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

Crystal structure of SAICAR synthetase from Geobacillus kaustophilus

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.75 Å

Oligo State

homo-dimer

Ligands

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

SO4.1: 6 residues within 4Å: Chain A: R.97, A.101, G.102, S.103, R.203, R.219 10 PLIP interactions: 10 interactions with chain A Hydrogen bonds: A:S.103, A:S.103, A:S.103 Water bridges: A:R.97, A:R.203, A:R.219, A:R.219 Salt bridges: A:R.97, A:R.203, A:R.219 SO4.2: 6 residues within 4Å: Chain A: T.36, A.37, F.38, N.39, K.215, R.219 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:T.36, A:F.38, A:N.39 Water bridges: A:G.40, A:G.40, A:R.219 Salt bridges: A:K.215, A:R.219 SO4.3: 3 residues within 4Å: Chain A: V.99, R.166, R.175 3 PLIP interactions: 3 interactions with chain A Water bridges: A:L.176 Salt bridges: A:R.166, A:R.175 SO4.4: 4 residues within 4Å: Chain A: R.107 Chain B: R.107, P.133, L.134 6 PLIP interactions: 3 interactions with chain B, 3 interactions with chain A Hydrogen bonds: B:L.134 Water bridges: B:R.107, A:R.107, A:L.134 Salt bridges: B:R.107, A:R.107 SO4.7: 6 residues within 4Å: Chain B: R.97, A.101, G.102, S.103, R.203, R.219 11 PLIP interactions: 11 interactions with chain B Hydrogen bonds: B:S.103 Water bridges: B:R.97, B:S.103, B:D.178, B:R.203, B:R.203, B:R.219, B:R.219 Salt bridges: B:R.97, B:R.203, B:R.219 SO4.8: 6 residues within 4Å: Chain B: T.36, A.37, F.38, N.39, K.215, R.219 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:F.38, B:N.39 Salt bridges: B:K.215, B:R.219 SO4.9: 3 residues within 4Å: Chain B: V.99, R.166, R.175 5 PLIP interactions: 5 interactions with chain B Water bridges: B:R.175, B:L.176, B:L.176 Salt bridges: B:R.166, B:R.175

2 x MG: MAGNESIUM ION(Non-functional Binders)(Non-covalent)

MG.5: 1 residues within 4Å: Ligands: ADP.6 No protein-ligand interaction detected (PLIP) MG.10: 3 residues within 4Å: Chain B: K.126, D.195 Ligands: ADP.11 No protein-ligand interaction detected (PLIP)

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

ADP.6: 18 residues within 4Å: Chain A: Y.11, G.13, K.14, A.15, K.16, I.18, L.27, H.72, V.84, R.85, R.86, V.87, I.89, K.126, E.182, A.194, D.195 Ligands: MG.5 25 PLIP interactions: 25 interactions with chain A Hydrogen bonds: A:Y.11, A:G.13, A:G.13, A:K.14, A:A.15, A:K.16, A:H.72, A:V.87, A:E.182, A:D.195 Water bridges: A:K.14, A:K.14, A:K.14, A:K.14, A:K.16, A:I.89, A:K.126, A:K.126, A:K.126, A:D.128, A:D.128 Salt bridges: A:K.14, A:K.14, A:K.16, A:K.126 ADP.11: 18 residues within 4Å: Chain B: Y.11, G.13, K.14, A.15, K.16, I.18, L.27, H.72, V.84, R.85, R.86, V.87, I.89, K.126, E.182, A.194, D.195 Ligands: MG.10 23 PLIP interactions: 23 interactions with chain B Hydrogen bonds: B:Y.11, B:Y.11, B:G.13, B:K.14, B:A.15, B:K.16, B:H.72, B:V.87, B:E.182, B:D.195 Water bridges: B:K.14, B:K.14, B:I.89, B:K.126, B:K.126, B:K.126, B:D.128, B:D.128, B:E.196 Salt bridges: B:K.14, B:K.14, B:K.16, B:K.126

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kanagawa, M. et al., Crystal structure of SAICAR synthetase from Geobacillus kaustophilus. To be Published

Release Date

2007-10-23

Peptides

Phosphoribosylaminoimidazole succinocarboxamide synthetase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
A

Phosphoribosylaminoimidazole succinocarboxamide synthetase

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