MolNFT v1 · #20553 · protein
Crystal structure of the camelid single domain antibody 1D2L19 in complex with hen egg white lysozyme
1RI8 · Camelid antibody heavy chain: “Crystal structure of the camelid single domain antibody 1D2L19 in complex with hen egg white lysozyme”. X-ray diffraction, 2 pockets (best druggability 0.51). MolNFT v1 #20553 on GenesisL1: 3D…
- PDB
- 1RI8
- Type
- protein
- Length
- 253 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Camelid antibody heavy chain; Lysozyme C
- EC
- 3.2.1.17
- UniProt
- P00698
- Pockets
- 2 · best druggability 0.51
Structure
x-ray diffraction · 2 distinct chains · 25% helix, 33% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Camelid antibody heavy chain | protein | 124 | 7% helix, 56% strand | — |
| B | Lysozyme C (EC 3.2.1.17) | protein | 129 | 41% helix, 12% strand | P00698 |
Ligands and binding sites
- GOL · Glycerol · additive · chains A, 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, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 167 | 0.51 | 0.78 | 24 | GOL |
| 2 | 173 | 0.49 | 0.78 | 25 | empty |
Interfaces
1 interface between chains.
- A–B · 741 Ų buried · 18 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 6 disulfide (disulfide).
Compared structures
- 1RI8 · Crystal Structure of the Camelid Single Domain Antibody 1D2L19 in complex with Hen Egg… · 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 P00698
- Elsewhere: RCSB PDB 1RI8 · PDBe 1RI8 · UniProt P00698
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