› 7k7i

Electron Microscopy
3.13Å resolution

Density-fitted Model Structure of Antibody Variable Domains of TyTx4 in Complex with PltB pentamer of Typhoid Toxin

Released:
DOI: 10.2210/pdb7k7i/pdb
PDB entry 7k7i coloured by chain, front view.
PDB entry 7k7i coloured by chain, side view.
PDB entry 7k7i coloured by chain, top view.
Source organisms:
Primary publication:
The structural basis of Salmonella A2B5 toxin neutralization by antibodies targeting the glycan-receptor binding subunits.
Nguyen T, Richards AF, Neupane DP, Feathers JR, Yang YA, Sim JH, Byun H, Lee S, Ahn C, Van Slyke G, Fromme JC, Mantis NJ, Song J
OpenAccess logo Cell Rep 36 109654 (2021)
PMID: 34496256
Related structures: EMD-22700

Function and Biology Details

Biochemical function:
Biological process:
  • not assigned
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero pentadecamer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-212640 (preferred)
Entry contents:
3 distinct polypeptide molecules
Macromolecules (3 distinct):
Bordetella pertussis toxin B subunit 2/3 C-terminal domain-containing protein Chains: A, B, C, D, E
Molecule details ›
Chains: A, B, C, D, E
Length: 114 amino acids
Theoretical weight: 12.56 KDa
Source organism: Salmonella enterica subsp. enterica serovar Typhi
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q8Z6A3 (Residues: 24-137; Coverage: 100%)
Gene names: CAJ76_21360, CAJ80_20450, CAJ85_21845, CAL67_19310, CB224_21995, CC884_21770, CC907_20725, CC972_22120, D4Z37_22870, D6Q30_20400, DKA88_22915, DNM71_22615, DNV09_22455, DS261_23220, DUQ91_23125, DUV11_22855, DVG36_22585, EBC38_22935, EID90_22310, ELQ62_22905, EU445_23060, EVI00_22265, F9R11_22575, F9Y21_22590, FI137_21150, G2227_22525, G2244_22955, G3982_004274, G4I71_004183, G4L28_004281, G4P30_004279, G4Y41_004487, G4Y55_004474, G9264_003909, G9C68_004513, GDI29_22175, GND71_004363, K3U68_05550, STY1891, ZZ17_21790, pltB, t1107
Sequence domains: Pertussis toxin, subunit 2 and 3, C-terminal domain
Fab Light Chain Variable Domain Chains: K, L, N, Q, Y
Molecule details ›
Chains: K, L, N, Q, Y
Length: 108 amino acids
Theoretical weight: 11.75 KDa
Source organism: Mus musculus
Expression system: Mus musculus
Fab Heavy Chain Variable Domain Chains: H, J, M, P, X

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
Resolution: 3.13Å
Relevant EMDB volumes: EMD-22700
Expression systems:
  • Escherichia coli BL21(DE3)
  • Mus musculus

Quick links

Citations

3 review citations

Glycan-mediated molecular interactions in bacterial pathogenesis.
Lee et al. (2022)
2 more

3 mentions without citation

Mechanisms of typhoid toxin neutralization by antibodies targeting glycan receptor binding and nuclease subunits.
Ahn et al. (2021)
2 more