SMTL ID : 7pvo.1

Adenylosuccinate Synthetase from H. pylori in complex with IMP

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

homo-dimer

Ligands

2 x IMP: INOSINIC ACID(Non-covalent)

IMP.1: 14 residues within 4Å: Chain A: W.10, D.12, N.37, A.38, G.119, T.120, T.121, Q.215, L.219, V.229, T.230, V.264, R.294 Chain B: R.135 22 PLIP interactions: 21 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:D.12, A:D.12, A:N.37, A:G.119, A:T.121, A:Q.215, A:T.230, A:R.294, A:R.294 Water bridges: A:D.12, A:T.121, A:I.125, A:I.125, A:G.126, A:Q.215, A:Q.215, A:T.230, A:S.231, A:R.263, A:N.266, A:R.296 Salt bridges: B:R.135 IMP.4: 14 residues within 4Å: Chain A: R.135 Chain B: W.10, D.12, N.37, A.38, G.119, T.120, T.121, Q.215, L.219, V.229, T.230, V.264, R.294 21 PLIP interactions: 20 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:D.12, B:D.12, B:N.37, B:G.119, B:T.121, B:Q.215, B:R.294, B:R.294 Water bridges: B:T.121, B:I.125, B:I.125, B:G.126, B:Q.215, B:Q.215, B:Q.215, B:T.230, B:S.231, B:R.263, B:N.266, B:R.296 Salt bridges: A:R.135

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

SO4.2: 7 residues within 4Å: Chain A: D.12, E.13, G.14, K.15, G.16, H.40, F.288 14 PLIP interactions: 14 interactions with chain A Hydrogen bonds: A:D.12, A:E.13, A:E.13, A:G.14, A:K.15, A:G.16 Water bridges: A:G.14, A:K.15, A:K.15, A:K.15, A:K.15, A:K.17 Salt bridges: A:K.15, A:H.40 SO4.3: 5 residues within 4Å: Chain A: T.121, T.292, K.293, R.294, R.296 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:K.293, A:R.294 Water bridges: A:R.296, A:R.296 Salt bridges: A:R.294, A:R.296 SO4.5: 7 residues within 4Å: Chain B: D.12, E.13, G.14, K.15, G.16, H.40, F.288 13 PLIP interactions: 13 interactions with chain B Hydrogen bonds: B:D.12, B:E.13, B:G.14, B:K.15, B:G.16 Water bridges: B:G.14, B:K.15, B:K.15, B:K.15, B:K.15, B:K.17 Salt bridges: B:K.15, B:H.40 SO4.6: 5 residues within 4Å: Chain B: T.121, T.292, K.293, R.294, R.296 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:K.293, B:R.294 Water bridges: B:R.296, B:R.296 Salt bridges: B:R.294, B:R.296

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Bubic, A. et al., The pursuit of new alternative ways to eradicate Helicobacter pylori continues: Detailed characterization of interactions in the adenylosuccinate synthetase active site. Int.J.Biol.Macromol. (2023)

Release Date

2022-11-16

Peptides

Adenylosuccinate synthetase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Adenylosuccinate synthetase