SMTL ID : 7xn3.1

E.coli phosphoribosylpyrophosphate (PRPP) synthetase type B filament bound with Pi

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

homo-hexamer

Ligands

12 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.1: 6 residues within 4Å: Chain A: N.47, R.49 Chain C: R.105 Chain D: S.308, I.309, S.310 5 PLIP interactions: 3 interactions with chain D, 1 interactions with chain A, 1 interactions with chain C Hydrogen bonds: D:I.309, D:S.310, D:S.310 Salt bridges: A:R.49, C:R.105 PO4.2: 5 residues within 4Å: Chain A: R.96, D.224, T.225, G.226, T.228 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:R.96, A:D.224, A:T.225, A:T.225, A:G.226, A:T.228 Water bridges: A:T.228, A:T.228 PO4.3: 6 residues within 4Å: Chain A: S.308, I.309, S.310 Chain B: R.105 Chain E: N.47, R.49 5 PLIP interactions: 1 interactions with chain E, 3 interactions with chain A, 1 interactions with chain B Salt bridges: E:R.49, B:R.105 Hydrogen bonds: A:I.309, A:S.310, A:S.310 PO4.4: 6 residues within 4Å: Chain B: N.47, R.49 Chain E: R.105 Chain F: S.308, I.309, S.310 7 PLIP interactions: 3 interactions with chain F, 3 interactions with chain B, 1 interactions with chain E Hydrogen bonds: F:I.309, F:S.310, F:S.310, B:N.47, B:N.47 Salt bridges: B:R.49, E:R.105 PO4.5: 5 residues within 4Å: Chain B: R.96, D.224, T.225, G.226, T.228 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:R.96, B:D.224, B:T.225, B:G.226, B:T.228 PO4.6: 6 residues within 4Å: Chain A: R.105 Chain B: S.308, I.309, S.310 Chain C: N.47, R.49 7 PLIP interactions: 3 interactions with chain B, 3 interactions with chain C, 1 interactions with chain A Hydrogen bonds: B:I.309, B:S.310, B:S.310, C:N.47, C:N.47 Salt bridges: C:R.49, A:R.105 PO4.7: 5 residues within 4Å: Chain C: R.96, D.224, T.225, G.226, T.228 5 PLIP interactions: 5 interactions with chain C Hydrogen bonds: C:R.96, C:D.224, C:T.225, C:G.226, C:T.228 PO4.8: 6 residues within 4Å: Chain C: S.308, I.309, S.310 Chain D: R.105 Chain F: N.47, R.49 7 PLIP interactions: 3 interactions with chain C, 1 interactions with chain D, 3 interactions with chain F Hydrogen bonds: C:I.309, C:S.310, C:S.310, F:N.47, F:N.47 Salt bridges: D:R.105, F:R.49 PO4.9: 5 residues within 4Å: Chain D: R.96, D.224, T.225, G.226, T.228 8 PLIP interactions: 8 interactions with chain D Hydrogen bonds: D:R.96, D:D.224, D:T.225, D:T.225, D:G.226, D:T.228 Water bridges: D:T.228, D:T.228 PO4.10: 6 residues within 4Å: Chain D: N.47, R.49 Chain E: S.308, I.309, S.310 Chain F: R.105 5 PLIP interactions: 3 interactions with chain E, 1 interactions with chain D, 1 interactions with chain F Hydrogen bonds: E:I.309, E:S.310, E:S.310 Salt bridges: D:R.49, F:R.105 PO4.11: 5 residues within 4Å: Chain E: R.96, D.224, T.225, G.226, T.228 8 PLIP interactions: 8 interactions with chain E Hydrogen bonds: E:R.96, E:D.224, E:T.225, E:T.225, E:G.226, E:T.228 Water bridges: E:T.228, E:T.228 PO4.12: 5 residues within 4Å: Chain F: R.96, D.224, T.225, G.226, T.228 5 PLIP interactions: 5 interactions with chain F Hydrogen bonds: F:R.96, F:D.224, F:T.225, F:G.226, F:T.228

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Hu, H.H. et al., Filamentation modulates allosteric regulation of PRPS. Elife (2022)

Release Date

2022-06-29

Peptides

Ribose-phosphate pyrophosphokinase: ABCDEF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
F

D
E

E
C

F
D

Ribose-phosphate pyrophosphokinase

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