SMTL ID : 1i74.1

STREPTOCOCCUS MUTANS INORGANIC PYROPHOSPHATASE

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

homo-dimer

Ligands

4 x MN: MANGANESE (II) ION(Non-covalent)

MN.1: 5 residues within 4Å: Chain A: H.8, D.12, D.75 Ligands: MN.2, SO4.5 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.8, A:D.12, A:D.12, A:D.75, H2O.1 MN.2: 7 residues within 4Å: Chain A: D.14, D.75, H.97, H.98, D.149 Ligands: MN.1, SO4.5 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.14, A:D.75, A:H.97, A:D.149, H2O.1 MN.6: 5 residues within 4Å: Chain B: H.8, D.12, D.75 Ligands: MN.7, SO4.10 5 PLIP interactions: 4 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:H.8, B:D.12, B:D.12, B:D.75, H2O.364 MN.7: 7 residues within 4Å: Chain B: D.14, D.75, H.97, H.98, D.149 Ligands: MN.6, SO4.10 5 PLIP interactions: 4 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:D.14, B:D.75, B:H.97, B:D.149, H2O.364

2 x MG: MAGNESIUM ION(Non-covalent)

MG.3: 3 residues within 4Å: Chain A: D.12 Ligands: SO4.4, SO4.5 No protein-ligand interaction detected (PLIP) MG.8: 2 residues within 4Å: Chain B: D.149 Ligands: SO4.10 No protein-ligand interaction detected (PLIP)

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

SO4.4: 5 residues within 4Å: Chain A: K.205, R.295, K.296 Ligands: MG.3, SO4.5 10 PLIP interactions: 10 interactions with chain A Hydrogen bonds: A:R.295, A:K.296 Water bridges: A:H.98, A:D.203, A:K.205, A:Q.218, A:Q.218, A:Q.218 Salt bridges: A:K.205, A:R.295 SO4.5: 11 residues within 4Å: Chain A: H.8, D.12, D.75, H.97, H.98, D.149, K.205 Ligands: MN.1, MN.2, MG.3, SO4.4 9 PLIP interactions: 9 interactions with chain A Water bridges: A:K.205, A:K.205, A:K.205, A:R.295, A:R.295 Salt bridges: A:H.8, A:H.97, A:H.98, A:K.205 SO4.9: 5 residues within 4Å: Chain B: K.205, S.294, R.295, K.296 Ligands: SO4.10 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:R.295, B:K.296 Salt bridges: B:R.295, B:K.296 SO4.10: 10 residues within 4Å: Chain B: H.8, D.12, D.75, H.97, H.98, D.149 Ligands: MN.6, MN.7, MG.8, SO4.9 2 PLIP interactions: 2 interactions with chain B Salt bridges: B:H.97, B:H.98

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Merckel, M.C. et al., Crystal structure of Streptococcus mutans pyrophosphatase: a new fold for an old mechanism. Structure (2001)

Release Date

2001-06-06

Peptides

PROBABLE MANGANESE-DEPENDENT INORGANIC PYROPHOSPHATASE: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

PROBABLE MANGANESE-DEPENDENT INORGANIC PYROPHOSPHATASE