SMTL ID : 2bch.1

A possible of Second calcium ion in interfacial binding: Atomic and Medium resolution crystal structures of the quadruple mutant of phospholipase A2

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.10 Å

Oligo State

monomer

Ligands

1 x CA: CALCIUM ION(Non-covalent)

CA.1: 5 residues within 4Å: Chain A: Y.28, G.30, L.31, G.32, D.49 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:Y.28, A:G.30, A:G.32, A:D.49, H2O.4

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

CL.2: 5 residues within 4Å: Chain A: K.12, E.81, I.82, R.100, I.104 Ligand excluded by PLIP

5 x MPD: (4S)-2-METHYL-2,4-PENTANEDIOL(Non-functional Binders)

MPD.3: 3 residues within 4Å: Chain A: I.104, C.105, K.108 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:I.104, A:K.108 Water bridges: A:C.105 MPD.4: 3 residues within 4Å: Chain A: S.15, D.21, Y.111 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:Y.111 Hydrogen bonds: A:Y.111 Water bridges: A:D.21 MPD.5: 8 residues within 4Å: Chain A: F.5, I.9, P.18, L.19, F.22, N.23, C.29, G.30 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:F.5, A:I.9, A:P.18, A:L.19 MPD.6: 5 residues within 4Å: Chain A: I.13, S.107, K.108, V.109, P.110 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.107 Water bridges: A:K.108 MPD.7: 12 residues within 4Å: Chain A: N.24, Y.25, G.26, C.27, Y.28, C.29, G.30, L.31, G.32, G.33, S.34, C.123 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:C.27, A:G.30, A:S.34

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Sekar, K. et al., Suggestive evidence for the involvement of the second calcium and surface loop in interfacial binding: monoclinic and trigonal crystal structures of a quadruple mutant of phospholipase A(2). Acta Crystallogr.,Sect.D (2006)

Release Date

2006-07-04

Peptides

Phospholipase A2: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Phospholipase A2

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