SMTL ID : 5x4a.1 (1 other biounit)

SLL-2-Forssman antigen tetrasaccharides complex

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.40 Å

Oligo State

homo-hexamer

Ligands

6 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG-NAG.1: 7 residues within 4Å: Chain A: N.60, S.62, D.64, H.74, N.76, W.78 Chain B: R.16 No protein-ligand interaction detected (PLIP) NAG-NAG.3: 6 residues within 4Å: Chain B: N.60, S.62, D.64, H.74, N.76 Chain C: R.16 No protein-ligand interaction detected (PLIP) NAG-NAG.5: 7 residues within 4Å: Chain A: R.16 Chain C: N.60, S.62, D.64, H.74, N.76, W.78 No protein-ligand interaction detected (PLIP) NAG-NAG.6: 8 residues within 4Å: Chain D: N.60, S.62, D.64, H.74, N.76, W.78 Chain E: R.16, M.48 No protein-ligand interaction detected (PLIP) NAG-NAG.8: 6 residues within 4Å: Chain E: N.60, D.64, H.74, N.76, W.78 Chain F: R.16 No protein-ligand interaction detected (PLIP) NAG-NAG.10: 6 residues within 4Å: Chain D: R.16 Chain F: N.60, S.62, D.64, H.74, N.76 No protein-ligand interaction detected (PLIP)

5 x GAL- GLA- NGA- A2G: 2-acetamido-2-deoxy-alpha-D-galactopyranose-(1-3)-2-acetamido-2-deoxy-beta-D-galactopyranose-(1-3)-alpha-D-galactopyranose-(1-4)-beta-D-galactopyranose

GAL-GLA-NGA-A2G.2: 8 residues within 4Å: Chain A: N.56, R.58, W.78, Y.79 Chain B: W.18, D.50, D.52, W.84 5 PLIP interactions: 1 interactions with chain B, 4 interactions with chain A Hydrogen bonds: B:D.50, A:N.56, A:R.58, A:W.78 Hydrophobic interactions: A:Y.79, B:W.84 GAL-GLA-NGA-A2G.4: 7 residues within 4Å: Chain B: N.56, R.58, W.78, Y.79 Chain C: W.18, D.50, W.84 5 PLIP interactions: 4 interactions with chain B, 1 interactions with chain C Hydrophobic interactions: B:Y.79, C:W.84 Hydrogen bonds: B:N.56, B:R.58, B:W.78, C:D.50 GAL-GLA-NGA-A2G.7: 8 residues within 4Å: Chain D: N.56, R.58, W.78, Y.79 Chain E: W.18, D.50, D.52, W.84 2 PLIP interactions: 1 interactions with chain D, 1 interactions with chain E Hydrogen bonds: D:N.56, D:R.58, D:W.78, E:D.50, D:Y.79 Hydrophobic interactions: E:W.84 GAL-GLA-NGA-A2G.9: 8 residues within 4Å: Chain E: N.56, R.58, W.78, Y.79 Chain F: W.18, D.50, D.52, W.84 2 PLIP interactions: 1 interactions with chain E, 1 interactions with chain F Hydrophobic interactions: E:Y.79, F:W.84 Hydrogen bonds: E:N.56, E:R.58, E:W.78, F:D.50, E:Y.79 GAL-GLA-NGA-A2G.11: 7 residues within 4Å: Chain D: W.18, D.50, W.84 Chain F: N.56, R.58, W.78, Y.79 2 PLIP interactions: 1 interactions with chain F, 1 interactions with chain D Hydrophobic interactions: F:Y.79, D:W.84 Hydrogen bonds: F:N.56, F:R.58, F:W.78, D:W.84, F:Y.79

1 x GLA: alpha-D-galactopyranose(Non-covalent)

GLA.12: 9 residues within 4Å: Chain A: W.18, D.50, D.52, W.84, N.85 Chain C: N.56, R.58, W.78, Y.79 7 PLIP interactions: 3 interactions with chain A, 4 interactions with chain C Hydrogen bonds: A:D.50, A:D.52, A:N.85, C:N.56, C:R.58, C:W.78 Salt bridges: C:R.58

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kita, A. et al., Crystal structure of octocoral lectin SLL-2 complexed with Forssman antigen tetrasaccharide. Glycobiology (2017)

Release Date

2017-09-20

Peptides

Galactose-binding lectin: ABCDEF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

F
F

Galactose-binding lectin

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