Research workbench
Selenium derivatized RNA/DNA hybrid in complex with RNase H catalytic domain D132N mutant
Analyse Selenium derivatized RNA/DNA hybrid in complex with RNase H catalytic domain… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3TWH
- Type
- protein + DNA + RNA
- Length
- 146 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Ribonuclease H; RNA (5'-R(*UP*CP*GP*AP*CP*A)-3'); DNA (5'-D(*AP*TP*(SDG)P*TP*CP*(SDG))-3')
- EC
- 3.1.26.4
- UniProt
- Q9KEI9
- Ligands
- MG, PO4
Structure
x-ray diffraction · 3 distinct chains · 34% helix, 26% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Ribonuclease H (EC 3.1.26.4) | protein | 134 | 34% helix, 26% strand | Q9KEI9 |
| B | RNA (5'-R(*UP*CP*GP*AP*CP*A)-3') | rna | 6 | — | — |
| C | DNA (5'-D(*AP*TP*(SDG)P*TP*CP*(SDG))-3') | dna | 6 | — | — |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Interfaces
3 interfaces between chains.
- A–B · 477 Ų buried · 22 hydrogen bonds · protein-nucleic
- A–C · 322 Ų buried · 11 hydrogen bonds · protein-nucleic
- B–C · 290 Ų buried · 18 hydrogen bonds · nucleic-nucleic
Modifications
Observed in the structure: 2 modified (nucleotide modification).
Compared structures
- 3TWH · Selenium Derivatized RNA/DNA Hybrid in complex with RNase H Catalytic Domain D132N Mutant · the same entry in another collection · chain A against A, TM-score 1.00
- Q9KEI9 · AlphaFold monomer V2.0 prediction for ribonuclease H (Q9KEI9) · a predicted model of the same protein · chain A against A, TM-score 1.00
Analyse
- Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
- Every structure of UniProt Q9KEI9
- Elsewhere: RCSB PDB 3TWH · PDBe 3TWH · UniProt Q9KEI9
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