SMTL ID : 1thq.1

Crystal Structure of Outer Membrane Enzyme PagP

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

monomer

Ligands

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

ACT.1: 2 residues within 4Å: Chain A: E.83, R.115 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:R.115 ACT.2: 4 residues within 4Å: Chain A: F.10, N.13, Y.88, W.90 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:W.90 Hydrogen bonds: A:N.13, A:Y.88, A:Y.88 ACT.3: 2 residues within 4Å: Chain A: L.26, F.56 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:F.56 ACT.4: 1 residues within 4Å: Chain A: E.22 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:E.22 Hydrogen bonds: A:E.22 ACT.5: 3 residues within 4Å: Chain A: P.136, F.160, Q.161 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:P.136, A:F.160

5 x LDA: LAURYL DIMETHYLAMINE-N-OXIDE(Non-covalent)

LDA.6: 11 residues within 4Å: Chain A: Y.27, W.67, Y.71, M.73, F.75, K.76, E.83, I.85, L.127, F.155, W.157 13 PLIP interactions: 13 interactions with chain A Hydrophobic interactions: A:Y.27, A:W.67, A:Y.71, A:Y.71, A:Y.71, A:F.75, A:I.85, A:L.127, A:F.155, A:F.155, A:W.157, A:W.157 Salt bridges: A:E.83 LDA.7: 6 residues within 4Å: Chain A: Y.24, F.56, G.57, L.58, Y.71, A.86 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:F.56, A:L.58, A:A.86 pi-Cation interactions: A:Y.24 LDA.8: 5 residues within 4Å: Chain A: S.92, W.94, L.104, V.132, M.141 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:W.94 Hydrogen bonds: A:S.92 LDA.9: 2 residues within 4Å: Chain A: W.33, F.37 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:W.33, A:W.33, A:W.33, A:F.37 LDA.10: 2 residues within 4Å: Chain A: I.31, F.139 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:I.31, A:F.139

2 x MPD: (4S)-2-METHYL-2,4-PENTANEDIOL(Non-functional Binders)

MPD.11: 1 residues within 4Å: Chain A: T.147 No protein-ligand interaction detected (PLIP) MPD.12: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ahn, V.E. et al., A hydrocarbon ruler measures palmitate in the enzymatic acylation of endotoxin. Embo J. (2004)

Release Date

2004-08-10

Peptides

CrcA protein: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Membrane

We predict this structure to be a membrane protein.
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CrcA protein

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