4oyr

Competition of the small inhibitor PT91 with large fatty acyl substrate of the Mycobacterium tuberculosis enoyl-ACP reductase InhA by induced substrate-binding loop refolding

Method: X-RAY DIFFRACTION Dmax: 88.9 Å Quality: GOOD

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

Enoyl-[acyl-carrier-protein] reductase [NADH]

Mycobacterium tuberculosis

UniProt P0A5Y6

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 × 4 PDB declaration: tetrameric(4) Consistent with protein copy count Chain A; UniProt 1–269 Chain B; UniProt 1–269 Chain C; UniProt 1–269 Chain D; UniProt 1–269 Not recorded NAD NICOTINAMIDE-ADENINE-DINUCLEOTIDE × 4 1US 2-(2-chloranylphenoxy)-5-hexyl-phenol × 4 X-RAY DIFFRACTION X-ray crystallization conditions:VAPOR DIFFUSION, HANGING DROP;pH 6.8;298 K;100 mM ADA, 200 mM ammonium acetate, 16% PEG 4000, 6% DMSO Resolution 2.30 Å R-free 0.244

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.

43 other PDB entries and 56 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name INHA_MYCTU
Isoform
PDB entities 1
Chains and sequence ranges Author chain A; PDBConstruct 21–289; UniProt 1–269 Author chain B; PDBConstruct 21–289; UniProt 1–269 Author chain C; PDBConstruct 21–289; UniProt 1–269 Author chain D; PDBConstruct 21–289; UniProt 1–269

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 4oyr

P(r) Distance Distribution P(r) Distribution

P(r) distribution for 4oyr
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2. Structure Basics 2. Structure Basics

Entry ID entry_id4oyr
Deposition date deposition_date2014-02-13
Structure title titleCompetition of the small inhibitor PT91 with large fatty acyl substrate of the Mycobacterium tuberculosis enoyl-ACP reductase InhA by induced substrate-binding loop refolding
Keywords keywords;Bacterial fatty acid biosynthesis, enzyme-inhibitor complex, substrate-binding loop refolding, induced-fit, OXIDOREDUCTASE-OXIDOREDUCTASE INHIBITOR complex ;; OXIDOREDUCTASE/OXIDOREDUCTASE INHIBITOR
Experimental Method methodX-RAY DIFFRACTION

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

Radius of gyration Rg (Guinier) rg_guinier29.12
Radius of gyration Rg (electron density) rg_electron28.15
Forward intensity I(0) i0191406000.00
Molecular weight molecular_weight110200.0 kDa
Excluded volume excluded_volume137700 ų
Envelope volume envelope_volume158040 ų
Hydration-shell volume shell_volume44544 ų
Envelope diameter envelope_diameter93.9
Shell Rg shell_rg37.32
Envelope Rg envelope_rg28.32
Shape Rg shape_rg28.16
Total Rg total_rg28.91
Total atoms total_atoms7743
Residues n_residues1055
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 dmax88.9
Rg (real space) rg_real28.97
Rg uncertainty (real space) rg_real_error0.55
I(0) (real space) i0_real1.9140e+08
I(0) uncertainty (real space) i0_real_error2.6110e+06
Rg (reciprocal space) rg_reciprocal29.03
I(0) (reciprocal space) i0_reciprocal191400000.0000
Solution quality estimate total_estimate0.8989
Solution quality rating solution_quality GOOD a GOOD solution
P(r) peaks n_peaks2
Primary peak position r_peak_primary37.9
Skewness Skewness skewness0.191
Kurtosis Kurtosis kurtosis-0.418
Angular range angular_range— – 0.2700 −1
Current regularization parameter α current_alpha0.0000
Highest regularization parameter α highest_alpha91790000.0000
Real-space data points n_real_points55
GNOM version gnom_version4.1.3
Quality Criteria quality_criteria AN1: 0.000; Oscil: 0.925; Stabil: 0.998; Sysdev: 1.000; Positv: 1.000; Valcen: 0.978; Smooth: 0.934

5. Crystallography and Experiment 5. Crystallography & Experiment

6. Entities and Polymers Entities & Polymers (4)

7. Fold Classification (SCOP + CATH) 4 domains

CATH v4.4 (4 domains)

Domain ID domain_id4oyrA00
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology50 — Rossmann fold
Homologous superfamily homologous superfamily720 — NAD(P)-binding Rossmann-like Domain
Domain ID domain_id4oyrB00
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology50 — Rossmann fold
Homologous superfamily homologous superfamily720 — NAD(P)-binding Rossmann-like Domain
Domain ID domain_id4oyrC00
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology50 — Rossmann fold
Homologous superfamily homologous superfamily720 — NAD(P)-binding Rossmann-like Domain
Domain ID domain_id4oyrD00
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology50 — Rossmann fold
Homologous superfamily homologous superfamily720 — NAD(P)-binding Rossmann-like Domain

8. Citations (1)

9. Files and Curves (10)