SMTL ID : 2phu.1

Pterocarpus angolensis lectin in complex with Man-8D1D3

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

homo-dimer

Ligands

1 x BMA- MAN- MAN- MAN- MAN: alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose-(1-6)-[alpha-D-mannopyranose-(1-3)]alpha-D-mannopyranose-(1-6)-beta-D-mannopyranose

BMA-MAN-MAN-MAN-MAN.1: 15 residues within 4Å: Chain B: S.45, N.83, A.85, D.86, G.104, G.105, G.106, F.132, A.134, D.136, S.137, N.138, G.220, E.221, Q.222 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:E.221, B:N.83

2 x MAN: alpha-D-mannopyranose(Non-covalent)

MAN.2: 10 residues within 4Å: Chain A: A.85, D.86, G.105, G.106, F.132, N.138, G.220, E.221, Q.222 Ligands: MAN.3 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:G.106, A:N.138, A:N.138, A:G.220, A:E.221, A:Q.222, A:Q.222 Water bridges: A:G.104 MAN.3: 2 residues within 4Å: Chain A: S.137 Ligands: MAN.2 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:S.137

2 x MN: MANGANESE (II) ION(Non-covalent)

MN.4: 4 residues within 4Å: Chain A: E.128, D.130, D.141, H.146 6 PLIP interactions: 4 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:E.128, A:D.130, A:D.141, A:H.146, H2O.1, H2O.1 MN.6: 4 residues within 4Å: Chain B: E.128, D.130, D.141, H.146 6 PLIP interactions: 4 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:E.128, B:D.130, B:D.141, B:H.146, H2O.4, H2O.4

2 x CA: CALCIUM ION(Non-covalent)

CA.5: 4 residues within 4Å: Chain A: D.130, F.132, N.138, D.141 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.130, A:F.132, A:D.141, H2O.1, H2O.1 CA.7: 4 residues within 4Å: Chain B: D.130, F.132, N.138, D.141 5 PLIP interactions: 3 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:D.130, B:F.132, B:D.141, H2O.4, H2O.4

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Garcia-Pino, A. et al., How a plant lectin recognizes high mannose oligosaccharides. Plant Physiol. (2007)

Release Date

2007-07-10

Peptides

Lectin: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Lectin

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