SMTL ID : 1h4s.1

Prolyl-tRNA synthetase from Thermus thermophilus complexed with tRNApro(CGG) and a prolyl-adenylate analogue

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.85 Å

Oligo State

homo-dimer

Ligands

2 x ZN: ZINC ION(Non-covalent)

ZN.1: 5 residues within 4Å: Chain A: H.426, C.427, C.432, C.458, C.461 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.427, A:C.432, A:C.458, A:C.461 ZN.5: 4 residues within 4Å: Chain B: C.427, C.432, C.458, C.461 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:C.427, B:C.432, B:C.458, B:C.461

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

P5A.2: 23 residues within 4Å: Chain A: T.111, E.113, R.142, E.144, F.150, L.151, R.152, T.153, F.156, W.158, E.160, H.162, F.205, Q.225, A.226, G.227, T.228, H.230, S.258, W.259, G.260, S.262, R.264 18 PLIP interactions: 18 interactions with chain A Hydrogen bonds: A:T.111, A:E.113, A:R.142, A:R.142, A:E.144, A:T.153, A:Q.225, A:T.228, A:H.230, A:S.258, A:G.260, A:S.262, A:S.262, A:R.264 Salt bridges: A:R.142, A:H.230 pi-Stacking: A:F.156, A:F.156 P5A.6: 23 residues within 4Å: Chain B: T.111, E.113, R.142, E.144, F.150, L.151, R.152, T.153, F.156, W.158, E.160, H.162, F.205, Q.225, A.226, G.227, T.228, H.230, S.258, W.259, G.260, S.262, R.264 18 PLIP interactions: 18 interactions with chain B Hydrophobic interactions: B:E.160 Hydrogen bonds: B:T.111, B:E.113, B:R.142, B:R.142, B:E.144, B:T.153, B:Q.225, B:T.228, B:T.228, B:H.230, B:S.258, B:G.260, B:S.262, B:S.262, B:R.264 pi-Stacking: B:F.156, B:F.156

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

SO4.3: 6 residues within 4Å: Chain A: R.152, K.199, Q.225, R.264, R.445, Y.477 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:R.152, A:Q.225, A:Q.225 Salt bridges: A:K.199, A:R.264, A:R.445 SO4.4: 4 residues within 4Å: Chain A: R.312, V.322, H.323, L.324 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:L.324 Salt bridges: A:R.312, A:H.323 SO4.7: 6 residues within 4Å: Chain B: R.152, K.199, Q.225, R.264, R.445, Y.477 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:R.152, B:Q.225, B:Q.225 Salt bridges: B:K.199, B:R.264, B:R.445 SO4.8: 4 residues within 4Å: Chain B: R.312, V.322, H.323, L.324 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:V.322, B:L.324 Salt bridges: B:R.312, B:H.323

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Yaremchuk, A. et al., A Succession of Substrate Induced Conformational Changes Ensures the Amino Acid Specificity of Thermus Thermophilus Prolyl-tRNA Synthetase: Comparison with Histidyl-tRNA Synthetase. J.Mol.Biol. (2001)

Release Date

2001-06-18

Peptides

PROLYL-TRNA SYNTHETASE: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

PROLYL-TRNA SYNTHETASE

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