MolNFT v1 · #180870 · protein
SARS-cov-2 receptor binding domain in complex with wnb-2
7LDJ: “SARS-cov-2 receptor binding domain in complex with wnb-2”. X-ray diffraction, 4 ligands (NAG, FUL, MAN). MolNFT v1 #180870 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 7LDJ
- Type
- protein
- Length
- 1,287 residues
- Chains
- 8
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- UniProt
- P0DTC2
- Ligands
- NAG, FUL, MAN, BMA
Structure
x-ray diffraction · 6 distinct chains.
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| B | — | protein | 198 | — | P0DTC2 |
| A | — | protein | 193 | — | P0DTC2 |
| C | — | protein | 191 | — | P0DTC2 |
| D | — | protein | 184 | — | P0DTC2 |
| E, F, H | — | protein | 130 | — | — |
| G | — | protein | 131 | — | — |
Ligands and binding sites
- NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · 8 copies · chains B, A, C, D
- FUL · beta-L-fucopyranose · sugar · 3 copies · chains C, A
- MAN · alpha-D-mannopyranose · sugar · 3 copies · chains A
- BMA · beta-D-mannopyranose · sugar · 2 copies
- PG4 · Tetraethylene glycol · additive · chains E
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Compared structures
- 7LDJ · SARS-CoV-2 receptor binding domain in complex with WNb-2 · the same entry in another collection · chain G against G, 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 P0DTC2
- Elsewhere: RCSB PDB 7LDJ · PDBe 7LDJ · UniProt P0DTC2
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