Research workbench
Crystal structure of O-acetyl L-serine sulfhydrylase from haemophilus influenzae in complex with C-terminal peptide of ribosomal S4 domain protein from lactobacillus salivarius.
Analyse Crystal structure of O-acetyl L-serine sulfhydrylase from haemophilus… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7DJQ
- Type
- protein
- Length
- 607 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- C-terminal peptide of ribosomal S4 domain protein; Cysteine synthase
- EC
- 2.5.1.47
- UniProt
- A0A1V9TQZ2, P45040
- Ligands
- NA
- Pockets
- 4 · best druggability 0.67
Structure
x-ray diffraction · 3 distinct chains · 42% helix, 17% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| C | C-terminal peptide of ribosomal S4 domain protein | protein | 4 | 0% helix, 0% strand | A0A1V9TQZ2 |
| B | Cysteine synthase (EC 2.5.1.47) | protein | 301 | 42% helix, 17% strand | P45040 |
| A | Cysteine synthase (EC 2.5.1.47) | protein | 302 | 43% helix, 18% strand | P45040 |
Ligands and binding sites
- NA · Sodium ion · metal · 3 copies · chains B, A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
4 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 720 | 0.67 | 0.75 | 67 | NA |
| 2 | 195 | 0.57 | 0.80 | 32 | empty |
| 3 | 55 | 0.37 | 0.79 | 12 | empty |
| 4 | 97 | 0.35 | 0.74 | 26 | empty |
Interfaces
2 interfaces between chains.
- B–A · 1740 Ų buried · 17 hydrogen bonds · protein-protein
- C–A · 464 Ų buried · 11 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 2 modified (cofactor).
Compared structures
- 7DJQ · Crystal Structure of O-acetyl L-serine sulfhydrylase from Haemophilus influenzae in… · the same entry in another collection · chain C against C, TM-score 1.00
- P45040 · AlphaFold monomer V2.0 prediction for cysteine synthase (P45040) · a predicted model of the same protein · chain B 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 A0A1V9TQZ2
- Every structure of UniProt P45040
- Elsewhere: RCSB PDB 7DJQ · PDBe 7DJQ · UniProt A0A1V9TQZ2 · UniProt P45040
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