Research workbench
Complex of wopr domain of WOR1 in candida albicans with the 17BP dsdna
Analyse Complex of wopr domain of WOR1 in candida albicans with the 17BP dsdna in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4QTK
- Type
- protein + DNA
- Length
- 361 residues
- Chains
- 6
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- White-opaque regulator 1; DNA (5'- D(*TP*CP*AP*AP*AP*AP*AP*AP*GP*TP*TP*TP*AP*AP*CP*TP*T)-3…
- UniProt
- Q5AP80
- Pockets
- 10 · best druggability 0.61
Structure
x-ray diffraction · 4 distinct chains · 25% helix, 24% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | White-opaque regulator 1 | protein | 145 | 24% helix, 23% strand | Q5AP80 |
| B | White-opaque regulator 1 | protein | 148 | 26% helix, 24% strand | Q5AP80 |
| C, E | DNA (5'- D(*TP*CP*AP*AP*AP*AP*AP*AP*GP*TP*TP*TP*AP*AP*CP*TP*T)-3') | dna | 17 | — | — |
| D, F | DNA (5'- D(*AP*AP*GP*TP*TP*AP*AP*AP*CP*TP*TP*TP*TP*TP*TP*GP*A)-3') | dna | 17 | — | — |
Pockets
10 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 64 | 0.61 | 0.91 | 18 | empty |
| 2 | 67 | 0.45 | 0.83 | 18 | empty |
| 3 | 73 | 0.44 | 0.82 | 18 | empty |
| 4 | 86 | 0.39 | 0.77 | 20 | empty |
| 5 | 126 | 0.38 | 0.74 | 17 | empty |
Interfaces
7 interfaces between chains.
- E–F · 764 Ų buried · 66 hydrogen bonds · nucleic-nucleic
- C–D · 756 Ų buried · 62 hydrogen bonds · nucleic-nucleic
- A–D · 427 Ų buried · 7 hydrogen bonds · protein-nucleic
- B–F · 419 Ų buried · 5 hydrogen bonds · protein-nucleic
- A–C · 389 Ų buried · 15 hydrogen bonds · protein-nucleic
Compared structures
- 4QTK · Complex of WOPR domain of Wor1 in Candida albicans with the 17bp dsDNA · the same entry in another collection · chain F against F, TM-score 1.00
- Q5AP80 · AlphaFold monomer V2.0 prediction for white-opaque regulator 1 (Q5AP80) · a predicted model of the same protein · chain B against A, TM-score 0.96
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 Q5AP80
- Elsewhere: RCSB PDB 4QTK · PDBe 4QTK · UniProt Q5AP80
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