SMTL ID : 6paa.2 (1 other biounit)

E. coli L-asparaginase II mutant (T12V) in complex with L-Asp at pH 5.5

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.85 Å

Oligo State

homo-tetramer

Ligands

4 x ASP: ASPARTIC ACID(Non-covalent)

ASP.1: 11 residues within 4Å: Chain A: G.19, V.20, G.65, S.66, Q.67, G.96, T.97, D.98, A.122 Chain B: N.256, E.291 11 PLIP interactions: 10 interactions with chain A, 1 interactions with chain B Hydrophobic interactions: A:V.20 Hydrogen bonds: A:V.20, A:S.66, A:Q.67, A:Q.67, A:T.97, A:D.98, A:D.98, B:E.291 Water bridges: A:I.21 Salt bridges: A:K.170 ASP.2: 11 residues within 4Å: Chain A: N.256, E.291 Chain B: G.19, V.20, G.65, S.66, Q.67, G.96, T.97, D.98, A.122 11 PLIP interactions: 8 interactions with chain B, 1 interactions with chain A, 2 Ligand-Ligand interactions Hydrophobic interactions: B:V.20 Hydrogen bonds: B:V.20, B:S.66, B:Q.67, B:T.97, B:D.98, A:E.291, D.2, D.2 Water bridges: B:I.21 Salt bridges: B:K.170 ASP.3: 11 residues within 4Å: Chain C: G.19, V.20, G.65, S.66, Q.67, G.96, T.97, D.98, A.122 Chain D: N.256, E.291 11 PLIP interactions: 10 interactions with chain C, 1 interactions with chain D Hydrophobic interactions: C:V.20 Hydrogen bonds: C:V.20, C:S.66, C:Q.67, C:Q.67, C:T.97, C:D.98, C:D.98, D:E.291 Water bridges: C:I.21 Salt bridges: C:K.170 ASP.4: 11 residues within 4Å: Chain C: N.256, E.291 Chain D: G.19, V.20, G.65, S.66, Q.67, G.96, T.97, D.98, A.122 11 PLIP interactions: 2 Ligand-Ligand interactions, 1 interactions with chain C, 8 interactions with chain D Hydrogen bonds: D.4, D.4, C:E.291, D:V.20, D:S.66, D:Q.67, D:T.97, D:D.98 Hydrophobic interactions: D:V.20 Water bridges: D:I.21 Salt bridges: D:K.170

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lubkowski, J. et al., Geometric considerations support the double-displacement catalytic mechanism of l-asparaginase. Protein Sci. (2019)

Release Date

2019-09-04

Peptides

L-asparaginase 2: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

B
D

C
C

D
D

L-asparaginase 2

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