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5w7n

2-Se-T2/4-DNA and native RNA hybrid in complex with RNase H catalytic domain D132N mutant

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

Ribonuclease H

Bacillus halodurans (strain ATCC BAA-125 / DSM 18197 / FERM 7344 / JCM 9153 / C-125)

UniProt Q9KEI9

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Other combination Monomer Protein 1 DNA 1 RNA 1 ;RNA (5'-R(*UP*CP*GP*AP*CP*A)-3') ; × 1 ;DNA (5'-D(*AP*(US3)P*GP*(US3)P*CP*G)-3') ; × 1 MAGNESIUM ION × 2 water × 3 Consistent with all polymers

Other States of the Same Protein in the Database

Monomer
1zbf 8sv3 8sv3 9yjl 9yjm

5 assemblies

Homodimer

None

Homotetramer

None

Other homooligomers

None

Heteromeric or nucleic-acid complex
1zbi 2g8f 2g8h 2g8i 2g8k 2g8u 2g8v 2g8w 2r7y 3d0p 3d0p 3ey1

104 assemblies; showing the first 12

View Construct and Data Evidence
UniProt name RNH1_BACHD
Isoform —
PDB entities 3
Chains and sequence ranges Author chain A； PDBConstruct 1–132； UniProt 62–193

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_id5w7n
Deposition date deposition_date2017-06-20
Structure title title2-Se-T2/4-DNA and native RNA hybrid in complex with RNase H catalytic domain D132N mutant
Keywords keywordsHYDROLASE-DNA-RNA complex; HYDROLASE/DNA/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.

5w7n__assembly_1__model_1

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

Download this curve (.dat)

5w7n__assembly_1__model_1 | I(q)

10-2 10-1 105 106 q (1/Angstrom) I(q)
100 plotted points; both axes use logarithmic scales.

5w7n__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）16.64 Å
Rg (electron density)15.51 Å
Total Rg16.50 Å
Atom count1323
Residues142
Excluded volume22825 ų
Maximum q0.500 Å⁻¹
Assembly Model Structure unit Oligomeric description Status CRYSOL Actions
1 1 5w7n__assembly_1__model_1 trimeric （3） 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 (5)

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6. Fold Classification (SCOP + CATH) 1 domains

CATH v4.4 (1 domains)

Domain ID domain_id5w7nA00
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology420 — Nucleotidyltransferase; domain 5
Homologous superfamily homologous superfamily10 — Ribonuclease H-like superfamily/Ribonuclease H
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7. Citations (1)