Research workbench
Crystal structure of peanut lectin lactose-azobenzene-4,4'- dicarboxylic acid-lactose complex
Analyse Crystal structure of peanut lectin lactose-azobenzene-4,4'- dicarboxylic… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2DH1
- Type
- protein
- Length
- 928 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Galactose-binding lectin
- UniProt
- P02872
- Pockets
- 6 · best druggability 0.48
Structure
x-ray diffraction · 1 distinct chain · 0% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C, D | Galactose-binding lectin | protein | 232 | 0% helix, 0% strand | P02872 |
Pockets
6 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 214 | 0.48 | 0.73 | 52 | empty |
| 2 | 186 | 0.47 | 0.73 | 40 | empty |
| 3 | 144 | 0.42 | 0.73 | 39 | empty |
| 4 | 120 | 0.40 | 0.73 | 31 | empty |
| 5 | 71 | 0.31 | 0.72 | 22 | empty |
Interfaces
3 interfaces between chains.
- A–D · 59 Ų buried · 0 hydrogen bonds · protein-protein
- B–C · 41 Ų buried · 0 hydrogen bonds · protein-protein
- A–B · 15 Ų buried · 0 hydrogen bonds · protein-protein
Compared structures
- 2DH1 · Crystal structure of peanut lectin lactose-azobenzene-4,4'-dicarboxylic acid-lactose… · the same entry in another collection · chain A against A, TM-score 1.00
- P02872 · AlphaFold monomer V2.0 prediction for galactose-binding lectin (P02872) · a predicted model of the same protein · chain A against A, TM-score 0.99
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 P02872
- Elsewhere: RCSB PDB 2DH1 · PDBe 2DH1 · UniProt P02872
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