SMTL ID : 9cwu.1

Crystal structure of human ribokinase in complex with K+

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.45 Å

Oligo State

homo-dimer

Ligands

3 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 8 residues within 4Å: Chain A: D.27, G.52, G.53, K.54, N.57, A.109, I.111, E.154 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:D.27, A:G.53, A:K.54, A:N.57, A:E.154 Water bridges: A:D.27 GOL.2: 9 residues within 4Å: Chain A: N.177, A.179, C.198, N.199, E.202, T.235, G.268, D.269, V.272 11 PLIP interactions: 11 interactions with chain A Hydrogen bonds: A:N.177, A:N.199, A:E.202, A:T.235, A:T.235 Water bridges: A:K.54, A:K.54, A:Q.58, A:N.199, A:N.199, A:E.202 GOL.4: 9 residues within 4Å: Chain B: N.177, A.179, C.198, N.199, E.202, T.235, G.268, D.269, V.272 9 PLIP interactions: 9 interactions with chain B Hydrogen bonds: B:N.177, B:N.199, B:E.202, B:T.235 Water bridges: B:K.54, B:Q.58, B:N.177, B:N.199, B:E.202

2 x K: POTASSIUM ION(Non-covalent)

K.3: 6 residues within 4Å: Chain A: D.263, T.265, S.301, A.304, G.306, S.310 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.263, A:A.304, A:G.306, A:S.310, H2O.5 K.5: 6 residues within 4Å: Chain B: D.263, T.265, S.301, A.304, G.306, S.310 5 PLIP interactions: 4 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:D.263, B:A.304, B:G.306, B:S.310, H2O.17

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Park, J. et al., To be published. To Be Published

Release Date

2025-08-06

Peptides

Ribokinase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Ribokinase

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