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9wq4

Crystal structure of CNOT6L and Cpd1 complex

Method: X-RAY DIFFRACTION D_max: 61.4 Å Quality: EXCELLENT

SAXS Profile

P(r) Distribution

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1. Structure Basics

entry_id	9wq4
deposition_date	2025-09-10
last_revision	2026-04-29
title	Crystal structure of CNOT6L and Cpd1 complex
keywords	Inhibitor, complex, 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	20.63 Å
rg_electron	19.28 Å
i0	24219900.00
molecular_weight	38354.0 kDa
excluded_volume	48145 Å³
envelope_volume	54414 Å³
shell_volume	22842 Å³
envelope_diameter	63.9 Å
shell_rg	26.45 Å
envelope_rg	19.64 Å
shape_rg	19.18 Å
total_rg	20.51 Å
total_atoms	5291
n_residues	337
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	61.4 Å
rg_real	20.48 Å
rg_real_error	0.25 Å
i0_real	2.4220e+07
i0_real_error	2.7840e+05
rg_reciprocal	20.51 Å
i0_reciprocal	24220000.0000
total_estimate	0.9109
solution_quality	EXCELLENT a EXCELLENT solution
n_peaks	2
r_peak_primary	25.8 Å
skewness	0.109
kurtosis	-0.535
angular_range	— – 0.3850 Å⁻¹
current_alpha	0.0000
highest_alpha	6999000.0000
n_real_points	70
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.954; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.982; Smooth: 0.994

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4. Crystallography & Experiment

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5. Entities & Polymer Info (4)

Entity 1 polymer

description	CCR4-NOT transcription complex subunit 6-like
formula_weight	45140.5 kDa
ec_number	3.1.13.4
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	A
atom_count	5359

MLDNLAVHPEQLPPRPWITLKERDQILPSASFTVMCYNVLCDKYATRQLYGYCPSWALNWEYRKKGIMEEIVNCDADIISLQEVETEQYFTLFLPALKERGYDGFFSPKSRAKIMSEQERKHVDGCAIFFKTEKFTLVQKHTVEFNQVAMANSDGSEAMLNRVMTKDNIGVAVVLEVHKELFGAGMKPIHAADKQLLIVANAHMHWDPEYSDVKLIQTMMFVSEVKNILEKASSRPGSPTADPNSIPLVLCADLNSLPDSGVVEYLSNGGVADNHKDFKELRYNECLMNFSCNGKNGSSEGRITHGFQLKSAYENNLMPYTNYTFDFKGVIDYIFYSKTHMNVLGVLGPLDPQWLVENNITGCPHPHIPSDHFSLLTQLELHPPLLPLVNGVHLPNRR

Source

organism	Homo sapiens
common_name	human
ncbi_taxonomy_id	9606
host_organism	Escherichia coli

Entity 2 non-polymer

description	4-[(4-chlorophenyl)methyl]-1-furo[3,2-c]pyridin-4-yl-piperidin-4-amine
formula_weight	341.8 kDa
src_method	syn
entity_count	1

Entity 3 non-polymer

description	MAGNESIUM ION
formula_weight	24.3 kDa
src_method	syn
entity_count	2

Entity 4 water

description	water
formula_weight	18.0 kDa
src_method	nat
entity_count	68

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6. Citations (1)

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length_a	77.171 Å
length_b	77.171 Å
length_c	169.803 Å
angle_alpha	90.00 °
angle_beta	90.00 °
angle_gamma	120.00 °
z_pdb	6

space_group	P 32 2 1
int_tables_number	154
crystal_system	trigonal

resolution	2.400 Å
resolution_low	26.060 Å
r_factor	0.2086
r_work	0.2060
r_free	0.2543

fit	/app/data/saxs_computation/wq/9wq4/9wq4.fit
pddf	/app/data/pr_computation/wq/9wq4/9wq4.pr.out
profile	/app/data/saxs_computation/wq/9wq4/9wq4.dat

Crystal structure of CNOT6L and Cpd1 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

Diffraction