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1jkv

Crystal Structure of Manganese Catalase from Lactobacillus plantarum complexed with azide

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

pseudocatalase

OrganismNot specified

UniProt P60355

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein homooligomer Homooligomer Protein 6 CALCIUM ION × 6 HYDROXIDE ION × 18 AZIDE ION × 6 MANGANESE (III) ION × 12 1,2-ETHANEDIOL × 15 water × 6 Consistent with protein count

Other States of the Same Protein in the Database

Monomer

None

Homodimer

None

Homotetramer

None

Other homooligomers
1jku 1jkv 1o9i

3 assemblies

Heteromeric or nucleic-acid complex

None

View Construct and Data Evidence
UniProt name MCAT_LACPL
Isoform —
PDB entities 1
Chains and sequence ranges Author chain A； PDBConstruct 1–266； UniProt 1–266 Author chain B； PDBConstruct 1–266； UniProt 1–266 Author chain C； PDBConstruct 1–266； UniProt 1–266 Author chain D； PDBConstruct 1–266； UniProt 1–266 Author chain E； PDBConstruct 1–266； UniProt 1–266 Author chain F； PDBConstruct 1–266； UniProt 1–266

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_id1jkv
Deposition date deposition_date2001-07-13
Structure title titleCrystal Structure of Manganese Catalase from Lactobacillus plantarum complexed with azide
Keywords keywordshexamer, catalase dimanganese, metalloenzyme, OXIDOREDUCTASE; OXIDOREDUCTASE
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.

1jkv__assembly_1__model_1

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

Download this curve (.dat)

1jkv__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.

1jkv__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）31.85 Å
Rg (electron density)30.87 Å
Total Rg31.62 Å
Atom count12618
Residues1596
Excluded volume221710 ų
Maximum q0.500 Å⁻¹
Assembly Model Structure unit Oligomeric description Status CRYSOL Actions
1 1 1jkv__assembly_1__model_1 hexameric （6） 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 (7)

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6. Fold Classification (SCOP + CATH) 18 domains

SCOP 2.08 (6 domains)

Domain ID domain_idd1jkva_
Class classa — All alpha proteins
Fold Fold folda.25 — Ferritin-like
Superfamily Superfamily superfamilya.25.1 — Ferritin-like
Family Family familya.25.1.3 — Manganese catalase (T-catalase)
Domain ID domain_idd1jkvb_
Class classa — All alpha proteins
Fold Fold folda.25 — Ferritin-like
Superfamily Superfamily superfamilya.25.1 — Ferritin-like
Family Family familya.25.1.3 — Manganese catalase (T-catalase)
Domain ID domain_idd1jkvc_
Class classa — All alpha proteins
Fold Fold folda.25 — Ferritin-like
Superfamily Superfamily superfamilya.25.1 — Ferritin-like
Family Family familya.25.1.3 — Manganese catalase (T-catalase)
Domain ID domain_idd1jkvd_
Class classa — All alpha proteins
Fold Fold folda.25 — Ferritin-like
Superfamily Superfamily superfamilya.25.1 — Ferritin-like
Family Family familya.25.1.3 — Manganese catalase (T-catalase)
Domain ID domain_idd1jkve_
Class classa — All alpha proteins
Fold Fold folda.25 — Ferritin-like
Superfamily Superfamily superfamilya.25.1 — Ferritin-like
Family Family familya.25.1.3 — Manganese catalase (T-catalase)
Domain ID domain_idd1jkvf_
Class classa — All alpha proteins
Fold Fold folda.25 — Ferritin-like
Superfamily Superfamily superfamilya.25.1 — Ferritin-like
Family Family familya.25.1.3 — Manganese catalase (T-catalase)

CATH v4.4 (12 domains)

Domain ID domain_id1jkvA01
Class class1 — Mainly Alpha
Architecture architecture20 — Up-down Bundle
Topology topology1260 — Ferritin
Homologous superfamily homologous superfamily10 — Ferritin, core subunit, four-helix bundle
Domain ID domain_id1jkvA02
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology1530 — manganese catalase, domain 2, chain A
Homologous superfamily homologous superfamily10 — manganese catalase, domain 2, chain A
Domain ID domain_id1jkvB01
Class class1 — Mainly Alpha
Architecture architecture20 — Up-down Bundle
Topology topology1260 — Ferritin
Homologous superfamily homologous superfamily10 — Ferritin, core subunit, four-helix bundle
Domain ID domain_id1jkvB02
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology1530 — manganese catalase, domain 2, chain A
Homologous superfamily homologous superfamily10 — manganese catalase, domain 2, chain A
Domain ID domain_id1jkvC01
Class class1 — Mainly Alpha
Architecture architecture20 — Up-down Bundle
Topology topology1260 — Ferritin
Homologous superfamily homologous superfamily10 — Ferritin, core subunit, four-helix bundle
Domain ID domain_id1jkvC02
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology1530 — manganese catalase, domain 2, chain A
Homologous superfamily homologous superfamily10 — manganese catalase, domain 2, chain A
Domain ID domain_id1jkvD01
Class class1 — Mainly Alpha
Architecture architecture20 — Up-down Bundle
Topology topology1260 — Ferritin
Homologous superfamily homologous superfamily10 — Ferritin, core subunit, four-helix bundle
Domain ID domain_id1jkvD02
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology1530 — manganese catalase, domain 2, chain A
Homologous superfamily homologous superfamily10 — manganese catalase, domain 2, chain A
Domain ID domain_id1jkvE01
Class class1 — Mainly Alpha
Architecture architecture20 — Up-down Bundle
Topology topology1260 — Ferritin
Homologous superfamily homologous superfamily10 — Ferritin, core subunit, four-helix bundle
Domain ID domain_id1jkvE02
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology1530 — manganese catalase, domain 2, chain A
Homologous superfamily homologous superfamily10 — manganese catalase, domain 2, chain A
Domain ID domain_id1jkvF01
Class class1 — Mainly Alpha
Architecture architecture20 — Up-down Bundle
Topology topology1260 — Ferritin
Homologous superfamily homologous superfamily10 — Ferritin, core subunit, four-helix bundle
Domain ID domain_id1jkvF02
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology1530 — manganese catalase, domain 2, chain A
Homologous superfamily homologous superfamily10 — manganese catalase, domain 2, chain A
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7. Citations (1)