SMTL ID : 7bmm.2 (1 other biounit)

Crystal structure of Polyphosphate Kinase 2 from Deinococcus radiodurans in apo form

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.06 Å

Oligo State

homo-dimer

Ligands

4 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 9 residues within 4Å: Chain A: D.66, A.67, A.68, G.69, K.70, D.71, G.72, R.182, K.191 9 PLIP interactions: 9 interactions with chain A Hydrogen bonds: A:A.68, A:G.69, A:K.70, A:K.70, A:D.71, A:D.71, A:D.71, A:R.182, A:R.182 GOL.3: 11 residues within 4Å: Chain B: R.65, D.66, A.67, A.68, G.69, K.70, D.71, G.72, R.182, K.191 Ligands: GOL.5 8 PLIP interactions: 8 interactions with chain B Hydrogen bonds: B:A.67, B:G.69, B:K.70, B:K.70, B:D.71, B:D.71, B:G.72, B:R.182 GOL.4: 9 residues within 4Å: Chain B: K.92, Q.93, P.94, R.106, E.126, D.127, V.130, T.131, M.136 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:Q.93, B:R.106 Water bridges: B:R.106 GOL.5: 6 residues within 4Å: Chain B: G.72, R.182, K.188, K.231, R.234 Ligands: GOL.3 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:K.188, B:K.231 Water bridges: B:R.234, B:R.234

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

PO4.2: 4 residues within 4Å: Chain A: R.182, K.188, K.191, K.231 10 PLIP interactions: 10 interactions with chain A Water bridges: A:R.182, A:R.182, A:R.182, A:K.188, A:K.231, A:K.231 Salt bridges: A:R.182, A:K.188, A:K.191, A:K.231

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Silva, S.T.N. et al., Crystal structure of Polyphosphate Kinase 2 from Deinococcus radiodurans in apo form. To Be Published

Release Date

2021-04-07

Peptides

PPK2 domain-containing protein: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
C

PPK2 domain-containing protein

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