SMTL ID : 4py9.2 (1 other biounit)

Crystal structure of an exopolyphosphatase-related protein from Bacteroides Fragilis. Northeast Structural Genomics target BFR192

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.25 Å

Oligo State

homo-dimer

Ligands

8 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.1: 5 residues within 4Å: Chain A: H.29, R.105, H.126, H.311 Ligands: PO4.2 5 PLIP interactions: 5 interactions with chain A Water bridges: A:H.126 Salt bridges: A:H.29, A:R.105, A:H.126, A:H.311 PO4.2: 5 residues within 4Å: Chain A: H.125, H.126, D.177, H.311 Ligands: PO4.1 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:D.177, A:D.177 Salt bridges: A:H.125, A:H.126, A:H.311 PO4.3: 2 residues within 4Å: Chain A: K.87, E.91 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:E.91, A:E.91 Water bridges: A:K.87 Salt bridges: A:K.87 PO4.4: 6 residues within 4Å: Chain A: Y.183, N.184, N.186 Chain B: D.205, R.209 Ligands: NA.5 5 PLIP interactions: 2 interactions with chain B, 3 interactions with chain A Water bridges: B:R.209, A:T.182 Salt bridges: B:R.209 Hydrogen bonds: A:N.184, A:N.186 PO4.9: 5 residues within 4Å: Chain B: H.29, R.105, H.126, H.311 Ligands: PO4.10 4 PLIP interactions: 4 interactions with chain B Salt bridges: B:H.29, B:R.105, B:H.126, B:H.311 PO4.10: 5 residues within 4Å: Chain B: H.125, H.126, D.177, H.311 Ligands: PO4.9 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:D.177, B:D.177 Salt bridges: B:H.125, B:H.126, B:H.311 PO4.11: 2 residues within 4Å: Chain B: K.87, E.91 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:E.91, B:E.91 Water bridges: B:K.87 Salt bridges: B:K.87 PO4.12: 6 residues within 4Å: Chain A: D.205, R.209 Chain B: Y.183, N.184, N.186 Ligands: NA.13 6 PLIP interactions: 3 interactions with chain B, 3 interactions with chain A Hydrogen bonds: B:N.184, B:N.186, A:D.205 Water bridges: B:T.182, A:R.209 Salt bridges: A:R.209

8 x NA: SODIUM ION(Non-functional Binders)

NA.5: 3 residues within 4Å: Chain A: N.184, N.186 Ligands: PO4.4 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.184, A:N.186 Water bridges: A:N.187 NA.6: 4 residues within 4Å: Chain A: D.33, D.35, T.176, D.177 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:D.35, A:T.176, A:T.176, A:D.177 NA.7: 5 residues within 4Å: Chain A: T.3, V.5, I.6, R.151, R.155 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:T.3, A:V.5, A:I.6, A:R.151, A:R.155 NA.8: 6 residues within 4Å: Chain A: N.101, M.122, D.124, H.126, P.129, S.138 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.101, A:D.124, A:H.126 NA.13: 3 residues within 4Å: Chain B: N.184, N.186 Ligands: PO4.12 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:N.184, B:N.186 Water bridges: B:N.187 NA.14: 4 residues within 4Å: Chain B: D.33, D.35, T.176, D.177 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:D.35, B:D.177 NA.15: 5 residues within 4Å: Chain B: T.3, V.5, I.6, R.151, R.155 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:T.3, B:V.5, B:I.6, B:R.151, B:R.155 NA.16: 6 residues within 4Å: Chain B: N.101, M.122, D.124, H.126, P.129, S.138 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:N.101, B:D.124, B:D.124, B:H.126

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Seetharaman, J. et al., Crystal structure of an exopolyphosphatase-related protein from Bacteroides Fragilis. Northeast Structural Genomics target BFR192. To be Published

Release Date

2014-06-25

Peptides

Putative exopolyphosphatase-related protein: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Putative exopolyphosphatase-related protein

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