SMTL ID : 3nua.1

Crystal Structure of Phosphoribosylaminoimidazole-Succinocarboxamide Synthase from Clostridium perfringens

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.40 Å

Oligo State

homo-dimer

Ligands

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

ADP.1: 16 residues within 4Å: Chain A: Y.12, G.14, K.15, A.16, K.17, I.19, H.73, K.86, K.87, V.88, I.90, K.127, E.183, A.194, D.195 Ligands: GOL.4 25 PLIP interactions: 25 interactions with chain A Hydrogen bonds: A:Y.12, A:K.15, A:A.16, A:K.17, A:H.73, A:V.88, A:E.183, A:D.195 Water bridges: A:Y.12, A:K.15, A:K.15, A:K.15, A:K.17, A:E.94, A:K.127, A:K.127, A:K.127, A:D.129, A:K.181, A:K.181, A:E.196 Salt bridges: A:K.15, A:K.15, A:K.17, A:K.127 ADP.5: 15 residues within 4Å: Chain B: Y.12, G.14, K.15, A.16, K.17, I.19, H.73, K.86, K.87, V.88, I.90, K.127, E.183, A.194, D.195 16 PLIP interactions: 16 interactions with chain B Hydrogen bonds: B:K.15, B:A.16, B:K.17, B:K.86, B:V.88, B:K.127, B:E.183, B:D.195 Water bridges: B:K.15, B:K.17, B:K.181, B:K.181, B:E.196 Salt bridges: B:K.15, B:K.17, B:K.127 ADP.6: 14 residues within 4Å: Chain B: E.94, R.98, A.102, G.103, S.104, D.133, D.179, K.181, D.200, T.201, C.202, R.203, R.219 Ligands: CIT.7 19 PLIP interactions: 19 interactions with chain B Hydrogen bonds: B:S.104, B:S.104, B:D.133, B:D.179, B:R.219, B:R.219 Water bridges: B:K.15, B:R.98, B:R.98, B:R.98, B:R.98, B:K.181, B:K.181, B:C.202, B:C.202 Salt bridges: B:R.98, B:R.203, B:R.203, B:R.219

1 x AMP: ADENOSINE MONOPHOSPHATE(Non-covalent)

AMP.2: 15 residues within 4Å: Chain A: E.94, I.96, R.98, G.103, S.104, D.133, D.179, F.180, K.181, D.200, T.201, C.202, R.203, R.219 Ligands: CIT.3 18 PLIP interactions: 18 interactions with chain A Hydrogen bonds: A:S.104, A:S.104, A:S.104, A:D.133, A:D.179, A:K.181, A:R.219, A:R.219 Water bridges: A:K.15, A:K.15, A:S.104, A:S.104, A:C.202, A:C.202, A:R.203 Salt bridges: A:R.98, A:R.203 pi-Cation interactions: A:K.181

2 x CIT: CITRIC ACID(Non-functional Binders)

CIT.3: 7 residues within 4Å: Chain A: K.15, T.37, A.38, F.39, K.215, R.219 Ligands: AMP.2 13 PLIP interactions: 13 interactions with chain A Hydrogen bonds: A:T.37, A:F.39, A:K.215, A:R.219 Water bridges: A:T.37, A:N.40, A:S.104, A:K.215 Salt bridges: A:K.15, A:K.215, A:K.215, A:R.219, A:R.219 CIT.7: 7 residues within 4Å: Chain B: K.15, T.37, A.38, F.39, K.215, R.219 Ligands: ADP.6 11 PLIP interactions: 11 interactions with chain B Hydrogen bonds: B:F.39, B:N.40, B:K.215, B:R.219 Water bridges: B:T.37, B:K.215 Salt bridges: B:K.15, B:K.215, B:K.215, B:R.219, B:R.219

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.4: 3 residues within 4Å: Chain A: Y.12, I.90 Ligands: ADP.1 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Y.12

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kim, Y. et al., Crystal Structure of Phosphoribosylaminoimidazole-Succinocarboxamide Synthase from Clostridium perfringens. To be Published

Release Date

2010-08-25

Peptides

Phosphoribosylaminoimidazole-succinocarboxamide synthase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Phosphoribosylaminoimidazole-succinocarboxamide synthase