Research workbench
Crystal structure of cystinosin from arabidopsis thaliana bound to two nanobodies
Analyse Crystal structure of cystinosin from arabidopsis thaliana bound to two… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7ZKZ
- Type
- protein
- Length
- 480 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Cystinosin homolog; Llama nanobody; Nanobody
- UniProt
- P57758
- Pockets
- 2 · best druggability 0.72
Structure
x-ray diffraction · 3 distinct chains · 42% helix, 28% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Cystinosin homolog | protein | 231 | 81% helix, 1% strand | P57758 |
| B | Llama nanobody | protein | 127 | 9% helix, 47% strand | — |
| C | Nanobody | protein | 122 | 2% helix, 57% strand | — |
Pockets
2 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 490 | 0.72 | 0.81 | 39 | empty |
| 2 | 182 | 0.59 | 0.82 | 29 | empty |
Interfaces
2 interfaces between chains.
- A–C · 856 Ų buried · 15 hydrogen bonds · protein-protein
- A–B · 715 Ų buried · 12 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 2 disulfide (disulfide).
Compared structures
- 7ZKZ · Crystal structure of cystinosin from Arabidopsis thaliana bound to two nanobodies · the same entry in another collection · chain A against A, TM-score 1.00
- P57758 · AlphaFold monomer V2.0 prediction for cystinosin homolog (P57758) · a predicted model of the same protein · chain A against A, TM-score 0.88
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 P57758
- Elsewhere: RCSB PDB 7ZKZ · PDBe 7ZKZ · UniProt P57758
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