SMTL ID : 4ycc.1

Structure of a single tryptophan mutant of Acetobacter aceti PurE with Y154L mutation

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.26 Å

Oligo State

homo-octamer

Ligands

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

EDO.1: 3 residues within 4Å: Chain A: P.175, N.176, S.177 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:N.176, A:N.176, A:S.177, A:S.177 EDO.3: 6 residues within 4Å: Chain A: A.97, W.98, T.99, R.100 Chain B: E.164, R.167 4 PLIP interactions: 2 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:W.98, A:R.100, B:R.167 Water bridges: B:E.164 EDO.7: 3 residues within 4Å: Chain C: P.175, N.176, S.177 4 PLIP interactions: 4 interactions with chain C Hydrogen bonds: C:N.176, C:N.176, C:S.177, C:S.177 EDO.9: 6 residues within 4Å: Chain C: A.97, W.98, T.99, R.100 Chain D: E.164, R.167 4 PLIP interactions: 2 interactions with chain C, 2 interactions with chain D Hydrogen bonds: C:W.98, C:R.100, D:R.167 Water bridges: D:E.164 EDO.13: 3 residues within 4Å: Chain E: P.175, N.176, S.177 4 PLIP interactions: 4 interactions with chain E Hydrogen bonds: E:N.176, E:N.176, E:S.177, E:S.177 EDO.15: 6 residues within 4Å: Chain E: A.97, W.98, T.99, R.100 Chain F: E.164, R.167 4 PLIP interactions: 2 interactions with chain F, 2 interactions with chain E Hydrogen bonds: F:R.167, E:W.98, E:R.100 Water bridges: F:E.164 EDO.19: 3 residues within 4Å: Chain G: P.175, N.176, S.177 4 PLIP interactions: 4 interactions with chain G Hydrogen bonds: G:N.176, G:N.176, G:S.177, G:S.177 EDO.21: 6 residues within 4Å: Chain G: A.97, W.98, T.99, R.100 Chain H: E.164, R.167 4 PLIP interactions: 2 interactions with chain G, 2 interactions with chain H Hydrogen bonds: G:W.98, G:R.100, H:R.167 Water bridges: H:E.164

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

SO4.2: 5 residues within 4Å: Chain A: G.30, S.58, A.59, H.60 Chain H: P.126 6 PLIP interactions: 5 interactions with chain A, 1 interactions with chain H Hydrogen bonds: A:A.59, A:H.60 Water bridges: A:S.58, A:H.60, H:P.126 Salt bridges: A:H.60 SO4.5: 5 residues within 4Å: Chain B: S.58, A.59, H.60, R.61 Chain E: P.126 12 PLIP interactions: 12 interactions with chain B Hydrogen bonds: B:A.59, B:H.60 Water bridges: B:G.30, B:D.34, B:D.34, B:H.60, B:R.61, B:R.61, B:R.61, B:G.86 Salt bridges: B:H.60, B:R.61 SO4.6: 2 residues within 4Å: Chain B: R.39, H.40 2 PLIP interactions: 2 interactions with chain B Salt bridges: B:R.39, B:H.40 SO4.8: 5 residues within 4Å: Chain C: G.30, S.58, A.59, H.60 Chain F: P.126 6 PLIP interactions: 5 interactions with chain C, 1 interactions with chain F Hydrogen bonds: C:A.59, C:H.60 Water bridges: C:S.58, C:H.60, F:P.126 Salt bridges: C:H.60 SO4.11: 5 residues within 4Å: Chain D: S.58, A.59, H.60, R.61 Chain G: P.126 12 PLIP interactions: 12 interactions with chain D Hydrogen bonds: D:A.59, D:H.60 Water bridges: D:G.30, D:D.34, D:D.34, D:H.60, D:R.61, D:R.61, D:R.61, D:G.86 Salt bridges: D:H.60, D:R.61 SO4.12: 2 residues within 4Å: Chain D: R.39, H.40 2 PLIP interactions: 2 interactions with chain D Salt bridges: D:R.39, D:H.40 SO4.14: 5 residues within 4Å: Chain B: P.126 Chain E: G.30, S.58, A.59, H.60 6 PLIP interactions: 5 interactions with chain E, 1 interactions with chain B Hydrogen bonds: E:A.59, E:H.60 Water bridges: E:S.58, E:H.60, B:P.126 Salt bridges: E:H.60 SO4.17: 5 residues within 4Å: Chain C: P.126 Chain F: S.58, A.59, H.60, R.61 12 PLIP interactions: 12 interactions with chain F Hydrogen bonds: F:A.59, F:H.60 Water bridges: F:G.30, F:D.34, F:D.34, F:H.60, F:R.61, F:R.61, F:R.61, F:G.86 Salt bridges: F:H.60, F:R.61 SO4.18: 2 residues within 4Å: Chain F: R.39, H.40 2 PLIP interactions: 2 interactions with chain F Salt bridges: F:R.39, F:H.40 SO4.20: 5 residues within 4Å: Chain D: P.126 Chain G: G.30, S.58, A.59, H.60 6 PLIP interactions: 1 interactions with chain D, 5 interactions with chain G Water bridges: D:P.126, G:S.58, G:H.60 Hydrogen bonds: G:A.59, G:H.60 Salt bridges: G:H.60 SO4.23: 5 residues within 4Å: Chain A: P.126 Chain H: S.58, A.59, H.60, R.61 12 PLIP interactions: 12 interactions with chain H Hydrogen bonds: H:A.59, H:H.60 Water bridges: H:G.30, H:D.34, H:D.34, H:H.60, H:R.61, H:R.61, H:R.61, H:G.86 Salt bridges: H:H.60, H:R.61 SO4.24: 2 residues within 4Å: Chain H: R.39, H.40 2 PLIP interactions: 2 interactions with chain H Salt bridges: H:R.39, H:H.40

4 x ACT: ACETATE ION(Non-functional Binders)

ACT.4: 2 residues within 4Å: Chain B: N.156, R.162 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:N.156 Salt bridges: B:R.162 ACT.10: 2 residues within 4Å: Chain D: N.156, R.162 2 PLIP interactions: 2 interactions with chain D Hydrogen bonds: D:N.156 Salt bridges: D:R.162 ACT.16: 2 residues within 4Å: Chain F: N.156, R.162 2 PLIP interactions: 2 interactions with chain F Hydrogen bonds: F:N.156 Salt bridges: F:R.162 ACT.22: 2 residues within 4Å: Chain H: N.156, R.162 2 PLIP interactions: 2 interactions with chain H Hydrogen bonds: H:N.156 Salt bridges: H:R.162

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Sullivan, K.L. et al., Structure of a single tryptophan mutant of Acetobacter aceti PurE. To Be Published

Release Date

2016-02-24

Peptides

N5-carboxyaminoimidazole ribonucleotide mutase: ABCDEFGH

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

E
A

F
B

G
A

H
B

N5-carboxyaminoimidazole ribonucleotide mutase