← Back to search

9vct

Cryo-EM structure of monomeric Suv3-ADP complex

Method: ELECTRON MICROSCOPY D_max: 99.7 Å Quality: GOOD

SAXS Profile

P(r) Distribution

▼

1. Structure Basics

entry_id	9vct
deposition_date	2025-06-06
title	Cryo-EM structure of monomeric Suv3-ADP complex
keywords	Helicase, RNA binding protein, HYDROLASE; HYDROLASE
method	ELECTRON MICROSCOPY

▼

Download Data

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

▼

2. SAXS Parameters (CRYSOL)

rg_guinier	30.02 Å
rg_electron	29.74 Å
i0	75085500.00
molecular_weight	69056.0 kDa
excluded_volume	86961 Å³
envelope_volume	114050 Å³
shell_volume	33718 Å³
envelope_diameter	105.4 Å
shell_rg	34.73 Å
envelope_rg	29.85 Å
shape_rg	29.77 Å
total_rg	30.13 Å
total_atoms	4856
n_residues	603
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	99.7 Å
rg_real	30.17 Å
rg_real_error	1.04 Å
i0_real	7.5090e+07
i0_real_error	1.4070e+06
rg_reciprocal	30.11 Å
i0_reciprocal	75080000.0000
total_estimate	0.8456
solution_quality	GOOD a GOOD solution
n_peaks	2
r_peak_primary	35.8 Å
skewness	0.527
kurtosis	-0.109
angular_range	— – 0.2650 Å⁻¹
current_alpha	0.0000
highest_alpha	16570000.0000
n_real_points	54
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.758; Stabil: 0.987; Sysdev: 1.000; Positv: 1.000; Valcen: 0.960; Smooth: 0.795

▶

4. Crystallography & Experiment

▶

5. Entities & Polymer Info (3)

Entity 1 polymer

description	ATP-dependent RNA helicase SUPV3L1, mitochondrial
formula_weight	85450.9 kDa
ec_number	3.6.4.13
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	A
atom_count	4856

MGSSHHHHHHSSGLVPRGSHMASSSASGGSKIPNTSLFVPLTVKPQGPSADGDVGAELTRPLDKNEVKKVLDKFYKRKEIQKLGADYGLDARLFHQAFISFRNYIMQSHSLDVDIHIVLNDICFGAAHADDLFPFFLRHAKQIFPVLDCKDDLRKISDLRIPPNWYPDARAMQRKIIFHSGPTNSGKTYHAIQKYFSAKSGVYCGPLKLLAHEIFEKSNAAGVPCDLVTGEERVTVQPNGKQASHVSCTVEMCSVTTPYEVAVIDEIQMIRDPARGWAWTRALLGLCAEEVHLCGEPAAIDLVMELMYTTGEEVEVRDYKRLTPISVLDHALESLDNLRPGDCIVCFSKNDIYSVSRQIEIRGLESAVIYGSLPPGTKLAQAKKFNDPNDPCKILVATDAIGMGLNLSIRRIIFYSLIKPSINEKGERELEPITTSQALQIAGRAGRFSSRFKEGEVTTMNHEDLSLLKEILKRPVDPIRAAGLHPTAEQIEMFAYHLPDATLSNLIDIFVDFSQVDGQYFVCNMDDFKFSAELIQHIPLSLRVRYVFCTAPINKKQPFVCSSLLQFARQYSRNEPLTFAWLRRYIKWPLLPPKNIKDLMDLEAVHDVLDLYLWLSYRFMDMFPDASLIRDLQKELDGIIQDGVHNITKLIKMSETHKLLNLEGFPSGSQSRLSGTLKSQARRTRGTKALGSKATEPPSPDAGELSLASRLVQQGLLTPDMLKQLEKEWMTQQTEHNKEKTESGTHPKGTRRKKKEPDSD

Source

organism	Homo sapiens
common_name	human
ncbi_taxonomy_id	9606
host_organism	Escherichia coli

Entity 2 non-polymer

description	ADENOSINE-5'-DIPHOSPHATE
formula_weight	427.2 kDa
src_method	syn
entity_count	1

Entity 3 non-polymer

description	MAGNESIUM ION
formula_weight	24.3 kDa
src_method	syn
entity_count	1

▶

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	3.470 Å
resolution_low	— Å
r_factor	—
r_work	—
r_free	—

resolution	3.47 Å
resolution_method	—
num_particles	115719

fit	/app/data/saxs_computation/vc/9vct/9vct.fit
pddf	/app/data/pr_computation/vc/9vct/9vct.pr.out
profile	/app/data/saxs_computation/vc/9vct/9vct.dat

Cryo-EM structure of monomeric Suv3-ADP 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

Refinement

EM 3D