SMTL ID : 2xtv.1

Structure of E.coli rhomboid protease GlpG, active site mutant, S201T, orthorhombic crystal form

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.70 Å

Oligo State

monomer

Ligands

14 x MC3: 1,2-DIMYRISTOYL-RAC-GLYCERO-3-PHOSPHOCHOLINE(Non-covalent)(Non-functional Binders)

MC3.1: 4 residues within 4Å: Chain A: R.125, L.170, A.171, F.174 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:F.174, A:F.174 Salt bridges: A:R.125, A:R.125 MC3.2: 10 residues within 4Å: Chain A: F.61, L.64, W.65, W.67, Y.68, Q.134, F.140, W.144, F.153 Ligands: MC3.3 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:F.61, A:F.61, A:L.64, A:W.67, A:Y.68, A:F.140, A:W.144, A:F.153 Hydrogen bonds: A:Q.134 Water bridges: A:Q.134 MC3.3: 9 residues within 4Å: Chain A: W.6, M.9, L.60, F.61, L.63, L.64, W.67 Ligands: MC3.2, MC3.11 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:W.6, A:L.60, A:F.61, A:L.63, A:L.64, A:W.67, A:W.67 MC3.4: 7 residues within 4Å: Chain A: L.92, V.96, A.164, A.167, V.168, A.171, M.172 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:V.168, A:A.171 MC3.5: 5 residues within 4Å: Chain A: K.40, F.43, Y.46 Ligands: MC3.7, MC3.8 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:F.43, A:F.43, A:F.43 MC3.6: 5 residues within 4Å: Chain A: V.13, V.14, I.17, L.22 Ligands: MC3.12 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:V.13, A:V.14, A:I.17 MC3.7: 9 residues within 4Å: Chain A: W.33, F.43, Y.46, F.47, L.91, Y.95, Q.98 Ligands: MC3.5, MC3.8 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:F.43, A:Y.46, A:F.47, A:L.91 MC3.8: 3 residues within 4Å: Chain A: Y.95 Ligands: MC3.5, MC3.7 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Y.95 MC3.9: 6 residues within 4Å: Chain A: V.4, F.47, S.79, I.83, L.87 Ligands: MC3.10 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:F.47, A:F.47, A:I.83, A:L.87 Hydrogen bonds: A:S.79, A:S.79 MC3.10: 2 residues within 4Å: Chain A: T.86 Ligands: MC3.9 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:T.86 MC3.11: 5 residues within 4Å: Chain A: F.16, I.17, Q.20 Ligands: MC3.3, MC3.12 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:F.16, A:I.17, A:Q.20 MC3.12: 4 residues within 4Å: Chain A: Q.20, I.21 Ligands: MC3.6, MC3.11 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:I.21 MC3.13: 1 residues within 4Å: Ligands: MC3.14 No protein-ligand interaction detected (PLIP) MC3.14: 3 residues within 4Å: Chain A: W.6, I.10 Ligands: MC3.13 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:W.6, A:I.10

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Vinothkumar, K.R., Structure of rhomboid protease in a lipid environment. J. Mol. Biol. (2011)

Release Date

2011-02-02

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