SMTL ID : 6gre.1 (1 other biounit)

Crystal structure of the tandem DUF26 ectodomain from the Arabidopsis thaliana cysteine-rich receptor-like protein PDLP5.

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.29 Å

Oligo State

monomer

Ligands

1 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: 3 residues within 4Å: Chain A: A.16, Y.94, N.109 No protein-ligand interaction detected (PLIP)

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

NAG.2: 4 residues within 4Å: Chain A: Y.44, N.46, L.113, D.171 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:L.113, A:D.171 Hydrogen bonds: A:N.46 Water bridges: A:N.46

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

EDO.3: 3 residues within 4Å: Chain A: K.124, Y.199 Ligands: EDO.4 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Y.199, A:Y.199 EDO.4: 7 residues within 4Å: Chain A: K.124, C.125, G.126, G.197, G.198, Y.199 Ligands: EDO.3 2 PLIP interactions: 2 interactions with chain A Water bridges: A:G.198, A:F.209 EDO.5: 2 residues within 4Å: Chain A: Q.116, Q.176 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Q.176 Water bridges: A:Q.116, A:Q.116 EDO.6: 3 residues within 4Å: Chain A: C.125, G.126, Q.127 No protein-ligand interaction detected (PLIP)

1 x NA: SODIUM ION(Non-functional Binders)

NA.7: 4 residues within 4Å: Chain A: R.67, D.69, Y.154, T.156 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.67, A:Y.154, A:Y.154

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

SO4.8: 3 residues within 4Å: Chain A: T.42, R.43, Y.44 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:T.42, A:R.43, A:Y.44 Salt bridges: A:R.43

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Vaattovaara, A. et al., Mechanistic insights into the evolution of DUF26-containing proteins in land plants. Commun Biol (2019)

Release Date

2018-12-26

Peptides

Cysteine-rich repeat secretory protein 2: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Cysteine-rich repeat secretory protein 2

Related Entries With Identical Sequence