SMTL ID : 8vcm.1

Crystal structure of rMcL-1 in complex with galactose

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.21 Å

Oligo State

homo-dimer

Ligands

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

GLA.1: 10 residues within 4Å: Chain A: H.18, P.19, K.20, G.21, G.22, V.33, H.35, D.37, H.39, E.121 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:H.18, A:G.21, A:D.37, A:H.39 Salt bridges: A:H.35 GLA.2: 10 residues within 4Å: Chain A: E.77, H.110, P.111, K.112, G.113, G.114, V.125, H.127, D.129, H.131 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:H.110, A:P.111, A:G.113, A:D.129, A:D.129, A:H.131 Salt bridges: A:H.127 GLA.3: 11 residues within 4Å: Chain A: D.29, H.66, P.67, L.68, G.69, G.70, V.81, H.83, D.85, H.87, R.89 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:G.69, A:H.87, A:R.89 GLA.5: 10 residues within 4Å: Chain B: H.18, P.19, K.20, G.21, G.22, V.33, H.35, D.37, H.39, E.121 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:P.19, B:G.21, B:H.39 Salt bridges: B:H.35 GLA.6: 10 residues within 4Å: Chain B: D.29, H.66, P.67, L.68, G.69, G.70, V.81, H.83, D.85, H.87 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:P.67, B:G.69, B:G.69, B:D.85, B:H.87 Salt bridges: B:H.83 GLA.7: 10 residues within 4Å: Chain B: E.77, H.110, P.111, K.112, G.113, G.114, V.125, H.127, D.129, H.131 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:P.111, B:G.113, B:D.129, B:H.131 Salt bridges: B:H.127

1 x MG: MAGNESIUM ION(Non-covalent)

MG.4: 1 residues within 4Å: Chain A: R.86 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Loera-Rubalcava, J. et al., A mytilectin from Mytilus californianus: Study of its unique galactoside interactions, oligomerization patterns, and antifungal activity. Int.J.Biol.Macromol. (2025)

Release Date

2024-12-18

Peptides

Galactose-binding lectin: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Galactose-binding lectin

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