SMTL ID : 9s87.1

Crystal structure of the BRI1 ectodomain from Arabidopsis thaliana in complex with castasterone.

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.14 Å

Oligo State

monomer

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: 2 residues within 4Å: Chain A: N.112, G.113 No protein-ligand interaction detected (PLIP) NAG-NAG.4: 5 residues within 4Å: Chain A: P.434, T.435, S.437, N.438, S.459 No protein-ligand interaction detected (PLIP)

1 x NAG- NAG- BMA- MAN: alpha-D-mannopyranose-(1-3)-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.2: 11 residues within 4Å: Chain A: S.107, S.130, R.131, F.152, N.154, S.156, S.157, V.177, D.179, H.204 Ligands: NAG-NAG-BMA-MAN-MAN.3 No protein-ligand interaction detected (PLIP)

1 x NAG- NAG- BMA- MAN- MAN: 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.3: 12 residues within 4Å: Chain A: S.230, H.249, D.251, S.253, G.254, L.273, N.275, S.277, S.278, Y.295, E.300 Ligands: NAG-NAG-BMA-MAN.2 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:S.278 Water bridges: A:S.157

1 x NAG- NAG- FUC: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-[alpha-L-fucopyranose-(1-6)]2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-FUC.5: 5 residues within 4Å: Chain A: M.485, Y.486, K.488, N.510, R.534 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.534, A:R.534

1 x NAG- NAG- BMA: beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-BMA.6: 10 residues within 4Å: Chain A: R.523, N.545, T.569, E.608, H.610, S.630, T.631, R.632, N.633, P.634 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:S.630

1 x NAG- FUC: alpha-L-fucopyranose-(1-6)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG-FUC.7: 6 residues within 4Å: Chain A: S.549, G.550, N.551, L.571, N.573, G.574 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.573

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

SO4.8: 3 residues within 4Å: Chain A: S.31, Y.33, R.34 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.31 Salt bridges: A:R.34 SO4.9: 3 residues within 4Å: Chain A: R.596, Q.619, H.645 3 PLIP interactions: 3 interactions with chain A Water bridges: A:R.596 Salt bridges: A:R.596, A:H.645

1 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.10: 9 residues within 4Å: Chain A: S.258, G.259, D.260, F.261, F.281, V.282, G.283, P.286, F.303 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:S.258, A:V.282 Water bridges: A:G.259, A:F.261

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

NAG.11: 5 residues within 4Å: Chain A: S.186, K.211, N.233, S.235, K.256 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.235, A:K.256 NAG.13: 3 residues within 4Å: Chain A: N.351, S.353, E.376 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.351, A:S.353 NAG.14: 4 residues within 4Å: Chain A: E.376, S.378, N.401, S.403 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.401, A:S.403

1 x CIT: CITRIC ACID(Non-functional Binders)

CIT.12: 6 residues within 4Å: Chain A: D.260, S.262, R.263, S.266, P.286, P.287 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:R.263, A:P.287 Salt bridges: A:R.263, A:R.263

1 x 01: Castasterone

01.15: 20 residues within 4Å: Chain A: I.540, I.563, W.564, I.592, Y.597, Y.599, K.601, L.615, Y.642, H.645, T.646, S.647, P.648, T.649, M.657, F.681, I.682, N.705, I.706, T.729 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:I.563, A:Y.599, A:Y.599, A:L.615, A:Y.642, A:F.681, A:F.681, A:I.706 Hydrogen bonds: A:Y.597, A:Y.597, A:S.647, A:T.729

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Caregnato, A. et al., A mechanistic framework for the recognition of chemically diverse brassinosteroids by BRI1-family receptor kinases. To Be Published

Release Date

2025-09-10

Peptides

Protein BRASSINOSTEROID INSENSITIVE 1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Protein BRASSINOSTEROID INSENSITIVE 1

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