SMTL ID : 1nj5.1

Crystal structure of Prolyl-tRNA Synthetase from Methanothermobacter thermautotrophicus bound to proline sulfamoyl adenylate

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.80 Å

Oligo State

homo-dimer

Ligands

2 x ZN: ZINC ION(Non-covalent)

ZN.1: 5 residues within 4Å: Chain A: W.455, C.456, C.461, C.484, C.487 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.456, A:C.461, A:C.484, A:C.487 ZN.4: 5 residues within 4Å: Chain B: W.455, C.456, C.461, C.484, C.487 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:C.456, B:C.461, B:C.484, B:C.487

2 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 3 residues within 4Å: Chain A: D.230, E.466, D.472 3 PLIP interactions: 1 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.472, H2O.10, H2O.11 MG.5: 3 residues within 4Å: Chain B: D.230, E.466, D.472 3 PLIP interactions: 1 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:D.472, H2O.38, H2O.39

2 x P5A: '5'-O-(N-(L-PROLYL)-SULFAMOYL)ADENOSINE(Non-covalent)

P5A.3: 22 residues within 4Å: Chain A: T.137, E.139, R.168, E.170, I.178, R.179, V.180, I.183, F.186, E.188, H.190, F.232, Q.252, I.253, G.254, T.255, H.257, C.285, Y.286, G.287, S.289, R.291 17 PLIP interactions: 17 interactions with chain A Hydrophobic interactions: A:E.188 Hydrogen bonds: A:T.137, A:E.139, A:R.168, A:R.168, A:E.170, A:R.179, A:V.180, A:T.255, A:H.257, A:S.289, A:S.289, A:R.291 Salt bridges: A:R.168, A:H.257 pi-Cation interactions: A:R.291, A:R.291 P5A.6: 22 residues within 4Å: Chain B: T.137, E.139, R.168, E.170, I.178, R.179, V.180, I.183, F.186, E.188, H.190, F.232, Q.252, I.253, G.254, T.255, H.257, C.285, Y.286, G.287, S.289, R.291 17 PLIP interactions: 17 interactions with chain B Hydrophobic interactions: B:E.188 Hydrogen bonds: B:E.139, B:R.168, B:R.168, B:E.170, B:R.179, B:V.180, B:T.255, B:T.255, B:H.257, B:S.289, B:S.289, B:R.291 Salt bridges: B:R.168, B:H.257 pi-Cation interactions: B:R.291, B:R.291

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kamtekar, S. et al., The structural basis of cysteine aminoacylation of tRNAPro by prolyl-tRNA synthetases. Proc.Natl.Acad.Sci.USA (2003)

Release Date

2003-03-04

Peptides

Proline-tRNA Synthetase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Proline-tRNA Synthetase

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