Research workbench
Crystal structure of pseudomonas aeruginosa OCCD3 (opdp)
Analyse Crystal structure of pseudomonas aeruginosa OCCD3 (opdp) in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3SYB
- Type
- protein
- Length
- 408 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Glycine-glutamate dipeptide porin opdp
- UniProt
- Q9HVS0
- Ligands
- SO4
- Pockets
- 2 · best druggability 0.84
Structure
x-ray diffraction · 1 distinct chain · 6% helix, 56% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Glycine-glutamate dipeptide porin opdp | protein | 408 | 6% helix, 56% strand | Q9HVS0 |
Ligands and binding sites
- SO4 · Sulfate ion · ion · 2 copies · chains A
- C8E · (hydroxyethyloxy)tri(ethyloxy)octane · additive · 3 copies · chains A
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 | 991 | 0.84 | 0.85 | 122 | empty |
| 2 | 64 | 0.40 | 0.80 | 18 | empty |
Compared structures
- 3SYB · Crystal structure of Pseudomonas aeruginosa OccD3 (OpdP) · 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 Q9HVS0
- Elsewhere: RCSB PDB 3SYB · PDBe 3SYB · UniProt Q9HVS0
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