SMTL ID : 3nbd.1

Clitocybe nebularis ricin B-like lectin (CNL) in complex with lactose, crystallized at pH 7.1

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.15 Å

Oligo State

homo-dimer

Ligands

2 x GLC- GAL: beta-D-galactopyranose-(1-4)-alpha-D-glucopyranose(Non-covalent)

GLC-GAL.1: 8 residues within 4Å: Chain A: D.20, L.21, T.22, G.23, I.33, H.35, N.38, N.46 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:D.20, A:G.23, A:N.38, A:N.46 GLC-GAL.2: 7 residues within 4Å: Chain B: D.20, L.21, T.22, G.23, H.35, N.38, N.46 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:D.20, B:G.23, B:N.38, B:N.46

5 x SO4: SULFATE ION(Non-functional Binders)

SO4.3: 3 residues within 4Å: Chain A: Y.44, G.45, N.66 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:G.45, A:N.66 Water bridges: A:S.24, A:N.46 SO4.4: 3 residues within 4Å: Chain A: D.132, E.133, T.134 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:D.132, A:E.133, A:T.134 SO4.5: 2 residues within 4Å: Chain A: N.29, R.74 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.29 Salt bridges: A:R.74 SO4.6: 3 residues within 4Å: Chain B: Y.44, G.45, N.66 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:G.45, B:N.66 Water bridges: B:N.46, B:N.66 SO4.7: 4 residues within 4Å: Chain B: A.98, G.99, R.105, E.133 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:G.99 Water bridges: B:R.105, B:R.105 Salt bridges: B:R.105

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Pohleven, J. et al., Bivalent carbohydrate binding is required for biological activity of Clitocybe nebularis lectin (CNL), the N,N'-diacetyllactosediamine (GalNAc beta 1-4GlcNAc, LacdiNAc)-specific lectin from basidiomycete C. nebularis. J.Biol.Chem. (2012)

Release Date

2011-09-21

Peptides

Ricin B-like lectin: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Ricin B-like lectin

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