SMTL ID : 2jkl.5 (5 other biounits)

DRAE ADHESIN IN COMPLEX WITH BROMAMPHENICOL

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

homo-trimer

Ligands

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

SO4.1: 5 residues within 4Å: Chain A: G.34, D.35 Chain C: T.18, G.19, T.20 4 PLIP interactions: 1 interactions with chain A, 3 interactions with chain C Hydrogen bonds: A:D.35, C:T.20 Water bridges: C:T.18, C:T.20 SO4.2: 2 residues within 4Å: Chain A: D.99, N.100 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:N.100, A:N.100 Water bridges: A:D.99, A:D.99 SO4.3: 3 residues within 4Å: Chain A: E.27, K.28, R.42 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:K.28 Water bridges: A:E.27, A:C.29 Salt bridges: A:R.42 SO4.8: 5 residues within 4Å: Chain A: T.18, G.19, T.20 Chain B: G.34, D.35 4 PLIP interactions: 3 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:T.20, B:D.35 Water bridges: A:T.18, A:T.20 SO4.9: 2 residues within 4Å: Chain B: D.99, N.100 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:N.100, B:N.100 Water bridges: B:D.99, B:D.99 SO4.10: 3 residues within 4Å: Chain B: E.27, K.28, R.42 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:K.28 Water bridges: B:E.27, B:C.29 Salt bridges: B:R.42 SO4.15: 5 residues within 4Å: Chain B: T.18, G.19, T.20 Chain C: G.34, D.35 4 PLIP interactions: 1 interactions with chain C, 3 interactions with chain B Hydrogen bonds: C:D.35, B:T.20 Water bridges: B:T.18, B:T.20 SO4.16: 2 residues within 4Å: Chain C: D.99, N.100 4 PLIP interactions: 4 interactions with chain C Hydrogen bonds: C:N.100, C:N.100 Water bridges: C:D.99, C:D.99 SO4.17: 3 residues within 4Å: Chain C: E.27, K.28, R.42 4 PLIP interactions: 4 interactions with chain C Hydrogen bonds: C:K.28 Water bridges: C:E.27, C:C.29 Salt bridges: C:R.42

3 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.4: 9 residues within 4Å: Chain A: P.14, S.15, G.16 Chain B: T.24, V.25, T.26, P.135, G.136, N.137 5 PLIP interactions: 4 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:V.25, B:G.136, B:N.137, A:G.16 Water bridges: B:N.137 EDO.11: 9 residues within 4Å: Chain B: P.14, S.15, G.16 Chain C: T.24, V.25, T.26, P.135, G.136, N.137 5 PLIP interactions: 1 interactions with chain B, 4 interactions with chain C Hydrogen bonds: B:G.16, C:V.25, C:G.136, C:N.137 Water bridges: C:N.137 EDO.18: 9 residues within 4Å: Chain A: T.24, V.25, T.26, P.135, G.136, N.137 Chain C: P.14, S.15, G.16 5 PLIP interactions: 4 interactions with chain A, 1 interactions with chain C Hydrogen bonds: A:V.25, A:G.136, A:N.137, C:G.16 Water bridges: A:N.137

6 x BRX: BROMAMPHENICOL

BRX.5: 3 residues within 4Å: Chain A: G.43, Q.44, T.46 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:G.43, A:T.46 Water bridges: A:Q.44, A:T.46, A:T.46 BRX.6: 10 residues within 4Å: Chain A: P.50, I.51, G.52, P.53, T.98, I.121, G.123, I.124, Y.125 Ligands: CLM.7 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:P.53 Halogen bonds: A:I.124 BRX.12: 3 residues within 4Å: Chain B: G.43, Q.44, T.46 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:G.43, B:T.46 Water bridges: B:Q.44, B:T.46, B:T.46 BRX.13: 10 residues within 4Å: Chain B: P.50, I.51, G.52, P.53, T.98, I.121, G.123, I.124, Y.125 Ligands: CLM.14 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:P.53 Halogen bonds: B:I.124 BRX.19: 3 residues within 4Å: Chain C: G.43, Q.44, T.46 5 PLIP interactions: 5 interactions with chain C Hydrogen bonds: C:G.43, C:T.46 Water bridges: C:Q.44, C:T.46, C:T.46 BRX.20: 10 residues within 4Å: Chain C: P.50, I.51, G.52, P.53, T.98, I.121, G.123, I.124, Y.125 Ligands: CLM.21 2 PLIP interactions: 2 interactions with chain C Hydrophobic interactions: C:P.53 Halogen bonds: C:I.124

3 x CLM: CHLORAMPHENICOL(Non-covalent)

CLM.7: 9 residues within 4Å: Chain A: P.50, G.52, P.53, T.98, I.121, G.123, I.124, Y.125 Ligands: BRX.6 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:P.53 Halogen bonds: A:I.124 CLM.14: 9 residues within 4Å: Chain B: P.50, G.52, P.53, T.98, I.121, G.123, I.124, Y.125 Ligands: BRX.13 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:P.53 Halogen bonds: B:I.124 CLM.21: 9 residues within 4Å: Chain C: P.50, G.52, P.53, T.98, I.121, G.123, I.124, Y.125 Ligands: BRX.20 2 PLIP interactions: 2 interactions with chain C Hydrophobic interactions: C:P.53 Halogen bonds: C:I.124

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Pettigrew, D.M. et al., A Structural Study of the Interaction between the Dr Haemagglutinin Drae and Derivatives of Chloramphenicol. Acta Crystallogr.,Sect.D (2009)

Release Date

2008-12-16

Peptides

DR HEMAGGLUTININ STRUCTURAL SUBUNIT: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
D

B
D

C
D

DR HEMAGGLUTININ STRUCTURAL SUBUNIT

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