Research workbench
Structure of malaysian banana lectin F84T
Analyse Structure of malaysian banana lectin F84T in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7KMV
- Type
- protein
- Length
- 2,245 residues
- Chains
- 16
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Jacalin-type lectin domain-containing protein
- UniProt
- M0TZ81
- Ligands
- SO4
- Pockets
- 13 · best druggability 0.75
Structure
x-ray diffraction · 3 distinct chains · 0% helix, 70% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C, F, G, H, J, L, N | Jacalin-type lectin domain-containing protein | protein | 140 | 0% helix, 70% strand | M0TZ81 |
| D, E, I, K, M, O | Jacalin-type lectin domain-containing protein | protein | 141 | 0% helix, 70% strand | M0TZ81 |
| P | Jacalin-type lectin domain-containing protein | protein | 139 | 0% helix, 71% strand | M0TZ81 |
Ligands and binding sites
- SO4 · Sulfate ion · ion · 20 copies · chains A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
13 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 621 | 0.75 | 0.81 | 78 | empty |
| 2 | 669 | 0.73 | 0.80 | 68 | empty |
| 3 | 549 | 0.73 | 0.81 | 76 | empty |
| 4 | 561 | 0.72 | 0.80 | 72 | empty |
| 5 | 61 | 0.40 | 0.80 | 16 | empty |
Interfaces
23 interfaces between chains.
- K–L · 911 Ų buried · 20 hydrogen bonds · protein-protein
- E–F · 909 Ų buried · 17 hydrogen bonds · protein-protein
- M–N · 893 Ų buried · 19 hydrogen bonds · protein-protein
- A–B · 887 Ų buried · 19 hydrogen bonds · protein-protein
- I–J · 886 Ų buried · 20 hydrogen bonds · protein-protein
Compared structures
- 7KMV · Structure of Malaysian Banana Lectin F84T · 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 M0TZ81
- Elsewhere: RCSB PDB 7KMV · PDBe 7KMV · UniProt M0TZ81
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