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1ye9

Crystal structure of proteolytically truncated catalase HPII from E. coli

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

catalase HPII

Escherichia coli

UniProt P21179

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein homooligomer Homooligomer Protein 8 CIS-HEME D HYDROXYCHLORIN GAMMA-SPIROLACTONE × 4 water × 8 Consistent with protein count
2 Protein homooligomer Homooligomer Protein 8 CIS-HEME D HYDROXYCHLORIN GAMMA-SPIROLACTONE × 4 water × 8 Consistent with protein count

Other States of the Same Protein in the Database

Monomer

None

Homodimer

None

Homotetramer
1cf9 1gg9 1gge 1ggf 1ggh 1ggj 1ggk 1iph 1p7y 1p7z 1p80 1p81

46 assemblies; showing the first 12

Other homooligomers
1ye9 1ye9

2 assemblies

Heteromeric or nucleic-acid complex
3vu3

1 assemblies

View Construct and Data Evidence
UniProt name CATE_ECOLI
Isoform —
PDB entities 1, 2
Chains and sequence ranges Author chain A； PDBConstruct 1–226； UniProt 75–300 Author chain B； PDBConstruct 1–226； UniProt 75–300 Author chain C； PDBConstruct 1–226； UniProt 75–300 Author chain D； PDBConstruct 1–226； UniProt 75–300 Author chain I； PDBConstruct 1–226； UniProt 75–300 Author chain J； PDBConstruct 1–226； UniProt 75–300 Author chain K； PDBConstruct 1–226； UniProt 75–300 Author chain L； PDBConstruct 1–226； UniProt 75–300 Author chain E； PDBConstruct 1–259； UniProt 309–567 Author chain F； PDBConstruct 1–259； UniProt 309–567 Author chain G； PDBConstruct 1–259； UniProt 309–567 Author chain H； PDBConstruct 1–259； UniProt 309–567 Author chain M； PDBConstruct 1–259； UniProt 309–567 Author chain N； PDBConstruct 1–259； UniProt 309–567 Author chain O； PDBConstruct 1–259； UniProt 309–567 Author chain P； PDBConstruct 1–259； UniProt 309–567

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_id1ye9
Deposition date deposition_date2004-12-28
Structure title titleCrystal structure of proteolytically truncated catalase HPII from E. coli
Keywords keywordscatalase HPII, proteolytic truncation, beta barrel core, 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.

1ye9__assembly_1__model_1

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

Download this curve (.dat)

1ye9__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.

1ye9__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）35.73 Å
Rg (electron density)35.24 Å
Total Rg35.88 Å
Atom count15736
Residues1916
Excluded volume276460 ų
Maximum q0.500 Å⁻¹
Assembly Model Structure unit Oligomeric description Status CRYSOL Actions
1 1 1ye9__assembly_1__model_1 octameric （8） Success 4.1.3-1-20251215 (887e7ef) View Download
2 1 1ye9__assembly_2__model_1 octameric （8） 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) 24 domains

CATH v4.4 (24 domains)

Domain ID domain_id1ye9A01
Class class6 — Special
Architecture architecture10 — Helix non-globular
Topology topology10 — Helicase, Ruva Protein; domain 3
Homologous superfamily homologous superfamily30 — Catalase hpii, N-terminal domain-like
Domain ID domain_id1ye9A02
Class class2 — Mainly Beta
Architecture architecture40 — Beta Barrel
Topology topology470 — catalase hpii fold
Homologous superfamily homologous superfamily10 — catalase hpii domain
Domain ID domain_id1ye9A03
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology10 — Arc Repressor Mutant, subunit A
Homologous superfamily homologous superfamily1060 — Catalase HPII, helical domain
Domain ID domain_id1ye9B01
Class class6 — Special
Architecture architecture10 — Helix non-globular
Topology topology10 — Helicase, Ruva Protein; domain 3
Homologous superfamily homologous superfamily30 — Catalase hpii, N-terminal domain-like
Domain ID domain_id1ye9B02
Class class2 — Mainly Beta
Architecture architecture40 — Beta Barrel
Topology topology470 — catalase hpii fold
Homologous superfamily homologous superfamily10 — catalase hpii domain
Domain ID domain_id1ye9B03
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology10 — Arc Repressor Mutant, subunit A
Homologous superfamily homologous superfamily1060 — Catalase HPII, helical domain
Domain ID domain_id1ye9C01
Class class6 — Special
Architecture architecture10 — Helix non-globular
Topology topology10 — Helicase, Ruva Protein; domain 3
Homologous superfamily homologous superfamily30 — Catalase hpii, N-terminal domain-like
Domain ID domain_id1ye9C02
Class class2 — Mainly Beta
Architecture architecture40 — Beta Barrel
Topology topology470 — catalase hpii fold
Homologous superfamily homologous superfamily10 — catalase hpii domain
Domain ID domain_id1ye9C03
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology10 — Arc Repressor Mutant, subunit A
Homologous superfamily homologous superfamily1060 — Catalase HPII, helical domain
Domain ID domain_id1ye9D01
Class class6 — Special
Architecture architecture10 — Helix non-globular
Topology topology10 — Helicase, Ruva Protein; domain 3
Homologous superfamily homologous superfamily30 — Catalase hpii, N-terminal domain-like
Domain ID domain_id1ye9D02
Class class2 — Mainly Beta
Architecture architecture40 — Beta Barrel
Topology topology470 — catalase hpii fold
Homologous superfamily homologous superfamily10 — catalase hpii domain
Domain ID domain_id1ye9D03
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology10 — Arc Repressor Mutant, subunit A
Homologous superfamily homologous superfamily1060 — Catalase HPII, helical domain
Domain ID domain_id1ye9I01
Class class6 — Special
Architecture architecture10 — Helix non-globular
Topology topology10 — Helicase, Ruva Protein; domain 3
Homologous superfamily homologous superfamily30 — Catalase hpii, N-terminal domain-like
Domain ID domain_id1ye9I02
Class class2 — Mainly Beta
Architecture architecture40 — Beta Barrel
Topology topology470 — catalase hpii fold
Homologous superfamily homologous superfamily10 — catalase hpii domain
Domain ID domain_id1ye9I03
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology10 — Arc Repressor Mutant, subunit A
Homologous superfamily homologous superfamily1060 — Catalase HPII, helical domain
Domain ID domain_id1ye9J01
Class class6 — Special
Architecture architecture10 — Helix non-globular
Topology topology10 — Helicase, Ruva Protein; domain 3
Homologous superfamily homologous superfamily30 — Catalase hpii, N-terminal domain-like
Domain ID domain_id1ye9J02
Class class2 — Mainly Beta
Architecture architecture40 — Beta Barrel
Topology topology470 — catalase hpii fold
Homologous superfamily homologous superfamily10 — catalase hpii domain
Domain ID domain_id1ye9J03
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology10 — Arc Repressor Mutant, subunit A
Homologous superfamily homologous superfamily1060 — Catalase HPII, helical domain
Domain ID domain_id1ye9K01
Class class6 — Special
Architecture architecture10 — Helix non-globular
Topology topology10 — Helicase, Ruva Protein; domain 3
Homologous superfamily homologous superfamily30 — Catalase hpii, N-terminal domain-like
Domain ID domain_id1ye9K02
Class class2 — Mainly Beta
Architecture architecture40 — Beta Barrel
Topology topology470 — catalase hpii fold
Homologous superfamily homologous superfamily10 — catalase hpii domain
Domain ID domain_id1ye9K03
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology10 — Arc Repressor Mutant, subunit A
Homologous superfamily homologous superfamily1060 — Catalase HPII, helical domain
Domain ID domain_id1ye9L01
Class class6 — Special
Architecture architecture10 — Helix non-globular
Topology topology10 — Helicase, Ruva Protein; domain 3
Homologous superfamily homologous superfamily30 — Catalase hpii, N-terminal domain-like
Domain ID domain_id1ye9L02
Class class2 — Mainly Beta
Architecture architecture40 — Beta Barrel
Topology topology470 — catalase hpii fold
Homologous superfamily homologous superfamily10 — catalase hpii domain
Domain ID domain_id1ye9L03
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology10 — Arc Repressor Mutant, subunit A
Homologous superfamily homologous superfamily1060 — Catalase HPII, helical domain
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7. Citations (1)