SMTL ID : 5cvt.1

Structure of a single tryptophan mutant of Acetobacter aceti PurE containing 5-fluorotryptophan, pH 5.4

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.78 Å

Oligo State

homo-octamer

Ligands

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

ACT.1: 3 residues within 4Å: Chain A: N.156, L.159, R.162 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.156, A:L.159 Salt bridges: A:R.162 ACT.3: 3 residues within 4Å: Chain B: N.156, A.158, R.162 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:N.156 Water bridges: B:R.162 Salt bridges: B:R.162 ACT.7: 3 residues within 4Å: Chain C: N.156, L.159, R.162 3 PLIP interactions: 3 interactions with chain C Hydrogen bonds: C:N.156, C:L.159 Salt bridges: C:R.162 ACT.9: 3 residues within 4Å: Chain D: N.156, A.158, R.162 3 PLIP interactions: 3 interactions with chain D Hydrogen bonds: D:N.156 Water bridges: D:R.162 Salt bridges: D:R.162 ACT.13: 3 residues within 4Å: Chain E: N.156, L.159, R.162 3 PLIP interactions: 3 interactions with chain E Hydrogen bonds: E:N.156, E:L.159 Salt bridges: E:R.162 ACT.15: 3 residues within 4Å: Chain F: N.156, A.158, R.162 3 PLIP interactions: 3 interactions with chain F Hydrogen bonds: F:N.156 Water bridges: F:R.162 Salt bridges: F:R.162 ACT.19: 3 residues within 4Å: Chain G: N.156, L.159, R.162 3 PLIP interactions: 3 interactions with chain G Hydrogen bonds: G:N.156, G:L.159 Salt bridges: G:R.162 ACT.21: 3 residues within 4Å: Chain H: N.156, A.158, R.162 3 PLIP interactions: 3 interactions with chain H Hydrogen bonds: H:N.156 Water bridges: H:R.162 Salt bridges: H:R.162

8 x CIT: CITRIC ACID(Non-functional Binders)

CIT.2: 13 residues within 4Å: Chain A: G.30, S.31, D.34, S.58, A.59, H.60, A.85, G.86, A.88, A.89, H.90, L.91 Chain F: P.126 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:A.85 Hydrogen bonds: A:G.30, A:S.58, A:S.58, A:A.59, A:H.60, A:G.86, A:H.90, A:L.91 Salt bridges: A:H.60, A:H.60 CIT.4: 14 residues within 4Å: Chain B: G.30, S.31, D.34, S.58, A.59, H.60, R.61, A.85, G.86, A.88, A.89, H.90, L.91 Chain G: P.126 12 PLIP interactions: 12 interactions with chain B Hydrophobic interactions: B:A.85 Hydrogen bonds: B:A.59, B:H.60, B:R.61, B:G.86, B:A.88, B:H.90, B:L.91 Water bridges: B:A.88 Salt bridges: B:H.60, B:H.60, B:R.61 CIT.8: 13 residues within 4Å: Chain C: G.30, S.31, D.34, S.58, A.59, H.60, A.85, G.86, A.88, A.89, H.90, L.91 Chain H: P.126 11 PLIP interactions: 11 interactions with chain C Hydrophobic interactions: C:A.85 Hydrogen bonds: C:G.30, C:S.58, C:S.58, C:A.59, C:H.60, C:G.86, C:H.90, C:L.91 Salt bridges: C:H.60, C:H.60 CIT.10: 14 residues within 4Å: Chain D: G.30, S.31, D.34, S.58, A.59, H.60, R.61, A.85, G.86, A.88, A.89, H.90, L.91 Chain E: P.126 12 PLIP interactions: 12 interactions with chain D Hydrophobic interactions: D:A.85 Hydrogen bonds: D:A.59, D:H.60, D:R.61, D:G.86, D:A.88, D:H.90, D:L.91 Water bridges: D:A.88 Salt bridges: D:H.60, D:H.60, D:R.61 CIT.14: 13 residues within 4Å: Chain D: P.126 Chain E: G.30, S.31, D.34, S.58, A.59, H.60, A.85, G.86, A.88, A.89, H.90, L.91 11 PLIP interactions: 11 interactions with chain E Hydrophobic interactions: E:A.85 Hydrogen bonds: E:G.30, E:S.58, E:S.58, E:A.59, E:H.60, E:G.86, E:H.90, E:L.91 Salt bridges: E:H.60, E:H.60 CIT.16: 14 residues within 4Å: Chain A: P.126 Chain F: G.30, S.31, D.34, S.58, A.59, H.60, R.61, A.85, G.86, A.88, A.89, H.90, L.91 12 PLIP interactions: 12 interactions with chain F Hydrophobic interactions: F:A.85 Hydrogen bonds: F:A.59, F:H.60, F:R.61, F:G.86, F:A.88, F:H.90, F:L.91 Water bridges: F:A.88 Salt bridges: F:H.60, F:H.60, F:R.61 CIT.20: 13 residues within 4Å: Chain B: P.126 Chain G: G.30, S.31, D.34, S.58, A.59, H.60, A.85, G.86, A.88, A.89, H.90, L.91 11 PLIP interactions: 11 interactions with chain G Hydrophobic interactions: G:A.85 Hydrogen bonds: G:G.30, G:S.58, G:S.58, G:A.59, G:H.60, G:G.86, G:H.90, G:L.91 Salt bridges: G:H.60, G:H.60 CIT.22: 14 residues within 4Å: Chain C: P.126 Chain H: G.30, S.31, D.34, S.58, A.59, H.60, R.61, A.85, G.86, A.88, A.89, H.90, L.91 12 PLIP interactions: 12 interactions with chain H Hydrophobic interactions: H:A.85 Hydrogen bonds: H:A.59, H:H.60, H:R.61, H:G.86, H:A.88, H:H.90, H:L.91 Water bridges: H:A.88 Salt bridges: H:H.60, H:H.60, H:R.61

4 x K: POTASSIUM ION(Non-covalent)

K.5: 2 residues within 4Å: Chain B: P.175 Ligands: PGF.6 No protein-ligand interaction detected (PLIP) K.11: 2 residues within 4Å: Chain D: P.175 Ligands: PGF.12 No protein-ligand interaction detected (PLIP) K.17: 2 residues within 4Å: Chain F: P.175 Ligands: PGF.18 No protein-ligand interaction detected (PLIP) K.23: 2 residues within 4Å: Chain H: P.175 Ligands: PGF.24 No protein-ligand interaction detected (PLIP)

4 x PGF: 2,5,8,11-TETRAOXATRIDECANE(Non-covalent)

PGF.6: 6 residues within 4Å: Chain B: A.172, S.173, V.174, P.175, N.176 Ligands: K.5 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.176 PGF.12: 6 residues within 4Å: Chain D: A.172, S.173, V.174, P.175, N.176 Ligands: K.11 1 PLIP interactions: 1 interactions with chain D Hydrogen bonds: D:N.176 PGF.18: 6 residues within 4Å: Chain F: A.172, S.173, V.174, P.175, N.176 Ligands: K.17 1 PLIP interactions: 1 interactions with chain F Hydrogen bonds: F:N.176 PGF.24: 6 residues within 4Å: Chain H: A.172, S.173, V.174, P.175, N.176 Ligands: K.23 1 PLIP interactions: 1 interactions with chain H Hydrogen bonds: H:N.176

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

2016-08-10

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

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