SMTL ID : 4q85.3 (3 other biounits)

YcaO with Non-hydrolyzable ATP (AMPCPP) Bound

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 3.29 Å

Oligo State

homo-dimer

Ligands

1 x APC: DIPHOSPHOMETHYLPHOSPHONIC ACID ADENOSYL ESTER(Non-covalent)

APC.1: 24 residues within 4Å: Chain A: K.9, L.13, S.16, F.20, K.61, A.67, A.70, S.71, G.74, E.75, E.78, R.79, S.184, A.185, G.186, N.187, E.191, Q.195, E.199, R.203, R.286, E.290 Ligands: MG.3, MG.4 16 PLIP interactions: 16 interactions with chain A Hydrogen bonds: A:K.9, A:S.16, A:E.75, A:E.78, A:R.79, A:A.185, A:N.187, A:Q.195, A:R.286, A:E.290 Water bridges: A:E.290, A:E.290 Salt bridges: A:K.61, A:R.203 pi-Cation interactions: A:K.9, A:K.9

3 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 6 residues within 4Å: Chain A: S.215, L.216, Y.247, L.334, F.335, K.336 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:S.215, A:L.216, A:L.334, A:K.336 MG.3: 6 residues within 4Å: Chain A: E.75, E.78, R.79, M.183, E.199 Ligands: APC.1 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:E.199, A:E.199 MG.4: 6 residues within 4Å: Chain A: K.61, E.202, R.203, R.286, E.290 Ligands: APC.1 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:E.290, A:E.290

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Dunbar, K.L. et al., Discovery of a new ATP-binding motif involved in peptidic azoline biosynthesis. Nat.Chem.Biol. (2014)

Release Date

2014-08-13

Peptides

Ribosomal protein S12 methylthiotransferase accessory factor YcaO: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
E

B
F

Ribosomal protein S12 methylthiotransferase accessory factor YcaO

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