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9uxj

Structure of WDR5 in complex with Peptide 2_R4A

Method: X-RAY DIFFRACTION D_max: 57.0 Å Quality: EXCELLENT

SAXS Profile

P(r) Distribution

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1. Structure Basics

entry_id	9uxj
deposition_date	2025-05-14
title	Structure of WDR5 in complex with Peptide 2_R4A
keywords	WDR5, WIN motif, chromatin, NUCLEAR PROTEIN; NUCLEAR PROTEIN
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	19.17 Å
rg_electron	18.14 Å
i0	19305700.00
molecular_weight	33960.0 kDa
excluded_volume	42709 Å³
envelope_volume	48223 Å³
shell_volume	21405 Å³
envelope_diameter	57.4 Å
shell_rg	25.32 Å
envelope_rg	18.26 Å
shape_rg	18.10 Å
total_rg	19.24 Å
total_atoms	2393
n_residues	310
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	57.0 Å
rg_real	19.00 Å
rg_real_error	0.17 Å
i0_real	1.9310e+07
i0_real_error	2.2710e+05
rg_reciprocal	19.03 Å
i0_reciprocal	19310000.0000
total_estimate	0.9043
solution_quality	EXCELLENT a EXCELLENT solution
n_peaks	2
r_peak_primary	25.4 Å
skewness	0.042
kurtosis	-0.524
angular_range	— – 0.4150 Å⁻¹
current_alpha	0.0000
highest_alpha	6688000.0000
n_real_points	73
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.932; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.973; Smooth: 0.983

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4. Crystallography & Experiment

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5. Entities & Polymer Info (3)

Entity 1 polymer

description	WD repeat-containing protein 5
formula_weight	34646.3 kDa
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	A
atom_count	2544

GSHMTQSKPTPVKPNYALKFTLAGHTKAVSSVKFSPNGEWLASSSADKLIKIWGAYDGKFEKTISGHKLGISDVAWSSDSNLLVSASDDKTLKIWDVSSGKCLKTLKGHSNYVFCCNFNPQSNLIVSGSFDESVRIWDVKTGKCLKTLPAHSDPVSAVHFNRDGSLIVSSSYDGLCRIWDTASGQCLKTLIDDDNPPVSFVKFSPNGKYILAATLDNTLKLWDYSKGKCLKTYTGHKNEKYCIFANFSVTGGKWIVSGSEDNLVYIWNLQTKEIVQKLQGHTDVVISTACHPTENIIASAALENDKTIKLWKSDC

Source

organism	Homo sapiens
common_name	human
ncbi_taxonomy_id	9606
host_organism	Escherichia coli

Entity 2 polymer

description	Pep-2 R4A
formula_weight	1911.3 kDa
ec_number	3.6.4.12,3.6.4.13
src_method	syn
entity_count	1

Polymer

type	polypeptide(L)
strand_id	D

KCSAIIPARARVECFDK

Entity 3 water

description	water
formula_weight	18.0 kDa
src_method	nat
entity_count	139

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6. Citations (1)

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length_a	80.321 Å
length_b	100.923 Å
length_c	81.740 Å
angle_alpha	90.00 °
angle_beta	90.00 °
angle_gamma	90.00 °
z_pdb	8

space_group	C 2 2 21
int_tables_number	20
crystal_system	—

resolution	1.760 Å
resolution_low	31.760 Å
r_factor	0.1863
r_work	0.1843
r_free	0.2245

fit	/app/data/saxs_computation/ux/9uxj/9uxj.fit
pddf	/app/data/pr_computation/ux/9uxj/9uxj.pr.out
profile	/app/data/saxs_computation/ux/9uxj/9uxj.dat

Structure of WDR5 in complex with Peptide 2_R4A

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

5. Entities & Polymer Info (3)

Entity 1 polymer

Polymer

Source

Entity 2 polymer

Polymer

Entity 3 water

6. Citations (1)

7. Files & Curves (10)

Files (7)

Curves (3)