Research workbench
Crystal structure of the carboxy-terminal domain of yeast CTF4 bound to TOF2.
Analyse Crystal structure of the carboxy-terminal domain of yeast CTF4 bound to TOF2. in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5HOI
- Type
- protein
- Length
- 1,185 residues
- Chains
- 6
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- DNA polymerase alpha-binding protein; Topoisomerase 1-associated factor 2
- UniProt
- Q01454, Q02208
- Pockets
- 18 · best druggability 0.81
Structure
x-ray diffraction · 5 distinct chains · 22% helix, 36% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | DNA polymerase alpha-binding protein | protein | 425 | 27% helix, 33% strand | Q01454 |
| B | DNA polymerase alpha-binding protein | protein | 432 | 28% helix, 33% strand | Q01454 |
| C | DNA polymerase alpha-binding protein | protein | 296 | 5% helix, 47% strand | Q01454 |
| D, E | Topoisomerase 1-associated factor 2 | protein | 12 | 83% helix, 0% strand | Q02208 |
| F | Topoisomerase 1-associated factor 2 | protein | 8 | 75% helix, 0% strand | Q02208 |
Pockets
18 pockets found on a 1 Å grid, 10 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 967 | 0.81 | 0.83 | 96 | empty |
| 2 | 198 | 0.67 | 0.86 | 29 | empty |
| 3 | 301 | 0.64 | 0.81 | 47 | empty |
| 4 | 306 | 0.64 | 0.80 | 42 | empty |
| 5 | 294 | 0.64 | 0.80 | 47 | empty |
Interfaces
6 interfaces between chains.
- A–B · 1577 Ų buried · 19 hydrogen bonds · protein-protein
- A–C · 1574 Ų buried · 18 hydrogen bonds · protein-protein
- A–D · 552 Ų buried · 4 hydrogen bonds · protein-protein
- B–E · 465 Ų buried · 2 hydrogen bonds · protein-protein
- C–F · 360 Ų buried · 1 hydrogen bond · protein-protein
Compared structures
- 5HOI · Crystal structure of the carboxy-terminal domain of yeast Ctf4 bound to Tof2. · the same entry in another collection · chain F against F, TM-score 1.00
- Q01454 · AlphaFold monomer V2.0 prediction for DNA polymerase alpha-binding protein (Q01454) · a predicted model of the same protein · chain B against A, TM-score 1.00
- Q02208 · AlphaFold monomer V2.0 prediction for topoisomerase 1-associated factor 2 (Q02208) · a predicted model of the same protein · chain F against A, TM-score 0.88
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 Q01454
- Every structure of UniProt Q02208
- Elsewhere: RCSB PDB 5HOI · PDBe 5HOI · UniProt Q01454 · UniProt Q02208
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