SMTL ID : 2bmz.1 (1 other biounit)

Banana Lectin bound to Xyl-b1,3 Man-a-O-Methyl (XM)

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.40 Å

Oligo State

homo-dimer

Ligands

4 x MMA- XYP: beta-D-xylopyranose-(1-3)-methyl alpha-D-mannopyranoside(Non-functional Binders)(Non-covalent)

MMA-XYP.1: 8 residues within 4Å: Chain A: G.34, D.35, V.36, D.38, G.59, G.60, Y.83, F.131 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:D.35, A:V.36, A:V.36, A:G.60, A:G.60 Water bridges: A:T.61, A:T.61, A:T.61 MMA-XYP.2: 7 residues within 4Å: Chain A: G.14, G.15, V.88, G.129, K.130, F.131, D.133 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:G.15, A:K.130, A:F.131, A:F.131, A:G.15 Water bridges: A:G.14 MMA-XYP.7: 8 residues within 4Å: Chain B: G.34, D.35, V.36, D.38, G.59, G.60, Y.83, F.131 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:G.34, B:D.35, B:V.36, B:V.36, B:G.60, B:G.60 Water bridges: B:T.61, B:T.61, B:T.61 MMA-XYP.8: 6 residues within 4Å: Chain B: G.14, G.15, G.129, K.130, F.131, D.133 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:G.15, B:K.130, B:F.131, B:F.131, B:G.15

4 x SO4: SULFATE ION(Non-covalent)(Non-functional Binders)

SO4.3: 3 residues within 4Å: Chain A: S.16, A.17, R.127 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:A.17 Salt bridges: A:R.127 SO4.4: 1 residues within 4Å: Chain A: R.53 3 PLIP interactions: 3 interactions with chain A Water bridges: A:M.20, A:R.53 Salt bridges: A:R.53 SO4.9: 3 residues within 4Å: Chain B: S.16, A.17, R.127 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:A.17 Salt bridges: B:R.127 SO4.10: 3 residues within 4Å: Chain B: T.52, R.53, H.54 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:H.54, B:H.54 Salt bridges: B:R.53

2 x CD: CADMIUM ION(Non-covalent)

CD.5: 2 residues within 4Å: Chain A: D.41, H.54 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:D.41, A:D.41, A:H.54 CD.6: 1 residues within 4Å: Chain A: H.84 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBj   PDBsum   CATH   PLIP

Citation

Meagher, J.L. et al., Crystal Structure of Banana Lectin Reveals a Novel Second Sugar Binding Site. Glycobiology (2005)

Release Date

2005-06-16

Peptides

RIPENING-ASSOCIATED PROTEIN: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

RIPENING-ASSOCIATED PROTEIN

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