6oir

Crystal structure of MYST acetyltransferase domain in complex with inhibitor 62

Method: X-RAY DIFFRACTION Dmax: 79.5 Å Quality: REASONABLE

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

Histone acetyltransferase KAT8

Homo sapiens

UniProt Q9H7Z6

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 monomer Monomer Protein × 1 PDB declaration: monomeric(1) Consistent with protein copy count Chain A; UniProt 176–448 Fragment:residues 176-448 Mutation:A142S, L145M, T146I, K157R Non-standard monomer:Yes (specific site not provided by mmCIF) ZN ZINC ION × 1 MNJ 4-fluoro-N'-(phenylsulfonyl)[1,1'-biphenyl]-3-carbohydrazide × 1 GOL GLYCEROL × 1 X-RAY DIFFRACTION X-ray crystallization conditions:VAPOR DIFFUSION, SITTING DROP;pH 7;292 K;20% PEG 3350, 2% Tacsimate pH 7.0, 0.1 M HEPES pH 7.0 Resolution 2.03 Å R-free 0.221

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.

41 other PDB entries and 44 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name KAT8_HUMAN
Isoform
PDB entities 1
Chains and sequence ranges Author chain A; PDBConstruct 1–273; UniProt 176–448

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 6oir

P(r) Distance Distribution P(r) Distribution

P(r) distribution for 6oir
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2. Structure Basics 2. Structure Basics

Entry ID entry_id6oir
Deposition date deposition_date2019-04-09
Structure title titleCrystal structure of MYST acetyltransferase domain in complex with inhibitor 62
Keywords keywordsInhibitor, Complex, MYST, TRANSFERASE, TRANSFERASE-TRANSFERASE INHIBITOR complex; TRANSFERASE/TRANSFERASE INHIBITOR
Experimental Method methodX-RAY DIFFRACTION

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

Radius of gyration Rg (Guinier) rg_guinier21.35
Radius of gyration Rg (electron density) rg_electron20.48
Forward intensity I(0) i017073000.00
Molecular weight molecular_weight32442.0 kDa
Excluded volume excluded_volume41110 ų
Envelope volume envelope_volume47508 ų
Hydration-shell volume shell_volume20111 ų
Envelope diameter envelope_diameter81.1
Shell Rg shell_rg26.62
Envelope Rg envelope_rg20.95
Shape Rg shape_rg20.45
Total Rg total_rg21.50
Total atoms total_atoms2287
Residues n_residues271
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 dmax79.5
Rg (real space) rg_real21.42
Rg uncertainty (real space) rg_real_error0.66
I(0) (real space) i0_real1.7070e+07
I(0) uncertainty (real space) i0_real_error2.6490e+05
Rg (reciprocal space) rg_reciprocal21.40
I(0) (reciprocal space) i0_reciprocal17070000.0000
Solution quality estimate total_estimate0.7344
Solution quality rating solution_quality REASONABLE a REASONABLE solution
P(r) peaks n_peaks2
Primary peak position r_peak_primary24.6
Skewness Skewness skewness0.500
Kurtosis Kurtosis kurtosis-0.017
Angular range angular_range— – 0.3700 −1
Current regularization parameter α current_alpha0.0000
Highest regularization parameter α highest_alpha4165000.0000
Real-space data points n_real_points69
GNOM version gnom_version4.1.3
Quality Criteria quality_criteria AN1: 0.000; Oscil: 0.569; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.835; Smooth: 0.000

5. Crystallography and Experiment 5. Crystallography & Experiment

6. Entities and Polymers Entities & Polymers (5)

7. Fold Classification (SCOP + CATH) 2 domains

SCOP 2.08 (1 domains)

Domain ID domain_idd6oira_
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.108 — Acyl-CoA N-acyltransferases (Nat)
Superfamily Superfamily superfamilyd.108.1 — Acyl-CoA N-acyltransferases (Nat)
Family Family familyd.108.1.0 — automated matches

CATH v4.4 (1 domains)

Domain ID domain_id6oirA01
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology10 — Arc Repressor Mutant, subunit A
Homologous superfamily homologous superfamily10 — Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain

8. Citations (1)

9. Files and Curves (10)