SMTL ID : 4odj.1

Crystal structure of a putative S-adenosylmethionine synthetase from Cryptosporidium hominis in complex with S-adenosyl-methionine

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.60 Å

Oligo State

homo-dimer

Ligands

2 x SAM: S-ADENOSYLMETHIONINE(Non-covalent)

SAM.1: 19 residues within 4Å: Chain A: H.42, P.43, D.195, K.197, S.263, R.265, F.266, I.268, D.274 Chain B: A.68, E.83, Q.126, Q.129, I.130, G.146, D.147, K.305, I.338 Ligands: 3PO.2 18 PLIP interactions: 11 interactions with chain A, 7 interactions with chain B Hydrogen bonds: A:D.195, A:S.263, A:R.265, A:D.274, A:D.274, A:D.274, B:Q.126 Water bridges: A:S.263, A:A.275, B:D.147, B:K.305, B:K.305, B:K.305 Salt bridges: A:D.274, B:D.147, B:K.305 pi-Stacking: A:F.266, A:F.266 SAM.5: 19 residues within 4Å: Chain A: A.68, E.83, Q.126, Q.129, I.130, G.146, D.147, K.305, I.338 Chain B: H.42, P.43, D.195, K.197, S.263, R.265, F.266, I.268, D.274 Ligands: 3PO.6 18 PLIP interactions: 7 interactions with chain A, 11 interactions with chain B Hydrogen bonds: A:E.83, A:Q.126, B:D.195, B:S.263, B:R.265, B:D.274, B:D.274, B:D.274 Water bridges: A:K.305, A:K.305, A:K.305, B:S.263, B:A.275 Salt bridges: A:D.147, A:K.305, B:D.274 pi-Stacking: B:F.266, B:F.266

2 x 3PO: TRIPHOSPHATE(Non-covalent)

3PO.2: 14 residues within 4Å: Chain A: H.42, D.44, K.197, D.274, R.280, K.281 Chain B: D.147, G.296, A.297, K.301, D.307 Ligands: SAM.1, MG.3, MG.4 17 PLIP interactions: 7 interactions with chain B, 10 interactions with chain A Hydrogen bonds: B:A.297, A:D.274, A:R.280 Water bridges: B:E.70, B:G.295, B:K.301, B:K.301, A:K.197, A:R.280 Salt bridges: B:K.301, B:K.301, A:H.42, A:K.197, A:R.280, A:K.281, A:K.281, A:K.281 3PO.6: 14 residues within 4Å: Chain A: D.147, G.296, A.297, K.301, D.307 Chain B: H.42, D.44, K.197, D.274, R.280, K.281 Ligands: SAM.5, MG.7, MG.8 20 PLIP interactions: 10 interactions with chain A, 10 interactions with chain B Hydrogen bonds: A:A.297, B:D.274, B:R.280 Water bridges: A:D.147, A:D.147, A:D.147, A:D.147, A:D.147, A:G.295, A:K.301, B:K.197, B:R.280 Salt bridges: A:K.301, A:K.301, B:H.42, B:K.197, B:R.280, B:K.281, B:K.281, B:K.281

4 x MG: MAGNESIUM ION(Non-covalent)

MG.3: 3 residues within 4Å: Chain A: D.44, K.281 Ligands: 3PO.2 3 PLIP interactions: 1 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.44, H2O.6, H2O.10 MG.4: 4 residues within 4Å: Chain A: E.36, K.281 Chain B: D.307 Ligands: 3PO.2 No protein-ligand interaction detected (PLIP) MG.7: 3 residues within 4Å: Chain B: D.44, K.281 Ligands: 3PO.6 3 PLIP interactions: 1 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:D.44, H2O.17, H2O.21 MG.8: 4 residues within 4Å: Chain A: D.307 Chain B: E.36, K.281 Ligands: 3PO.6 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Seattle Structural Genomics Center for Infectious Disease (SSGCID) et al., Crystal structure of a putative S-adenosylmethionine synthetase from Cryptosporidium hominis in complex with S-adenosyl-methionine. To be Published

Release Date

2014-03-05

Peptides

S-adenosylmethionine synthase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

S-adenosylmethionine synthase