8vlh

Crystal structure of Ash1L PHD-BAH domains

Method: X-RAY DIFFRACTION Dmax: 119.8 Å Quality: GOOD

1. Protein Identity and Related Structures Protein Identity & Related Structures

Histone-lysine N-methyltransferase ASH1L

Homo sapiens

UniProt Q9NR48

State in the Current Structure

Assembly Oligomeric State Construct Mutations and Modifications Ligands, Ions and Associated Components Method and Experimental Conditions Structure Quality
1 Protein homooligomer Homooligomer Protein × 2 PDB declaration: dimeric(2) Consistent with protein copy count Chain A; UniProt 2584–2839 Chain B; UniProt 2584–2839 Not recorded ZN ZINC ION × 4 SR STRONTIUM ION × 1 X-RAY DIFFRACTION X-ray crystallization conditions:VAPOR DIFFUSION, SITTING DROP;291 K;0.1 M Bis-Tris propane pH 10, 0.25 M strontium chloride, 0.01 M ammonium sulfate, and 25% PEG 8000 Resolution 2.40 Å R-free 0.284

Other States of the Same Protein in the Database

Each row is a biological assembly of the same UniProt protein in another PDB entry. The “Difference from current entry” column identifies evidence-level differences; no tag means the currently parsed fields agree.

14 other PDB entries and 28 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name ASH1L_HUMAN
Isoform
PDB entities 1
Chains and sequence ranges Author chain A; PDBConstruct 4–259; UniProt 2584–2839 Author chain B; PDBConstruct 4–259; UniProt 2584–2839

The page prioritizes protein identity, the current assembly, associated components, oligomeric state and cross-PDB links. Chain mapping and sequence ranges are retained as data evidence. Internal IDs, import timestamps and assembly operation expressions are maintenance fields and are not shown here.

SAXS scattering curve SAXS Profile

SAXS profile for 8vlh

P(r) Distance Distribution P(r) Distribution

P(r) distribution for 8vlh
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2. Structure Basics 2. Structure Basics

Entry ID entry_id8vlh
Deposition date deposition_date2024-01-11
Structure title titleCrystal structure of Ash1L PHD-BAH domains
Keywords keywordsAsh1L, methyltransferase, zinc finger, PHD, BAH, TRANSFERASE; TRANSFERASE
Experimental Method methodX-RAY DIFFRACTION

3. SAXS Parameters (CRYSOL theoretical calculation) 3. SAXS Parameters (CRYSOL)

Radius of gyration Rg (Guinier) rg_guinier35.35
Radius of gyration Rg (electron density) rg_electron35.74
Forward intensity I(0) i056573800.00
Molecular weight molecular_weight58767.0 kDa
Excluded volume excluded_volume73032 ų
Envelope volume envelope_volume104450 ų
Hydration-shell volume shell_volume26361 ų
Envelope diameter envelope_diameter122.8
Shell Rg shell_rg38.36
Envelope Rg envelope_rg35.16
Shape Rg shape_rg35.92
Total Rg total_rg35.37
Total atoms total_atoms4106
Residues n_residues490
Spherical-harmonic order n_harmonics20
q range q_range— – 0.5000 −1
Data points n_points101
Shell type shell_typedirectional
Solvent electron density solvent_density0.3340 e/ų
Shell contrast contrast_shell0.0300 e/ų
CRYSOL version crysol_version4.1.3

4. P(r) Distance Distribution (GNOM inversion) 4. P(r) Analysis (GNOM)

Maximum dimension Dmax dmax119.8
Rg (real space) rg_real35.75
Rg uncertainty (real space) rg_real_error1.57
I(0) (real space) i0_real5.6570e+07
I(0) uncertainty (real space) i0_real_error1.1500e+06
Rg (reciprocal space) rg_reciprocal35.51
I(0) (reciprocal space) i0_reciprocal56560000.0000
Solution quality estimate total_estimate0.7796
Solution quality rating solution_quality GOOD a GOOD solution
P(r) peaks n_peaks1
Primary peak position r_peak_primary29.3
Skewness Skewness skewness0.469
Kurtosis Kurtosis kurtosis-0.693
Angular range angular_range— – 0.2250 −1
Current regularization parameter α current_alpha0.0000
Highest regularization parameter α highest_alpha5119000.0000
Real-space data points n_real_points46
GNOM version gnom_version4.1.3
Quality Criteria quality_criteria AN1: 0.000; Oscil: 0.613; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.501; Smooth: 0.792

5. Crystallography and Experiment 5. Crystallography & Experiment

6. Entities and Polymers Entities & Polymers (4)

8. Citations (1)

9. Files and Curves (10)