SMTL ID : 1rqx.1

Crystal structure of ACC Deaminase complexed with Inhibitor

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.50 Å

Oligo State

homo-tetramer

Ligands

4 x PLP: PYRIDOXAL-5'-PHOSPHATE(Covalent)

PLP.1: 18 residues within 4Å: Chain A: N.50, K.51, K.54, N.79, S.163, C.196, S.197, V.198, T.199, G.200, S.201, T.202, Y.294, E.295, L.322, G.323, G.324 Ligands: MLP.5 16 PLIP interactions: 16 interactions with chain A Hydrophobic interactions: A:K.51, A:L.322 Hydrogen bonds: A:N.50, A:N.79, A:S.163, A:V.198, A:T.199, A:G.200, A:T.202, A:T.202 Water bridges: A:N.50, A:Q.203, A:G.324 Salt bridges: A:K.51, A:K.54 pi-Stacking: A:Y.294 PLP.2: 18 residues within 4Å: Chain B: N.50, K.51, K.54, N.79, S.163, C.196, S.197, V.198, T.199, G.200, S.201, T.202, Y.294, E.295, L.322, G.323, G.324 Ligands: MLP.6 18 PLIP interactions: 18 interactions with chain B Hydrophobic interactions: B:K.51, B:Y.294, B:E.295 Hydrogen bonds: B:N.50, B:K.51, B:N.79, B:S.163, B:V.198, B:T.199, B:G.200, B:T.202, B:T.202 Water bridges: B:K.51, B:Q.203, B:L.322 Salt bridges: B:K.51, B:K.54 pi-Stacking: B:Y.294 PLP.3: 18 residues within 4Å: Chain C: N.50, K.51, K.54, N.79, S.163, C.196, S.197, V.198, T.199, G.200, S.201, T.202, Y.294, E.295, L.322, G.323, G.324 Ligands: MLP.7 18 PLIP interactions: 18 interactions with chain C Hydrophobic interactions: C:K.51, C:Y.294 Hydrogen bonds: C:N.50, C:N.79, C:S.163, C:V.198, C:T.199, C:T.199, C:G.200, C:T.202, C:T.202, C:T.202 Water bridges: C:N.50, C:Q.203, C:L.322 Salt bridges: C:K.51, C:K.54 pi-Stacking: C:Y.294 PLP.4: 18 residues within 4Å: Chain D: N.50, K.51, K.54, N.79, S.163, C.196, S.197, V.198, T.199, G.200, S.201, T.202, Y.294, E.295, L.322, G.323, G.324 Ligands: MLP.8 17 PLIP interactions: 17 interactions with chain D Hydrophobic interactions: D:K.51, D:Y.294 Hydrogen bonds: D:N.50, D:N.79, D:S.163, D:V.198, D:T.199, D:T.199, D:G.200, D:T.202, D:T.202 Water bridges: D:N.50, D:Q.203, D:L.322 Salt bridges: D:K.51, D:K.54 pi-Stacking: D:Y.294

4 x MLP: 1-AMINOCYCLOPROPYLPHOSPHONATE(Non-covalent)

MLP.5: 7 residues within 4Å: Chain A: K.51, S.78, N.79, Q.80, T.199, Y.294 Ligands: PLP.1 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:T.199 Hydrogen bonds: A:N.79, A:N.79, A:Q.80, A:Y.294, A:Y.294, A:Y.294 Water bridges: A:Y.268 MLP.6: 7 residues within 4Å: Chain B: K.51, S.78, N.79, Q.80, T.199, Y.294 Ligands: PLP.2 6 PLIP interactions: 6 interactions with chain B Hydrophobic interactions: B:T.199 Hydrogen bonds: B:K.51, B:N.79, B:N.79, B:Q.80 Water bridges: B:S.78 MLP.7: 9 residues within 4Å: Chain C: K.51, S.78, N.79, Q.80, G.161, T.199, Y.268, Y.294 Ligands: PLP.3 9 PLIP interactions: 9 interactions with chain C Hydrophobic interactions: C:T.199 Hydrogen bonds: C:N.79, C:N.79, C:Q.80, C:Y.268, C:Y.294 Water bridges: C:G.75, C:S.78, C:Y.268 MLP.8: 8 residues within 4Å: Chain D: K.51, S.78, N.79, Q.80, T.199, Y.268, Y.294 Ligands: PLP.4 10 PLIP interactions: 10 interactions with chain D Hydrophobic interactions: D:T.199 Hydrogen bonds: D:N.79, D:N.79, D:Q.80, D:Y.268, D:Y.294, D:Y.294 Water bridges: D:S.78, D:S.78, D:Y.268

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Karthikeyan, S. et al., Structural analysis of 1-aminocyclopropane-1-carboxylate deaminase: observation of an aminyl intermediate and identification of Tyr 294 as the active-site nucleophile. Angew.Chem.Int.Ed.Engl. (2004)

Release Date

2004-08-17

Peptides

1-aminocyclopropane-1-carboxylate deaminase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

1-aminocyclopropane-1-carboxylate deaminase

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