SMTL ID : 2zmn.2 (5 other biounits)

Crystal Structure of basic winged bean lectin in complex with Gal-alpha- 1,6 Glc

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.90 Å

Oligo State

homo-dimer

Ligands

1 x NAG- NAG- BMA- FUC: beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-[alpha-L-fucopyranose-(1-3)]2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-BMA-FUC.1: 4 residues within 4Å: Chain A: F.80, P.83, Q.217, N.219 No protein-ligand interaction detected (PLIP)

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

NAG-NAG.2: 3 residues within 4Å: Chain A: R.21, N.44, P.213 No protein-ligand interaction detected (PLIP)

2 x BGC- GLA: alpha-D-galactopyranose-(1-6)-beta-D-glucopyranose(Non-covalent)

BGC-GLA.3: 10 residues within 4Å: Chain A: H.84, D.87, G.104, G.105, F.126, N.128, G.211, D.212, G.215, A.220 4 PLIP interactions: 4 interactions with chain A Salt bridges: A:H.84 Hydrogen bonds: A:D.87, A:G.105, A:N.128, A:D.212 BGC-GLA.5: 10 residues within 4Å: Chain B: H.84, D.87, G.104, G.105, F.126, N.128, G.211, D.212, G.215, A.220 5 PLIP interactions: 5 interactions with chain B Salt bridges: B:H.84 Hydrogen bonds: B:D.87, B:G.105, B:N.128, B:N.128, B:D.212

1 x NAG- FUC- NAG: alpha-L-fucopyranose-(1-3)-[2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)]2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-FUC-NAG.4: 2 residues within 4Å: Chain B: R.21, N.44 No protein-ligand interaction detected (PLIP)

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

MN.6: 5 residues within 4Å: Chain A: E.122, D.124, D.131, H.136, S.146 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:E.122, A:D.124, A:D.131, A:H.136, H2O.1 MN.8: 5 residues within 4Å: Chain B: E.122, D.124, D.131, H.136, S.146 5 PLIP interactions: 4 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:E.122, B:D.124, B:D.131, B:H.136, H2O.1

2 x CA: CALCIUM ION(Non-covalent)

CA.7: 4 residues within 4Å: Chain A: D.124, F.126, N.128, D.131 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.124, A:F.126, A:D.131, H2O.1, H2O.1 CA.9: 4 residues within 4Å: Chain B: D.124, F.126, N.128, D.131 5 PLIP interactions: 3 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:D.124, B:F.126, B:D.131, H2O.2, H2O.2

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kulkarni, K.A. et al., Structure and sugar-specificity of basic winged-bean lectin: structures of new disaccharide complexes and a comparative study with other known disaccharide complexes of the lectin. Acta Crystallogr.,Sect.D (2008)

Release Date

2008-07-29

Peptides

Basic agglutinin: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

B
D

Basic agglutinin

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