SMTL ID : 8d3t.1 (1 other biounit)

Crystal structure of GalS1 from Populus trichocarpas

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.37 Å

Oligo State

homo-dimer

Ligands

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

NAG-NAG.1: 8 residues within 4Å: Chain A: P.156, P.157, Y.158, Y.160, E.161, A.253, N.254 Ligands: NAG-NAG-BMA-MAN-MAN-MAN-MAN.2 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:P.156 NAG-NAG.3: 9 residues within 4Å: Chain B: R.155, P.156, P.157, Y.158, Y.160, E.161, S.192, N.254 Ligands: NAG-NAG-BMA-MAN-MAN-MAN-MAN.4 1 PLIP interactions: 1 interactions with chain B Hydrophobic interactions: B:P.156

2 x NAG- NAG- BMA- MAN- MAN- MAN- MAN: alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-6)]beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-BMA-MAN-MAN-MAN-MAN.2: 26 residues within 4Å: Chain A: G.49, T.52, T.53, F.54, A.55, Y.89, N.107, T.109, H.247, R.250, Y.251, S.281, N.282, Y.283, T.284, Q.333, K.335, N.336, A.337, Y.338, I.349, G.350, K.351 Ligands: NAG-NAG.1, NAG-NAG.1, NAG.7 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.250, A:K.335 NAG-NAG-BMA-MAN-MAN-MAN-MAN.4: 26 residues within 4Å: Chain B: G.49, T.53, F.54, A.55, K.87, Y.89, N.107, T.109, H.247, R.250, Y.251, S.281, N.282, Y.283, T.284, Q.333, K.335, N.336, A.337, Y.338, I.349, G.350, K.351 Ligands: NAG-NAG.3, NAG-NAG.3, NAG.11 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:K.335 Water bridges: B:R.250

9 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)(Non-covalent)

NAG.5: 5 residues within 4Å: Chain A: N.80, G.81, S.82, Q.116, D.117 No protein-ligand interaction detected (PLIP) NAG.6: 3 residues within 4Å: Chain A: Y.170, G.171, N.172 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.172 NAG.7: 4 residues within 4Å: Chain A: N.282, G.350, K.351 Ligands: NAG-NAG-BMA-MAN-MAN-MAN-MAN.2 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.351 Water bridges: A:K.351 NAG.8: 2 residues within 4Å: Chain A: N.300, F.379 No protein-ligand interaction detected (PLIP) NAG.9: 8 residues within 4Å: Chain B: S.78, N.79, N.80, S.82, I.84, D.117, A.119, G.120 4 PLIP interactions: 4 interactions with chain B Hydrophobic interactions: B:A.119 Hydrogen bonds: B:S.78, B:N.80, B:S.82 NAG.10: 3 residues within 4Å: Chain B: Y.170, G.171, N.172 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.172 NAG.11: 4 residues within 4Å: Chain B: N.282, G.350, K.351 Ligands: NAG-NAG-BMA-MAN-MAN-MAN-MAN.4 No protein-ligand interaction detected (PLIP) NAG.12: 2 residues within 4Å: Chain B: N.300, F.379 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.300 NAG.13: 3 residues within 4Å: Chain B: N.150, S.152, K.153 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:N.150, B:K.153

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Prabhakar, P.K. et al., Structural and biochemical insight into a modular beta-1,4-galactan synthase in plants. Nat.Plants (2023)

Release Date

2023-03-15

Peptides

Galactan synthase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Galactan synthase

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