SMTL ID : 2alg.4 (5 other biounits)

Crystal structure of peach Pru p3, the prototypic member of the family of plant non-specific lipid transfer protein pan-allergens

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

homo-tetramer

Ligands

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

SO4.1: 5 residues within 4Å: Chain A: T.3, C.4, G.5 Chain D: A.27, N.30 6 PLIP interactions: 4 interactions with chain A, 2 interactions with chain D Hydrogen bonds: A:T.3, A:C.4, A:G.5, A:Q.6, D:N.30 Water bridges: D:A.27 SO4.4: 5 residues within 4Å: Chain B: T.3, C.4, G.5 Chain C: A.27, N.30 5 PLIP interactions: 3 interactions with chain B, 2 interactions with chain C Hydrogen bonds: B:C.4, B:G.5, B:Q.6, C:N.30 Water bridges: C:A.27

4 x DAO: LAURIC ACID(Non-covalent)

DAO.2: 8 residues within 4Å: Chain A: S.8, S.9, L.11, I.15, V.18, V.59, I.82 Chain D: S.9 6 PLIP interactions: 5 interactions with chain A, 1 interactions with chain D Hydrophobic interactions: A:L.11, A:I.15, A:V.18, A:V.59, A:I.82 Hydrogen bonds: D:S.9 DAO.5: 8 residues within 4Å: Chain B: S.8, S.9, L.11, I.15, V.18, V.59, I.82 Chain C: S.9 6 PLIP interactions: 5 interactions with chain B, 1 interactions with chain C Hydrophobic interactions: B:L.11, B:I.15, B:V.18, B:V.59, B:I.82 Hydrogen bonds: C:S.9 DAO.7: 10 residues within 4Å: Chain C: R.45, A.48, C.49, S.56, K.81, I.82, S.83, T.86, V.91 Ligands: HP6.8 6 PLIP interactions: 6 interactions with chain C Hydrophobic interactions: C:I.82, C:T.86, C:V.91 Hydrogen bonds: C:R.45, C:C.49 Salt bridges: C:R.45 DAO.9: 10 residues within 4Å: Chain D: R.45, A.48, C.49, S.56, K.81, I.82, S.83, T.86, V.91 Ligands: HP6.10 6 PLIP interactions: 6 interactions with chain D Hydrophobic interactions: D:I.82, D:T.86, D:V.91 Hydrogen bonds: D:R.45, D:C.49 Salt bridges: D:R.45

2 x P6G: HEXAETHYLENE GLYCOL(Non-functional Binders)

P6G.3: 8 residues within 4Å: Chain A: M.1, Q.6, L.38 Chain D: N.30, R.33, N.36, N.37, V.76 4 PLIP interactions: 3 interactions with chain D, 1 interactions with chain A Hydrogen bonds: D:N.30, D:R.33, D:N.37, A:Q.6 P6G.6: 8 residues within 4Å: Chain B: M.1, Q.6, L.38 Chain C: N.30, R.33, N.36, N.37, V.76 4 PLIP interactions: 3 interactions with chain C, 1 interactions with chain B Hydrogen bonds: C:N.30, C:R.33, C:N.37, B:Q.6

2 x HP6: HEPTANE(Non-covalent)

HP6.8: 5 residues within 4Å: Chain C: I.32, V.35, L.52, L.70 Ligands: DAO.7 5 PLIP interactions: 5 interactions with chain C Hydrophobic interactions: C:I.32, C:I.32, C:V.35, C:L.52, C:L.70 HP6.10: 5 residues within 4Å: Chain D: I.32, V.35, L.52, L.70 Ligands: DAO.9 5 PLIP interactions: 5 interactions with chain D Hydrophobic interactions: D:I.32, D:I.32, D:V.35, D:L.52, D:L.70

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Pasquato, N. et al., Crystal Structure of Peach Pru p 3, the Prototypic Member of the Family of Plant Non-specific Lipid Transfer Protein Pan-allergens. J.Mol.Biol. (2006)

Release Date

2005-11-29

Peptides

non-specific lipid transfer protein: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
B

C
A

D
A

non-specific lipid transfer protein

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