MolNFT v1 · #53475 · protein
Human CDT1:GEMININ complex
2WVR: “Human CDT1:GEMININ complex”. X-ray diffraction, 3 pockets (best druggability 0.70). MolNFT v1 #53475 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 2WVR
- Type
- protein
- Length
- 316 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Geminin; DNA replication factor CDT1
- UniProt
- O75496, Q9H211
- Pockets
- 3 · best druggability 0.70
Structure
x-ray diffraction · 3 distinct chains · 66% helix, 3% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Geminin | protein | 70 | 89% helix, 0% strand | O75496 |
| B | Geminin | protein | 74 | 81% helix, 0% strand | O75496 |
| C | DNA replication factor CDT1 | protein | 172 | 49% helix, 6% strand | Q9H211 |
Pockets
3 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 112 | 0.70 | 0.92 | 28 | empty |
| 2 | 136 | 0.43 | 0.75 | 22 | empty |
| 3 | 54 | 0.33 | 0.77 | 11 | empty |
Interfaces
3 interfaces between chains.
- A–B · 1794 Ų buried · 9 hydrogen bonds · protein-protein
- B–C · 877 Ų buried · 17 hydrogen bonds · protein-protein
- A–C · 441 Ų buried · 2 hydrogen bonds · protein-protein
Compared structures
- 2WVR · Human Cdt1:Geminin complex · the same entry in another collection · chain A against A, TM-score 1.00
- Q9H211 · AlphaFold monomer V2.0 prediction for DNA replication factor CDT1 (Q9H211) · a predicted model of the same protein · chain C against A, TM-score 0.94
- O75496 · AlphaFold monomer V2.0 prediction for geminin (O75496) · a predicted model of the same protein · chain B against A, TM-score 0.82
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 O75496
- Every structure of UniProt Q9H211
- Elsewhere: RCSB PDB 2WVR · PDBe 2WVR · UniProt O75496 · UniProt Q9H211
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