4jir

Crystal Structure Of Aldose Reductase (AKR1B1) Complexed With NADP+ And Epalrestat

Method: X-RAY DIFFRACTION Dmax: 60.0 Å Quality: EXCELLENT

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

Aldose reductase

Homo sapiens

UniProt P15121

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 1–316 Not recorded EPR {5-[(2E)-2-methyl-3-phenylprop-2-en-1-ylidene]-4-oxo-2-thioxo-1,3-thiazolidin-3-yl}acetic acid × 1 SO4 SULFATE ION × 2 NAP NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE × 1 X-RAY DIFFRACTION X-ray crystallization conditions:VAPOR DIFFUSION, HANGING DROP;pH 5;277 K;50 mM ammonium citrate, pH5.0, 7.5% PEG 6000, VAPOR DIFFUSION, HANGING DROP, temperature 277K Resolution 2.00 Å R-free 0.210

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.

169 other PDB entries and 173 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name ALDR_HUMAN
Isoform
PDB entities 1
Chains and sequence ranges Author chain A; PDBConstruct 1–316; UniProt 1–316

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 4jir

P(r) Distance Distribution P(r) Distribution

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

Entry ID entry_id4jir
Deposition date deposition_date2013-03-06
Structure title titleCrystal Structure Of Aldose Reductase (AKR1B1) Complexed With NADP+ And Epalrestat
Keywords keywordsTIM Barrel, oxidoreductase, 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_guinier19.83
Radius of gyration Rg (electron density) rg_electron18.69
Forward intensity I(0) i023234300.00
Molecular weight molecular_weight37001.0 kDa
Excluded volume excluded_volume46341 ų
Envelope volume envelope_volume50816 ų
Hydration-shell volume shell_volume21969 ų
Envelope diameter envelope_diameter61.6
Shell Rg shell_rg25.75
Envelope Rg envelope_rg19.01
Shape Rg shape_rg18.69
Total Rg total_rg19.60
Total atoms total_atoms2596
Residues n_residues316
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 dmax60.0
Rg (real space) rg_real19.68
Rg uncertainty (real space) rg_real_error0.26
I(0) (real space) i0_real2.3230e+07
I(0) uncertainty (real space) i0_real_error2.7080e+05
Rg (reciprocal space) rg_reciprocal19.70
I(0) (reciprocal space) i0_reciprocal23230000.0000
Solution quality estimate total_estimate0.9042
Solution quality rating solution_quality EXCELLENT a EXCELLENT solution
P(r) peaks n_peaks2
Primary peak position r_peak_primary25.3
Skewness Skewness skewness0.123
Kurtosis Kurtosis kurtosis-0.483
Angular range angular_range— – 0.4000 −1
Current regularization parameter α current_alpha0.0000
Highest regularization parameter α highest_alpha6185000.0000
Real-space data points n_real_points72
GNOM version gnom_version4.1.3
Quality Criteria quality_criteria AN1: 0.000; Oscil: 0.930; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.986; Smooth: 0.974

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_idd4jira_
Class classc — Alpha and beta proteins (a/b)
Fold Fold foldc.1 — TIM beta/alpha-barrel
Superfamily Superfamily superfamilyc.1.7 — NAD(P)-linked oxidoreductase
Family Family familyc.1.7.1 — Aldo-keto reductases (NADP)

CATH v4.4 (1 domains)

Domain ID domain_id4jirA00
Class class3 — Alpha Beta
Architecture architecture20 — Alpha-Beta Barrel
Topology topology20 — TIM Barrel
Homologous superfamily homologous superfamily100 — NADP-dependent oxidoreductase domain

8. Citations (1)

9. Files and Curves (10)