4pyw

1.92 angstrom crystal structure of A1AT:TTAI ternary complex

Method: X-RAY DIFFRACTION Dmax: 75.7 Å Quality: GOOD

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

Alpha-1-antitrypsin

Homo sapiens

UniProt P01009

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 heterocomplex Heteromer Protein × 3 PDB declaration: trimeric(3) Consistent with protein copy count Chain A; UniProt 26–418 Not recorded ACE-THR-THR-ALA-ILE-NH2 × 2 GOL GLYCEROL × 2 X-RAY DIFFRACTION X-ray crystallization conditions:VAPOR DIFFUSION, HANGING DROP;pH 6.5;289 K;26% PEG3350, 0.1 M Bis-Tris pH6.5, VAPOR DIFFUSION, HANGING DROP, temperature 289K Resolution 1.91 Å R-free 0.225

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.

45 other PDB entries and 55 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name A1AT_HUMAN
Isoform
PDB entities 1
Chains and sequence ranges Author chain A; PDBConstruct 12–404; UniProt 26–418

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 4pyw

P(r) Distance Distribution P(r) Distribution

P(r) distribution for 4pyw
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2. Structure Basics 2. Structure Basics

Entry ID entry_id4pyw
Deposition date deposition_date2014-03-28
Structure title title1.92 angstrom crystal structure of A1AT:TTAI ternary complex
Keywords keywordsSerpin, 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_guinier22.53
Radius of gyration Rg (electron density) rg_electron21.27
Forward intensity I(0) i027385700.00
Molecular weight molecular_weight41822.0 kDa
Excluded volume excluded_volume53115 ų
Envelope volume envelope_volume61769 ų
Hydration-shell volume shell_volume24065 ų
Envelope diameter envelope_diameter84.0
Shell Rg shell_rg28.21
Envelope Rg envelope_rg21.71
Shape Rg shape_rg21.23
Total Rg total_rg22.32
Total atoms total_atoms2949
Residues n_residues370
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 dmax75.7
Rg (real space) rg_real22.49
Rg uncertainty (real space) rg_real_error0.55
I(0) (real space) i0_real2.7390e+07
I(0) uncertainty (real space) i0_real_error3.7940e+05
Rg (reciprocal space) rg_reciprocal22.50
I(0) (reciprocal space) i0_reciprocal27390000.0000
Solution quality estimate total_estimate0.7927
Solution quality rating solution_quality GOOD a GOOD solution
P(r) peaks n_peaks3
Primary peak position r_peak_primary27.5
Skewness Skewness skewness0.340
Kurtosis Kurtosis kurtosis-0.239
Angular range angular_range— – 0.3550 −1
Current regularization parameter α current_alpha0.0000
Highest regularization parameter α highest_alpha7792000.0000
Real-space data points n_real_points67
GNOM version gnom_version4.1.3
Quality Criteria quality_criteria AN1: 0.000; Oscil: 0.767; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 1.000; Smooth: 0.000

5. Crystallography and Experiment 5. Crystallography & Experiment

6. Entities and Polymers Entities & Polymers (4)

7. Fold Classification (SCOP + CATH) 2 domains

CATH v4.4 (2 domains)

Domain ID domain_id4pywA01
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology497 — Antithrombin; Chain I, domain 2
Homologous superfamily homologous superfamily10 — Antithrombin, subunit I, domain 2
Domain ID domain_id4pywA02
Class class2 — Mainly Beta
Architecture architecture30 — Roll
Topology topology39 — Alpha-1-antitrypsin; domain 1
Homologous superfamily homologous superfamily10 — Alpha-1-antitrypsin, domain 1

8. Citations (1)

9. Files and Curves (10)