2a31

Trypsin in complex with borate

Method: X-RAY DIFFRACTION Dmax: 52.2 Å Quality: EXCELLENT

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

Trypsin

OrganismNot specified

UniProt P00761

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 9–231 Not recorded CA CALCIUM ION × 1 MG MAGNESIUM ION × 3 NA SODIUM ION × 1 SO4 SULFATE ION × 1 BO4 BORATE ION × 2 PG3 GUANIDINE-3-PROPANOL × 1 X-RAY DIFFRACTION X-ray crystallization conditions:VAPOR DIFFUSION, HANGING DROP;pH 8;300 K;MgSO4, HEPES, CaCl2, pH 8.0, VAPOR DIFFUSION, HANGING DROP, temperature 300K Resolution 1.25 Å R-free 0.162

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.

44 other PDB entries and 54 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name TRYP_PIG
Isoform
PDB entities 1
Chains and sequence ranges Author chain A; PDBConstruct 1–223; UniProt 9–231

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 2a31

P(r) Distance Distribution P(r) Distribution

P(r) distribution for 2a31
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2. Structure Basics 2. Structure Basics

Entry ID entry_id2a31
Deposition date deposition_date2005-06-23
Structure title titleTrypsin in complex with borate
Keywords keywordsHYDROLASE, Trypsin; HYDROLASE
Experimental Method methodX-RAY DIFFRACTION

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

Radius of gyration Rg (Guinier) rg_guinier17.28
Radius of gyration Rg (electron density) rg_electron16.13
Forward intensity I(0) i011229400.00
Molecular weight molecular_weight23911.0 kDa
Excluded volume excluded_volume29478 ų
Envelope volume envelope_volume32581 ų
Hydration-shell volume shell_volume16598 ų
Envelope diameter envelope_diameter52.7
Shell Rg shell_rg22.50
Envelope Rg envelope_rg16.46
Shape Rg shape_rg16.11
Total Rg total_rg17.17
Total atoms total_atoms3282
Residues n_residues220
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 dmax52.2
Rg (real space) rg_real17.16
Rg uncertainty (real space) rg_real_error0.25
I(0) (real space) i0_real1.1230e+07
I(0) uncertainty (real space) i0_real_error1.4470e+05
Rg (reciprocal space) rg_reciprocal17.17
I(0) (reciprocal space) i0_reciprocal11230000.0000
Solution quality estimate total_estimate0.9036
Solution quality rating solution_quality EXCELLENT a EXCELLENT solution
P(r) peaks n_peaks1
Primary peak position r_peak_primary51.6
Skewness Skewness skewness0.117
Kurtosis Kurtosis kurtosis-0.462
Angular range angular_range— – 0.4600 −1
Current regularization parameter α current_alpha0.0000
Highest regularization parameter α highest_alpha2954000.0000
Real-space data points n_real_points77
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: 0.985; Smooth: 0.967

5. Crystallography and Experiment 5. Crystallography & Experiment

6. Entities and Polymers Entities & Polymers (8)

7. Fold Classification (SCOP + CATH) 3 domains

SCOP 2.08 (1 domains)

Domain ID domain_idd2a31a_
Class classb — All beta proteins
Fold Fold foldb.47 — Trypsin-like serine proteases
Superfamily Superfamily superfamilyb.47.1 — Trypsin-like serine proteases
Family Family familyb.47.1.2 — Eukaryotic proteases

CATH v4.4 (2 domains)

Domain ID domain_id2a31A01
Class class2 — Mainly Beta
Architecture architecture40 — Beta Barrel
Topology topology10 — Thrombin, subunit H
Homologous superfamily homologous superfamily10 — Trypsin-like serine proteases
Domain ID domain_id2a31A02
Class class2 — Mainly Beta
Architecture architecture40 — Beta Barrel
Topology topology10 — Thrombin, subunit H
Homologous superfamily homologous superfamily10 — Trypsin-like serine proteases

8. Citations (2)

9. Files and Curves (10)