SMTL ID : 1xxs.1

Structural insights for fatty acid binding in a Lys49 phospholipase A2: crystal structure of myotoxin II from Bothrops moojeni complexed with stearic acid

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

homo-dimer

Ligands

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

SO4.1: 2 residues within 4Å: Chain A: K.106, Y.107 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Y.107 Salt bridges: A:K.37, A:K.106 SO4.2: 4 residues within 4Å: Chain A: K.15, N.16, K.19, S.20 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.16 Salt bridges: A:K.19 SO4.3: 3 residues within 4Å: Chain A: G.32, R.33, K.52 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.33 Salt bridges: A:R.33, A:K.52 SO4.7: 2 residues within 4Å: Chain B: R.33, K.52 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:R.33 Salt bridges: B:R.33, B:K.52 SO4.8: 4 residues within 4Å: Chain B: G.14, K.15, N.16, K.19 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:N.16 Salt bridges: B:K.15, B:K.19

6 x STE: STEARIC ACID(Non-covalent)(Covalent)

STE.4: 16 residues within 4Å: Chain A: L.2, F.3, L.5, G.6, I.9, P.17, Y.21, N.27, C.28, G.29, C.44, H.47, K.48, K.60, V.92 Ligands: STE.5 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:L.2, A:F.3, A:L.5, A:I.9, A:Y.21, A:V.92 Hydrogen bonds: A:G.29 Salt bridges: A:H.47, A:K.48 STE.5: 11 residues within 4Å: Chain A: L.2, L.5, A.18, G.22, V.23, G.29, V.30, K.48, Y.51, K.60 Ligands: STE.4 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:L.2, A:L.5, A:A.18, A:V.23, A:K.48, A:Y.51 Salt bridges: A:K.48 STE.6: 11 residues within 4Å: Chain A: K.7, L.10, Q.11, Y.66, W.68 Chain B: K.7, L.10, Q.11, G.14, W.68 Ligands: STE.11 9 PLIP interactions: 3 interactions with chain B, 6 interactions with chain A Hydrophobic interactions: B:L.10, B:W.68, A:K.7, A:Q.11, A:Q.11, A:Y.66, A:Y.66, A:W.68 Salt bridges: B:K.7 STE.9: 13 residues within 4Å: Chain B: L.2, F.3, G.6, I.9, P.17, Y.21, N.27, C.28, G.29, C.44, H.47, K.48 Ligands: STE.10 7 PLIP interactions: 7 interactions with chain B Hydrophobic interactions: B:L.2, B:F.3, B:P.17, B:Y.21 Hydrogen bonds: B:G.29 Salt bridges: B:H.47, B:K.48 STE.10: 7 residues within 4Å: Chain B: L.2, G.29, V.30, K.48, Y.51, K.60 Ligands: STE.9 5 PLIP interactions: 5 interactions with chain B Hydrophobic interactions: B:L.2, B:V.30, B:K.48, B:Y.51 Salt bridges: B:K.60 STE.11: 12 residues within 4Å: Chain A: L.10, Q.11, G.14, W.68 Chain B: F.3, K.7, L.10, Q.11, G.14, Y.66, W.68 Ligands: STE.6 7 PLIP interactions: 4 interactions with chain B, 3 interactions with chain A Hydrophobic interactions: B:F.3, B:Y.66, B:Y.66, B:W.68, A:L.10, A:Q.11 Salt bridges: A:K.7

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Watanabe, L. et al., Structural insights for fatty acid binding in a Lys49-phospholipase A(2): crystal structure of myotoxin II from Bothrops moojeni complexed with stearic acid. Biochimie (2005)

Release Date

2005-03-29

Peptides

Phospholipase A2 homolog 2: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Phospholipase A2 homolog 2

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