10af

Crystal Structure of cyclophilin B, from Brugia malayi (K5H/S166A mutant)

Method: X-RAY DIFFRACTION Dmax: 47.7 Å Quality: REASONABLE

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

Peptidyl-prolyl cis-trans isomerase

Brugia malayi

UniProt A0A0J9XUF2

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 1–171 Mutation:K5H, S166A SO4 SULFATE ION × 3 CL CHLORIDE ION × 3 X-RAY DIFFRACTION X-ray crystallization conditions:VAPOR DIFFUSION, SITTING DROP;pH 8.5;291 K;Index A5: 2.0 M Ammonium sulfate, 0.1 M HEPES pH 7.5. BrmaA.01375.b.B1.PS01744 at 31 mg/mL. plate 14177 A4 drop 2, Puck: BNL-OEP 001-008, Cryo: 80% crystallant + 20% PEG 200 Resolution 1.25 Å R-free 0.135

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.

No other PDB entry for the same UniProt protein was found.

View Construct and Data Evidence
UniProt name A0A0J9XUF2_BRUMA
Isoform
PDB entities 1
Chains and sequence ranges Author chain A; PDBConstruct 9–179; UniProt 1–171

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 10af

P(r) Distance Distribution P(r) Distribution

P(r) distribution for 10af
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2. Structure Basics 2. Structure Basics

Entry ID entry_id10af
Deposition date deposition_date2026-01-08
最后修订 last_revision2026-01-21
Structure title titleCrystal Structure of cyclophilin B, from Brugia malayi (K5H/S166A mutant)
Keywords keywordsSSGCID, STRUCTURAL GENOMICS, SEATTLE STRUCTURAL GENOMICS CENTER FOR INFECTIOUS DISEASE, cyclophilin B, TRANSFERASE; TRANSFERASE
Experimental Method methodX-RAY DIFFRACTION

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

Radius of gyration Rg (Guinier) rg_guinier16.03
Radius of gyration Rg (electron density) rg_electron14.58
Forward intensity I(0) i07484530.00
Molecular weight molecular_weight18745.0 kDa
Excluded volume excluded_volume22924 ų
Envelope volume envelope_volume25350 ų
Hydration-shell volume shell_volume14361 ų
Envelope diameter envelope_diameter46.6
Shell Rg shell_rg20.86
Envelope Rg envelope_rg14.86
Shape Rg shape_rg14.51
Total Rg total_rg15.85
Total atoms total_atoms1306
Residues n_residues170
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 dmax47.7
Rg (real space) rg_real15.88
Rg uncertainty (real space) rg_real_error0.18
I(0) (real space) i0_real7.4850e+06
I(0) uncertainty (real space) i0_real_error8.2570e+04
Rg (reciprocal space) rg_reciprocal15.89
I(0) (reciprocal space) i0_reciprocal7485000.0000
Solution quality estimate total_estimate0.7417
Solution quality rating solution_quality REASONABLE a REASONABLE solution
P(r) peaks n_peaks2
Primary peak position r_peak_primary21.1
Skewness Skewness skewness0.027
Kurtosis Kurtosis kurtosis-0.482
Angular range angular_range— – 0.4950 −1
Current regularization parameter α current_alpha0.0000
Highest regularization parameter α highest_alpha1530000.0000
Real-space data points n_real_points80
GNOM version gnom_version4.1.3
Quality Criteria quality_criteria AN1: 0.000; Oscil: 0.928; Stabil: 1.000; Sysdev: 0.302; Positv: 1.000; Valcen: 0.974; Smooth: 0.972

5. Crystallography and Experiment 5. Crystallography & Experiment

6. Entities and Polymers Entities & Polymers (4)

8. Citations (1)

9. Files and Curves (10)