← Back to search

9wq1

Crystal structure of CNOT6L and YL-333P complex

Method: X-RAY DIFFRACTION D_max: 61.5 Å Quality: EXCELLENT

SAXS Profile

P(r) Distribution

▼

1. Structure Basics

entry_id	9wq1
deposition_date	2025-09-10
last_revision	2026-04-29
title	Crystal structure of CNOT6L and YL-333P complex
keywords	Inhibitor, complex, RNA BINDING PROTEIN, HYDROLASE; HYDROLASE
method	X-RAY DIFFRACTION

▼

Download Data

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

▼

2. SAXS Parameters (CRYSOL)

rg_guinier	20.67 Å
rg_electron	19.66 Å
i0	46715700.00
molecular_weight	36070.0 kDa
excluded_volume	35254 Å³
envelope_volume	56853 Å³
shell_volume	23468 Å³
envelope_diameter	63.7 Å
shell_rg	26.81 Å
envelope_rg	19.91 Å
shape_rg	19.62 Å
total_rg	20.44 Å
total_atoms	2750
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

▼

3. P(r) Analysis (GNOM)

dmax	61.5 Å
rg_real	20.53 Å
rg_real_error	0.30 Å
i0_real	4.6720e+07
i0_real_error	5.2470e+05
rg_reciprocal	20.56 Å
i0_reciprocal	46720000.0000
total_estimate	0.9097
solution_quality	EXCELLENT a EXCELLENT solution
n_peaks	2
r_peak_primary	25.9 Å
skewness	0.117
kurtosis	-0.527
angular_range	— – 0.3850 Å⁻¹
current_alpha	0.0000
highest_alpha	10980000.0000
n_real_points	70
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.953; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.982; Smooth: 0.980

▶

4. Crystallography & Experiment

▶

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	2813

MLDNLAVHPEQLPPRPWITLKERDQILPSASFTVMCYNVLCDKYATRQLYGYCPSWALNWEYRKKGIMEEIVNCDADIISLQEVETEQYFTLFLPALKERGYDGFFSPKSRAKIMSEQERKHVDGCAIFFKTEKFTLVQKHTVEFNQVAMANSDGSEAMLNRVMTKDNIGVAVVLEVHKELFGAGMKPIHAADKQLLIVANAHMHWDPEYSDVKLIQTMMFVSEVKNILEKASSRPGSPTADPNSIPLVLCADLNSLPDSGVVEYLSNGGVADNHKDFKELRYNECLMNFSCNGKNGSSEGRITHGFQLKSAYENNLMPYTNYTFDFKGVIDYIFYSKTHMNVLGVLGPLDPQWLVENNITGCPHPHIPSDHFSLLTQLELHPPLLPLVNGVHLPNRR

Source

organism	Homo sapiens
common_name	human
ncbi_taxonomy_id	9606
host_organism	Escherichia coli

Entity 2 non-polymer

description	MAGNESIUM ION
formula_weight	24.3 kDa
src_method	syn
entity_count	2

Entity 3 non-polymer

description	6-[4-[[4-azanyl-1-[7-[bis(fluoranyl)methyl]pyrrolo[2,3-d]pyrimidin-4-yl]piperidin-4-yl]methyl]phenyl]-2,3-dihydroisoindol-1-one
formula_weight	488.5 kDa
src_method	syn
entity_count	1

Entity 4 water

description	water
formula_weight	18.0 kDa
src_method	nat
entity_count	57

▶

6. Citations (1)

▶

length_a	78.737 Å
length_b	78.737 Å
length_c	171.726 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	2.090 Å
resolution_low	43.840 Å
r_factor	0.2763
r_work	0.2741
r_free	0.3186

fit	/app/data/saxs_computation/wq/9wq1/9wq1.fit
pddf	/app/data/pr_computation/wq/9wq1/9wq1.pr.out
profile	/app/data/saxs_computation/wq/9wq1/9wq1.dat

Crystal structure of CNOT6L and YL-333P 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