MolNFT v1 · #19746 · protein
Crystal structure of the 70 kda soluble lytic transglycosylase SLT70 from escherichia COLI at 1.90 a resolution in complex with a 1,6- anhydromurotripeptide
1QTE: “Crystal structure of the 70 kda soluble lytic transglycosylase SLT70 from escherichia COLI at 1.90 a…”. X-ray diffraction, 3 ligands (AH0, NAG, SO4), 5 pockets (best druggability 0.52). MolNFT v1 #19746 on GenesisL1: 3D structure…
- PDB
- 1QTE
- Type
- protein
- Length
- 620 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Soluble lytic transglycosylase SLT70
- EC
- 3.2.1.-
- Ligands
- AH0, NAG, SO4
- Pockets
- 5 · best druggability 0.52
Structure
x-ray diffraction · 1 distinct chain · 69% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Soluble lytic transglycosylase SLT70 (EC 3.2.1.-) | protein | 620 | 69% helix, 0% strand | — |
Ligands and binding sites
- AH0 · 2-(2-acetylamino-4-hydroxy-6,8-dioxa-bicyclo[3.2.1]oct-3-yloxy)-propionic acid · ligand · chains A
- NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · chains A
- SO4 · Sulfate ion · ion · 12 copies · chains A
- GOL · Glycerol · additive · 5 copies · chains A
- ACT · Acetate ion · additive · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
5 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 160 | 0.52 | 0.79 | 25 | empty |
| 2 | 121 | 0.40 | 0.75 | 21 | SO4 |
| 3 | 79 | 0.36 | 0.76 | 17 | empty |
| 4 | 75 | 0.35 | 0.77 | 19 | empty |
| 5 | 58 | 0.30 | 0.75 | 19 | empty |
Modifications
Observed in the structure: 1 covalent, 1 d-amino, 1 disulfide (covalent ligand, D-amino acid, disulfide).
Compared structures
- 1QTE · Crystal structure of the 70 kda soluble lytic transglycosylase SLT70 from escherichia… · 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
- Elsewhere: RCSB PDB 1QTE · PDBe 1QTE
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