SMTL ID : 4yco.1 (2 other biounits)

E. coli dihydrouridine synthase C (DusC) in complex with tRNAPhe

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.10 Å

Oligo State

monomer

Ligands

1 x FMN: FLAVIN MONONUCLEOTIDE(Non-covalent)

FMN.1: 20 residues within 4Å: Chain A: A.12, P.13, M.14, E.15, V.17, F.39, Q.74, N.101, K.145, H.174, R.176, Y.182, N.206, G.207, E.208, I.229, G.230, R.231 Chain B: U.16, C.17 22 PLIP interactions: 22 interactions with chain A Hydrophobic interactions: A:M.14, A:V.17, A:R.231 Hydrogen bonds: A:P.13, A:E.15, A:F.39, A:Q.74, A:Q.74, A:N.101, A:K.145, A:K.145, A:R.176, A:N.206, A:E.208, A:G.230, A:R.231 Water bridges: A:H.174, A:G.207, A:I.209, A:I.209, A:G.232 Salt bridges: A:R.231

1 x MN: MANGANESE (II) ION(Non-functional Binders)

MN.2: 1 residues within 4Å: Chain B: G.15 No protein-ligand interaction detected (PLIP)

8 x MG: MAGNESIUM ION(Non-functional Binders)

MG.3: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) MG.4: 2 residues within 4Å: Chain B: U.51, G.52 No protein-ligand interaction detected (PLIP) MG.5: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) MG.6: 1 residues within 4Å: Chain B: G.27 No protein-ligand interaction detected (PLIP) MG.7: 1 residues within 4Å: Chain B: G.18 No protein-ligand interaction detected (PLIP) MG.8: 2 residues within 4Å: Chain B: C.17, G.19 No protein-ligand interaction detected (PLIP) MG.9: 1 residues within 4Å: Chain B: C.61 No protein-ligand interaction detected (PLIP) MG.10: 2 residues within 4Å: Chain B: U.45, G.46 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Byrne, R.T. et al., Major reorientation of tRNA substrates defines specificity of dihydrouridine synthases. Proc.Natl.Acad.Sci.USA (2015)

Release Date

2015-04-22

Peptides

tRNA-dihydrouridine synthase C: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

tRNA-dihydrouridine synthase C

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