SMTL ID : 8slf.1

Crystal Structure of Glycine tRNA ligase from Mycobacterium thermoresistibile (AMP bound)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.90 Å

Oligo State

homo-dimer

Ligands

2 x AMP: ADENOSINE MONOPHOSPHATE(Non-covalent)

AMP.1: 17 residues within 4Å: Chain A: R.216, E.218, F.226, R.227, T.228, F.231, Q.233, E.235, E.303, L.304, E.305, G.306, A.345, A.346, G.347, T.349, R.350 14 PLIP interactions: 14 interactions with chain A Hydrogen bonds: A:E.184, A:E.184, A:E.218, A:T.228, A:T.228, A:Q.233, A:E.303, A:L.304, A:G.306 Salt bridges: A:R.216 pi-Stacking: A:F.231, A:F.231 pi-Cation interactions: A:R.350, A:R.350 AMP.3: 17 residues within 4Å: Chain B: R.216, E.218, F.226, R.227, T.228, F.231, Q.233, E.235, E.303, L.304, E.305, G.306, A.345, A.346, G.347, T.349, R.350 12 PLIP interactions: 12 interactions with chain B Hydrogen bonds: B:T.228, B:T.228, B:Q.233, B:E.235, B:E.303, B:L.304, B:G.306 Salt bridges: B:R.216 pi-Stacking: B:F.231, B:F.231 pi-Cation interactions: B:R.350, B:R.350

2 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 4 residues within 4Å: Chain A: V.75, R.78, V.81 Chain B: N.416 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:V.75, A:R.78, A:V.81 MG.5: 4 residues within 4Å: Chain A: N.416 Chain B: V.75, R.78, V.81 3 PLIP interactions: 3 interactions with chain B Metal complexes: B:V.75, B:R.78, B:V.81

1 x ZN: ZINC ION(Non-covalent)

ZN.4: 4 residues within 4Å: Chain B: C.111, C.114, C.146, C.149 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:C.111, B:C.114, B:C.146, B:C.149

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lovell, S. et al., Crystal Structure of Glycine tRNA ligase from Mycobacterium thermoresistibile (AMP bound). To be published

Release Date

2023-05-03

Peptides

Glycine--tRNA ligase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Glycine--tRNA ligase

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