SMTL ID : 5gij.1

Crystal structure of TDR-TDIF complex

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.00 Å

Oligo State

hetero-1-1-mer

Ligands

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

NAG-NAG-MAN.1: 5 residues within 4Å: Chain A: S.59, H.60, Y.79, N.81, D.105 No protein-ligand interaction detected (PLIP)

4 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: 1 residues within 4Å: Chain A: N.326 No protein-ligand interaction detected (PLIP) NAG-NAG.3: 3 residues within 4Å: Chain A: N.324, N.348 Ligands: NAG-NAG-MAN-MAN.5 No protein-ligand interaction detected (PLIP) NAG-NAG.4: 2 residues within 4Å: Chain A: E.376, N.400 No protein-ligand interaction detected (PLIP) NAG-NAG.7: 6 residues within 4Å: Chain A: F.468, Q.490, N.512, Q.515, D.534, D.536 No protein-ligand interaction detected (PLIP)

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

NAG-NAG-MAN-MAN.5: 9 residues within 4Å: Chain A: S.419, Y.439, N.441, T.444, I.463, S.465, F.468, E.488 Ligands: NAG-NAG.3 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:F.468

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

NAG-NAG-MAN-MAN-FUC.6: 2 residues within 4Å: Chain A: I.472, N.495 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:I.472

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

NAG.8: 2 residues within 4Å: Chain A: N.228, Q.252 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Q.252 NAG.9: 2 residues within 4Å: Chain A: E.238, N.241 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:E.238 NAG.10: 2 residues within 4Å: Chain A: S.268, N.292 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.292 NAG.11: 4 residues within 4Å: Chain A: E.387, S.388, R.411, N.412 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.411, A:N.412

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Morita, J. et al., Crystal structure of the plant receptor-like kinase TDR in complex with the TDIF peptide. Nat Commun (2016)

Release Date

2016-08-24

Peptides

Leucine-rich repeat receptor-like protein kinase TDR: A
Peptide from CLAVATA3/ESR (CLE)-related protein 41: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
D

Leucine-rich repeat receptor-like protein kinase TDR

Peptide from CLAVATA3/ESR (CLE)-related protein 41

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