SMTL ID : 8qre.1 (1 other biounit)

Cholera holotoxin (wildtype)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

hetero-1-5-mer

Ligands

2 x NA: SODIUM ION(Non-functional Binders)

NA.1: 4 residues within 4Å: Chain A: N.1, T.90, Y.150, L.153 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:N.1, A:T.90, A:T.90, A:L.153 NA.6: 4 residues within 4Å: Chain B: C.9, A.10, Y.12, T.15 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:T.15, B:T.15

6 x GAL: beta-D-galactopyranose(Non-covalent)

GAL.2: 8 residues within 4Å: Chain A: D.229, D.231, N.234, R.235 Chain B: D.70, R.73 Chain F: D.70, R.73 7 PLIP interactions: 2 interactions with chain F, 2 interactions with chain B, 2 interactions with chain A, 1 interactions with chain E Hydrogen bonds: F:D.70, F:R.73, B:R.73, A:D.229, A:N.234 Salt bridges: B:R.73 Water bridges: E:D.70 GAL.7: 8 residues within 4Å: Chain B: N.14, E.51, Q.56, H.57, Q.61, W.88, N.90, K.91 8 PLIP interactions: 8 interactions with chain B Hydrogen bonds: B:N.14, B:E.51, B:Q.56, B:Q.61, B:Q.61, B:N.90, B:N.90 Salt bridges: B:K.91 GAL.9: 7 residues within 4Å: Chain C: E.51, Q.56, H.57, Q.61, W.88, N.90, K.91 8 PLIP interactions: 8 interactions with chain C Hydrogen bonds: C:E.51, C:Q.56, C:Q.61, C:Q.61, C:N.90, C:N.90 Water bridges: C:E.51 Salt bridges: C:K.91 GAL.12: 8 residues within 4Å: Chain D: E.51, Q.56, H.57, Q.61, W.88, N.90, K.91 Ligands: PEG.13 8 PLIP interactions: 8 interactions with chain D Hydrogen bonds: D:Q.56, D:Q.61, D:Q.61, D:N.90, D:N.90, D:K.91, D:K.91 Salt bridges: D:K.91 GAL.15: 7 residues within 4Å: Chain E: E.51, Q.56, H.57, Q.61, W.88, N.90, K.91 7 PLIP interactions: 7 interactions with chain E Hydrogen bonds: E:Q.56, E:Q.61, E:Q.61, E:N.90, E:N.90, E:K.91 Salt bridges: E:K.91 GAL.17: 7 residues within 4Å: Chain F: E.51, Q.56, H.57, Q.61, W.88, N.90, K.91 8 PLIP interactions: 8 interactions with chain F Hydrogen bonds: F:Q.56, F:Q.61, F:Q.61, F:N.90, F:N.90, F:K.91 Water bridges: F:K.91 Salt bridges: F:K.91

7 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 4 residues within 4Å: Chain A: N.1, S.151, N.152, D.154 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.1, A:N.1, A:N.152 GOL.4: 4 residues within 4Å: Chain A: R.11, R.25, G.26, Q.27 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.11, A:G.26 GOL.5: 6 residues within 4Å: Chain A: N.40, Y.42, D.43, G.166, P.168, D.200 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.40, A:N.40 GOL.8: 5 residues within 4Å: Chain B: H.18, G.45, A.46, T.47, H.94 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:T.47, B:T.47, B:T.47, B:H.94 GOL.10: 3 residues within 4Å: Chain C: T.47, F.48, H.94 2 PLIP interactions: 1 interactions with chain C, 1 interactions with chain B Hydrogen bonds: C:H.94, B:Q.3 GOL.16: 3 residues within 4Å: Chain E: A.46, T.47, H.94 3 PLIP interactions: 3 interactions with chain E Hydrogen bonds: E:T.47, E:T.47, E:H.94 GOL.18: 4 residues within 4Å: Chain F: A.46, T.47, P.93, H.94 1 PLIP interactions: 1 interactions with chain F Hydrogen bonds: F:H.94

2 x ACT: ACETATE ION(Non-functional Binders)

ACT.11: 2 residues within 4Å: Chain D: E.83 Chain E: S.26 2 PLIP interactions: 1 interactions with chain D, 1 interactions with chain E Hydrogen bonds: D:E.83, E:S.26 ACT.14: 1 residues within 4Å: Chain E: E.83 1 PLIP interactions: 1 interactions with chain E Water bridges: E:I.5

1 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.13: 5 residues within 4Å: Chain D: Q.61, W.88 Chain E: A.32, G.33 Ligands: GAL.12 2 PLIP interactions: 1 interactions with chain E, 1 interactions with chain D Hydrogen bonds: E:G.33, D:Q.61

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Mojica, N. et al., Using Vibrio natriegens for High-Yield Production of Challenging Expression Targets and for Protein Perdeuteration. Biochemistry (2024)

Release Date

2024-05-15

Peptides

Cholera enterotoxin subunit A: A
Cholera enterotoxin subunit B: BCDEF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
D

C
E

D
F

E
G

F
H

Cholera enterotoxin subunit A

Cholera enterotoxin subunit B

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