SMTL ID : 3pco.1

crystal structure of E. coli phenylalanine-tRNA synthetase complexed with phenylalanine and AMP

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.02 Å

Oligo State

hetero-2-2-mer

Ligands

2 x PHE: PHENYLALANINE(Non-covalent)

PHE.1: 13 residues within 4Å: Chain A: Q.169, S.171, Q.208, E.210, F.248, F.250, T.251, G.271, C.272, A.294, F.295, G.296 Ligands: AMP.2 8 PLIP interactions: 8 interactions with chain A, Hydrophobic interactions: A:F.248, A:T.251 Hydrogen bonds: A:S.171, A:Q.208, A:E.210 Salt bridges: A:H.155 pi-Stacking: A:F.248, A:F.250 PHE.3: 16 residues within 4Å: Chain C: Q.169, S.171, Q.174, R.195, Q.208, E.210, F.248, F.250, T.251, G.271, C.272, G.273, A.294, F.295, G.296 Ligands: AMP.4 11 PLIP interactions: 2 Ligand-Ligand interactions, 9 interactions with chain C Hydrogen bonds: F.3, F.3, C:S.171, C:S.171, C:R.195, C:Q.208 Hydrophobic interactions: C:T.251, C:A.294 Salt bridges: C:R.195 pi-Stacking: C:F.248, C:F.250

2 x AMP: ADENOSINE MONOPHOSPHATE(Non-covalent)

AMP.2: 10 residues within 4Å: Chain A: R.195, T.201, H.202, T.203, F.206, Q.208, E.268, R.301, L.312 Ligands: PHE.1 10 PLIP interactions: 9 interactions with chain A, 1 Ligand-Ligand interactions Hydrogen bonds: A:H.202, A:T.203, A:T.203, A:Q.208, F.1 Salt bridges: A:H.202, A:R.301 pi-Stacking: A:F.206, A:F.206 pi-Cation interactions: A:R.301 AMP.4: 10 residues within 4Å: Chain C: R.195, T.201, H.202, T.203, F.206, Q.208, E.268, R.301, L.312 Ligands: PHE.3 9 PLIP interactions: 1 Ligand-Ligand interactions, 8 interactions with chain C Hydrogen bonds: F.3, C:T.203, C:E.268, C:R.301 Salt bridges: C:H.202, C:R.301 pi-Stacking: C:F.206, C:F.206 pi-Cation interactions: C:R.301

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Mermershtain, I. et al., Idiosyncrasy and identity in the prokaryotic phe-system: crystal structure of E. coli phenylalanyl-tRNA synthetase complexed with phenylalanine and AMP. Protein Sci. (2011)

Release Date

2011-03-02

Peptides

Phenylalanyl-tRNA synthetase, alpha subunit: AC
Phenylalanyl-tRNA synthetase, beta chain: BD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
C

B
B

D
D

Phenylalanyl-tRNA synthetase, alpha subunit

Phenylalanyl-tRNA synthetase, beta chain

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