SMTL ID : 1y9i.1

Crystal structure of low temperature requirement C protein from Listeria monocytogenes

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

homo-tetramer

Ligands

4 x CA: CALCIUM ION(Non-covalent)

CA.1: 3 residues within 4Å: Chain A: Y.95, D.98, E.99 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:Y.95, A:D.98, H2O.1, H2O.1, H2O.4 CA.3: 3 residues within 4Å: Chain B: Y.95, D.98, E.99 5 PLIP interactions: 3 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:Y.95, B:D.98, B:E.99, H2O.6, H2O.9 CA.6: 3 residues within 4Å: Chain C: Y.95, D.98, E.99 5 PLIP interactions: 3 interactions with chain C, 2 Ligand-Water interactions Metal complexes: C:Y.95, C:D.98, C:E.99, H2O.10, H2O.13 CA.8: 3 residues within 4Å: Chain D: Y.95, D.98, E.99 5 PLIP interactions: 4 interactions with chain D, 1 Ligand-Water interactions Metal complexes: D:Y.95, D:D.98, D:E.99, D:E.99, H2O.15

4 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 4 residues within 4Å: Chain A: D.98, T.141, D.144, D.145 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:T.141, A:D.144, A:D.145, H2O.1, H2O.4 MG.4: 5 residues within 4Å: Chain B: D.91, D.98, T.141, D.144, D.145 5 PLIP interactions: 4 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:D.98, B:T.141, B:D.144, B:D.145, H2O.5 MG.7: 5 residues within 4Å: Chain C: D.91, D.98, T.141, D.144, D.145 5 PLIP interactions: 4 interactions with chain C, 1 Ligand-Water interactions Metal complexes: C:D.98, C:T.141, C:D.144, C:D.145, H2O.10 MG.9: 4 residues within 4Å: Chain D: D.98, T.141, D.144, D.145 5 PLIP interactions: 3 interactions with chain D, 2 Ligand-Water interactions Metal complexes: D:T.141, D:D.144, D:D.145, H2O.17, H2O.18

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.5: 10 residues within 4Å: Chain B: E.60, N.63, A.64, S.104 Chain C: L.94, Y.95, G.96, V.97, I.100 Chain D: S.111 4 PLIP interactions: 3 interactions with chain B, 1 interactions with chain D Hydrogen bonds: B:N.63, B:A.64, B:S.104, D:S.111

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kumaran, D. et al., Crystal structure of phosphatidylglycerophosphatase (PGPase), a putative membrane-bound lipid phosphatase, reveals a novel binuclear metal binding site and two "proton wires". Proteins (2006)

Release Date

2004-12-28

Peptides

low temperature requirement C protein: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

low temperature requirement C protein