MolNFT v1 · #129052 · protein
The X-ray structure of catenated lytic transglycosylase SLTB1 from pseudomonas aeruginosa
5O8X · Soluble lytic transglycosylase B: “The X-ray structure of catenated lytic transglycosylase SLTB1 from pseudomonas aeruginosa”. X-ray diffraction, 1 ligand (CA), 8 pockets (best druggability 0.84). MolNFT v1 #129052 on GenesisL1: 3D…
- PDB
- 5O8X
- Type
- protein
- Length
- 608 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Soluble lytic transglycosylase B
- UniProt
- A0A1T2V5N0
- Ligands
- CA
- Pockets
- 8 · best druggability 0.84
Structure
x-ray diffraction · 1 distinct chain · 54% helix, 11% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Soluble lytic transglycosylase B | protein | 304 | 54% helix, 11% strand | A0A1T2V5N0 |
Ligands and binding sites
- CA · Calcium ion · metal · 2 copies · chains A, B
- CAC · Cacodylate ion · additive · 2 copies · chains A, B
- GOL · Glycerol · 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, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 480 | 0.84 | 0.90 | 52 | empty |
| 2 | 287 | 0.79 | 0.91 | 47 | GOL |
| 3 | 272 | 0.78 | 0.90 | 37 | empty |
| 4 | 79 | 0.41 | 0.79 | 18 | empty |
| 5 | 61 | 0.35 | 0.78 | 19 | empty |
Interfaces
1 interface between chains.
- A–B · 1655 Ų buried · 17 hydrogen bonds · protein-protein
Compared structures
- 5O8X · The X-ray Structure of Catenated Lytic Transglycosylase SltB1 from Pseudomonas aeruginosa · 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 A0A1T2V5N0
- Elsewhere: RCSB PDB 5O8X · PDBe 5O8X · UniProt A0A1T2V5N0
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