SMTL ID : 6gre.2 (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

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: 5 residues within 4Å: Chain A: A.16, P.56, T.57, Y.94, N.109 No protein-ligand interaction detected (PLIP) NAG-NAG.2: 3 residues within 4Å: Chain A: Y.44, N.46, D.171 No protein-ligand interaction detected (PLIP)

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

EDO.3: 4 residues within 4Å: Chain A: T.156, G.157, G.158, Q.163 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:T.156, A:T.156, A:Q.163 Water bridges: A:G.157 EDO.4: 4 residues within 4Å: Chain A: S.141, D.142, G.145, K.189 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.141, A:K.189 EDO.5: 4 residues within 4Å: Chain A: R.43, G.68, Y.154 Ligands: SO4.9 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.43, A:Y.154 Water bridges: A:S.153

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.6: 7 residues within 4Å: Chain A: Y.10, V.12, F.97, R.106, I.121, L.202, S.203 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Y.10

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:D.69 Water bridges: A:D.69

1 x AE3: 2-(2-ETHOXYETHOXY)ETHANOL(Non-covalent)

AE3.8: 5 residues within 4Å: Chain A: K.124, C.125, G.126, Q.127, P.128 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:C.125

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

SO4.9: 4 residues within 4Å: Chain A: T.42, R.43, Y.44 Ligands: EDO.5 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:T.42, A:R.43, A:Y.44 Water bridges: A:T.42 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
B

Cysteine-rich repeat secretory protein 2

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