SMTL ID : 5yri.1

PPL3B-trehalose complex

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.65 Å

Oligo State

hetero-1-1-mer

Ligands

1 x GLC- GLC: alpha-D-glucopyranose-(1-1)-alpha-D-glucopyranose(Non-covalent)

GLC-GLC.1: 8 residues within 4Å: Chain B: G.11, G.12, W.62, Y.89, G.130, C.131, R.132, D.134 1 PLIP interactions: 1 interactions with chain B Water bridges: B:Q.61

2 x GLC: alpha-D-glucopyranose(Non-functional Binders)

GLC.2: 9 residues within 4Å: Chain A: G.11, G.12, Y.89, W.129, G.130, C.131, R.132, D.134 Ligands: GLC.3 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:G.12, A:C.131, A:R.132, A:R.132 Water bridges: A:G.12, A:D.134 GLC.3: 1 residues within 4Å: Ligands: GLC.2 No protein-ligand interaction detected (PLIP)

3 x SO4: SULFATE ION(Non-covalent)(Non-functional Binders)

SO4.4: 1 residues within 4Å: Chain A: R.128 3 PLIP interactions: 3 interactions with chain A Water bridges: A:A.14, A:A.14 Salt bridges: A:R.128 SO4.5: 3 residues within 4Å: Chain B: S.74, K.99, R.100 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:S.74, B:S.74 Salt bridges: B:K.99, B:R.100 SO4.6: 2 residues within 4Å: Chain B: R.50, Q.51 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:Q.51 Salt bridges: B:R.50

Links

RCSB   PDBe   PDBj   PDBsum   CATH   PLIP

Citation

Nakae, S. et al., Structures of jacalin-related lectin PPL3 regulating pearl shell biomineralization. Proteins (2018)

Release Date

2018-08-29

Peptides

PPL3-a: A
PPL3-b: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

PPL3-a

PPL3-b

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