Research workbench
Al amyloid fibril from a lambda 3 light chain in conformation a
Analyse Al amyloid fibril from a lambda 3 light chain in conformation a in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6Z1O
- Type
- protein
- Length
- 534 residues
- Chains
- 6
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Lambda 3 immunoglobulin light chain fragment, residues 2- 116
- Pockets
- 3 · best druggability 0.67
Structure
electron microscopy · 1 distinct chain · 0% helix, 46% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| D, E, F, C, B, A | Lambda 3 immunoglobulin light chain fragment, residues 2- 116 | protein | 89 | 0% helix, 46% strand | — |
Pockets
3 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 218 | 0.67 | 0.85 | 36 | empty |
| 2 | 58 | 0.63 | 0.93 | 29 | empty |
| 3 | 75 | 0.30 | 0.72 | 13 | empty |
Interfaces
9 interfaces between chains.
- C–B · 3691 Ų buried · 118 hydrogen bonds · protein-protein
- D–C · 3688 Ų buried · 118 hydrogen bonds · protein-protein
- B–A · 3687 Ų buried · 118 hydrogen bonds · protein-protein
- D–E · 3684 Ų buried · 118 hydrogen bonds · protein-protein
- E–F · 3684 Ų buried · 118 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 6 disulfide (disulfide).
Compared structures
- 6Z1O · AL amyloid fibril from a lambda 3 light chain in conformation A · the same entry in another collection · chain D against D, 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
- Elsewhere: RCSB PDB 6Z1O · PDBe 6Z1O
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