SMTL ID : 6xnq.1

Crystal Structure of Argininosuccinate synthase from Legionella pneumophila Philadelphia 1

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.95 Å

Oligo State

homo-tetramer

Ligands

15 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.1: 5 residues within 4Å: Chain A: D.224, E.225, E.226, F.355 Chain B: S.220 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.226 Water bridges: A:E.226, A:E.226 EDO.2: 2 residues within 4Å: Chain A: Y.71, V.72 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:V.72 EDO.3: 5 residues within 4Å: Chain A: S.21, G.23, D.25, T.26, G.127 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:S.21, A:G.23, A:G.23, A:D.25, A:T.26, A:G.127 Water bridges: A:L.24 EDO.7: 4 residues within 4Å: Chain A: S.220 Chain B: D.224, E.225, E.226 4 PLIP interactions: 1 interactions with chain A, 3 interactions with chain B Water bridges: A:S.220, B:E.226, B:E.226 Hydrogen bonds: B:E.226 EDO.8: 2 residues within 4Å: Chain B: K.111, E.114 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:K.111 Water bridges: B:E.78, B:K.111 EDO.9: 3 residues within 4Å: Chain B: Q.110, V.113, E.114 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:Q.110 EDO.10: 5 residues within 4Å: Chain B: S.21, G.23, D.25, T.26, G.127 7 PLIP interactions: 7 interactions with chain B Hydrogen bonds: B:S.21, B:G.23, B:G.23, B:D.25, B:T.26, B:G.127 Water bridges: B:L.24 EDO.11: 4 residues within 4Å: Chain B: W.32, H.36, W.158, D.159 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:W.32, B:D.159 EDO.14: 3 residues within 4Å: Chain C: E.225, E.226 Chain D: S.220 4 PLIP interactions: 4 interactions with chain C Hydrogen bonds: C:D.224, C:E.226 Water bridges: C:E.226, C:E.226 EDO.15: 2 residues within 4Å: Chain C: Y.71, V.72 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:V.72 EDO.16: 5 residues within 4Å: Chain C: S.21, G.23, D.25, T.26, G.127 8 PLIP interactions: 8 interactions with chain C Hydrogen bonds: C:S.21, C:G.23, C:G.23, C:D.25, C:D.25, C:T.26, C:G.127 Water bridges: C:L.24 EDO.17: 5 residues within 4Å: Chain C: W.32, H.36, T.157, W.158, D.159 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:W.32, C:D.159 EDO.20: 4 residues within 4Å: Chain C: S.220 Chain D: D.224, E.225, E.226 3 PLIP interactions: 2 interactions with chain D, 1 interactions with chain C Hydrogen bonds: D:E.226 Water bridges: D:E.226, C:S.220 EDO.21: 2 residues within 4Å: Chain D: K.111, E.114 3 PLIP interactions: 3 interactions with chain D Hydrogen bonds: D:K.111 Water bridges: D:E.78, D:K.111 EDO.22: 5 residues within 4Å: Chain D: S.21, G.23, D.25, T.26, G.127 8 PLIP interactions: 8 interactions with chain D Hydrogen bonds: D:S.21, D:G.23, D:G.23, D:D.25, D:D.25, D:T.26, D:G.127 Water bridges: D:L.24

7 x SO4: SULFATE ION(Non-functional Binders)

SO4.4: 6 residues within 4Å: Chain A: T.304, S.306 Chain C: S.399, A.400 Chain D: Y.140, S.329 11 PLIP interactions: 5 interactions with chain D, 2 interactions with chain C, 4 interactions with chain A Hydrogen bonds: D:Y.140, C:S.399, A:T.304, A:S.306, A:S.306, A:S.306 Water bridges: D:Y.140, D:Y.140, D:S.329, D:T.331, C:S.399 SO4.5: 6 residues within 4Å: Chain A: S.399, A.400 Chain B: Y.140, S.329 Chain C: T.304, S.306 11 PLIP interactions: 4 interactions with chain B, 3 interactions with chain C, 4 interactions with chain A Hydrogen bonds: B:Y.140, C:T.304, C:S.306, C:S.306, A:S.399 Water bridges: B:R.326, B:S.329, B:T.331, A:F.396, A:S.399, A:S.399 SO4.6: 4 residues within 4Å: Chain B: G.23, L.24, R.163, P.178 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:G.22, B:L.24 Water bridges: B:D.25 Salt bridges: B:R.163 SO4.12: 6 residues within 4Å: Chain B: T.304, S.306 Chain C: Y.140, S.329 Chain D: S.399, A.400 11 PLIP interactions: 4 interactions with chain B, 5 interactions with chain C, 2 interactions with chain D Hydrogen bonds: B:T.304, B:S.306, B:S.306, B:S.306, C:Y.140, D:S.399 Water bridges: C:Y.140, C:Y.140, C:S.329, C:T.331, D:S.399 SO4.13: 4 residues within 4Å: Chain C: G.23, L.24, R.163, P.178 3 PLIP interactions: 3 interactions with chain C Hydrogen bonds: C:L.24 Water bridges: C:D.25 Salt bridges: C:R.163 SO4.18: 6 residues within 4Å: Chain A: Y.140, S.329 Chain B: S.399, A.400 Chain D: T.304, S.306 9 PLIP interactions: 3 interactions with chain D, 3 interactions with chain B, 3 interactions with chain A Hydrogen bonds: D:T.304, D:S.306, D:S.306, B:S.399, A:Y.140 Water bridges: B:S.399, B:S.399, A:R.326, A:T.331 SO4.19: 3 residues within 4Å: Chain D: G.23, L.24, R.163 2 PLIP interactions: 2 interactions with chain D Hydrogen bonds: D:L.24 Salt bridges: D:R.163

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Abendroth, J. et al., Crystal Structure of Argininosuccinate synthase from Legionella pneumophila Philadelphia 1. to be published

Release Date

2020-07-22

Peptides

Argininosuccinate synthase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

Argininosuccinate synthase

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