SMTL ID : 5n2c.1

Crystal structure of the peptidoglycan-associated lipoprotein from Burkholderia cenocepacia

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

homo-trimer

Ligands

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

EDO.1: 2 residues within 4Å: Chain A: Q.133, E.137 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Q.133 EDO.6: 6 residues within 4Å: Chain A: P.72, A.77, K.78 Chain C: D.169, E.170, A.171 6 PLIP interactions: 6 interactions with chain C Hydrogen bonds: C:E.170, C:A.171 Water bridges: C:D.169, C:D.169, C:D.169, C:D.169 EDO.7: 5 residues within 4Å: Chain B: L.129, Q.133, A.155, V.156, S.157 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:Q.133, B:S.157 Water bridges: B:Q.133 EDO.10: 4 residues within 4Å: Chain C: T.124, S.125, E.126, K.160 3 PLIP interactions: 3 interactions with chain C Hydrogen bonds: C:S.125, C:E.126, C:K.160 EDO.11: 9 residues within 4Å: Chain C: Y.82, F.83, D.84, F.85, K.91, E.170, A.174, R.177 Ligands: ACT.15 3 PLIP interactions: 3 interactions with chain C Hydrogen bonds: C:D.84, C:R.177 Water bridges: C:K.91

3 x CXS: 3-CYCLOHEXYL-1-PROPYLSULFONIC ACID(Non-covalent)

CXS.2: 3 residues within 4Å: Chain A: N.149, D.150, S.151 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:N.149, A:N.149, A:D.150, A:D.150, A:S.151 CXS.3: 4 residues within 4Å: Chain A: H.108, P.109, Q.110, R.111 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Q.110, A:R.111 CXS.12: 3 residues within 4Å: Chain C: N.149, D.150, S.151 4 PLIP interactions: 4 interactions with chain C Hydrogen bonds: C:N.149, C:N.149, C:D.150, C:D.150

3 x OXL: OXALATE ION(Non-covalent)

OXL.4: 12 residues within 4Å: Chain A: D.84, F.85, D.86, S.87, T.119, D.120, R.122, Y.127, N.128, L.131, R.135, R.177 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:D.86, A:D.86, A:D.120, A:R.122, A:N.128 Salt bridges: A:R.135 OXL.8: 10 residues within 4Å: Chain B: F.85, D.86, T.119, D.120, R.122, Y.127, N.128, L.131, R.135, R.177 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:D.86, B:D.120, B:R.122, B:N.128 Salt bridges: B:R.135 OXL.13: 11 residues within 4Å: Chain C: F.85, D.86, S.87, T.119, D.120, R.122, Y.127, N.128, L.131, R.135, R.177 5 PLIP interactions: 5 interactions with chain C Hydrogen bonds: C:D.86, C:D.120, C:R.122, C:N.128 Salt bridges: C:R.135

4 x ACT: ACETATE ION(Non-functional Binders)

ACT.5: 4 residues within 4Å: Chain A: R.140, R.141, A.144, D.150 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:A.144 Salt bridges: A:R.140, A:R.141 ACT.9: 3 residues within 4Å: Chain B: R.140, R.141, A.144 2 PLIP interactions: 2 interactions with chain B Salt bridges: B:R.140, B:R.141 ACT.14: 4 residues within 4Å: Chain C: H.108, P.109, Q.110, R.111 2 PLIP interactions: 2 interactions with chain C Hydrophobic interactions: C:H.108, C:Q.110 ACT.15: 5 residues within 4Å: Chain C: Y.82, Y.94, A.174, Q.175 Ligands: EDO.11 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:Q.175

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Capelli, R. et al., Designing Probes for Immunodiagnostics: Structural Insights into an Epitope Targeting Burkholderia Infections. ACS Infect Dis (2017)

Release Date

2017-07-26

Peptides

Putative OmpA family lipoprotein: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

Putative OmpA family lipoprotein