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2ez6

Crystal structure of Aquifex aeolicus RNase III (D44N) complexed with product of double-stranded RNA processing

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

Ribonuclease III

Aquifex aeolicus

UniProt O67082

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein–RNA Homooligomer Protein 2 RNA 2 28-MER × 2 MAGNESIUM ION × 2 water × 4 Consistent with all polymers

Other States of the Same Protein in the Database

Monomer

None

Homodimer
1i4s 1jfz 1jfz 1rc5 1rc5

5 assemblies

Homotetramer

None

Other homooligomers

None

Heteromeric or nucleic-acid complex
1rc7 1yyk 1yyo 1yyw 1yyw 1yz9 2ez6 2nue 2nuf 2nug 4m2z 4m30

12 assemblies

View Construct and Data Evidence
UniProt name RNC_AQUAE
Isoform —
PDB entities 2
Chains and sequence ranges Author chain A； PDBConstruct 1–221； UniProt 1–221 Author chain B； PDBConstruct 1–221； UniProt 1–221

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_id2ez6
Deposition date deposition_date2005-11-10
Structure title titleCrystal structure of Aquifex aeolicus RNase III (D44N) complexed with product of double-stranded RNA processing
Keywords keywordsRibonuclease III, dsRNA, RNA processing, RNA interference, HYDROLASE-RNA COMPLEX; HYDROLASE/RNA
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.

2ez6__assembly_1__model_1

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

Download this curve (.dat)

2ez6__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.

2ez6__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）26.40 Å
Rg (electron density)25.65 Å
Total Rg26.50 Å
Atom count4838
Residues492
Excluded volume82926 ų
Maximum q0.500 Å⁻¹
Assembly Model Structure unit Oligomeric description Status CRYSOL Actions
1 1 2ez6__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) 8 domains

SCOP 2.08 (4 domains)

Domain ID domain_idd2ez6a1
Class classa — All alpha proteins
Fold Fold folda.149 — RNase III domain-like
Superfamily Superfamily superfamilya.149.1 — RNase III domain-like
Family Family familya.149.1.1 — RNase III catalytic domain-like
Domain ID domain_idd2ez6a2
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.50 — dsRBD-like
Superfamily Superfamily superfamilyd.50.1 — dsRNA-binding domain-like
Family Family familyd.50.1.1 — Double-stranded RNA-binding domain (dsRBD)
Domain ID domain_idd2ez6b1
Class classa — All alpha proteins
Fold Fold folda.149 — RNase III domain-like
Superfamily Superfamily superfamilya.149.1 — RNase III domain-like
Family Family familya.149.1.1 — RNase III catalytic domain-like
Domain ID domain_idd2ez6b2
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.50 — dsRBD-like
Superfamily Superfamily superfamilyd.50.1 — dsRNA-binding domain-like
Family Family familyd.50.1.1 — Double-stranded RNA-binding domain (dsRBD)

CATH v4.4 (4 domains)

Domain ID domain_id2ez6A01
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology1520 — Ribonuclease iii, N-terminal Endonuclease Domain; Chain A
Homologous superfamily homologous superfamily10 — Ribonuclease III domain
Domain ID domain_id2ez6A02
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology160 — Double Stranded RNA Binding Domain
Homologous superfamily homologous superfamily20 —
Domain ID domain_id2ez6B01
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology1520 — Ribonuclease iii, N-terminal Endonuclease Domain; Chain A
Homologous superfamily homologous superfamily10 — Ribonuclease III domain
Domain ID domain_id2ez6B02
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology160 — Double Stranded RNA Binding Domain
Homologous superfamily homologous superfamily20 —
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7. Citations (1)