← Back to search
3vu3

Crystal structure of the Hfq and catalase HPII complex

Method: X-RAY DIFFRACTION
▼

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

Catalase HPII

OrganismNot specified

UniProt P21179

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein heterocomplex Heteromer Protein 28 Protein hfq × 24 （P0A6X3） PROTOPORPHYRIN IX CONTAINING FE × 4 water × 16 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
Chains and sequence ranges Author chain A； PDBConstruct 1–753； UniProt 1–753

Protein hfq

OrganismNot specified

UniProt P0A6X3

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein heterocomplex Heteromer Protein 28 Catalase HPII × 4 （P21179） PROTOPORPHYRIN IX CONTAINING FE × 4 water × 16 Consistent with protein count

Other States of the Same Protein in the Database

Monomer

None

Homodimer

None

Homotetramer

None

Other homooligomers
1hk9 2y90 2yht 2yht 3qhs 3qhs 3qo3 4jri 4jri 4jrk 4juv 4rcb

14 assemblies; showing the first 12

Heteromeric or nucleic-acid complex
3gib 3vu3 4v2s 9gu5 9h45

5 assemblies

View Construct and Data Evidence
UniProt name HFQ_ECOLI
Isoform —
PDB entities 2
Chains and sequence ranges Author chain C； PDBConstruct 1–102； UniProt 1–102 Author chain D； PDBConstruct 1–102； UniProt 1–102 Author chain E； PDBConstruct 1–102； UniProt 1–102 Author chain F； PDBConstruct 1–102； UniProt 1–102 Author chain G； PDBConstruct 1–102； UniProt 1–102 Author chain H； PDBConstruct 1–102； UniProt 1–102

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.

▼

2. Structure Basics 2. Structure Basics

Entry ID entry_id3vu3
Deposition date deposition_date2012-06-15
Structure title titleCrystal structure of the Hfq and catalase HPII complex
Keywords keywordshydroperoxidase HPII, RNA binding protein, OXIDOREDUCTASE-RNA BINDING PROTEIN complex; OXIDOREDUCTASE/RNA BINDING PROTEIN
Experimental Method methodX-RAY DIFFRACTION
▼

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.

3vu3__assembly_1__model_1

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

Download this curve (.dat)

3vu3__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.

3vu3__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）50.77 Å
Rg (electron density)50.63 Å
Total Rg51.12 Å
Atom count35248
Residues4416
Excluded volume628160 ų
Maximum q0.500 Å⁻¹
Assembly Model Structure unit Oligomeric description Status CRYSOL Actions
1 1 3vu3__assembly_1__model_1 28-meric （28） Success 4.1.3-1-20251215 (887e7ef) View Download
▶

4. Crystallography and Experiment 4. Crystallography & Experiment

▶

5. Entities and Polymers Entities & Polymers (4)

▼

6. Fold Classification (SCOP + CATH) 17 domains

SCOP 2.08 (8 domains)

Domain ID domain_idd3vu3a1
Class classe — Multi-domain proteins (alpha and beta)
Fold Fold folde.5 — Heme-dependent catalase-like
Superfamily Superfamily superfamilye.5.1 — Heme-dependent catalase-like
Family Family familye.5.1.1 — Heme-dependent catalases
Domain ID domain_idd3vu3a2
Class classc — Alpha and beta proteins (a/b)
Fold Fold foldc.23 — Flavodoxin-like
Superfamily Superfamily superfamilyc.23.16 — Class I glutamine amidotransferase-like
Family Family familyc.23.16.3 — Catalase, C-terminal domain
Domain ID domain_idd3vu3c_
Class classb — All beta proteins
Fold Fold foldb.38 — Sm-like fold
Superfamily Superfamily superfamilyb.38.1 — Sm-like ribonucleoproteins
Family Family familyb.38.1.2 — Pleiotropic translational regulator Hfq
Domain ID domain_idd3vu3d_
Class classb — All beta proteins
Fold Fold foldb.38 — Sm-like fold
Superfamily Superfamily superfamilyb.38.1 — Sm-like ribonucleoproteins
Family Family familyb.38.1.2 — Pleiotropic translational regulator Hfq
Domain ID domain_idd3vu3e_
Class classb — All beta proteins
Fold Fold foldb.38 — Sm-like fold
Superfamily Superfamily superfamilyb.38.1 — Sm-like ribonucleoproteins
Family Family familyb.38.1.2 — Pleiotropic translational regulator Hfq
Domain ID domain_idd3vu3f_
Class classb — All beta proteins
Fold Fold foldb.38 — Sm-like fold
Superfamily Superfamily superfamilyb.38.1 — Sm-like ribonucleoproteins
Family Family familyb.38.1.2 — Pleiotropic translational regulator Hfq
Domain ID domain_idd3vu3g_
Class classb — All beta proteins
Fold Fold foldb.38 — Sm-like fold
Superfamily Superfamily superfamilyb.38.1 — Sm-like ribonucleoproteins
Family Family familyb.38.1.2 — Pleiotropic translational regulator Hfq
Domain ID domain_idd3vu3h_
Class classb — All beta proteins
Fold Fold foldb.38 — Sm-like fold
Superfamily Superfamily superfamilyb.38.1 — Sm-like ribonucleoproteins
Family Family familyb.38.1.2 — Pleiotropic translational regulator Hfq

CATH v4.4 (9 domains)

Domain ID domain_id3vu3A01
Class class2 — Mainly Beta
Architecture architecture40 — Beta Barrel
Topology topology180 — Catalase HpII, Chain A, domain 1
Homologous superfamily homologous superfamily10 — Catalase core domain
Domain ID domain_id3vu3A02
Class class1 — Mainly Alpha
Architecture architecture20 — Up-down Bundle
Topology topology1370 — Hemocyanin, N-terminal domain
Homologous superfamily homologous superfamily20 — Catalase, four-helical domain
Domain ID domain_id3vu3A03
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology50 — Rossmann fold
Homologous superfamily homologous superfamily880 — Class I glutamine amidotransferase (GATase) domain
Domain ID domain_id3vu3C00
Class class2 — Mainly Beta
Architecture architecture30 — Roll
Topology topology30 — SH3 type barrels.
Homologous superfamily homologous superfamily100 —
Domain ID domain_id3vu3D00
Class class2 — Mainly Beta
Architecture architecture30 — Roll
Topology topology30 — SH3 type barrels.
Homologous superfamily homologous superfamily100 —
Domain ID domain_id3vu3E00
Class class2 — Mainly Beta
Architecture architecture30 — Roll
Topology topology30 — SH3 type barrels.
Homologous superfamily homologous superfamily100 —
Domain ID domain_id3vu3F00
Class class2 — Mainly Beta
Architecture architecture30 — Roll
Topology topology30 — SH3 type barrels.
Homologous superfamily homologous superfamily100 —
Domain ID domain_id3vu3G00
Class class2 — Mainly Beta
Architecture architecture30 — Roll
Topology topology30 — SH3 type barrels.
Homologous superfamily homologous superfamily100 —
Domain ID domain_id3vu3H00
Class class2 — Mainly Beta
Architecture architecture30 — Roll
Topology topology30 — SH3 type barrels.
Homologous superfamily homologous superfamily100 —
▶

7. Citations (1)