SMTL ID : 6sl8.1

Diaminobutyrate acetyltransferase EctA from Paenibacillus lautus in complex with its substrate L-2,4-diaminobutyric acid (DAB)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.53 Å

Oligo State

homo-dimer

Ligands

4 x DAB: 2,4-DIAMINOBUTYRIC ACID(Non-covalent)

DAB.1: 8 residues within 4Å: Chain A: L.42, D.43, W.89, Q.90, T.125, E.168 Chain B: Y.48 Ligands: NA.5 8 PLIP interactions: 7 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:D.43, A:W.89, A:Q.90, A:T.125, A:E.168 Water bridges: A:T.125, A:S.127 Hydrophobic interactions: B:Y.48 DAB.2: 10 residues within 4Å: Chain A: V.91, V.93, R.98, R.99, I.102, A.103, A.132, S.133 Ligands: NA.3, NA.4 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:A.132 Hydrogen bonds: A:R.98, A:R.98, A:R.99, A:I.102, A:A.103, A:S.133 Water bridges: A:G.101 DAB.7: 8 residues within 4Å: Chain A: Y.48 Chain B: L.42, D.43, W.89, Q.90, T.125, E.168 Ligands: NA.11 8 PLIP interactions: 1 interactions with chain A, 7 interactions with chain B Hydrophobic interactions: A:Y.48 Hydrogen bonds: B:D.43, B:W.89, B:Q.90, B:T.125, B:E.168 Water bridges: B:T.125, B:S.127 DAB.8: 10 residues within 4Å: Chain B: V.91, V.93, R.98, R.99, I.102, A.103, A.132, S.133 Ligands: NA.9, NA.10 8 PLIP interactions: 8 interactions with chain B Hydrophobic interactions: B:A.132 Hydrogen bonds: B:R.98, B:R.98, B:R.99, B:I.102, B:A.103, B:S.133 Water bridges: B:G.101

6 x NA: SODIUM ION(Non-functional Binders)

NA.3: 5 residues within 4Å: Chain A: G.101, I.102, A.103, K.104 Ligands: DAB.2 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:G.101, A:A.103, A:K.104 Water bridges: A:G.101 NA.4: 8 residues within 4Å: Chain A: V.93, H.97, R.98, R.99, Q.100, G.101, I.102 Ligands: DAB.2 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:H.97, A:Q.100, A:I.102 Water bridges: A:G.101 NA.5: 7 residues within 4Å: Chain A: D.43, N.45, W.89, Q.90 Chain B: S.46, Y.48 Ligands: DAB.1 3 PLIP interactions: 2 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:D.43, A:N.45, B:S.46 NA.9: 5 residues within 4Å: Chain B: G.101, I.102, A.103, K.104 Ligands: DAB.8 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:A.103, B:K.104 Water bridges: B:G.101 NA.10: 8 residues within 4Å: Chain B: V.93, H.97, R.98, R.99, Q.100, G.101, I.102 Ligands: DAB.8 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:H.97, B:Q.100, B:I.102 Water bridges: B:G.101 NA.11: 7 residues within 4Å: Chain A: S.46, Y.48 Chain B: D.43, N.45, W.89, Q.90 Ligands: DAB.7 3 PLIP interactions: 2 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:N.45, B:W.89, A:S.46

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.6: 3 residues within 4Å: Chain A: L.170 Chain B: D.55, Y.56 4 PLIP interactions: 1 interactions with chain A, 3 interactions with chain B Water bridges: A:S.79, B:D.55, B:D.55 Hydrogen bonds: B:D.55 GOL.12: 3 residues within 4Å: Chain A: D.55, Y.56 Chain B: L.170 4 PLIP interactions: 2 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:D.55 Water bridges: A:Y.56, B:S.79, B:Y.154

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Richter, A.A. et al., The architecture of the diaminobutyrate acetyltransferase active site provides mechanistic insight into the biosynthesis of the chemical chaperone ectoine. J.Biol.Chem. (2020)

Release Date

2020-01-29

Peptides

L-2,4-diaminobutyric acid acetyltransferase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

L-2,4-diaminobutyric acid acetyltransferase

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