SMTL ID : 1k8w.1

Crystal structure of the E. coli pseudouridine synthase TruB bound to a T stem-loop RNA

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.85 Å

Oligo State

monomer

Ligands

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

SO4.1: 5 residues within 4Å: Chain A: G.12 Chain B: G.35, S.37, D.40, P.62 1 PLIP interactions: 1 interactions with chain B Water bridges: B:S.37 SO4.2: 4 residues within 4Å: Chain B: K.44, R.47, R.233 Ligands: SO4.3 5 PLIP interactions: 5 interactions with chain B Water bridges: B:R.233, B:R.233 Salt bridges: B:K.44, B:R.47, B:R.233 SO4.3: 5 residues within 4Å: Chain B: M.36, K.44, L.229, R.233 Ligands: SO4.2 2 PLIP interactions: 2 interactions with chain B Salt bridges: B:K.44, B:R.233 SO4.4: 4 residues within 4Å: Chain B: P.270, R.284, T.285, S.286 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:T.285, B:S.286 SO4.5: 2 residues within 4Å: Chain B: R.94, Q.97 3 PLIP interactions: 3 interactions with chain B Water bridges: B:R.94, B:Q.97 Salt bridges: B:R.94 SO4.6: 1 residues within 4Å: Chain B: R.284 2 PLIP interactions: 2 interactions with chain B Water bridges: B:R.284 Salt bridges: B:R.284 SO4.7: 2 residues within 4Å: Chain A: C.6 Chain B: Q.145 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:Q.145 SO4.8: 4 residues within 4Å: Chain B: R.90, Y.212, R.214, L.216 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:Y.212 Salt bridges: B:R.90 SO4.9: 2 residues within 4Å: Chain B: R.98, E.110 1 PLIP interactions: 1 interactions with chain B Salt bridges: B:R.98 SO4.10: 5 residues within 4Å: Chain B: L.271, S.274, V.275, K.278, E.298 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:S.274, B:S.274, B:V.275 Salt bridges: B:K.278

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Hoang, C. et al., Cocrystal structure of a tRNA Psi55 pseudouridine synthase: nucleotide flipping by an RNA-modifying enzyme. Cell(Cambridge,Mass.) (2001)

Release Date

2001-12-31

Peptides

tRNA Pseudouridine Synthase B: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

B
A

tRNA Pseudouridine Synthase B