MolNFT v1 · #190770 · protein
Monocot chimeric jacalin JAC1 from oryza sativa: lectin domain (crystal form 2)
7YWW · Dirigent protein: “Monocot chimeric jacalin JAC1 from oryza sativa: lectin domain (crystal form 2)”. X-ray diffraction, 1 ligand (IOD), 2 pockets (best druggability 0.42). MolNFT v1 #190770 on GenesisL1: 3D structure, binding sites…
- PDB
- 7YWW
- Type
- protein
- Length
- 297 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Dirigent protein
- UniProt
- Q306J3
- Ligands
- IOD
- Pockets
- 2 · best druggability 0.42
Structure
x-ray diffraction · 2 distinct chains · 1% helix, 66% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Dirigent protein | protein | 147 | 0% helix, 67% strand | Q306J3 |
| B | Dirigent protein | protein | 150 | 2% helix, 65% strand | Q306J3 |
Ligands and binding sites
- IOD · Iodide ion · ion · 19 copies · chains A, B
- 1PE · Pentaethylene glycol · additive · chains B
- GOL · Glycerol · additive · chains B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
2 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 144 | 0.42 | 0.75 | 38 | IOD |
| 2 | 71 | 0.37 | 0.77 | 18 | empty |
Interfaces
1 interface between chains.
- A–B · 867 Ų buried · 12 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 1 disulfide (disulfide).
Compared structures
- 7YWW · Monocot chimeric jacalin JAC1 from Oryza sativa: lectin domain (crystal form 2) · 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 Q306J3
- Elsewhere: RCSB PDB 7YWW · PDBe 7YWW · UniProt Q306J3
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