11te

Crystal Structure of ATP phosphoribosyltransferase from Bordetella pertussis

Method: X-RAY DIFFRACTION Dmax: 65.1 Å Quality: GOOD

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

ATP phosphoribosyltransferase

Bordetella pertussis Tohama I

UniProt Q7VSZ2

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 5–223 Fragment:A5-A223 SO4 SULFATE ION × 3 CL CHLORIDE ION × 1 GOL GLYCEROL × 1 X-RAY DIFFRACTION X-ray crystallization conditions:VAPOR DIFFUSION, SITTING DROP;pH 8;291 K;Proplex G4: 100 mM Tris, pH 8.0, 2 M Ammonium sulfate. BopeA.19523.a.B2.PW39511 at 21.3 mg/mL. 2 mM AMP and 4 mM MgCl2 added prior to crystallization but no electron density was observed for these. plate 20737 G4 drop 2, Puck: PSL-1515, Cryo: 70% crystallant + 30% glycerol Resolution 1.55 Å R-free 0.219
2 Protein homooligomer Homooligomer Protein × 2 PDB declaration: dimeric(2) Consistent with protein copy count Chain A; UniProt 5–223 Fragment:A5-A223 SO4 SULFATE ION × 6 CL CHLORIDE ION × 2 GOL GLYCEROL × 2 X-RAY DIFFRACTION X-ray crystallization conditions:VAPOR DIFFUSION, SITTING DROP;pH 8;291 K;Proplex G4: 100 mM Tris, pH 8.0, 2 M Ammonium sulfate. BopeA.19523.a.B2.PW39511 at 21.3 mg/mL. 2 mM AMP and 4 mM MgCl2 added prior to crystallization but no electron density was observed for these. plate 20737 G4 drop 2, Puck: PSL-1515, Cryo: 70% crystallant + 30% glycerol Resolution 1.55 Å R-free 0.219

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 HIS1_BORPE
Isoform
PDB entities 1
Chains and sequence ranges Author chain A; PDBConstruct 9–227; UniProt 5–223

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 11te

P(r) Distance Distribution P(r) Distribution

P(r) distribution for 11te
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2. Structure Basics 2. Structure Basics

Entry ID entry_id11te
Deposition date deposition_date2026-03-12
最后修订 last_revision2026-03-25
Structure title titleCrystal Structure of ATP phosphoribosyltransferase from Bordetella pertussis
Keywords keywords;SSGCID, STRUCTURAL GENOMICS, SEATTLE STRUCTURAL GENOMICS CENTER FOR INFECTIOUS DISEASE, ATP phosphoribosyltransferase, Bordetella pertussis, TRANSFERASE ;; TRANSFERASE
Experimental Method methodX-RAY DIFFRACTION

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

Radius of gyration Rg (Guinier) rg_guinier19.88
Radius of gyration Rg (electron density) rg_electron19.07
Forward intensity I(0) i09271570.00
Molecular weight molecular_weight22479.0 kDa
Excluded volume excluded_volume28220 ų
Envelope volume envelope_volume33539 ų
Hydration-shell volume shell_volume15575 ų
Envelope diameter envelope_diameter66.8
Shell Rg shell_rg23.97
Envelope Rg envelope_rg19.20
Shape Rg shape_rg19.10
Total Rg total_rg19.76
Total atoms total_atoms1575
Residues n_residues210
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 dmax65.1
Rg (real space) rg_real19.96
Rg uncertainty (real space) rg_real_error0.47
I(0) (real space) i0_real9.2720e+06
I(0) uncertainty (real space) i0_real_error1.1510e+05
Rg (reciprocal space) rg_reciprocal19.95
I(0) (reciprocal space) i0_reciprocal9272000.0000
Solution quality estimate total_estimate0.7936
Solution quality rating solution_quality GOOD a GOOD solution
P(r) peaks n_peaks2
Primary peak position r_peak_primary21.1
Skewness Skewness skewness0.447
Kurtosis Kurtosis kurtosis-0.300
Angular range angular_range— – 0.4000 −1
Current regularization parameter α current_alpha0.0000
Highest regularization parameter α highest_alpha2043000.0000
Real-space data points n_real_points72
GNOM version gnom_version4.1.3
Quality Criteria quality_criteria AN1: 0.000; Oscil: 0.790; Stabil: 0.999; Sysdev: 1.000; Positv: 1.000; Valcen: 0.944; Smooth: 0.000

5. Crystallography and Experiment 5. Crystallography & Experiment

6. Entities and Polymers Entities & Polymers (5)

8. Citations (1)

9. Files and Curves (10)