SMTL ID : 5iwe.1

E45Q mutant of phenazine biosynthesis protein PhzF in complex with (5R,6R)-6-azaniumyl-5-ethoxycyclohexa-1,3-diene-1-carboxylate

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.71 Å

Oligo State

homo-dimer

Ligands

2 x W81: (5R,6R)-6-azaniumyl-5-ethoxycyclohexa-1,3-diene-1-carboxylate(Non-covalent)

W81.1: 18 residues within 4Å: Chain A: N.38, S.64, Q.65, L.89, A.92, G.93, H.94, P.95, P.173, H.175, M.218, Y.223, V.225, D.228, A.230, T.231, G.232, S.233 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:A.92, A:V.225 Hydrogen bonds: A:N.38, A:Q.65, A:G.93, A:H.94, A:D.228, A:G.232, A:S.233, A:S.233 Salt bridges: A:H.94 W81.8: 18 residues within 4Å: Chain B: N.38, S.64, Q.65, L.89, A.92, G.93, H.94, P.95, P.173, H.175, M.218, Y.223, V.225, D.228, A.230, T.231, G.232, S.233 11 PLIP interactions: 11 interactions with chain B Hydrophobic interactions: B:A.92, B:V.225 Hydrogen bonds: B:N.38, B:Q.65, B:G.93, B:H.94, B:D.228, B:G.232, B:S.233, B:S.233 Salt bridges: B:H.94

4 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.2: 7 residues within 4Å: Chain A: T.143, W.144, T.145, I.168, Y.169, H.170, R.174 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.174 PEG.3: 13 residues within 4Å: Chain A: N.38, P.39, L.63, E.227, D.228, A.229, A.230, I.262, R.264 Chain B: R.59, E.60, M.61, N.62 5 PLIP interactions: 2 interactions with chain B, 3 interactions with chain A Hydrogen bonds: B:E.60, A:N.38, A:D.228, A:A.229 Water bridges: B:R.59 PEG.9: 7 residues within 4Å: Chain B: T.143, W.144, T.145, I.168, Y.169, H.170, R.174 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:R.174 PEG.10: 13 residues within 4Å: Chain A: R.59, E.60, M.61, N.62 Chain B: N.38, P.39, L.63, E.227, D.228, A.229, A.230, I.262, R.264 6 PLIP interactions: 4 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:N.38, B:D.228, B:D.228, B:A.229, A:E.60 Water bridges: A:R.59

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

EDO.4: 11 residues within 4Å: Chain A: L.79, I.80, R.81, I.82, E.88, L.89, P.90, E.115, T.116, Q.117 Ligands: EDO.5 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:L.89, A:Q.117 Water bridges: A:E.88 EDO.5: 4 residues within 4Å: Chain A: L.79, T.116, Q.117 Ligands: EDO.4 No protein-ligand interaction detected (PLIP) EDO.11: 11 residues within 4Å: Chain B: L.79, I.80, R.81, I.82, E.88, L.89, P.90, E.115, T.116, Q.117 Ligands: EDO.12 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:L.89, B:Q.117 EDO.12: 4 residues within 4Å: Chain B: L.79, T.116, Q.117 Ligands: EDO.11 No protein-ligand interaction detected (PLIP)

4 x GOL: GLYCEROL(Non-functional Binders)

GOL.6: 4 residues within 4Å: Chain A: Q.128, I.133, A.134, N.287 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.287 GOL.7: 5 residues within 4Å: Chain A: A.146, P.165, E.167, R.244, H.245 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:E.167, A:R.244 Water bridges: A:A.146, A:E.167 GOL.13: 4 residues within 4Å: Chain B: Q.128, I.133, A.134, N.287 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.287 GOL.14: 5 residues within 4Å: Chain B: A.146, P.165, E.167, R.244, H.245 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:E.167, B:R.244 Water bridges: B:A.146, B:E.167

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Diederich, C. et al., Mechanisms and Specificity of Phenazine Biosynthesis Protein PhzF. Sci Rep (2017)

Release Date

2017-03-29

Peptides

Trans-2,3-dihydro-3-hydroxyanthranilate isomerase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Trans-2,3-dihydro-3-hydroxyanthranilate isomerase