SMTL ID : 1u4j.1 (1 other biounit)

Crystal structure of a carbohydrate induced dimer of group I phospholipase A2 from Bungarus caeruleus at 2.1 A resolution

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.18 Å

Oligo State

homo-dimer

Ligands

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

NA.1: 6 residues within 4Å: Chain A: Y.26, G.28, Y.29, G.30, D.47 Ligands: MAN.5 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:G.28 Water bridges: A:D.47 NA.7: 6 residues within 4Å: Chain B: Y.26, G.28, Y.29, G.30, D.47 Ligands: MAN.5 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:G.30

2 x CL: CHLORIDE ION(Non-functional Binders)

CL.2: 2 residues within 4Å: Chain A: T.80, S.81 Ligand excluded by PLIP CL.8: 2 residues within 4Å: Chain B: T.80, S.81 Ligand excluded by PLIP

3 x ACY: ACETIC ACID(Non-functional Binders)

ACY.3: 3 residues within 4Å: Chain A: A.12, P.73, I.97 1 PLIP interactions: 1 interactions with chain A Water bridges: A:P.73 ACY.4: 5 residues within 4Å: Chain A: T.65, Y.66, S.67, D.79, D.82 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:D.82 Water bridges: A:K.64, A:T.65, A:S.67 ACY.9: 5 residues within 4Å: Chain B: T.65, Y.66, S.67, D.79, D.82 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:T.65 Water bridges: B:S.67

2 x MAN: alpha-D-mannopyranose(Non-covalent)

MAN.5: 12 residues within 4Å: Chain A: G.28, Y.29, G.30, D.47, N.51 Chain B: Y.29, G.30, D.47, N.51 Ligands: NA.1, MAN.6, NA.7 14 PLIP interactions: 9 interactions with chain A, 5 interactions with chain B Hydrogen bonds: A:G.28, A:Y.29, A:Y.29, A:G.30, B:G.30, B:D.47, B:D.47, B:N.51 Water bridges: A:G.31, A:D.47, A:D.47, A:N.51, A:N.51, B:D.47 MAN.6: 5 residues within 4Å: Chain A: L.2, L.62 Chain B: Y.29, L.62 Ligands: MAN.5 1 PLIP interactions: 1 interactions with chain A Water bridges: A:Y.29

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Singh, G. et al., Crystal structure of a carbohydrate induced homodimer of phospholipase A(2) from Bungarus caeruleus at 2.1A resolution. J.Struct.Biol. (2005)

Release Date

2004-08-10

Peptides

phospholipase A2 isoform 2: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

phospholipase A2 isoform 2

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