Research workbench
Crystal structure of an AA10 lpmo from photorhabdus luminescens
Analyse Crystal structure of an AA10 lpmo from photorhabdus luminescens in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6T5Z
- Type
- protein
- Length
- 522 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Chitin-binding type-4 domain-containing protein
- UniProt
- Q7N4I5
- Ligands
- CU
- Pockets
- 4 · best druggability 0.49
Structure
x-ray diffraction · 1 distinct chain · 10% helix, 40% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C | Chitin-binding type-4 domain-containing protein | protein | 174 | 10% helix, 40% strand | Q7N4I5 |
Ligands and binding sites
- CU · Copper (II) ion · metal · 6 copies · chains A, B, C
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
4 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 151 | 0.49 | 0.78 | 22 | empty |
| 2 | 167 | 0.49 | 0.77 | 29 | empty |
| 3 | 140 | 0.46 | 0.77 | 24 | empty |
| 4 | 147 | 0.45 | 0.76 | 27 | empty |
Interfaces
2 interfaces between chains.
- A–B · 564 Ų buried · 5 hydrogen bonds · protein-protein
- A–C · 532 Ų buried · 3 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 6 disulfide (disulfide).
Compared structures
- 6T5Z · Crystal structure of an AA10 LPMO from Photorhabdus luminescens · the same entry in another collection · chain A 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 Q7N4I5
- Elsewhere: RCSB PDB 6T5Z · PDBe 6T5Z · UniProt Q7N4I5
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