SMTL ID : 2o8r.1

Crystal Structure of Polyphosphate Kinase from Porphyromonas Gingivalis

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.70 Å

Oligo State

homo-dimer

Ligands

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

SO4.1: 2 residues within 4Å: Chain A: R.12, R.13 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.13 SO4.2: 7 residues within 4Å: Chain A: S.46, D.95, Y.98, Y.99, M.270, N.302, L.303 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:D.95, A:D.95, A:N.302, A:L.303 SO4.3: 2 residues within 4Å: Chain A: R.492, R.505 2 PLIP interactions: 2 interactions with chain A Salt bridges: A:R.492, A:R.505 SO4.4: 4 residues within 4Å: Chain A: H.439, K.441, H.597, R.599 4 PLIP interactions: 4 interactions with chain A Salt bridges: A:H.439, A:K.441, A:H.597, A:R.599 SO4.5: 4 residues within 4Å: Chain A: T.470, A.471, R.472 Chain B: R.417 4 PLIP interactions: 3 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:T.470, A:A.471, A:R.472 Salt bridges: B:R.417 SO4.6: 5 residues within 4Å: Chain A: R.116, R.118, P.122, T.123, H.124 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:T.123, A:H.124 Salt bridges: A:R.116, A:R.118 SO4.7: 7 residues within 4Å: Chain A: L.326, T.353, D.355, R.359 Chain B: A.394, Q.395, G.397 3 PLIP interactions: 2 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:T.353, B:G.397 Salt bridges: A:R.359 SO4.8: 5 residues within 4Å: Chain A: R.116, L.117, R.118, T.119, H.120 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:T.119, A:H.120 Salt bridges: A:R.116, A:H.120 SO4.9: 6 residues within 4Å: Chain B: R.116, R.118, A.121, P.122, T.123, H.124 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:R.116, B:A.121, B:T.123, B:T.123, B:H.124 Salt bridges: B:R.118 SO4.10: 3 residues within 4Å: Chain B: H.439, H.597, R.599 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:N.465 Salt bridges: B:H.439, B:H.597, B:R.599 SO4.11: 3 residues within 4Å: Chain B: R.536, Y.538, E.647 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:E.647 Salt bridges: B:R.536 SO4.12: 3 residues within 4Å: Chain B: R.158, S.159, R.161 2 PLIP interactions: 2 interactions with chain B Salt bridges: B:R.158, B:R.161 SO4.13: 3 residues within 4Å: Chain B: A.471, R.472, Y.474 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:A.471, B:R.472

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Patskovsky, Y. et al., Crystal Structure of Polyphosphate Kinase from Porphyromonas Gingivalis. To be Published

Release Date

2006-12-19

Peptides

Polyphosphate kinase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Polyphosphate kinase