SMTL ID : 3fz3.1

Crystal Structure of almond Pru1 protein

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.40 Å

Oligo State

homo-hexamer

Ligands

6 x CA: CALCIUM ION(Non-covalent)

CA.1: 3 residues within 4Å: Chain A: R.174, R.357, L.358 No protein-ligand interaction detected (PLIP) CA.4: 3 residues within 4Å: Chain B: R.174, L.358, K.359 No protein-ligand interaction detected (PLIP) CA.6: 4 residues within 4Å: Chain C: R.174, R.357, L.358, K.359 No protein-ligand interaction detected (PLIP) CA.8: 4 residues within 4Å: Chain D: R.174, R.357, L.358, K.359 No protein-ligand interaction detected (PLIP) CA.10: 2 residues within 4Å: Chain E: R.174, L.358 No protein-ligand interaction detected (PLIP) CA.13: 4 residues within 4Å: Chain F: R.174, R.357, L.358, K.359 No protein-ligand interaction detected (PLIP)

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

NA.2: 1 residues within 4Å: Chain A: N.276 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:N.276, B:Q.429 NA.3: 2 residues within 4Å: Chain A: R.485, R.490 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.485, A:R.490, A:R.490 NA.5: 2 residues within 4Å: Chain B: N.276 Chain C: Q.429 2 PLIP interactions: 1 interactions with chain C, 1 interactions with chain B Hydrogen bonds: C:Q.429, B:N.276 NA.7: 1 residues within 4Å: Chain C: N.276 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:N.276 NA.9: 0 residues within 4Å: (No contacts) 2 PLIP interactions: 1 interactions with chain E, 1 interactions with chain D Hydrogen bonds: E:Q.429, D:N.276 NA.11: 2 residues within 4Å: Chain E: N.276 Chain F: R.427 3 PLIP interactions: 2 interactions with chain F, 1 interactions with chain E Hydrogen bonds: F:R.427, F:Q.429, E:N.276 NA.12: 3 residues within 4Å: Chain E: R.485, R.490, Q.516 3 PLIP interactions: 3 interactions with chain E Hydrogen bonds: E:R.485, E:R.490, E:Q.516 NA.14: 1 residues within 4Å: Chain F: N.276 2 PLIP interactions: 1 interactions with chain F, 1 interactions with chain D Hydrogen bonds: F:N.276 Water bridges: D:Q.429 NA.15: 3 residues within 4Å: Chain B: R.490 Chain F: R.485, R.490 3 PLIP interactions: 1 interactions with chain B, 2 interactions with chain F Hydrogen bonds: B:R.490, F:R.485, F:R.490

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Jin, T. et al., Crystal structure of prunin-1, a major component of the almond (Prunus dulcis) allergen amandin. J.Agric.Food Chem. (2009)

Release Date

2009-11-10

Peptides

Prunin: ABCDEF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

F
F

Prunin

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