MolNFT v1 · #114274 · protein
Structure of perdeuterated cueo - the signal peptide was truncated by HRV3C protease
5B7M · Blue copper oxidase cueo: “Structure of perdeuterated cueo - the signal peptide was truncated by HRV3C protease”. X-ray diffraction, 1 ligand (CU), 12 pockets (best druggability 0.68). MolNFT v1 #114274 on GenesisL1: 3D structure…
- PDB
- 5B7M
- Type
- protein
- Length
- 1,389 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Blue copper oxidase cueo
- UniProt
- P36649
- Ligands
- CU
- Pockets
- 12 · best druggability 0.68
Structure
x-ray diffraction · 3 distinct chains · 12% helix, 42% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Blue copper oxidase cueo | protein | 463 | 11% helix, 41% strand | P36649 |
| B | Blue copper oxidase cueo | protein | 464 | 12% helix, 41% strand | P36649 |
| C | Blue copper oxidase cueo | protein | 462 | 12% helix, 43% strand | P36649 |
Ligands and binding sites
- CU · Copper (II) ion · metal · 12 copies · chains A, B, C
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
12 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 587 | 0.68 | 0.77 | 53 | empty |
| 2 | 276 | 0.51 | 0.74 | 26 | empty |
| 3 | 132 | 0.51 | 0.80 | 29 | empty |
| 4 | 134 | 0.45 | 0.77 | 21 | empty |
| 5 | 148 | 0.45 | 0.76 | 22 | empty |
Interfaces
3 interfaces between chains.
- A–B · 293 Ų buried · 3 hydrogen bonds · protein-protein
- A–C · 262 Ų buried · 8 hydrogen bonds · protein-protein
- B–C · 122 Ų buried · 2 hydrogen bonds · protein-protein
Compared structures
- 5B7M · Structure of perdeuterated CueO - the signal peptide was truncated by HRV3C protease · the same entry in another collection · chain A against A, TM-score 1.00
- P36649 · AlphaFold monomer V2.0 prediction for blue copper oxidase cueo (P36649) · a predicted model of the same protein · chain C against A, TM-score 1.00
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 P36649
- Elsewhere: RCSB PDB 5B7M · PDBe 5B7M · UniProt P36649
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