MolNFT v1 · #87705 · protein
Crystal structure of the carboxy-terminal domain of yeast CTF4 bound to SLD5
4C95 · DNA polymerase alpha-binding protein: “Crystal structure of the carboxy-terminal domain of yeast CTF4 bound to SLD5”. X-ray diffraction, 19 pockets (best druggability 0.82). MolNFT v1 #87705 on GenesisL1: 3D structure, binding sites…
- PDB
- 4C95
- Type
- protein
- Length
- 1,177 residues
- Chains
- 5
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- DNA polymerase alpha-binding protein; DNA replication complex gins protein SLD5
- UniProt
- Q01454, Q03406
- Pockets
- 19 · best druggability 0.82
Structure
x-ray diffraction · 4 distinct chains · 21% helix, 37% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | DNA polymerase alpha-binding protein | protein | 424 | 26% helix, 34% strand | Q01454 |
| B | DNA polymerase alpha-binding protein | protein | 431 | 26% helix, 33% strand | Q01454 |
| C | DNA polymerase alpha-binding protein | protein | 296 | 5% helix, 48% strand | Q01454 |
| D, E | DNA replication complex gins protein SLD5 | protein | 13 | 69% helix, 0% strand | Q03406 |
Pockets
19 pockets found on a 1 Å grid, 9 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1060 | 0.82 | 0.83 | 112 | empty |
| 2 | 266 | 0.67 | 0.83 | 36 | empty |
| 3 | 371 | 0.66 | 0.80 | 51 | empty |
| 4 | 356 | 0.65 | 0.80 | 50 | empty |
| 5 | 151 | 0.63 | 0.85 | 29 | empty |
Interfaces
5 interfaces between chains.
- A–B · 1541 Ų buried · 18 hydrogen bonds · protein-protein
- A–C · 1510 Ų buried · 19 hydrogen bonds · protein-protein
- B–E · 590 Ų buried · 5 hydrogen bonds · protein-protein
- A–D · 571 Ų buried · 5 hydrogen bonds · protein-protein
- B–C · 282 Ų buried · 1 hydrogen bond · protein-protein
Compared structures
- 4C95 · Crystal structure of the carboxy-terminal domain of yeast Ctf4 bound to Sld5 · the same entry in another collection · chain E against E, 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
- Q03406 · AlphaFold monomer V2.0 prediction for DNA replication complex gins protein SLD5 (Q03406) · a predicted model of the same protein · chain D against A, TM-score 0.69
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 Q03406
- Elsewhere: RCSB PDB 4C95 · PDBe 4C95 · UniProt Q01454 · UniProt Q03406
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