← Back to search
1ay8

AROMATIC AMINO ACID AMINOTRANSFERASE COMPLEX WITH 3-PHENYLPROPIONATE

Method: X-RAY DIFFRACTION Dmax: 99.1 Å Quality: GOOD
▼

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

AROMATIC AMINO ACID AMINOTRANSFERASE

Paracoccus denitrificans

UniProt P95468

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 1–394 Chain B； UniProt 1–394 Not recorded PLP PYRIDOXAL-5'-PHOSPHATE × 2 HCI HYDROCINNAMIC ACID × 1 X-RAY DIFFRACTION X-ray crystallization conditions：pH 5.6；PROTEIN WAS CRYSTALLIZED FROM 18.0% PEG 4000, 0.2 M SODIUM MALEATE, PH 5.6; THEN SOAKED IN 20.0% PEG 4000, 0.2 M SODIUM CITRATE, 0.1 M 3-PHENYLPROPIONATE, PH 5.6 Resolution 2.30 Å R-free 0.239

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 1AY8 Assembly / Oligomeric State Construct Mutations and Modifications Ligands, Ions and Non-polymers Method and Experimental Conditions Structure Quality
1AY4 AROMATIC AMINO ACID AMINOTRANSFERASE WITHOUT SUBSTRATE Deposited 1997-11-14 Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein homooligomer Homooligomer；Protein × 2 PDB declaration: dimeric
Chain A 1–394（394 aa）
Chain B 1–394（394 aa）
Not recorded PLP PYRIDOXAL-5'-PHOSPHATE × 2 X-RAY DIFFRACTION
X-ray crystallization conditions pH 5.7；PROTEIN WAS CRYSTALLIZED FROM 16.5% PEG 4000, 0.4 M SODIUM ACETATE, PH 5.7
Resolution 2.33 Å R-free 0.237
1AY5 AROMATIC AMINO ACID AMINOTRANSFERASE COMPLEX WITH MALEATE Deposited 1997-11-14 Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein homooligomer Homooligomer；Protein × 2 PDB declaration: dimeric
Chain A 1–394（394 aa）
Chain B 1–394（394 aa）
Not recorded PLP PYRIDOXAL-5'-PHOSPHATE × 2 MAE MALEIC ACID × 2 X-RAY DIFFRACTION
X-ray crystallization conditions pH 5.6；PROTEIN WAS CRYSTALLIZED FROM 18.0% PEG 4000, 0.2 M SODIUM MALEATE, PH 5.6
Resolution 2.50 Å R-free 0.245
2AY1 AROMATIC AMINO ACID AMINOTRANSFERASE WITH 4-AMINOHYDROCINNAMIC ACID Deposited 1998-08-06 Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein homooligomer Homooligomer；Protein × 2 PDB declaration: dimeric
Chain A 1–394（394 aa）
Chain B 1–394（394 aa）
Not recorded PLP PYRIDOXAL-5'-PHOSPHATE × 2 AHC 4-AMINOHYDROCINNAMIC ACID × 1 X-RAY DIFFRACTION
X-ray crystallization conditions pH 5.7；pH 5.7
Resolution 2.20 Å R-free 0.240
2AY2 AROMATIC AMINO ACID AMINOTRANSFERASE WITH CYCLOHEXANE PROPIONIC ACID Deposited 1998-08-06 Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein homooligomer Homooligomer；Protein × 2 PDB declaration: dimeric
Chain A 1–394（394 aa）
Chain B 1–394（394 aa）
Not recorded PLP PYRIDOXAL-5'-PHOSPHATE × 2 CXP CYCLOHEXANE PROPIONIC ACID × 1 X-RAY DIFFRACTION
X-ray crystallization conditions pH 6.4；pH 6.4
Resolution 2.40 Å R-free 0.234
2AY3 AROMATIC AMINO ACID AMINOTRANSFERASE WITH 3-(3,4-DIMETHOXYPHENYL)PROPIONIC ACID Deposited 1998-08-06 Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein homooligomer Homooligomer；Protein × 2 PDB declaration: dimeric
Chain A 1–394（394 aa）
Chain B 1–394（394 aa）
Not recorded PLP PYRIDOXAL-5'-PHOSPHATE × 2 MPP 3-(3,4-DIMETHOXYPHENYL)PROPIONIC ACID × 2 X-RAY DIFFRACTION
X-ray crystallization conditions pH 5.7；pH 5.7
Resolution 2.40 Å R-free 0.221
2AY4 AROMATIC AMINO ACID AMINOTRANSFERASE WITH 3-(P-TOLYL)PROPIONIC ACID Deposited 1998-08-06 Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein homooligomer Homooligomer；Protein × 2 PDB declaration: dimeric
Chain A 1–394（394 aa）
Chain B 1–394（394 aa）
Not recorded PLP PYRIDOXAL-5'-PHOSPHATE × 2 PPT 3-(P-TOLYL)PROPIONIC ACID × 1 X-RAY DIFFRACTION
X-ray crystallization conditions pH 6.2；pH 6.2
Resolution 2.20 Å R-free 0.230
2AY5 AROMATIC AMINO ACID AMINOTRANSFERASE WITH 3-INDOLEPROPIONIC ACID Deposited 1998-08-06 Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein homooligomer Homooligomer；Protein × 2 PDB declaration: dimeric
Chain A 1–394（394 aa）
Chain B 1–394（394 aa）
Not recorded PLP PYRIDOXAL-5'-PHOSPHATE × 2 IOP INDOLYLPROPIONIC ACID × 1 X-RAY DIFFRACTION
X-ray crystallization conditions pH 5.7；pH 5.7
Resolution 2.40 Å R-free 0.218
2AY6 AROMATIC AMINO ACID AMINOTRANSFERASE WITH 3-INDOLEBUTYRIC ACID Deposited 1998-08-06 Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein homooligomer Homooligomer；Protein × 2 PDB declaration: dimeric
Chain A 1–394（394 aa）
Chain B 1–394（394 aa）
Not recorded PLP PYRIDOXAL-5'-PHOSPHATE × 2 3IB 3-INDOLEBUTYRIC ACID × 1 X-RAY DIFFRACTION
X-ray crystallization conditions pH 5.8；pH 5.8
Resolution 2.20 Å R-free 0.258
2AY7 AROMATIC AMINO ACID AMINOTRANSFERASE WITH 4-PHENYLBUTYRIC ACID Deposited 1998-08-06 Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein homooligomer Homooligomer；Protein × 2 PDB declaration: dimeric
Chain A 1–394（394 aa）
Chain B 1–394（394 aa）
Not recorded PLP PYRIDOXAL-5'-PHOSPHATE × 2 CLT 4-PHENYL-BUTANOIC ACID × 1 X-RAY DIFFRACTION
X-ray crystallization conditions pH 5.7；pH 5.7
Resolution 2.40 Å R-free 0.219
2AY8 AROMATIC AMINO ACID AMINOTRANSFERASE WITH 4-(2-THIENYL)BUTYRIC ACID Deposited 1998-08-06 Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein homooligomer Homooligomer；Protein × 2 PDB declaration: dimeric
Chain A 1–394（394 aa）
Chain B 1–394（394 aa）
Not recorded PLP PYRIDOXAL-5'-PHOSPHATE × 2 4TB 4-(2-THIENYL)BUTYRIC ACID × 2 X-RAY DIFFRACTION
X-ray crystallization conditions pH 5.7；pH 5.7
Resolution 2.20 Å R-free 0.245
2AY9 AROMATIC AMINO ACID AMINOTRANSFERASE WITH 5-PHENYLVALERIC ACID Deposited 1998-08-06 Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein homooligomer Homooligomer；Protein × 2 PDB declaration: dimeric
Chain A 1–394（394 aa）
Chain B 1–394（394 aa）
Not recorded PLP PYRIDOXAL-5'-PHOSPHATE × 2 5PV 5-PHENYLVALERIC ACID × 2 X-RAY DIFFRACTION
X-ray crystallization conditions pH 6.5；pH 6.5
Resolution 2.50 Å R-free 0.253

11 other PDB entries and 11 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name TYRB_PARDE
Isoform —
PDB entities 1
Chains and sequence ranges Author chain A； PDBConstruct 1–394； UniProt 1–394 Author chain B； PDBConstruct 1–394； UniProt 1–394

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 1ay8

P(r) Distance Distribution P(r) Distribution

P(r) distribution for 1ay8
Download Download
▼

2. Structure Basics 2. Structure Basics

Entry ID entry_id1ay8
Deposition date deposition_date1997-11-14
Structure title titleAROMATIC AMINO ACID AMINOTRANSFERASE COMPLEX WITH 3-PHENYLPROPIONATE
Keywords keywordsTRANSFERASE, AMINOTRANSFERASE; TRANSFERASE
Experimental Method methodX-RAY DIFFRACTION
▼

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

Radius of gyration Rg (Guinier) rg_guinier28.93 Å
Radius of gyration Rg (electron density) rg_electron28.05 Å
Forward intensity I(0) i0118337000.00
Molecular weight molecular_weight85336.0 kDa
Excluded volume excluded_volume106600 ų
Envelope volume envelope_volume126810 ų
Hydration-shell volume shell_volume37421 ų
Envelope diameter envelope_diameter104.8 Å
Shell Rg shell_rg35.63 Å
Envelope Rg envelope_rg28.30 Å
Shape Rg shape_rg28.08 Å
Total Rg total_rg28.65 Å
Total atoms total_atoms5982
Residues n_residues782
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 dmax99.1 Å
Rg (real space) rg_real28.95 Å
Rg uncertainty (real space) rg_real_error0.62 Å
I(0) (real space) i0_real1.1830e+08
I(0) uncertainty (real space) i0_real_error1.5730e+06
Rg (reciprocal space) rg_reciprocal28.94 Å
I(0) (reciprocal space) i0_reciprocal118300000.0000
Solution quality estimate total_estimate0.8684
Solution quality rating solution_quality GOOD a GOOD solution
P(r) peaks n_peaks1
Primary peak position r_peak_primary32.4 Å
Skewness Skewness skewness0.427
Kurtosis Kurtosis kurtosis-0.127
Angular range angular_range— – 0.2750 Å−1
Current regularization parameter α current_alpha0.0000
Highest regularization parameter α highest_alpha58170000.0000
Real-space data points n_real_points56
GNOM version gnom_version4.1.3
Quality Criteria quality_criteria AN1: 0.000; Oscil: 0.782; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.963; Smooth: 0.976
▶

5. Crystallography and Experiment 5. Crystallography & Experiment

▶

6. Entities and Polymers Entities & Polymers (4)

▼

7. Fold Classification (SCOP + CATH) 6 domains

SCOP 2.08 (2 domains)

Domain ID domain_idd1ay8a_
Class classc — Alpha and beta proteins (a/b)
Fold Fold foldc.67 — PLP-dependent transferase-like
Superfamily Superfamily superfamilyc.67.1 — PLP-dependent transferases
Family Family familyc.67.1.1 — AAT-like
Domain ID domain_idd1ay8b_
Class classc — Alpha and beta proteins (a/b)
Fold Fold foldc.67 — PLP-dependent transferase-like
Superfamily Superfamily superfamilyc.67.1 — PLP-dependent transferases
Family Family familyc.67.1.1 — AAT-like

CATH v4.4 (4 domains)

Domain ID domain_id1ay8A01
Class class3 — Alpha Beta
Architecture architecture90 — Alpha-Beta Complex
Topology topology1150 — Aspartate Aminotransferase, domain 1
Homologous superfamily homologous superfamily10 — Aspartate Aminotransferase, domain 1
Domain ID domain_id1ay8A02
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology640 — Aspartate Aminotransferase; domain 2
Homologous superfamily homologous superfamily10 — Type I PLP-dependent aspartate aminotransferase-like (Major domain)
Domain ID domain_id1ay8B01
Class class3 — Alpha Beta
Architecture architecture90 — Alpha-Beta Complex
Topology topology1150 — Aspartate Aminotransferase, domain 1
Homologous superfamily homologous superfamily10 — Aspartate Aminotransferase, domain 1
Domain ID domain_id1ay8B02
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology640 — Aspartate Aminotransferase; domain 2
Homologous superfamily homologous superfamily10 — Type I PLP-dependent aspartate aminotransferase-like (Major domain)
▶

8. Citations (2)

▶

9. Files and Curves (10)