SMTL ID : 7drc.1

Cryo-EM structure of plant receptor like protein RXEG1 in complex with xyloglucanase XEG1 and BAK1

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-1-1-1-mer

Ligands

5 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.1: 3 residues within 4Å: Chain C: M.161, T.164, N.186 No protein-ligand interaction detected (PLIP) NAG-NAG-BMA.2: 3 residues within 4Å: Chain B: N.73, T.75, T.76 No protein-ligand interaction detected (PLIP) NAG-NAG-BMA.7: 5 residues within 4Å: Chain B: C.621, K.622, S.623, T.624, N.647 No protein-ligand interaction detected (PLIP) NAG-NAG-BMA.8: 3 residues within 4Å: Chain B: Q.743, Q.745, N.767 No protein-ligand interaction detected (PLIP) NAG-NAG-BMA.9: 11 residues within 4Å: Chain B: Q.805, K.807, N.808, S.826, S.827, N.848, S.850, R.851, S.870, D.872, V.894 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:R.851, B:R.851

1 x NAG- NAG- BMA- MAN- MAN- MAN- MAN- MAN: alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose-(1-6)-[alpha-D-mannopyranose-(1-3)]alpha-D-mannopyranose-(1-6)-[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-MAN-MAN-MAN-MAN.3: 17 residues within 4Å: Chain A: S.152, K.155 Chain B: F.88, S.120, V.121, Y.141, N.143, S.145, S.146, D.167, L.189, Y.317, D.319, S.321, N.349, R.368, Y.370 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:K.155 Hydrophobic interactions: B:F.88

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.4: 4 residues within 4Å: Chain B: N.286, S.307, S.308, N.311 No protein-ligand interaction detected (PLIP) NAG-NAG.5: 1 residues within 4Å: Chain B: N.481 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.6: 12 residues within 4Å: Chain B: Y.467, P.515, S.539, L.540, N.562, S.564, N.565, V.584, D.586, I.605, Y.796 Chain C: T.55 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:T.55

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

NAG.10: 2 residues within 4Å: Chain B: C.134, N.159 No protein-ligand interaction detected (PLIP) NAG.11: 2 residues within 4Å: Chain B: Q.204, N.234 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:Q.204 NAG.12: 2 residues within 4Å: Chain B: I.232, N.261 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.261 NAG.13: 2 residues within 4Å: Chain B: Q.510, N.532 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.532 NAG.14: 2 residues within 4Å: Chain B: N.518, N.542 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.542 NAG.15: 2 residues within 4Å: Chain B: N.591, Q.612 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:N.591, B:Q.612 NAG.16: 2 residues within 4Å: Chain B: Q.636, N.660 1 PLIP interactions: 1 interactions with chain B Hydrophobic interactions: B:Q.636 NAG.17: 2 residues within 4Å: Chain B: V.831, N.855 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.855 NAG.18: 1 residues within 4Å: Chain B: N.888 No protein-ligand interaction detected (PLIP) NAG.19: 2 residues within 4Å: Chain C: N.46, N.82 No protein-ligand interaction detected (PLIP) NAG.20: 2 residues within 4Å: Chain C: N.106, R.130 No protein-ligand interaction detected (PLIP) NAG.21: 2 residues within 4Å: Chain C: E.114, N.117 No protein-ligand interaction detected (PLIP) NAG.22: 2 residues within 4Å: Chain C: L.128, N.152 2 PLIP interactions: 2 interactions with chain C Hydrophobic interactions: C:L.128 Hydrogen bonds: C:N.152

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Sun, Y. et al., Plant receptor-like protein activation by a microbial glycoside hydrolase. Nature (2022)

Release Date

2022-06-22

Peptides

Cell 12A endoglucanase: A
Membrane-localized LRR receptor-like protein: B
Brassinosteroid insensitive 1-associated receptor kinase 1: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
C

C
B

Cell 12A endoglucanase

Membrane-localized LRR receptor-like protein

Brassinosteroid insensitive 1-associated receptor kinase 1

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