SMTL ID : 5ah5.1 (1 other biounit)

Crystal structure of the ternary complex of Agrobacterium radiobacter K84 agnB2 LeuRS-tRNA-LeuAMS

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.10 Å

Oligo State

monomer

Ligands

1 x ZN: ZINC ION(Non-covalent)

ZN.1: 4 residues within 4Å: Chain A: C.432, C.435, C.473, C.476 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.432, A:C.435, A:C.473, A:C.476

1 x LSS: 5'-O-(L-leucylsulfamoyl)adenosine(Non-covalent)

LSS.2: 22 residues within 4Å: Chain A: M.38, F.39, P.40, Y.41, H.47, G.49, H.50, N.53, Y.54, D.78, S.493, Y.496, Y.523, G.525, G.526, E.528, H.529, H.533, Q.562, G.563, M.564, V.565 14 PLIP interactions: 14 interactions with chain A Hydrophobic interactions: A:M.38, A:F.39, A:Y.496, A:H.533 Hydrogen bonds: A:F.39, A:Y.41, A:D.78, A:G.526, A:Q.562, A:V.565, A:V.565 Water bridges: A:E.528, A:E.528 Salt bridges: A:H.50

3 x SO4: SULFATE ION(Non-functional Binders)

SO4.3: 3 residues within 4Å: Chain A: K.31, R.67, Y.69 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.31 SO4.4: 4 residues within 4Å: Chain A: R.766, T.767, M.768, T.769 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:T.769, A:T.769, A:T.769 Water bridges: A:T.767 Salt bridges: A:R.766 SO4.6: 5 residues within 4Å: Chain A: S.213 Chain B: C.4, G.5, G.77, G.78 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:S.213

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

MN.5: 1 residues within 4Å: Chain B: G.1 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Chopra, S. et al., Structural Characterization of Antibiotic Self-Immunity tRNA Synthetase in Plant Tumour Biocontrol Agent. Nat.Commun. (2016)

Release Date

2016-02-17

Peptides

LEUCINE--TRNA LIGASE: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

LEUCINE--TRNA LIGASE

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