Research workbench
Asfv PA104R in complex with double-strand DNA
Analyse Asfv PA104R in complex with double-strand DNA in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6LMJ
- Type
- protein + DNA
- Length
- 235 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- A104R; DNA (5'- D(*TP*GP*CP*TP*TP*AP*TP*CP*AP*AP*TP*TP*TP*GP*TP*TP*GP*CP*A)-3')
- UniProt
- A0A0A1E0L7
- Pockets
- 2 · best druggability 0.69
Structure
x-ray diffraction · 3 distinct chains · 38% helix, 30% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | A104R | protein | 99 | 38% helix, 29% strand | A0A0A1E0L7 |
| B | A104R | protein | 98 | 38% helix, 32% strand | A0A0A1E0L7 |
| C, D | DNA (5'- D(*TP*GP*CP*TP*TP*AP*TP*CP*AP*AP*TP*TP*TP*GP*TP*TP*GP*CP*A)-3') | dna | 19 | — | — |
Pockets
2 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 761 | 0.69 | 0.77 | 61 | empty |
| 2 | 178 | 0.50 | 0.78 | 18 | empty |
Interfaces
6 interfaces between chains.
- A–B · 2372 Ų buried · 12 hydrogen bonds · protein-protein
- C–D · 768 Ų buried · 69 hydrogen bonds · nucleic-nucleic
- B–D · 167 Ų buried · 2 hydrogen bonds · protein-nucleic
- A–D · 151 Ų buried · 2 hydrogen bonds · protein-nucleic
- B–C · 117 Ų buried · 2 hydrogen bonds · protein-nucleic
Compared structures
- 6LMJ · ASFV pA104R in complex with double-strand DNA · the same entry in another collection · 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 A0A0A1E0L7
- Elsewhere: RCSB PDB 6LMJ · PDBe 6LMJ · UniProt A0A0A1E0L7
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