SMTL ID : 3zmh.1

Structure of E.coli rhomboid protease GlpG in complex with monobactam L62

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

monomer

Ligands

1 x L62: cyclopentyl N-[(1R)-3-oxidanylidene-1-phenyl-propyl]carbamate(Covalent)

L62.1: 13 residues within 4Å: Chain A: M.59, H.60, F.63, N.64, W.67, S.111, V.114, Y.115, M.118, W.146, M.157, H.164 Ligands: CL.9 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:M.59, A:F.63, A:W.67, A:V.114, A:Y.115, A:W.146, A:W.146 Hydrogen bonds: A:N.64 Water bridges: A:Y.115

1 x 78C: CYCLOPENTYL 2-OXO-4-PHENYLAZETIDINE-1-CARBOXYLATE(Non-covalent)

78C.2: 5 residues within 4Å: Chain A: F.63, L.66, W.67, F.142, W.146 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:L.66, A:W.67, A:F.142

6 x BNG: nonyl beta-D-glucopyranoside(Non-covalent)(Non-functional Binders)

BNG.3: 1 residues within 4Å: Chain A: V.177 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:V.177 BNG.4: 1 residues within 4Å: Chain A: F.45 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:F.45 BNG.5: 2 residues within 4Å: Chain A: L.31, D.38 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:L.31 BNG.6: 2 residues within 4Å: Chain A: W.8, I.12 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:W.8, A:I.12 BNG.7: 6 residues within 4Å: Chain A: M.10, F.49, T.50, A.52, T.88, A.92 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:F.49, A:T.50, A:A.52, A:T.88, A:A.92 BNG.8: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP)

2 x CL: CHLORIDE ION(Non-functional Binders)

CL.9: 6 residues within 4Å: Chain A: S.111, M.157, S.158, M.159, H.164 Ligands: L62.1 Ligand excluded by PLIP CL.10: 3 residues within 4Å: Chain A: R.2, A.3, W.69 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Vinothkumar, K.R. et al., Structure of rhomboid protease in complex with beta-lactam inhibitors defines the S2' cavity. Structure (2013)

Release Date

2013-05-22

Peptides

RHOMBOID PROTEASE GLPG: 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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RHOMBOID PROTEASE GLPG

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