5 non-polymer

description	ZINC ION
formula_weight	65.4 kDa
src_method	syn
entity_count	6

▶

6. Citations (1)

▶

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	—

space_group	P 1
int_tables_number	1
crystal_system	—

resolution	2.77 Å
resolution_method	—
num_particles	105113

fit	/app/data/saxs_computation/ub/9ubl/9ubl.fit
pddf	/app/data/pr_computation/ub/9ubl/9ubl.pr.out
profile	/app/data/saxs_computation/ub/9ubl/9ubl.dat

The structure of type III CRISPR-associated deaminase in complex cA6 and ATP, state 3

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

EM 3D

5. Entities & Polymer Info (5)

Entity 1 polymer

Polymer

Source

Entity 2 polymer

Polymer

Entity 3 non-polymer

Entity 4 non-polymer

Entity 5 non-polymer

6. Citations (1)

7. Files & Curves (10)

Files (7)

Curves (3)