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2b4k

Acetobacter turbidans alpha-amino acid ester hydrolase complexed with phenylglycine

Method: X-RAY DIFFRACTION
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1. Protein Identity and Related Structures Protein Identity & Related Structures

Alpha-amino acid ester hydrolase

Acetobacter pasteurianus

UniProt Q8VRK8

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein homooligomer Homooligomer Protein 4 D-PHENYLGLYCINE × 3 GLYCEROL × 4 water × 2 Consistent with protein count

Other States of the Same Protein in the Database

Monomer

None

Homodimer

None

Homotetramer
1nx9 1ryy 1ryy 2b4k 2b9v 2b9v 2b9v 2b9v

8 assemblies

Other homooligomers

None

Heteromeric or nucleic-acid complex

None

View Construct and Data Evidence
UniProt name Q8VRK8_ACEPA
Isoform —
PDB entities 1
Chains and sequence ranges Author chain A； PDBConstruct 1–627； UniProt 41–667 Author chain B； PDBConstruct 1–627； UniProt 41–667 Author chain C； PDBConstruct 1–627； UniProt 41–667 Author chain D； PDBConstruct 1–627； UniProt 41–667

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.

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2. Structure Basics 2. Structure Basics

Entry ID entry_id2b4k
Deposition date deposition_date2005-09-26
Structure title titleAcetobacter turbidans alpha-amino acid ester hydrolase complexed with phenylglycine
Keywords keywordsalpha-beta hydrolase, HYDROLASE; HYDROLASE
Experimental Method methodX-RAY DIFFRACTION
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3. Official assembly/model SAXS Official SAXS Profiles

This page reads only the latest assembly calculations. Every curve maps to an explicit PDB entry, official biological assembly and coordinate model.

2b4k__assembly_1__model_1

Assembly 1 · Model 1 · CRYSOL 4.1.3-1-20251215 (887e7ef)

Download this curve (.dat)

2b4k__assembly_1__model_1 | I(q)

10-2 10-1 106 107 108 109 q (1/Angstrom) I(q)
100 plotted points; both axes use logarithmic scales.

2b4k__assembly_1__model_1 | P(r) · Pending

The new assembly/model P(r) has not been calculated yet This placeholder does not display legacy data r (Angstrom) P(r)
P(r) will be calculated and displayed separately for the same assembly/model.
Rg（Guinier）40.08 Å
Rg (electron density)39.28 Å
Total Rg39.82 Å
Atom count19589
Residues2468
Excluded volume344850 ų
Maximum q0.500 Å⁻¹
Assembly Model Structure unit Oligomeric description Status CRYSOL Actions
1 1 2b4k__assembly_1__model_1 tetrameric （4） Success 4.1.3-1-20251215 (887e7ef) View Download
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4. Crystallography and Experiment 4. Crystallography & Experiment

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5. Entities and Polymers Entities & Polymers (4)

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6. Fold Classification (SCOP + CATH) 20 domains

SCOP 2.08 (8 domains)

Domain ID domain_idd2b4ka1
Class classb — All beta proteins
Fold Fold foldb.18 — Galactose-binding domain-like
Superfamily Superfamily superfamilyb.18.1 — Galactose-binding domain-like
Family Family familyb.18.1.13 — PepX C-terminal domain-like
Domain ID domain_idd2b4ka2
Class classc — Alpha and beta proteins (a/b)
Fold Fold foldc.69 — alpha/beta-Hydrolases
Superfamily Superfamily superfamilyc.69.1 — alpha/beta-Hydrolases
Family Family familyc.69.1.21 — PepX catalytic domain-like
Domain ID domain_idd2b4kb1
Class classb — All beta proteins
Fold Fold foldb.18 — Galactose-binding domain-like
Superfamily Superfamily superfamilyb.18.1 — Galactose-binding domain-like
Family Family familyb.18.1.13 — PepX C-terminal domain-like
Domain ID domain_idd2b4kb2
Class classc — Alpha and beta proteins (a/b)
Fold Fold foldc.69 — alpha/beta-Hydrolases
Superfamily Superfamily superfamilyc.69.1 — alpha/beta-Hydrolases
Family Family familyc.69.1.21 — PepX catalytic domain-like
Domain ID domain_idd2b4kc1
Class classb — All beta proteins
Fold Fold foldb.18 — Galactose-binding domain-like
Superfamily Superfamily superfamilyb.18.1 — Galactose-binding domain-like
Family Family familyb.18.1.13 — PepX C-terminal domain-like
Domain ID domain_idd2b4kc2
Class classc — Alpha and beta proteins (a/b)
Fold Fold foldc.69 — alpha/beta-Hydrolases
Superfamily Superfamily superfamilyc.69.1 — alpha/beta-Hydrolases
Family Family familyc.69.1.21 — PepX catalytic domain-like
Domain ID domain_idd2b4kd1
Class classb — All beta proteins
Fold Fold foldb.18 — Galactose-binding domain-like
Superfamily Superfamily superfamilyb.18.1 — Galactose-binding domain-like
Family Family familyb.18.1.13 — PepX C-terminal domain-like
Domain ID domain_idd2b4kd2
Class classc — Alpha and beta proteins (a/b)
Fold Fold foldc.69 — alpha/beta-Hydrolases
Superfamily Superfamily superfamilyc.69.1 — alpha/beta-Hydrolases
Family Family familyc.69.1.21 — PepX catalytic domain-like

CATH v4.4 (12 domains)

Domain ID domain_id2b4kA01
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology50 — Rossmann fold
Homologous superfamily homologous superfamily1820 — Alpha/Beta hydrolase fold, catalytic domain
Domain ID domain_id2b4kA02
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology3020 — alpha-amino acid ester hydrolase ( Helical cap domain)
Homologous superfamily homologous superfamily10 — alpha-amino acid ester hydrolase ( Helical cap domain)
Domain ID domain_id2b4kA03
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology120 — Jelly Rolls
Homologous superfamily homologous superfamily260 — Galactose-binding domain-like
Domain ID domain_id2b4kB01
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology50 — Rossmann fold
Homologous superfamily homologous superfamily1820 — Alpha/Beta hydrolase fold, catalytic domain
Domain ID domain_id2b4kB02
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology3020 — alpha-amino acid ester hydrolase ( Helical cap domain)
Homologous superfamily homologous superfamily10 — alpha-amino acid ester hydrolase ( Helical cap domain)
Domain ID domain_id2b4kB03
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology120 — Jelly Rolls
Homologous superfamily homologous superfamily260 — Galactose-binding domain-like
Domain ID domain_id2b4kC01
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology50 — Rossmann fold
Homologous superfamily homologous superfamily1820 — Alpha/Beta hydrolase fold, catalytic domain
Domain ID domain_id2b4kC02
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology3020 — alpha-amino acid ester hydrolase ( Helical cap domain)
Homologous superfamily homologous superfamily10 — alpha-amino acid ester hydrolase ( Helical cap domain)
Domain ID domain_id2b4kC03
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology120 — Jelly Rolls
Homologous superfamily homologous superfamily260 — Galactose-binding domain-like
Domain ID domain_id2b4kD01
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology50 — Rossmann fold
Homologous superfamily homologous superfamily1820 — Alpha/Beta hydrolase fold, catalytic domain
Domain ID domain_id2b4kD02
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology3020 — alpha-amino acid ester hydrolase ( Helical cap domain)
Homologous superfamily homologous superfamily10 — alpha-amino acid ester hydrolase ( Helical cap domain)
Domain ID domain_id2b4kD03
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology120 — Jelly Rolls
Homologous superfamily homologous superfamily260 — Galactose-binding domain-like
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7. Citations (1)