SMTL ID : 8wee.1

Crystal structure of Arabidopsis thaliana MIK2 ectodomain in complex with SCOOP12

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.19 Å

Oligo State

hetero-1-1-mer

Ligands

5 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: 6 residues within 4Å: Chain A: W.362, T.385, V.386, E.409, N.410, N.457 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:N.457 NAG-NAG.3: 7 residues within 4Å: Chain A: S.558, S.559, Y.578, N.580, S.582, R.583, D.604 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:R.583, A:R.583 Water bridges: A:R.583, A:R.583, A:D.628 NAG-NAG.4: 4 residues within 4Å: Chain A: G.355, G.377, N.380, R.404 No protein-ligand interaction detected (PLIP) NAG-NAG.5: 4 residues within 4Å: Chain A: P.280, E.281, N.284, T.305 No protein-ligand interaction detected (PLIP) NAG-NAG.6: 4 residues within 4Å: Chain A: T.391, N.392, N.393, D.415 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:T.391

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.2: 3 residues within 4Å: Chain A: V.155, E.157, N.179 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:V.155

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

NAG.7: 5 residues within 4Å: Chain A: R.97, N.99, T.101, D.124, Y.146 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:D.124, A:Y.146 Hydrogen bonds: A:R.97, A:N.99, A:D.124 NAG.8: 5 residues within 4Å: Chain A: S.91, S.94, P.118, N.119, K.143 2 PLIP interactions: 2 interactions with chain A Water bridges: A:S.91, A:K.143 NAG.9: 3 residues within 4Å: Chain A: P.238, N.239, N.263 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:P.238, A:N.263 Water bridges: A:R.241 NAG.10: 2 residues within 4Å: Chain A: N.463, N.487 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:N.487 Water bridges: A:N.464, A:N.465, A:N.487 NAG.11: 6 residues within 4Å: Chain A: N.224, S.225, R.247, N.248, N.249, Q.273 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.248 Water bridges: A:N.249, A:N.249 NAG.12: 2 residues within 4Å: Chain A: S.209, N.212 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.212 NAG.13: 1 residues within 4Å: Chain A: N.323 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.323

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Hu, Y.X. et al., Mechanistic study of SCOOPs recognition by MIK2-BAK1 complex reveals the role of N-glycans in plant ligand-receptor-coreceptor complex formation. Nature Plants (2024)

Release Date

2024-11-06

Peptides

MDIS1-interacting receptor like kinase 2: A
SERINE-RICH ENDOGENOUS PEPTIDE (SCOOP): B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

MDIS1-interacting receptor like kinase 2

SERINE-RICH ENDOGENOUS PEPTIDE (SCOOP)

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