5jb7

A simplified BPTI variant containing 24 alanines out of 58 residues

Method: X-RAY DIFFRACTION Dmax: 52.6 Å Quality: EXCELLENT

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

Pancreatic trypsin inhibitor

Bos taurus

UniProt P00974

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 36–93 Mutation:C49G,C73V,M87L SO4 SULFATE ION × 2 X-RAY DIFFRACTION X-ray crystallization conditions:VAPOR DIFFUSION, HANGING DROP;pH 8.5;293 K;PEG 4000, LITHIUM SULFATE, TRIS-HCL Resolution 1.90 Å R-free 0.235
2 Protein monomer Monomer Protein × 1 PDB declaration: monomeric(1) Consistent with protein copy count Chain B; UniProt 36–93 Mutation:C49G,C73V,M87L SO4 SULFATE ION × 1 X-RAY DIFFRACTION X-ray crystallization conditions:VAPOR DIFFUSION, HANGING DROP;pH 8.5;293 K;PEG 4000, LITHIUM SULFATE, TRIS-HCL Resolution 1.90 Å R-free 0.235
3 Protein monomer Monomer Protein × 1 PDB declaration: monomeric(1) Consistent with protein copy count Chain C; UniProt 36–93 Mutation:C49G,C73V,M87L SO4 SULFATE ION × 2 X-RAY DIFFRACTION X-ray crystallization conditions:VAPOR DIFFUSION, HANGING DROP;pH 8.5;293 K;PEG 4000, LITHIUM SULFATE, TRIS-HCL Resolution 1.90 Å R-free 0.235

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.

123 other PDB entries and 263 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name BPT1_BOVIN
Isoform
PDB entities 1
Chains and sequence ranges Author chain A; PDBConstruct 1–58; UniProt 36–93 Author chain B; PDBConstruct 1–58; UniProt 36–93 Author chain C; PDBConstruct 1–58; UniProt 36–93

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 5jb7

P(r) Distance Distribution P(r) Distribution

P(r) distribution for 5jb7
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2. Structure Basics 2. Structure Basics

Entry ID entry_id5jb7
Deposition date deposition_date2016-04-13
Structure title titleA simplified BPTI variant containing 24 alanines out of 58 residues
Keywords keywordsBovine pancreatic trypsin inhibitor variant, sequence simplification, 24 alanines, protein design, HYDROLASE INHIBITOR; HYDROLASE INHIBITOR
Experimental Method methodX-RAY DIFFRACTION

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

Radius of gyration Rg (Guinier) rg_guinier17.86
Radius of gyration Rg (electron density) rg_electron16.98
Forward intensity I(0) i06075080.00
Molecular weight molecular_weight17361.0 kDa
Excluded volume excluded_volume21450 ų
Envelope volume envelope_volume26250 ų
Hydration-shell volume shell_volume13425 ų
Envelope diameter envelope_diameter52.6
Shell Rg shell_rg22.07
Envelope Rg envelope_rg16.84
Shape Rg shape_rg16.94
Total Rg total_rg17.98
Total atoms total_atoms1219
Residues n_residues172
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 dmax52.6
Rg (real space) rg_real17.73
Rg uncertainty (real space) rg_real_error0.24
I(0) (real space) i0_real6.0750e+06
I(0) uncertainty (real space) i0_real_error6.2570e+04
Rg (reciprocal space) rg_reciprocal17.75
I(0) (reciprocal space) i0_reciprocal6075000.0000
Solution quality estimate total_estimate0.9164
Solution quality rating solution_quality EXCELLENT a EXCELLENT solution
P(r) peaks n_peaks2
Primary peak position r_peak_primary26.3
Skewness Skewness skewness-0.014
Kurtosis Kurtosis kurtosis-0.674
Angular range angular_range— – 0.4450 −1
Current regularization parameter α current_alpha0.0000
Highest regularization parameter α highest_alpha960600.0000
Real-space data points n_real_points75
GNOM version gnom_version4.1.3
Quality Criteria quality_criteria AN1: 0.000; Oscil: 0.972; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.999; Smooth: 0.993

5. Crystallography and Experiment 5. Crystallography & Experiment

6. Entities and Polymers Entities & Polymers (3)

7. Fold Classification (SCOP + CATH) 3 domains

CATH v4.4 (3 domains)

Domain ID domain_id5jb7A00
Class class4 — Few Secondary Structures
Architecture architecture10 — Irregular
Topology topology410 — Factor Xa Inhibitor
Homologous superfamily homologous superfamily10 — Pancreatic trypsin inhibitor Kunitz domain
Domain ID domain_id5jb7B00
Class class4 — Few Secondary Structures
Architecture architecture10 — Irregular
Topology topology410 — Factor Xa Inhibitor
Homologous superfamily homologous superfamily10 — Pancreatic trypsin inhibitor Kunitz domain
Domain ID domain_id5jb7C00
Class class4 — Few Secondary Structures
Architecture architecture10 — Irregular
Topology topology410 — Factor Xa Inhibitor
Homologous superfamily homologous superfamily10 — Pancreatic trypsin inhibitor Kunitz domain

8. Citations (1)

9. Files and Curves (10)