SMTL ID : 3c17.1

Hexagonal Crystal Structure of Precursor E. coli Isoaspartyl Peptidase/l-Asparaginase (ECAIII) with Active-site T179A mutation

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.95 Å

Oligo State

homo-dimer

Ligands

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

NA.1: 6 residues within 4Å: Chain A: L.59, E.60, C.62, F.65, A.67, I.69 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:A.67, A:A.67 NA.2: 3 residues within 4Å: Chain A: F.289, N.290, T.291 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:F.289 NA.3: 5 residues within 4Å: Chain A: V.112, M.113, S.116, P.117, H.118 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:M.113 Water bridges: A:S.116 NA.4: 3 residues within 4Å: Chain A: K.175, G.230 Ligands: CL.10 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:D.209, A:G.230 Water bridges: A:D.209 NA.5: 1 residues within 4Å: Chain A: D.249 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.220, A:D.249 NA.15: 6 residues within 4Å: Chain B: L.59, E.60, C.62, F.65, A.67, I.69 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:C.62, B:A.67 NA.16: 1 residues within 4Å: Chain B: D.249 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:D.249 NA.17: 5 residues within 4Å: Chain B: V.112, M.113, S.116, P.117, H.118 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:H.118 Water bridges: B:K.92 NA.18: 3 residues within 4Å: Chain B: K.175, G.230 Ligands: CL.25 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:G.230, B:G.230 Water bridges: B:D.209 NA.19: 4 residues within 4Å: Chain B: A.154, A.155, K.157, G.159 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:K.157, B:G.159 NA.20: 3 residues within 4Å: Chain B: F.289, N.290, T.291 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:F.289

17 x CL: CHLORIDE ION(Non-functional Binders)

CL.6: 1 residues within 4Å: Chain B: L.91 Ligand excluded by PLIP CL.7: 4 residues within 4Å: Chain A: I.14, S.15, R.16, A.17 Ligand excluded by PLIP CL.8: 3 residues within 4Å: Chain A: G.308, I.309, Y.310 Ligand excluded by PLIP CL.9: 4 residues within 4Å: Chain A: G.12, A.13, T.291, E.292 Ligand excluded by PLIP CL.10: 7 residues within 4Å: Chain A: K.175, R.206, G.208, D.209, G.230, G.232 Ligands: NA.4 Ligand excluded by PLIP CL.11: 2 residues within 4Å: Chain A: R.237 Chain B: V.119 Ligand excluded by PLIP CL.12: 2 residues within 4Å: Chain A: L.21, Q.22 Ligand excluded by PLIP CL.13: 3 residues within 4Å: Chain A: R.261, K.266 Chain B: Y.250 Ligand excluded by PLIP CL.14: 2 residues within 4Å: Chain A: M.135, E.136 Ligand excluded by PLIP CL.21: 2 residues within 4Å: Chain B: M.135, E.136 Ligand excluded by PLIP CL.22: 2 residues within 4Å: Chain B: S.20, L.21 Ligand excluded by PLIP CL.23: 4 residues within 4Å: Chain B: I.14, S.15, R.16, A.17 Ligand excluded by PLIP CL.24: 4 residues within 4Å: Chain B: G.12, A.13, T.291, E.292 Ligand excluded by PLIP CL.25: 7 residues within 4Å: Chain B: K.175, R.206, G.208, D.209, G.230, G.232 Ligands: NA.18 Ligand excluded by PLIP CL.26: 2 residues within 4Å: Chain A: V.119 Chain B: R.237 Ligand excluded by PLIP CL.27: 3 residues within 4Å: Chain A: Y.250 Chain B: R.261, K.266 Ligand excluded by PLIP CL.28: 2 residues within 4Å: Chain B: R.16, Y.310 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Michalska, K. et al., The Mechanism of Autocatalytic Activation of Plant-type L-Asparaginases. J.Biol.Chem. (2008)

Release Date

2008-04-01

Peptides

L-asparaginase precursor: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

L-asparaginase precursor

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