SMTL ID : 8hx9.1

Crystal structure of 4-amino-4-deoxychorismate synthase from Streptomyces venezuelae with chorismate

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.03 Å

Oligo State

homo-dimer

Ligands

2 x TRP: TRYPTOPHAN(Non-covalent)

TRP.1: 13 residues within 4Å: Chain A: L.249, D.250, S.251, S.259, R.260, F.261, P.481, Y.482, G.483, L.636, G.637, D.646, S.648 12 PLIP interactions: 10 interactions with chain A, 2 Ligand-Ligand interactions Hydrophobic interactions: A:L.249, A:L.636 Hydrogen bonds: A:D.250, A:S.251, A:S.251, A:R.260, A:F.261, A:P.481, A:G.483, W.1 pi-Stacking: A:Y.482 Water bridges: W.1 TRP.6: 12 residues within 4Å: Chain B: L.249, D.250, S.251, S.259, R.260, F.261, P.481, Y.482, G.483, L.636, G.637, D.646 12 PLIP interactions: 10 interactions with chain B, 2 Ligand-Ligand interactions Hydrophobic interactions: B:L.249 Hydrogen bonds: B:D.250, B:S.251, B:S.251, B:R.260, B:F.261, B:P.481, B:G.483, W.6 pi-Stacking: B:Y.482, B:Y.482 Water bridges: W.6

1 x ISJ: (3R,4R)-3-[(1-carboxyethenyl)oxy]-4-hydroxycyclohexa-1,5-diene-1-carboxylic acid(Non-covalent)

ISJ.2: 17 residues within 4Å: Chain A: E.499, I.515, K.516, G.517, T.518, S.608, M.609, Y.632, I.651, R.652, V.665, G.666, G.667, A.668, E.681, K.685 Ligands: MG.5 16 PLIP interactions: 16 interactions with chain A Hydrophobic interactions: A:I.515, A:K.516 Hydrogen bonds: A:K.516, A:G.517, A:T.518, A:T.518, A:R.652, A:G.666, A:A.668, A:K.685 Water bridges: A:T.518, A:R.652 Salt bridges: A:K.516, A:R.652, A:K.685, A:K.685

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 4 residues within 4Å: Chain A: R.591 Chain B: H.30, F.33, V.46 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.591, A:R.591

3 x MG: MAGNESIUM ION(Non-covalent)

MG.4: 2 residues within 4Å: Chain A: S.190, D.191 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:S.190, A:D.191, H2O.1, H2O.2, H2O.2 MG.5: 4 residues within 4Å: Chain A: E.544, A.668, E.681 Ligands: ISJ.2 3 PLIP interactions: 1 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:E.681, H2O.1, H2O.2 MG.8: 3 residues within 4Å: Chain B: I.188, S.190, D.191 6 PLIP interactions: 2 interactions with chain B, 4 Ligand-Water interactions Metal complexes: B:S.190, B:D.191, H2O.2, H2O.3, H2O.3, H2O.3

1 x FMT: FORMIC ACID(Non-functional Binders)

FMT.7: 2 residues within 4Å: Chain B: D.191, F.192 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:D.191, B:F.192

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Nakamichi, Y. et al., Structural basis for the allosteric pathway of 4-amino-4-deoxychorismate synthase. Acta Crystallogr D Struct Biol (2023)

Release Date

2023-10-18

Peptides

4-amino-4-deoxychorismate synthase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

4-amino-4-deoxychorismate synthase

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