← Back to search
1poo

THERMOSTABLE PHYTASE FROM BACILLUS SP

Method: X-RAY DIFFRACTION Dmax: 64.2 Å Quality: GOOD
▼

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

PROTEIN (PHYTASE)

Bacillus amyloliquefaciens

UniProt O66037

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 29–383 Not recorded CA CALCIUM ION × 2 X-RAY DIFFRACTION X-ray crystallization conditions：pH 6.5；20% MPD, 0.1M MES (PH 6.5) Resolution 2.10 Å R-free 0.291

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.

Other PDB Difference from Current Entry 1POO Assembly / Oligomeric State Construct Mutations and Modifications Ligands, Ions and Non-polymers Method and Experimental Conditions Structure Quality
1CVM CADMIUM INHIBITED CRYSTAL STRUCTURE OF PHYTASE FROM BACILLUS AMYLOLIQUEFACIENS Deposited 1999-08-24 Different construct Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric
Chain A 29–381（353 aa）
Not recorded CA CALCIUM ION × 3 CD CADMIUM ION × 5 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6.5；277 K；10% MPD 0.1M MES pH 6.5 2mM CdCl2, VAPOR DIFFUSION, HANGING DROP, temperature 4K
Resolution 2.40 Å R-free 0.274
1H6L beta-propeller phytase in complex with phosphate and calcium ions Deposited 2001-06-19 Different construct Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric
Chain A 29–381（353 aa）
Not recorded CA CALCIUM ION × 7 PO4 PHOSPHATE ION × 2 X-RAY DIFFRACTION
X-ray crystallization conditions pH 6.5；pH 6.50
Resolution 1.80 Å R-free 0.223
1QLG Crystal structure of phytase with magnesium from Bacillus amyloliquefaciens Deposited 1999-08-31 Different construct Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric
Chain A 29–381（353 aa）
Not recorded CA CALCIUM ION × 3 MG MAGNESIUM ION × 2 X-RAY DIFFRACTION
X-ray crystallization conditions pH 6.5；pH 6.50
Resolution 2.20 Å R-free 0.265
2POO THERMOSTABLE PHYTASE IN FULLY CALCIUM LOADED STATE Deposited 1999-04-16 Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric
Chain A 29–383（355 aa）
Not recorded CA CALCIUM ION × 6 X-RAY DIFFRACTION
X-ray crystallization conditions pH 6.5；pH 6.50
Resolution 2.05 Å R-free 0.262

4 other PDB entries and 4 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name PHYT_BACSD
Isoform —
PDB entities 1
Chains and sequence ranges Author chain A； PDBConstruct 1–355； UniProt 29–383

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 1poo

P(r) Distance Distribution P(r) Distribution

P(r) distribution for 1poo
Download Download
▼

2. Structure Basics 2. Structure Basics

Entry ID entry_id1poo
Deposition date deposition_date1999-04-16
Structure title titleTHERMOSTABLE PHYTASE FROM BACILLUS SP
Keywords keywordsPHYTASEPHYTASE, PHOSPHATASE, THERMOSTABLE, BACILLUS, HYDROLASE; HYDROLASE
Experimental Method methodX-RAY DIFFRACTION
▼

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

Radius of gyration Rg (Guinier) rg_guinier20.08 Å
Radius of gyration Rg (electron density) rg_electron18.87 Å
Forward intensity I(0) i027030400.00
Molecular weight molecular_weight38825.0 kDa
Excluded volume excluded_volume47994 ų
Envelope volume envelope_volume54732 ų
Hydration-shell volume shell_volume23202 ų
Envelope diameter envelope_diameter66.9 Å
Shell Rg shell_rg26.32 Å
Envelope Rg envelope_rg19.21 Å
Shape Rg shape_rg18.86 Å
Total Rg total_rg19.83 Å
Total atoms total_atoms2738
Residues n_residues353
Spherical-harmonic order n_harmonics20
q range q_range— – 0.5000 Å−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 dmax64.2 Å
Rg (real space) rg_real19.92 Å
Rg uncertainty (real space) rg_real_error0.29 Å
I(0) (real space) i0_real2.7030e+07
I(0) uncertainty (real space) i0_real_error3.0030e+05
Rg (reciprocal space) rg_reciprocal19.95 Å
I(0) (reciprocal space) i0_reciprocal27030000.0000
Solution quality estimate total_estimate0.8806
Solution quality rating solution_quality GOOD a GOOD solution
P(r) peaks n_peaks2
Primary peak position r_peak_primary26.6 Å
Skewness Skewness skewness0.076
Kurtosis Kurtosis kurtosis-0.418
Angular range angular_range— – 0.3950 Å−1
Current regularization parameter α current_alpha0.0000
Highest regularization parameter α highest_alpha9461000.0000
Real-space data points n_real_points71
GNOM version gnom_version4.1.3
Quality Criteria quality_criteria AN1: 0.000; Oscil: 0.823; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.978; Smooth: 0.998
▶

5. Crystallography and Experiment 5. Crystallography & Experiment

▶

6. Entities and Polymers Entities & Polymers (3)

▼

7. Fold Classification (SCOP + CATH) 2 domains

SCOP 2.08 (1 domains)

Domain ID domain_idd1pooa_
Class classb — All beta proteins
Fold Fold foldb.68 — 6-bladed beta-propeller
Superfamily Superfamily superfamilyb.68.3 — Thermostable phytase (3-phytase)
Family Family familyb.68.3.1 — Thermostable phytase (3-phytase)

CATH v4.4 (1 domains)

Domain ID domain_id1pooA00
Class class2 — Mainly Beta
Architecture architecture120 — 6 Propeller
Topology topology10 — Neuraminidase
Homologous superfamily homologous superfamily30 — TolB, C-terminal domain
▶

8. Citations (1)

▶

9. Files and Curves (10)