SMTL ID : 3fhj.2 (2 other biounits)

Independent saturation of three TrpRS subsites generates a partially-assembled state similar to those observed in molecular simulations

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.65 Å

Oligo State

homo-dimer

Ligands

2 x TRP: TRYPTOPHAN(Non-covalent)

TRP.1: 11 residues within 4Å: Chain A: F.5, G.7, V.40, H.43, M.129, D.132, I.133, V.141, V.143, Q.147 Ligands: AMP.3 11 PLIP interactions: 9 interactions with chain A, 2 Ligand-Ligand interactions Hydrophobic interactions: A:F.5, A:F.5, A:I.133, A:V.141, A:V.143 Hydrogen bonds: A:D.132, A:D.132, A:Q.147, A:Q.147, W.1, W.1 TRP.4: 12 residues within 4Å: Chain B: F.5, G.7, Q.9, V.40, H.43, M.129, D.132, I.133, V.141, V.143, Q.147 Ligands: AMP.6 11 PLIP interactions: 9 interactions with chain B, 2 Ligand-Ligand interactions Hydrophobic interactions: B:F.5, B:F.5, B:D.132, B:I.133, B:V.141, B:V.143 Hydrogen bonds: B:D.132, B:Q.147, B:Q.147, W.4, W.4

2 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.2: 6 residues within 4Å: Chain A: N.18, K.192, M.193, S.194, K.195 Ligands: AMP.3 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:N.18, A:S.194, A:K.195, A:S.196 Salt bridges: A:K.192, A:K.195 PO4.5: 6 residues within 4Å: Chain B: T.15, M.193, S.194, K.195, S.196 Ligands: AMP.6 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:T.15, B:K.195, B:S.196 Salt bridges: B:K.195

2 x AMP: ADENOSINE MONOPHOSPHATE(Non-covalent)

AMP.3: 10 residues within 4Å: Chain A: G.17, N.18, P.142, I.176, A.181, I.183, K.192, M.193 Ligands: TRP.1, PO4.2 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:P.142, A:I.183, A:I.183, A:M.193 pi-Cation interactions: A:K.192 AMP.6: 10 residues within 4Å: Chain B: Q.9, G.17, N.18, G.144, D.146, I.183, K.192, M.193 Ligands: TRP.4, PO4.5 8 PLIP interactions: 7 interactions with chain B, 1 Ligand-Ligand interactions Hydrogen bonds: B:G.144, B:I.183, B:K.192, B:M.193, W.4 Salt bridges: B:K.195 pi-Cation interactions: B:K.192, B:K.192

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Laowanapiban, P. et al., Independent saturation of three TrpRS subsites generates a partially assembled state similar to those observed in molecular simulations. Proc.Natl.Acad.Sci.Usa (2009)

Release Date

2009-02-03

Peptides

Tryptophanyl-tRNA synthetase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
D

B
C

Tryptophanyl-tRNA synthetase

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