1bxz

CRYSTAL STRUCTURE OF A THERMOPHILIC ALCOHOL DEHYDROGENASE SUBSTRATE COMPLEX FROM THERMOANAEROBACTER BROCKII

Method: X-RAY DIFFRACTION Dmax: 99.1 Å Quality: EXCELLENT

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

NADP-DEPENDENT ALCOHOL 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 1–352 Chain B; UniProt 1–352 Chain C; UniProt 1–352 Chain D; UniProt 1–352 Fragment:NUCLEOTIDE-BINDING DOMAIN, CATALYTIC DOMAIN ZN ZINC ION × 4 CL CHLORIDE ION × 4 MG MAGNESIUM ION × 4 SBT 2-BUTANOL × 4 X-RAY DIFFRACTION X-ray crystallization conditions:pH 5.8;pH 5.8 Resolution 2.99 Å R-free 0.264

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 1–352; UniProt 1–352 Author chain B; PDBConstruct 1–352; UniProt 1–352 Author chain C; PDBConstruct 1–352; UniProt 1–352 Author chain D; PDBConstruct 1–352; UniProt 1–352

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 1bxz

P(r) Distance Distribution P(r) Distribution

P(r) distribution for 1bxz
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2. Structure Basics 2. Structure Basics

Entry ID entry_id1bxz
Deposition date deposition_date1998-10-09
Structure title titleCRYSTAL STRUCTURE OF A THERMOPHILIC ALCOHOL DEHYDROGENASE SUBSTRATE COMPLEX FROM THERMOANAEROBACTER BROCKII
Keywords keywordsTHERMOPHILIC ALCOHOL DEHYDROGENASE, OXIDOREDUCTASE; OXIDOREDUCTASE
Experimental Method methodX-RAY DIFFRACTION

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

Radius of gyration Rg (Guinier) rg_guinier32.77
Radius of gyration Rg (electron density) rg_electron32.17
Forward intensity I(0) i0335266000.00
Molecular weight molecular_weight151370.0 kDa
Excluded volume excluded_volume191140 ų
Envelope volume envelope_volume223940 ų
Hydration-shell volume shell_volume55513 ų
Envelope diameter envelope_diameter100.6
Shell Rg shell_rg41.06
Envelope Rg envelope_rg32.03
Shape Rg shape_rg32.19
Total Rg total_rg32.75
Total atoms total_atoms10604
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 dmax99.1
Rg (real space) rg_real32.50
Rg uncertainty (real space) rg_real_error0.47
I(0) (real space) i0_real3.3530e+08
I(0) uncertainty (real space) i0_real_error4.9800e+06
Rg (reciprocal space) rg_reciprocal32.62
I(0) (reciprocal space) i0_reciprocal335300000.0000
Solution quality estimate total_estimate0.9040
Solution quality rating solution_quality EXCELLENT a EXCELLENT solution
P(r) peaks n_peaks1
Primary peak position r_peak_primary43.4
Skewness Skewness skewness0.084
Kurtosis Kurtosis kurtosis-0.561
Angular range angular_range— – 0.2400 −1
Current regularization parameter α current_alpha0.0000
Highest regularization parameter α highest_alpha129300000.0000
Real-space data points n_real_points49
GNOM version gnom_version4.1.3
Quality Criteria quality_criteria AN1: 0.000; Oscil: 0.941; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.977; Smooth: 0.948

5. Crystallography and Experiment 5. Crystallography & Experiment

6. Entities and Polymers Entities & Polymers (6)

7. Fold Classification (SCOP + CATH) 16 domains

SCOP 2.08 (8 domains)

Domain ID domain_idd1bxza1
Class classb — All beta proteins
Fold Fold foldb.35 — GroES-like
Superfamily Superfamily superfamilyb.35.1 — GroES-like
Family Family familyb.35.1.2 — Alcohol dehydrogenase-like, N-terminal domain
Domain ID domain_idd1bxza2
Class classc — Alpha and beta proteins (a/b)
Fold Fold foldc.2 — NAD(P)-binding Rossmann-fold domains
Superfamily Superfamily superfamilyc.2.1 — NAD(P)-binding Rossmann-fold domains
Family Family familyc.2.1.1 — Alcohol dehydrogenase-like, C-terminal domain
Domain ID domain_idd1bxzb1
Class classb — All beta proteins
Fold Fold foldb.35 — GroES-like
Superfamily Superfamily superfamilyb.35.1 — GroES-like
Family Family familyb.35.1.2 — Alcohol dehydrogenase-like, N-terminal domain
Domain ID domain_idd1bxzb2
Class classc — Alpha and beta proteins (a/b)
Fold Fold foldc.2 — NAD(P)-binding Rossmann-fold domains
Superfamily Superfamily superfamilyc.2.1 — NAD(P)-binding Rossmann-fold domains
Family Family familyc.2.1.1 — Alcohol dehydrogenase-like, C-terminal domain
Domain ID domain_idd1bxzc1
Class classb — All beta proteins
Fold Fold foldb.35 — GroES-like
Superfamily Superfamily superfamilyb.35.1 — GroES-like
Family Family familyb.35.1.2 — Alcohol dehydrogenase-like, N-terminal domain
Domain ID domain_idd1bxzc2
Class classc — Alpha and beta proteins (a/b)
Fold Fold foldc.2 — NAD(P)-binding Rossmann-fold domains
Superfamily Superfamily superfamilyc.2.1 — NAD(P)-binding Rossmann-fold domains
Family Family familyc.2.1.1 — Alcohol dehydrogenase-like, C-terminal domain
Domain ID domain_idd1bxzd1
Class classb — All beta proteins
Fold Fold foldb.35 — GroES-like
Superfamily Superfamily superfamilyb.35.1 — GroES-like
Family Family familyb.35.1.2 — Alcohol dehydrogenase-like, N-terminal domain
Domain ID domain_idd1bxzd2
Class classc — Alpha and beta proteins (a/b)
Fold Fold foldc.2 — NAD(P)-binding Rossmann-fold domains
Superfamily Superfamily superfamilyc.2.1 — NAD(P)-binding Rossmann-fold domains
Family Family familyc.2.1.1 — Alcohol dehydrogenase-like, C-terminal domain

CATH v4.4 (8 domains)

Domain ID domain_id1bxzA01
Class class3 — Alpha Beta
Architecture architecture90 — Alpha-Beta Complex
Topology topology180 — Quinone Oxidoreductase; Chain A, domain 1
Homologous superfamily homologous superfamily10 — Medium-chain alcohol dehydrogenases, catalytic domain
Domain ID domain_id1bxzA02
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_id1bxzB01
Class class3 — Alpha Beta
Architecture architecture90 — Alpha-Beta Complex
Topology topology180 — Quinone Oxidoreductase; Chain A, domain 1
Homologous superfamily homologous superfamily10 — Medium-chain alcohol dehydrogenases, catalytic domain
Domain ID domain_id1bxzB02
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_id1bxzC01
Class class3 — Alpha Beta
Architecture architecture90 — Alpha-Beta Complex
Topology topology180 — Quinone Oxidoreductase; Chain A, domain 1
Homologous superfamily homologous superfamily10 — Medium-chain alcohol dehydrogenases, catalytic domain
Domain ID domain_id1bxzC02
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_id1bxzD01
Class class3 — Alpha Beta
Architecture architecture90 — Alpha-Beta Complex
Topology topology180 — Quinone Oxidoreductase; Chain A, domain 1
Homologous superfamily homologous superfamily10 — Medium-chain alcohol dehydrogenases, catalytic domain
Domain ID domain_id1bxzD02
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 (2)

9. Files and Curves (10)