SMTL ID : 2yw2.3 (2 other biounits)

Crystal structure of GAR synthetase from Aquifex aeolicus in complex with ATP

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

homo-dimer

Ligands

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

PO4.1: 5 residues within 4Å: Chain A: R.11, E.71, R.287, D.290, R.378 10 PLIP interactions: 10 interactions with chain A Water bridges: A:R.11, A:R.11, A:R.11, A:R.287, A:D.290, A:D.290, A:D.290 Salt bridges: A:R.11, A:R.287, A:R.378 PO4.3: 5 residues within 4Å: Chain B: R.11, E.71, R.287, D.290, R.378 13 PLIP interactions: 13 interactions with chain B Hydrogen bonds: B:E.71 Water bridges: B:R.11, B:R.11, B:G.226, B:R.287, B:R.287, B:R.287, B:D.290, B:R.378, B:R.378 Salt bridges: B:R.11, B:R.287, B:R.378

2 x ATP: ADENOSINE-5'-TRIPHOSPHATE(Non-covalent)

ATP.2: 19 residues within 4Å: Chain A: K.103, A.118, V.141, K.143, A.148, G.150, K.151, G.152, A.153, E.185, E.186, F.187, L.188, E.192, K.214, N.224, M.273, L.282, E.283 24 PLIP interactions: 24 interactions with chain A Hydrogen bonds: A:K.143, A:A.148, A:G.150, A:G.150, A:K.151, A:G.152, A:A.153, A:E.185, A:L.188, A:E.192, A:N.224, A:E.283 Water bridges: A:K.103, A:E.192, A:E.192, A:K.214, A:E.283, A:N.285, A:N.285, A:R.287, A:R.287 Salt bridges: A:K.103, A:K.103, A:K.214 ATP.4: 19 residues within 4Å: Chain B: K.103, A.118, V.141, K.143, A.148, G.150, K.151, G.152, A.153, E.185, E.186, F.187, L.188, E.192, K.214, N.224, M.273, L.282, E.283 27 PLIP interactions: 27 interactions with chain B Hydrogen bonds: B:K.143, B:A.148, B:G.150, B:G.150, B:G.152, B:A.153, B:E.185, B:E.185, B:L.188, B:E.192, B:N.224, B:E.283 Water bridges: B:E.100, B:K.103, B:E.192, B:E.192, B:K.214, B:K.214, B:K.214, B:R.215, B:E.283, B:N.285, B:N.285, B:R.287 Salt bridges: B:K.103, B:K.103, B:K.214

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Sampei, G. et al., Crystal structures of glycinamide ribonucleotide synthetase, PurD, from thermophilic eubacteria. J.Biochem. (2010)

Release Date

2007-10-23

Peptides

Phosphoribosylamine--glycine ligase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Phosphoribosylamine--glycine ligase

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