SMTL ID : 5ele.2 (1 other biounit)

Cholera toxin El Tor B-pentamer in complex with A Lewis-y

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.60 Å

Oligo State

homo-pentamer

Ligands

2 x NDG- GAL- FUC- A2G- FUC: alpha-L-fucopyranose-(1-2)-[2-acetamido-2-deoxy-alpha-D-galactopyranose-(1-3)]beta-D-galactopyranose-(1-4)-[alpha-L-fucopyranose-(1-3)]2-acetamido-2-deoxy-alpha-D-glucopyranose

NDG-GAL-FUC-A2G-FUC.1: 13 residues within 4Å: Chain A: Q.3 Chain B: Q.16, I.17, Y.18, N.44, G.45, A.46, I.47, F.48, T.92, P.93, H.94 Ligands: NAG.5 5 PLIP interactions: 3 interactions with chain B, 2 interactions with chain A Hydrophobic interactions: B:Q.16, B:Y.18, B:F.48, B:I.47 Water bridges: B:Y.18, B:Y.18, B:Y.18 Hydrogen bonds: A:Q.3, A:Q.3, B:I.47, B:H.94, B:H.94, B:Y.18, B:G.45, B:G.45 NDG-GAL-FUC-A2G-FUC.2: 12 residues within 4Å: Chain D: Q.3 Chain E: Q.16, I.17, Y.18, N.44, G.45, A.46, I.47, F.48, T.92, P.93, H.94 4 PLIP interactions: 3 interactions with chain E, 1 interactions with chain D Hydrophobic interactions: E:Q.16, E:Y.18, E:F.48, E:I.47 Hydrogen bonds: E:I.47, E:H.94, E:H.94, D:Q.3, E:Y.18, E:G.45, E:G.45

3 x FUC: alpha-L-fucopyranose(Non-covalent)

FUC.3: 6 residues within 4Å: Chain A: A.46, I.47, F.48, P.93, H.94 Chain E: Q.3 6 PLIP interactions: 3 interactions with chain A, 3 interactions with chain E Hydrophobic interactions: A:F.48 Hydrogen bonds: A:I.47, A:H.94, E:Q.3, E:Q.3 Water bridges: E:Q.3 FUC.6: 7 residues within 4Å: Chain B: Q.3 Chain C: A.46, I.47, F.48, T.92, P.93, H.94 5 PLIP interactions: 3 interactions with chain C, 2 interactions with chain B Hydrophobic interactions: C:F.48 Hydrogen bonds: C:I.47, C:H.94, B:Q.3, B:Q.3 FUC.7: 7 residues within 4Å: Chain C: Q.3 Chain D: A.46, I.47, F.48, T.92, P.93, H.94 6 PLIP interactions: 4 interactions with chain D, 2 interactions with chain C Hydrophobic interactions: D:A.46, D:F.48 Hydrogen bonds: D:I.47, D:H.94, C:Q.3, C:Q.3

1 x 1PE: PENTAETHYLENE GLYCOL(Non-functional Binders)

1PE.4: 4 residues within 4Å: Chain A: K.34, R.35 Chain E: E.11, Y.12 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.34, A:R.35

1 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Non-covalent)

NAG.5: 6 residues within 4Å: Chain B: G.45, I.47 Ligands: NDG-GAL-FUC-A2G-FUC.1, NDG-GAL-FUC-A2G-FUC.1, NDG-GAL-FUC-A2G-FUC.1, NDG-GAL-FUC-A2G-FUC.1 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:I.47 Hydrogen bonds: B:G.45

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Heggelund, J.E. et al., High-Resolution Crystal Structures Elucidate the Molecular Basis of Cholera Blood Group Dependence. Plos Pathog. (2016)

Release Date

2016-03-30

Peptides

Cholera enterotoxin subunit B: ABCDE

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
F

B
G

C
H

D
I

E
J

Cholera enterotoxin subunit B

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