SMTL ID : 4ffr.1

SeMet-labeled PylC (remote)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

monomer

Ligands

2 x ATP: ADENOSINE-5'-TRIPHOSPHATE(Non-covalent)

ATP.1: 23 residues within 4Å: Chain A: K.104, P.119, F.129, K.131, E.135, S.136, S.137, S.138, E.160, E.161, Y.162, V.163, V.167, I.189, Y.193, E.227, I.229, I.238, E.239, D.241, R.243 Ligands: MG.3, MG.4 18 PLIP interactions: 18 interactions with chain A Hydrogen bonds: A:K.131, A:S.137, A:S.138, A:E.160, A:V.163 Water bridges: A:K.104, A:S.138, A:S.138, A:E.239, A:R.243, A:R.243, A:E.302 Salt bridges: A:K.104, A:K.104, A:K.131, A:R.243 pi-Stacking: A:F.129, A:F.129 ATP.2: 13 residues within 4Å: Chain A: G.8, G.9, K.10, D.31, K.32, F.48, D.49, V.50, I.51, N.71, E.72, N.73, C.76 12 PLIP interactions: 12 interactions with chain A Hydrogen bonds: A:G.9, A:K.32, A:K.32, A:D.49, A:V.50, A:E.72, A:N.73, A:N.73 Water bridges: A:N.33 Salt bridges: A:K.10, A:K.10 pi-Cation interactions: A:K.32

4 x MG: MAGNESIUM ION(Non-covalent)

MG.3: 4 residues within 4Å: Chain A: E.227, E.239 Ligands: ATP.1, MG.4 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:E.227, A:E.239, H2O.2 MG.4: 5 residues within 4Å: Chain A: K.104, E.239, D.241 Ligands: ATP.1, MG.3 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:E.239, A:E.239, A:D.241, H2O.3 MG.5: 6 residues within 4Å: Chain A: S.169, L.170, E.171, K.183, T.185, T.248 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:E.171, A:T.185 MG.6: 4 residues within 4Å: Chain A: S.101, E.239, I.240, D.241 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:S.101, A:E.239, A:I.240, H2O.2, H2O.2

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Quitterer, F. et al., Biosynthesis of the 22nd genetically encoded amino acid pyrrolysine: structure and reaction mechanism of PylC at 1.5A resolution. J.Mol.Biol. (2012)

Release Date

2012-09-19

Peptides

PylC: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

PylC

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