1gin

CRYSTAL STRUCTURE OF ADENYLOSUCCINATE SYNTHETASE FROM ESCHERICHIA COLI COMPLEXED WITH GDP, IMP, HADACIDIN, NO3-, AND MG2+. DATA COLLECTED AT 298K (PH 6.5).

Method: X-RAY DIFFRACTION Dmax: 72.3 Å Quality: GOOD

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

ADENYLOSUCCINATE SYNTHETASE

OrganismNot specified

UniProt P0A7D4

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 homooligomer Homooligomer Protein × 2 PDB declaration: dimeric(2) Consistent with protein copy count Chain A; UniProt 1–431 Not recorded MG MAGNESIUM ION × 2 NO3 NITRATE ION × 2 HDA HADACIDIN × 2 IMP INOSINIC ACID × 2 GDP GUANOSINE-5'-DIPHOSPHATE × 2 X-RAY DIFFRACTION X-ray crystallization conditions:pH 6.5;pH 6.5 Resolution 2.80 Å R-free 0.232

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.

21 other PDB entries and 23 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name PURA_ECOLI
Isoform
PDB entities 1
Chains and sequence ranges Author chain A; PDBConstruct 1–431; UniProt 1–431

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 1gin

P(r) Distance Distribution P(r) Distribution

P(r) distribution for 1gin
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2. Structure Basics 2. Structure Basics

Entry ID entry_id1gin
Deposition date deposition_date1996-06-18
Structure title titleCRYSTAL STRUCTURE OF ADENYLOSUCCINATE SYNTHETASE FROM ESCHERICHIA COLI COMPLEXED WITH GDP, IMP, HADACIDIN, NO3-, AND MG2+. DATA COLLECTED AT 298K (PH 6.5).
Keywords keywordsLIGASE, PURINE NUCLEOTIDE BIOSYNTHESIS, GTP-HYDROLYZING ENZYMES; LIGASE
Experimental Method methodX-RAY DIFFRACTION

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

Radius of gyration Rg (Guinier) rg_guinier22.63
Radius of gyration Rg (electron density) rg_electron21.84
Forward intensity I(0) i040420500.00
Molecular weight molecular_weight48201.0 kDa
Excluded volume excluded_volume59959 ų
Envelope volume envelope_volume68246 ų
Hydration-shell volume shell_volume25693 ų
Envelope diameter envelope_diameter77.8
Shell Rg shell_rg29.25
Envelope Rg envelope_rg22.19
Shape Rg shape_rg21.85
Total Rg total_rg22.66
Total atoms total_atoms4154
Residues n_residues431
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 dmax72.3
Rg (real space) rg_real22.57
Rg uncertainty (real space) rg_real_error0.43
I(0) (real space) i0_real4.0420e+07
I(0) uncertainty (real space) i0_real_error4.5440e+05
Rg (reciprocal space) rg_reciprocal22.58
I(0) (reciprocal space) i0_reciprocal40420000.0000
Solution quality estimate total_estimate0.8146
Solution quality rating solution_quality GOOD a GOOD solution
P(r) peaks n_peaks2
Primary peak position r_peak_primary27.4
Skewness Skewness skewness0.304
Kurtosis Kurtosis kurtosis-0.306
Angular range angular_range— – 0.3500 −1
Current regularization parameter α current_alpha0.0000
Highest regularization parameter α highest_alpha9099000.0000
Real-space data points n_real_points67
GNOM version gnom_version4.1.3
Quality Criteria quality_criteria AN1: 0.000; Oscil: 0.866; Stabil: 0.997; Sysdev: 1.000; Positv: 1.000; Valcen: 0.999; Smooth: 0.000

5. Crystallography and Experiment 5. Crystallography & Experiment

6. Entities and Polymers Entities & Polymers (7)

7. Fold Classification (SCOP + CATH) 4 domains

SCOP 2.08 (1 domains)

Domain ID domain_idd1gina_
Class classc — Alpha and beta proteins (a/b)
Fold Fold foldc.37 — P-loop containing nucleoside triphosphate hydrolases
Superfamily Superfamily superfamilyc.37.1 — P-loop containing nucleoside triphosphate hydrolases
Family Family familyc.37.1.10 — Nitrogenase iron protein-like

CATH v4.4 (3 domains)

Domain ID domain_id1ginA01
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology440 — Adenylosuccinate Synthetase; Chain A, domain 1
Homologous superfamily homologous superfamily10 — Adenylosuccinate Synthetase, subunit A, domain 1
Domain ID domain_id1ginA02
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology300 — Adenylosuccinate Synthetase, subunit A; domain 2
Homologous superfamily homologous superfamily10 — Adenylosuccinate Synthetase, subunit A, domain 2
Domain ID domain_id1ginA03
Class class3 — Alpha Beta
Architecture architecture90 — Alpha-Beta Complex
Topology topology170 — Adenylosuccinate Synthetase; Chain A, domain 3
Homologous superfamily homologous superfamily10 — Adenylosuccinate Synthetase, subunit A, domain 3

8. Citations (3)

9. Files and Curves (10)