SMTL ID : 4oug.2 (1 other biounit)

Crystal structure of the ternary complex of camel peptidoglycan recognition protein, PGRP-S with lipopolysaccharide and palmitic acid at 2.46 A resolution

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.46 Å

Oligo State

homo-dimer

Ligands

1 x TLA: L(+)-TARTARIC ACID(Non-covalent)

TLA.1: 12 residues within 4Å: Chain A: H.37, A.39, N.110, T.152, L.153, S.154 Chain B: H.37, A.39, T.152, L.153, S.154 Ligands: GOL.2 9 PLIP interactions: 5 interactions with chain A, 4 interactions with chain B Hydrogen bonds: A:N.110, A:T.152, A:L.153, A:S.154, B:T.152, B:L.153, B:S.154 Salt bridges: A:H.37, B:H.37

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 9 residues within 4Å: Chain A: P.151, T.152 Chain B: H.37, T.38, A.39, Y.71, H.146, T.152 Ligands: TLA.1 6 PLIP interactions: 4 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:T.38, B:Y.71, B:T.152, B:T.152, A:L.153 Water bridges: A:T.152

1 x LP5: (R)-((2R,3S,4R,5R,6R)-3-HYDROXY-2-(HYDROXYMETHYL)-5-((R)-3-HYDROXYTETRADECANAMIDO)-6-(PHOSPHONOOXY)TETRAHYDRO-2H-PYRAN-4-YL) 3-HYDROXYTETRADECANOATE(Non-covalent)

LP5.3: 27 residues within 4Å: Chain A: N.63, L.64, W.66, K.90, G.91, A.92, H.93, A.94, G.95, P.96, N.99, H.146, Q.150 Chain B: A.92, H.93, A.94, G.95, P.96, T.97, W.98, N.99, K.144, H.146, D.148, V.149, Q.150, P.151 17 PLIP interactions: 7 interactions with chain A, 10 interactions with chain B Hydrophobic interactions: A:W.66, B:T.97, B:W.98, B:W.98, B:V.149, B:Q.150, B:P.151 Hydrogen bonds: A:G.95, A:N.99, A:Q.150, B:T.97, B:T.97, B:Q.150, B:Q.150 Water bridges: A:R.85, A:R.85, A:R.85

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Yamini, S. et al., Crystal structure of the ternary complex of camel peptidoglycan recognition protein, PGRP-S with lipopolysaccharide and palmitic acid at 2.46 A resolution. To be Published

Release Date

2014-03-05

Peptides

Peptidoglycan recognition protein 1: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

B
D

Peptidoglycan recognition protein 1

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