Research workbench
Crystal structure of a putative cystathionine beta-lyase involved in aluminum resistance (LMOF2365_1314) from listeria monocytogenes str. 4B F2365 at 1.91 a resolution
Analyse Crystal structure of a putative cystathionine beta-lyase involved in aluminum… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3JZL
- Type
- protein
- Length
- 799 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Putative cystathionine beta-lyase involved in aluminum resistance
- EC
- 4.4.1.8
- UniProt
- Q720C5
- Pockets
- 8 · best druggability 0.63
Structure
x-ray diffraction · 2 distinct chains · 42% helix, 13% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Putative cystathionine beta-lyase involved in aluminum resistance (EC 4.4.1.8) | protein | 405 | 43% helix, 14% strand | Q720C5 |
| B | Putative cystathionine beta-lyase involved in aluminum resistance (EC 4.4.1.8) | protein | 394 | 42% helix, 12% strand | Q720C5 |
Ligands and binding sites
- GOL · Glycerol · additive · 3 copies · chains A, B
- PEG · Di(hydroxyethyl)ether · additive · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
8 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 302 | 0.63 | 0.80 | 34 | GOL, PEG |
| 2 | 362 | 0.62 | 0.78 | 40 | GOL |
| 3 | 374 | 0.62 | 0.78 | 45 | empty |
| 4 | 188 | 0.54 | 0.79 | 31 | empty |
| 5 | 78 | 0.40 | 0.78 | 19 | empty |
Interfaces
1 interface between chains.
- A–B · 1915 Ų buried · 32 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 18 modified (engineered, cofactor).
Compared structures
- 3JZL · Crystal structure of a putative cystathionine beta-lyase involved in aluminum resistance… · 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 Q720C5
- Elsewhere: RCSB PDB 3JZL · PDBe 3JZL · UniProt Q720C5
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