SMTL ID : 2gqs.1

SAICAR Synthetase Complexed with CAIR-Mg2+ and ADP

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.05 Å

Oligo State

homo-dimer

Ligands

6 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 3 residues within 4Å: Chain A: K.13 Ligands: ADP.4, FMT.6 No protein-ligand interaction detected (PLIP) MG.2: 5 residues within 4Å: Chain A: D.36, E.90, D.129 Ligands: MG.3, C2R.5 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:E.90, A:D.129, H2O.1, H2O.1 MG.3: 6 residues within 4Å: Chain A: K.11, E.90, D.129 Ligands: MG.2, C2R.5, FMT.6 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:E.90, A:D.129, H2O.1, H2O.1 MG.7: 4 residues within 4Å: Chain B: K.13, D.191 Ligands: ADP.10, FMT.12 No protein-ligand interaction detected (PLIP) MG.8: 5 residues within 4Å: Chain B: D.36, E.90, D.129 Ligands: MG.9, C2R.11 4 PLIP interactions: 2 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:E.90, B:D.129, H2O.5, H2O.5 MG.9: 6 residues within 4Å: Chain B: E.90, D.125, D.129 Ligands: MG.8, C2R.11, FMT.12 4 PLIP interactions: 2 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:E.90, B:D.129, H2O.5, H2O.5

2 x ADP: ADENOSINE-5'-DIPHOSPHATE(Non-covalent)

ADP.4: 18 residues within 4Å: Chain A: Y.8, G.10, K.11, A.12, K.13, V.15, L.24, Q.69, V.81, K.82, K.83, L.84, M.86, K.123, E.179, D.191 Ligands: MG.1, FMT.6 20 PLIP interactions: 20 interactions with chain A Hydrogen bonds: A:Y.8, A:G.10, A:K.11, A:A.12, A:K.13, A:Q.69, A:L.84, A:E.179, A:D.191 Water bridges: A:K.11, A:K.123, A:K.123, A:K.123, A:K.177, A:E.179, A:D.191, A:E.192 Salt bridges: A:K.11, A:K.13, A:K.123 ADP.10: 18 residues within 4Å: Chain B: Y.8, G.10, K.11, A.12, K.13, V.15, L.24, Q.69, V.81, K.82, K.83, L.84, M.86, K.123, E.179, D.191 Ligands: MG.7, FMT.12 12 PLIP interactions: 12 interactions with chain B Hydrogen bonds: B:K.11, B:A.12, B:K.13, B:Q.69, B:L.84, B:E.179, B:D.191 Water bridges: B:K.177, B:K.177 Salt bridges: B:K.11, B:K.13, B:K.123

2 x C2R: 5-AMINO-1-(5-O-PHOSPHONO-BETA-D-RIBOFURANOSYL)-1H-IMIDAZOLE-4-CARBOXYLIC ACID(Non-covalent)

C2R.5: 20 residues within 4Å: Chain A: D.36, E.90, V.92, R.94, A.98, G.99, S.100, F.121, D.129, D.175, F.176, K.177, D.196, G.197, S.198, R.199, R.215 Ligands: MG.2, MG.3, FMT.6 14 PLIP interactions: 14 interactions with chain A Hydrogen bonds: A:D.36, A:S.100, A:S.100, A:S.100, A:D.196, A:S.198, A:R.215, A:R.215 Water bridges: A:K.211, A:K.211 Salt bridges: A:K.11, A:R.94, A:K.177, A:R.199 C2R.11: 20 residues within 4Å: Chain B: D.36, E.90, V.92, R.94, A.98, G.99, S.100, F.121, D.129, D.175, F.176, K.177, D.196, G.197, S.198, R.199, R.215 Ligands: MG.8, MG.9, FMT.12 20 PLIP interactions: 20 interactions with chain B Hydrogen bonds: B:S.100, B:S.100, B:S.100, B:D.196, B:S.198, B:R.215 Water bridges: B:S.100, B:S.100, B:D.196, B:D.196, B:R.199, B:R.199, B:K.211, B:K.211, B:K.211, B:R.215 Salt bridges: B:K.11, B:R.94, B:K.177, B:R.199

2 x FMT: FORMIC ACID(Non-functional Binders)

FMT.6: 9 residues within 4Å: Chain A: K.11, E.90, K.123, K.177, E.179 Ligands: MG.1, MG.3, ADP.4, C2R.5 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:K.11, A:E.90, A:K.123, A:K.177 FMT.12: 9 residues within 4Å: Chain B: K.11, E.90, K.123, K.177, E.179 Ligands: MG.7, MG.9, ADP.10, C2R.11 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:K.11, B:K.123, B:K.177, B:E.179

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ginder, N.D. et al., Nucleotide Complexes of Escherichia coli Phosphoribosylaminoimidazole Succinocarboxamide Synthetase. J.Biol.Chem. (2006)

Release Date

2006-05-16

Peptides

Phosphoribosylaminoimidazole-succinocarboxamide synthase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Phosphoribosylaminoimidazole-succinocarboxamide synthase

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