MolNFT v1 · #189901 · protein
Plant receptor like protein RXEG1 in complex with xyloglucanase XEG1
7W3V · Cell 12A endoglucanase: “Plant receptor like protein RXEG1 in complex with xyloglucanase XEG1”. Electron microscopy, 3 ligands (NAG, MAN, BMA), 8 pockets (best druggability 0.72). MolNFT v1 #189901 on GenesisL1: 3D structure…
- PDB
- 7W3V
- Type
- protein
- Length
- 918 residues
- Chains
- 2
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Cell 12A endoglucanase; Membrane-localized lrr receptor-like protein
- UniProt
- Q30BZ2, A0A2I8B6R1
- Ligands
- NAG, MAN, BMA
- Pockets
- 8 · best druggability 0.72
Structure
electron microscopy · 2 distinct chains · 12% helix, 29% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Cell 12A endoglucanase | protein | 222 | 7% helix, 52% strand | Q30BZ2 |
| C | Membrane-localized lrr receptor-like protein | protein | 696 | 14% helix, 21% strand | A0A2I8B6R1 |
Ligands and binding sites
- NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · 18 copies · chains C, A
- MAN · alpha-D-mannopyranose · sugar · 5 copies · chains A, C
- BMA · beta-D-mannopyranose · sugar
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
8 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 389 | 0.72 | 0.83 | 38 | empty |
| 2 | 249 | 0.72 | 0.87 | 47 | empty |
| 3 | 685 | 0.66 | 0.75 | 82 | MAN |
| 4 | 304 | 0.54 | 0.74 | 45 | NAG |
| 5 | 115 | 0.43 | 0.78 | 21 | empty |
Interfaces
1 interface between chains.
- A–C · 2014 Ų buried · 18 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 13 glycan, 3 disulfide (N-glycosylation, disulfide).
Compared structures
- 7W3V · Plant receptor like protein RXEG1 in complex with xyloglucanase XEG1 · 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 Q30BZ2
- Every structure of UniProt A0A2I8B6R1
- Elsewhere: RCSB PDB 7W3V · PDBe 7W3V · UniProt Q30BZ2 · UniProt A0A2I8B6R1
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