Research workbench
Trimeric structure of concanavalin a from canavalia ensiformis
Analyse Trimeric structure of concanavalin a from canavalia ensiformis in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6AHG
- Type
- protein
- Length
- 705 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Concanavalin-A,CONCANAVALIN-a
- UniProt
- P02866
- Ligands
- CD, CA
- Pockets
- 5 · best druggability 0.59
Structure
x-ray diffraction · 1 distinct chain · 6% helix, 47% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C | Concanavalin-A,CONCANAVALIN-a | protein | 235 | 6% helix, 47% strand | P02866 |
Ligands and binding sites
- CD · Cadmium ion · metal · 6 copies · chains A, B, C
- CA · Calcium ion · metal · 3 copies · chains A, B, C
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
5 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 127 | 0.59 | 0.85 | 29 | empty |
| 2 | 141 | 0.59 | 0.84 | 32 | empty |
| 3 | 465 | 0.59 | 0.74 | 61 | empty |
| 4 | 136 | 0.54 | 0.81 | 31 | empty |
| 5 | 65 | 0.31 | 0.75 | 14 | empty |
Interfaces
3 interfaces between chains.
- B–C · 570 Ų buried · 11 hydrogen bonds · protein-protein
- A–B · 556 Ų buried · 13 hydrogen bonds · protein-protein
- A–C · 555 Ų buried · 15 hydrogen bonds · protein-protein
Compared structures
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 P02866
- Elsewhere: RCSB PDB 6AHG · PDBe 6AHG · UniProt P02866
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