SMTL ID : 7nub.1

Crystal Structure of Neisseria gonorrhoeae LeuRS L550G mutant in Complex with the Reaction Intermediate Leu-AMP

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 3.02 Å

Oligo State

monomer

Ligands

1 x USB: [[(2~{R},3~{S},4~{R},5~{R})-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methoxy-oxidanyl-phosphoryl] (2~{S})-2-azanyl-4-methyl-pentanoate(Non-covalent)

USB.1: 25 residues within 4Å: Chain A: M.41, F.42, P.43, Y.44, H.50, G.52, H.53, N.56, Y.57, D.81, F.508, S.511, Y.514, Y.542, G.544, G.545, E.547, H.548, H.552, Q.581, G.582, M.583, V.584, K.635, M.636 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:F.508 Hydrogen bonds: A:Y.44, A:D.81, A:G.545, A:E.547, A:Q.581, A:V.584, A:V.584, A:M.636 Salt bridges: A:H.53, A:H.548

1 x ZN: ZINC ION(Non-covalent)

ZN.2: 4 residues within 4Å: Chain A: C.450, C.453, C.491, C.494 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.450, A:C.453, A:C.491, A:C.494

1 x MG: MAGNESIUM ION(Non-covalent)

MG.3: 1 residues within 4Å: Chain A: E.211 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Pang, L. et al., Partitioning of the initial catalytic steps of leucyl-tRNA synthetase is driven by an active site peptide-plane flip. Commun Biol (2022)

Release Date

2022-08-31

Peptides

Leucine--tRNA ligase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Leucine--tRNA ligase

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