SMTL ID : 4ut5.1

Crystal structure of the LecB lectin from Pseudomonas aeruginosa strain PA7 in complex with lewis a tetrasaccharide

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.75 Å

Oligo State

homo-tetramer

Ligands

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

GAL-NAG-GAL-FUC.1: 13 residues within 4Å: Chain A: N.21, S.22, S.23, A.24, E.95, D.96, S.97, D.99, D.101, D.104 Chain B: G.114 Ligands: CA.5, CA.6 3 PLIP interactions: 2 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:S.23, A:D.96, A:D.99, A:D.104, B:G.114, A:S.23, A:S.97 Water bridges: A:T.98, A:S.97, A:T.98, A:D.99, A:D.99

2 x GLA- NAG- GAL- FUC: beta-D-galactopyranose-(1-3)-[alpha-L-fucopyranose-(1-4)]2-acetamido-2-deoxy-beta-D-glucopyranose-(1-3)-alpha-D-galactopyranose(Non-covalent)

GLA-NAG-GAL-FUC.2: 13 residues within 4Å: Chain A: G.114 Chain B: N.21, S.22, S.23, A.24, E.95, D.96, S.97, D.99, D.101, D.104 Ligands: CA.7, CA.8 3 PLIP interactions: 2 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:S.23, B:D.96, B:D.99, A:G.114, B:S.23 Water bridges: B:T.98, B:T.98, B:T.98, B:D.99, B:S.97 GLA-NAG-GAL-FUC.3: 15 residues within 4Å: Chain C: N.21, S.22, S.23, A.24, R.72, E.95, D.96, S.97, D.99, D.101, D.104 Chain D: G.114 Ligands: CA.9, CA.10, GAL.11 3 PLIP interactions: 2 interactions with chain C, 1 interactions with chain D Hydrogen bonds: C:S.23, C:D.96, C:D.99, C:D.104, D:G.114, C:S.97 Water bridges: C:T.98, C:D.99, C:S.23

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

NAG-GAL-FUC.4: 13 residues within 4Å: Chain C: G.114 Chain D: N.21, S.22, S.23, A.24, E.95, D.96, S.97, D.99, D.101, D.104 Ligands: CA.12, CA.13 4 PLIP interactions: 3 interactions with chain D, 1 interactions with chain C Hydrogen bonds: D:S.23, D:D.96, D:D.99, C:G.114, D:S.23, D:R.72, D:S.97 Water bridges: D:T.98, D:T.98, D:T.98, D:D.99

8 x CA: CALCIUM ION(Non-covalent)

CA.5: 7 residues within 4Å: Chain A: N.21, D.101, N.103, D.104 Chain B: G.114 Ligands: GAL-NAG-GAL-FUC.1, CA.6 4 PLIP interactions: 3 interactions with chain A, 1 interactions with chain B Metal complexes: A:N.21, A:D.101, A:D.104, B:G.114 CA.6: 6 residues within 4Å: Chain A: E.95, D.99, D.101, D.104 Ligands: GAL-NAG-GAL-FUC.1, CA.5 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:E.95, A:E.95, A:D.99, A:D.101, A:D.104 CA.7: 6 residues within 4Å: Chain B: E.95, D.99, D.101, D.104 Ligands: GLA-NAG-GAL-FUC.2, CA.8 5 PLIP interactions: 5 interactions with chain B Metal complexes: B:E.95, B:E.95, B:D.99, B:D.101, B:D.104 CA.8: 7 residues within 4Å: Chain A: G.114 Chain B: N.21, D.101, N.103, D.104 Ligands: GLA-NAG-GAL-FUC.2, CA.7 4 PLIP interactions: 3 interactions with chain B, 1 interactions with chain A Metal complexes: B:N.21, B:D.101, B:D.104, A:G.114 CA.9: 6 residues within 4Å: Chain C: E.95, D.99, D.101, D.104 Ligands: GLA-NAG-GAL-FUC.3, CA.10 5 PLIP interactions: 5 interactions with chain C Metal complexes: C:E.95, C:E.95, C:D.99, C:D.101, C:D.104 CA.10: 7 residues within 4Å: Chain C: N.21, D.101, N.103, D.104 Chain D: G.114 Ligands: GLA-NAG-GAL-FUC.3, CA.9 4 PLIP interactions: 3 interactions with chain C, 1 interactions with chain D Metal complexes: C:N.21, C:D.101, C:D.104, D:G.114 CA.12: 6 residues within 4Å: Chain D: E.95, D.99, D.101, D.104 Ligands: NAG-GAL-FUC.4, CA.13 5 PLIP interactions: 5 interactions with chain D Metal complexes: D:E.95, D:E.95, D:D.99, D:D.101, D:D.104 CA.13: 7 residues within 4Å: Chain C: G.114 Chain D: N.21, D.101, N.103, D.104 Ligands: NAG-GAL-FUC.4, CA.12 4 PLIP interactions: 3 interactions with chain D, 1 interactions with chain C Metal complexes: D:N.21, D:D.101, D:D.104, C:G.114

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

GAL.11: 3 residues within 4Å: Chain C: R.72 Ligands: GLA-NAG-GAL-FUC.3, GLA-NAG-GAL-FUC.3 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Boukerb, A.M. et al., Genomic Rearrangements and Functional Diversification of Leca and Lecb Lectin-Coding Regions Impacting the Efficacy of Glycomimetics Directed Against Pseudomonas Aeruginosa. Front.Microbiol. (2016)

Release Date

2015-07-22

Peptides

LECB LECTIN: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

LECB LECTIN