Research workbench
Complex of SPAO(SPOA1,2) and ORGB(APAR)::T4LYSOZYME fusion protein
Analyse Complex of SPAO(SPOA1,2) and ORGB(APAR)::T4LYSOZYME fusion protein in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4YX7
- Type
- protein
- Length
- 654 residues
- Chains
- 6
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Surface presentation of antigens protein spao; Oxygen-regulated invasion protein…
- EC
- 3.2.1.17
- UniProt
- P40699, P0CL45, P00720
- Pockets
- 11 · best druggability 0.59
Structure
x-ray diffraction · 5 distinct chains · 41% helix, 26% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, D | Surface presentation of antigens protein spao | protein | 65 | 0% helix, 58% strand | P40699 |
| B | Surface presentation of antigens protein spao | protein | 67 | 21% helix, 58% strand | P40699 |
| C | Oxygen-regulated invasion protein ORGB,ENDOLYSIN (EC 3.2.1.17) | protein | 196 | 58% helix, 11% strand | P0CL45, P00720 |
| E | Surface presentation of antigens protein spao | protein | 66 | 17% helix, 59% strand | P40699 |
| F | Oxygen-regulated invasion protein ORGB,ENDOLYSIN (EC 3.2.1.17) | protein | 195 | 54% helix, 8% strand | P0CL45, P00720 |
Pockets
11 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 259 | 0.59 | 0.79 | 33 | empty |
| 2 | 283 | 0.56 | 0.76 | 30 | empty |
| 3 | 67 | 0.52 | 0.86 | 15 | empty |
| 4 | 56 | 0.51 | 0.87 | 20 | empty |
| 5 | 183 | 0.49 | 0.76 | 24 | empty |
Interfaces
10 interfaces between chains.
- D–E · 1983 Ų buried · 40 hydrogen bonds · protein-protein
- A–B · 1901 Ų buried · 32 hydrogen bonds · protein-protein
- B–C · 648 Ų buried · 4 hydrogen bonds · protein-protein
- A–C · 625 Ų buried · 11 hydrogen bonds · protein-protein
- D–F · 558 Ų buried · 8 hydrogen bonds · protein-protein
Compared structures
- 4YX7 · Complex of SpaO(SPOA1,2) and OrgB(APAR)::T4lysozyme fusion protein · the same entry in another collection · chain A against A, TM-score 1.00
- P40699 · AlphaFold monomer V2.0 prediction for surface presentation of antigens protein spao… · a predicted model of the same protein · chain E against A, TM-score 0.89
- P0CL45 · AlphaFold monomer V2.0 prediction for spi-1 type 3 secretion system stator protein… · a predicted model of the same protein · chain F against A, TM-score 0.22
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 P40699
- Every structure of UniProt P0CL45
- Every structure of UniProt P00720
- Elsewhere: RCSB PDB 4YX7 · PDBe 4YX7 · UniProt P40699 · UniProt P0CL45 · UniProt P00720
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