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9s44

Human Histone Deacetylase SIRT2

Method: X-RAY DIFFRACTION D_max: 70.4 Å Quality: GOOD

SAXS Profile

P(r) Distribution

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1. Structure Basics

entry_id	9s44
deposition_date	2025-07-25
title	Human Histone Deacetylase SIRT2
keywords	Lysine deacetylase, NAD+-dependant enzyme, Histone modification, Epigenetics, HYDROLASE; HYDROLASE
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	21.03 Å
rg_electron	19.98 Å
i0	17151700.00
molecular_weight	31547.0 kDa
excluded_volume	39615 Å³
envelope_volume	47505 Å³
shell_volume	20269 Å³
envelope_diameter	71.5 Å
shell_rg	26.08 Å
envelope_rg	20.18 Å
shape_rg	19.97 Å
total_rg	20.90 Å
total_atoms	2211
n_residues	279
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	70.4 Å
rg_real	21.01 Å
rg_real_error	0.42 Å
i0_real	1.7150e+07
i0_real_error	2.1920e+05
rg_reciprocal	21.02 Å
i0_reciprocal	17150000.0000
total_estimate	0.8790
solution_quality	GOOD a GOOD solution
n_peaks	2
r_peak_primary	24.5 Å
skewness	0.357
kurtosis	-0.286
angular_range	— – 0.3800 Å⁻¹
current_alpha	0.0000
highest_alpha	3299000.0000
n_real_points	70
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.811; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.994; Smooth: 0.995

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4. Crystallography & Experiment

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5. Entities & Polymer Info (3)

Entity 1 polymer

description	NAD-dependent protein deacetylase sirtuin-2
formula_weight	34177.4 kDa
ec_number	2.3.1.286,2.3.1.-
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	A
atom_count	2251

SERLLDELTLEGVARYMQSERCRRVICLVGAGISTSAGIPDFRSPSTGLYDNLEKYHLPYPEAIFEISYFKKHPEPFFALAKELYPGQFKPTICHYFMRLLKDKGLLLRCYTQNIDTLERIAGLEQEDLVEAHGTFYTSHCVSASCRHEYPLSWMKEKIFSEVTPKCEDCQSLVKPDIVFFGESLPARFFSCMQSDFLKVDLLLVMGTSLQVQPFASLISKAPLSTPRLLINKEKAGQSDPFLGMIMGLGGGMDFDSKKAYRDVAWLGECDQGCLALAELLGWKKELEDLVRREHASIDAQS

Source

organism	Homo sapiens
common_name	human
ncbi_taxonomy_id	9606
host_organism	Escherichia coli

Entity 2 non-polymer

description	ZINC ION
formula_weight	65.4 kDa
src_method	syn
entity_count	1

Entity 3 water

description	water
formula_weight	18.0 kDa
src_method	nat
entity_count	40

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6. Citations (1)

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length_a	35.760 Å
length_b	73.510 Å
length_c	54.980 Å
angle_alpha	90.00 °
angle_beta	95.26 °
angle_gamma	90.00 °
z_pdb	2

space_group	P 1 21 1
int_tables_number	4
crystal_system	—

resolution	2.150 Å
resolution_low	30.000 Å
r_factor	0.2306
r_work	0.2284
r_free	0.2737

fit	/app/data/saxs_computation/s4/9s44/9s44.fit
pddf	/app/data/pr_computation/s4/9s44/9s44.pr.out
profile	/app/data/saxs_computation/s4/9s44/9s44.dat

Human Histone Deacetylase SIRT2

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