7xl5

Crystal structure of the H42T/A85G/I86A mutant of a nadp-dependent alcohol dehydrogenase

Method: X-RAY DIFFRACTION Dmax: 124.5 Å Quality: GOOD

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

NADP-dependent isopropanol dehydrogenase

Thermoanaerobacter brockii

UniProt P14941

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 2–352 Chain B; UniProt 2–352 Chain C; UniProt 2–352 Chain D; UniProt 2–352 Mutation:H42T, A85G, I86A No other associated polymer X-RAY DIFFRACTION X-ray crystallization conditions:VAPOR DIFFUSION, SITTING DROP;pH 7.5;293 K;0.2 M Magnesium acetate tetrahydrate, 15% (w/v) PEG 3350 Resolution 2.60 Å R-free 0.225

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.

13 other PDB entries and 15 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name ADH_THEBR
Isoform
PDB entities 1
Chains and sequence ranges Author chain A; PDBConstruct 8–358; UniProt 2–352 Author chain B; PDBConstruct 8–358; UniProt 2–352 Author chain C; PDBConstruct 8–358; UniProt 2–352 Author chain D; PDBConstruct 8–358; UniProt 2–352

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 7xl5

P(r) Distance Distribution P(r) Distribution

P(r) distribution for 7xl5
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2. Structure Basics 2. Structure Basics

Entry ID entry_id7xl5
Deposition date deposition_date2022-04-21
Structure title titleCrystal structure of the H42T/A85G/I86A mutant of a nadp-dependent alcohol dehydrogenase
Keywords keywordsdehydrogenase, oxidoreductase, mutant, Thermoanaerobacter brockii; OXIDOREDUCTASE
Experimental Method methodX-RAY DIFFRACTION

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

Radius of gyration Rg (Guinier) rg_guinier38.31
Radius of gyration Rg (electron density) rg_electron37.48
Forward intensity I(0) i0326380000.00
Molecular weight molecular_weight150380.0 kDa
Excluded volume excluded_volume189890 ų
Envelope volume envelope_volume243060 ų
Hydration-shell volume shell_volume53567 ų
Envelope diameter envelope_diameter130.3
Shell Rg shell_rg43.89
Envelope Rg envelope_rg37.18
Shape Rg shape_rg37.49
Total Rg total_rg37.87
Total atoms total_atoms10564
Residues n_residues1408
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 dmax124.5
Rg (real space) rg_real38.17
Rg uncertainty (real space) rg_real_error1.02
I(0) (real space) i0_real3.2640e+08
I(0) uncertainty (real space) i0_real_error5.4700e+06
Rg (reciprocal space) rg_reciprocal38.26
I(0) (reciprocal space) i0_reciprocal326400000.0000
Solution quality estimate total_estimate0.8938
Solution quality rating solution_quality GOOD a GOOD solution
P(r) peaks n_peaks1
Primary peak position r_peak_primary51.6
Skewness Skewness skewness0.174
Kurtosis Kurtosis kurtosis-0.510
Angular range angular_range— – 0.2050 −1
Current regularization parameter α current_alpha0.0000
Highest regularization parameter α highest_alpha69830000.0000
Real-space data points n_real_points42
GNOM version gnom_version4.1.3
Quality Criteria quality_criteria AN1: 0.000; Oscil: 0.909; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 1.000; Smooth: 0.890

5. Crystallography and Experiment 5. Crystallography & Experiment

6. Entities and Polymers Entities & Polymers (2)

7. Fold Classification (SCOP + CATH) 4 domains

CATH v4.4 (4 domains)

Domain ID domain_id7xl5A01
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_id7xl5B01
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_id7xl5C01
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_id7xl5D01
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)