SMTL ID : 3jyy.1

SeMet LinB complexed with PPi

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.10 Å

Oligo State

homo-dimer

Ligands

5 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 5 residues within 4Å: Chain A: S.49, D.60, E.62 Ligands: MG.3, PPV.4 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.60, A:E.62, H2O.1, H2O.2 MG.2: 1 residues within 4Å: Chain A: D.83 5 PLIP interactions: 1 interactions with chain A, 4 Ligand-Water interactions Metal complexes: A:D.83, H2O.3, H2O.7, H2O.7, H2O.7 MG.3: 4 residues within 4Å: Chain A: D.60, E.62, E.109 Ligands: MG.1 6 PLIP interactions: 3 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:D.60, A:E.62, A:E.109, H2O.1, H2O.3, H2O.6 MG.5: 4 residues within 4Å: Chain B: D.60, E.62 Ligands: MG.6, PPV.7 4 PLIP interactions: 2 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:D.60, B:E.62, H2O.10, H2O.10 MG.6: 4 residues within 4Å: Chain B: D.60, E.62, E.109 Ligands: MG.5 6 PLIP interactions: 3 interactions with chain B, 3 Ligand-Water interactions Metal complexes: B:D.60, B:E.62, B:E.109, H2O.10, H2O.10, H2O.14

2 x PPV: PYROPHOSPHATE(Non-covalent)

PPV.4: 9 residues within 4Å: Chain A: G.48, S.49, S.59, D.60, E.62, K.221 Chain B: R.185, R.190 Ligands: MG.1 15 PLIP interactions: 5 interactions with chain B, 10 interactions with chain A Water bridges: B:R.190, B:R.190, A:S.49, A:E.62, A:E.62, A:E.62, A:K.221 Salt bridges: B:R.185, B:R.190, B:R.190, A:K.221, A:K.221 Hydrogen bonds: A:S.49, A:S.49, A:D.60 PPV.7: 9 residues within 4Å: Chain A: R.185, R.190 Chain B: G.48, S.49, S.59, D.60, E.62, K.221 Ligands: MG.5 14 PLIP interactions: 10 interactions with chain B, 4 interactions with chain A Hydrogen bonds: B:S.49, B:S.49, B:S.59, B:D.60 Water bridges: B:E.62, B:E.62, B:K.221, A:R.190 Salt bridges: B:K.52, B:K.221, B:K.221, A:R.185, A:R.190, A:R.190

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Morar, M. et al., Structure and mechanism of the lincosamide antibiotic adenylyltransferase LinB. Structure (2009)

Release Date

2009-11-03

Peptides

Lincosamide nucleotidyltransferase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Lincosamide nucleotidyltransferase

Related Entries With Identical Sequence