MolNFT v2 · #203730 · protein
Structure of human DDB1-DCAF12 in complex with the C-terminus of CCT5
8AJM · DNA damage-binding protein 1: “Structure of human DDB1-DCAF12 in complex with the C-terminus of CCT5”. Electron microscopy at 2.83, 17 pockets (best druggability 0.79). MolNFT v2 #203730 on GenesisL1: 3D structure, binding sites and…
- PDB
- 8AJM
- Type
- protein
- Length
- 1,540 residues
- Chains
- 3
- Method
- electron microscopy
- Collection
- MolNFT v2 / PDB Bank
- Contract
- 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
- Owner
- 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
- Resolution
- 2.83
- Source
- Homo sapiens
- Molecule
- DNA damage-binding protein 1; DDB1- and CUL4-associated factor 12; T-complex protein 1…
- UniProt
- Q16531, Q5T6F0, P48643
- Pockets
- 17 · best druggability 0.79
Structure
electron microscopy · resolution 2.83 · 3 distinct chains · 6% helix, 49% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | DNA damage-binding protein 1 | protein | 1140 | 5% helix, 53% strand | Q16531 |
| B | DDB1- and CUL4-associated factor 12 | protein | 395 | 11% helix, 39% strand | Q5T6F0 |
| C | T-complex protein 1 subunit epsilon | protein | 5 | 0% helix, 0% strand | P48643 |
Pockets
17 pockets found on a 1 Å grid, 10 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1043 | 0.79 | 0.81 | 95 | empty |
| 2 | 288 | 0.77 | 0.89 | 45 | empty |
| 3 | 925 | 0.76 | 0.79 | 52 | empty |
| 4 | 597 | 0.75 | 0.82 | 70 | empty |
| 5 | 365 | 0.74 | 0.85 | 42 | empty |
Interfaces
2 interfaces between chains.
- A–B · 2196 Ų buried · 17 hydrogen bonds · protein-protein
- B–C · 441 Ų buried · 11 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 1 disulfide (disulfide).
Compared structures
- Q5T6F0 · AlphaFold monomer V2.0 prediction for DDB1- and CUL4-associated factor 12 (Q5T6F0) · a predicted model of the same protein · chain B against A, TM-score 0.94
- Q16531 · AlphaFold monomer V2.0 prediction for DNA damage-binding protein 1 (Q16531) · a predicted model of the same protein · chain A against A, TM-score 0.94
- P48643 · AlphaFold monomer V2.0 prediction for T-complex protein 1 subunit epsilon (P48643) · a predicted model of the same protein · chain C against A, TM-score 0.78
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 Q16531
- Every structure of UniProt Q5T6F0
- Every structure of UniProt P48643
- Elsewhere: RCSB PDB 8AJM · PDBe 8AJM · UniProt Q16531 · UniProt Q5T6F0 · UniProt P48643
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