Research workbench
Crystal structure of bleomycin-binding protein complexed with bleomycin
Analyse Crystal structure of bleomycin-binding protein complexed with bleomycin in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1EWJ
- Type
- protein
- Length
- 952 residues
- Chains
- 8
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Bleomycin resistance determinant
- UniProt
- P13081
- Ligands
- BLM
- Pockets
- 20 · best druggability 0.79
Structure
x-ray diffraction · 1 distinct chain · 16% helix, 44% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C, D, E, F, G, H | Bleomycin resistance determinant | protein | 119 | 16% helix, 44% strand | P13081 |
Ligands and binding sites
- BLM · Bleomycin A2 · ligand · 8 copies · chains A, B, C, D, E, F, G, H
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
20 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 170 | 0.79 | 0.95 | 38 | empty |
| 2 | 135 | 0.78 | 0.96 | 35 | empty |
| 3 | 509 | 0.60 | 0.74 | 54 | empty |
| 4 | 112 | 0.40 | 0.75 | 22 | empty |
| 5 | 92 | 0.40 | 0.77 | 16 | empty |
Interfaces
7 interfaces between chains.
- A–B · 1380 Ų buried · 22 hydrogen bonds · protein-protein
- E–F · 1353 Ų buried · 30 hydrogen bonds · protein-protein
- C–D · 1352 Ų buried · 30 hydrogen bonds · protein-protein
- G–H · 1342 Ų buried · 29 hydrogen bonds · protein-protein
- E–G · 612 Ų buried · 11 hydrogen bonds · protein-protein
Compared structures
- 1EWJ · Crystal structure of bleomycin-binding protein complexed with bleomycin · the same entry in another collection · chain H against H, TM-score 1.00
- P13081 · AlphaFold monomer V2.0 prediction for bleomycin resistance protein (P13081) · a predicted model of the same protein · chain B against A, TM-score 0.98
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 P13081
- Elsewhere: RCSB PDB 1EWJ · PDBe 1EWJ · UniProt P13081
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.