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1gk1

Structure-based prediction of modifications in glutarylamidase to allow single-step enzymatic production of 7-aminocephalosporanic acid from cephalosporin C

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

CEPHALOSPORIN ACYLASE

PSEUDOMONAS SP.

UniProt O86089

State in the Current Structure

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

Other States of the Same Protein in the Database

Monomer
4e55 4e55 4e56 4e56 4e57 4e57

6 assemblies

Homodimer
1ghd

1 assemblies

Homotetramer
1ghd 1gk0 1gk0 1gk1 1gk1

5 assemblies

Other homooligomers

None

Heteromeric or nucleic-acid complex

None

View Construct and Data Evidence
UniProt name O86089_9PROT
Isoform —
PDB entities 1, 2
Chains and sequence ranges Author chain A； PDBConstruct 1–153； UniProt 36–188 Author chain C； PDBConstruct 1–153； UniProt 36–188 Author chain B； PDBConstruct 1–522； UniProt 199–720 Author chain D； PDBConstruct 1–522； UniProt 199–720

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_id1gk1
Deposition date deposition_date2001-08-07
Structure title titleStructure-based prediction of modifications in glutarylamidase to allow single-step enzymatic production of 7-aminocephalosporanic acid from cephalosporin C
Keywords keywordsHYDROLASE, CEPHALOSPORIN ACYLASE, GLUTARYL ACYLASE, CEPHALOSPORIN C, CATALYTIC TRIAD, NTN-HYDROLASE, X-RAZ STRUCTURE; 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.

1gk1__assembly_1__model_1

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

Download this curve (.dat)

1gk1__assembly_1__model_1 | I(q)

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

1gk1__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）41.41 Å
Rg (electron density)41.36 Å
Total Rg41.48 Å
Atom count10662
Residues1350
Excluded volume187030 ų
Maximum q0.500 Å⁻¹
Assembly Model Structure unit Oligomeric description Status CRYSOL Actions
1 1 1gk1__assembly_1__model_1 tetrameric （4） Success 4.1.3-1-20251215 (887e7ef) View Download
2 1 1gk1__assembly_2__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) 10 domains

SCOP 2.08 (2 domains)

Domain ID domain_idd1gk1.1
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.153 — Ntn hydrolase-like
Superfamily Superfamily superfamilyd.153.1 — N-terminal nucleophile aminohydrolases (Ntn hydrolases)
Family Family familyd.153.1.2 — Penicillin acylase, catalytic domain
Domain ID domain_idd1gk1.2
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.153 — Ntn hydrolase-like
Superfamily Superfamily superfamilyd.153.1 — N-terminal nucleophile aminohydrolases (Ntn hydrolases)
Family Family familyd.153.1.2 — Penicillin acylase, catalytic domain

CATH v4.4 (8 domains)

Domain ID domain_id1gk1A00
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology439 — Penicillin Amidohydrolase; domain 1
Homologous superfamily homologous superfamily10 — Penicillin Amidohydrolase, domain 1
Domain ID domain_id1gk1B01
Class class3 — Alpha Beta
Architecture architecture60 — 4-Layer Sandwich
Topology topology20 — Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1
Homologous superfamily homologous superfamily10 — Aminohydrolase, N-terminal nucleophile (Ntn) domain
Domain ID domain_id1gk1B02
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology1400 — Penicillin amidase (Acylase) alpha subunit, N-terminal domain
Homologous superfamily homologous superfamily10 — Aminohydrolase, alpha-helical knob region
Domain ID domain_id1gk1B03
Class class2 — Mainly Beta
Architecture architecture30 — Roll
Topology topology120 — Penicillin G acylase, beta-roll domain
Homologous superfamily homologous superfamily10 — Aminohydrolase, N-terminal nucleophile (Ntn) domain, beta-sheet knob region
Domain ID domain_id1gk1C00
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology439 — Penicillin Amidohydrolase; domain 1
Homologous superfamily homologous superfamily10 — Penicillin Amidohydrolase, domain 1
Domain ID domain_id1gk1D01
Class class3 — Alpha Beta
Architecture architecture60 — 4-Layer Sandwich
Topology topology20 — Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1
Homologous superfamily homologous superfamily10 — Aminohydrolase, N-terminal nucleophile (Ntn) domain
Domain ID domain_id1gk1D02
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology1400 — Penicillin amidase (Acylase) alpha subunit, N-terminal domain
Homologous superfamily homologous superfamily10 — Aminohydrolase, alpha-helical knob region
Domain ID domain_id1gk1D03
Class class2 — Mainly Beta
Architecture architecture30 — Roll
Topology topology120 — Penicillin G acylase, beta-roll domain
Homologous superfamily homologous superfamily10 — Aminohydrolase, N-terminal nucleophile (Ntn) domain, beta-sheet knob region
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7. Citations (1)