SMTL ID : 1rk2.2 (1 other biounit)

E. COLI RIBOKINASE COMPLEXED WITH RIBOSE AND ADP, SOLVED IN SPACE GROUP P212121

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.25 Å

Oligo State

homo-dimer

Ligands

2 x RIB: alpha-D-ribofuranose(Non-covalent)

RIB.1: 13 residues within 4Å: Chain A: N.14, D.16, G.41, G.42, K.43, N.46, A.98, I.110, E.143, I.251, A.252, D.255, A.291 10 PLIP interactions: 10 interactions with chain A Hydrogen bonds: A:D.16, A:G.42, A:K.43, A:N.46, A:N.46, A:E.143, A:A.252 Water bridges: A:D.255, A:D.255 Salt bridges: A:K.43 RIB.5: 12 residues within 4Å: Chain B: N.14, D.16, G.41, G.42, K.43, N.46, A.98, E.143, I.251, A.252, D.255, A.291 11 PLIP interactions: 11 interactions with chain B Hydrogen bonds: B:D.16, B:G.42, B:K.43, B:K.43, B:N.46, B:N.46, B:E.143, B:A.252 Water bridges: B:D.255, B:D.255 Salt bridges: B:K.43

2 x ALF: TETRAFLUOROALUMINATE ION(Non-covalent)

ALF.2: 6 residues within 4Å: Chain A: A.179, V.181, D.182, G.216, I.217, R.218 2 PLIP interactions: 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:G.216, H2O.4 ALF.6: 6 residues within 4Å: Chain B: A.179, V.181, D.182, G.216, I.217, R.218 1 PLIP interactions: 1 interactions with chain B Metal complexes: B:G.216

2 x MG: MAGNESIUM ION(Non-covalent)

MG.3: 6 residues within 4Å: Chain A: D.249, A.285, V.286, R.288, K.289, S.294 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.249, A:A.285, A:R.288, H2O.2 MG.7: 5 residues within 4Å: Chain B: D.249, A.285, V.286, R.288, S.294 3 PLIP interactions: 3 interactions with chain B Metal complexes: B:D.249, B:A.285, B:R.288

2 x ADP: ADENOSINE-5'-DIPHOSPHATE(Non-covalent)

ADP.4: 14 residues within 4Å: Chain A: N.187, T.223, L.224, G.225, S.226, G.228, F.243, V.245, A.253, G.254, F.257, H.279, A.282, V.286 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:N.187, A:T.223, A:G.225, A:G.254, A:H.279 Water bridges: A:T.223 ADP.8: 12 residues within 4Å: Chain B: N.187, T.223, L.224, G.225, S.226, G.228, F.243, A.253, G.254, F.257, H.279, A.282 7 PLIP interactions: 7 interactions with chain B Hydrogen bonds: B:N.187, B:T.223, B:G.225, B:G.254, B:H.279 Water bridges: B:D.255, B:D.255

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Sigrell, J.A. et al., Induced fit on sugar binding activates ribokinase. J.Mol.Biol. (1999)

Release Date

1999-09-01

Peptides

RIBOKINASE: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

B
D

RIBOKINASE

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