SMTL ID : 1o84.1

Crystal Structure of Bacteriocin AS-48. N-decyl-beta-D-maltoside Bound.

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.80 Å

Oligo State

homo-tetramer

Ligands

2 x GLC- GLC: alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose(Non-covalent)

GLC-GLC.1: 6 residues within 4Å: Chain A: V.29, L.40, L.43, A.44 Chain D: V.29 Ligands: D10.4 No protein-ligand interaction detected (PLIP) GLC-GLC.9: 6 residues within 4Å: Chain B: V.29 Chain C: V.29, L.40, L.43, A.44 Ligands: D10.12 No protein-ligand interaction detected (PLIP)

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 6 residues within 4Å: Chain A: E.4, Y.54, E.58, W.70 Chain B: E.58 Ligands: SO4.5 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.4 Water bridges: A:K.62 GOL.10: 6 residues within 4Å: Chain C: E.4, Y.54, E.58, W.70 Chain D: E.58 Ligands: SO4.13 4 PLIP interactions: 3 interactions with chain C, 1 interactions with chain D Hydrogen bonds: C:E.4, C:Y.54, D:E.58 Water bridges: C:K.62

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

SO4.3: 3 residues within 4Å: Chain A: G.63, K.64, R.65 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.65 SO4.5: 7 residues within 4Å: Chain A: Y.54, E.58 Chain B: E.58, K.61, K.62, W.70 Ligands: GOL.2 6 PLIP interactions: 5 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:E.58, A:E.58 Water bridges: B:K.61, B:K.61 Salt bridges: B:K.61, B:K.62 SO4.6: 5 residues within 4Å: Chain B: G.36, S.37 Chain D: G.36, S.37 Ligands: SO4.14 3 PLIP interactions: 2 interactions with chain D, 1 interactions with chain B Hydrogen bonds: D:S.37, D:S.37, B:S.37 SO4.7: 3 residues within 4Å: Chain B: G.22, K.52, K.56 2 PLIP interactions: 2 interactions with chain B Salt bridges: B:K.52, B:K.56 SO4.8: 5 residues within 4Å: Chain B: G.22, G.23, W.24, V.25, K.52 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:V.25 Water bridges: B:S.50 Salt bridges: B:K.52 SO4.11: 3 residues within 4Å: Chain C: G.63, K.64, R.65 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:R.65 SO4.13: 7 residues within 4Å: Chain C: Y.54, E.58 Chain D: E.58, K.61, K.62, W.70 Ligands: GOL.10 7 PLIP interactions: 2 interactions with chain C, 5 interactions with chain D Hydrogen bonds: C:E.58, C:E.58, D:E.58 Water bridges: D:K.61, D:K.61 Salt bridges: D:K.61, D:K.62 SO4.14: 5 residues within 4Å: Chain B: G.36, S.37 Chain D: G.36, S.37 Ligands: SO4.6 3 PLIP interactions: 1 interactions with chain D, 2 interactions with chain B Hydrogen bonds: D:S.37, B:S.37, B:S.37 SO4.15: 3 residues within 4Å: Chain D: G.22, K.52, K.56 2 PLIP interactions: 2 interactions with chain D Salt bridges: D:K.52, D:K.56 SO4.16: 5 residues within 4Å: Chain D: G.22, G.23, W.24, V.25, K.52 3 PLIP interactions: 3 interactions with chain D Hydrogen bonds: D:V.25 Water bridges: D:S.50 Salt bridges: D:K.52

2 x D10: DECANE(Non-covalent)

D10.4: 11 residues within 4Å: Chain A: S.37, L.40, A.44 Chain B: L.40, S.41, A.44 Chain D: L.40, L.43, A.44 Ligands: GLC-GLC.1, D10.12 6 PLIP interactions: 4 interactions with chain D, 1 interactions with chain A, 1 interactions with chain B Hydrophobic interactions: D:L.40, D:L.43, D:L.43, D:A.44, A:L.40, B:A.44 D10.12: 11 residues within 4Å: Chain B: L.40, L.43, A.44 Chain C: S.37, L.40, A.44 Chain D: L.40, S.41, A.44 Ligands: D10.4, GLC-GLC.9 6 PLIP interactions: 1 interactions with chain C, 4 interactions with chain B, 1 interactions with chain D Hydrophobic interactions: C:L.40, B:L.40, B:L.43, B:L.43, B:A.44, D:A.44

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Sanchez-Barrena, M.J. et al., Structure of Bacteriocin as-48: From Soluble State to Membrane Bound State. J.Mol.Biol. (2003)

Release Date

2003-11-20

Peptides

PEPTIDE ANTIBIOTIC AS-48: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

PEPTIDE ANTIBIOTIC AS-48

Related Entries With Identical Sequence