SMTL ID : 5yre.1

Crystal structure of PPL3A

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.40 Å

Oligo State

hetero-1-1-mer

Ligands

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

SO4.1: 2 residues within 4Å: Chain A: R.28, R.43 2 PLIP interactions: 2 interactions with chain A Salt bridges: A:R.28, A:R.43 SO4.2: 1 residues within 4Å: Chain A: R.128 6 PLIP interactions: 6 interactions with chain A Water bridges: A:R.128, A:R.128, A:R.128, A:R.128, A:R.128 Salt bridges: A:R.128 SO4.3: 1 residues within 4Å: Chain A: K.64 5 PLIP interactions: 5 interactions with chain A Water bridges: A:T.34, A:K.64, A:K.64, A:K.64 Salt bridges: A:K.64 SO4.5: 2 residues within 4Å: Chain B: A.14, R.128 4 PLIP interactions: 4 interactions with chain B Water bridges: B:A.14, B:A.14, B:R.128 Salt bridges: B:R.128 SO4.6: 2 residues within 4Å: Chain B: R.28, K.68 2 PLIP interactions: 2 interactions with chain B Salt bridges: B:R.28, B:K.68 SO4.7: 2 residues within 4Å: Chain B: R.50, Q.51 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:Q.51 Water bridges: B:K.41, B:K.41, B:Q.51, B:Q.51 Salt bridges: B:R.50 SO4.8: 1 residues within 4Å: Chain B: R.104 1 PLIP interactions: 1 interactions with chain B Salt bridges: B:R.104

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.4: 7 residues within 4Å: Chain A: G.11, G.12, Y.89, G.130, C.131, R.132, D.134 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:G.12, A:C.131, A:R.132, A:R.132 GOL.9: 7 residues within 4Å: Chain B: G.11, G.12, Y.89, G.130, C.131, R.132, D.134 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:G.12, B:C.131, B:R.132, B:R.132

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-A: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

PPL3-A

PPL3-A

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