SMTL ID : 5f0z.1

Crystal structure of Fructokinase from Vibrio cholerae O395 in fructose, ADP and calcium ion bound form

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.75 Å

Oligo State

homo-dimer

Ligands

2 x FRU: beta-D-fructofuranose(Non-covalent)

FRU.1: 19 residues within 4Å: Chain A: D.26, V.28, D.30, G.44, G.45, A.46, P.47, N.49, V.101, F.113, F.115, I.144, N.174, R.176, T.262, G.263, D.266, A.308 Ligands: CA.3 10 PLIP interactions: 10 interactions with chain A Hydrogen bonds: A:D.26, A:D.30, A:D.30, A:G.45, A:A.46, A:N.49, A:N.174, A:N.174, A:R.176, A:R.176 FRU.5: 19 residues within 4Å: Chain B: D.26, V.28, D.30, G.44, G.45, A.46, P.47, N.49, V.101, F.113, F.115, I.144, N.174, R.176, T.262, G.263, D.266, A.308 Ligands: CA.7 10 PLIP interactions: 10 interactions with chain B Hydrogen bonds: B:D.26, B:D.30, B:D.30, B:G.45, B:A.46, B:N.49, B:N.174, B:N.174, B:R.176, B:R.176

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

ADP.2: 25 residues within 4Å: Chain A: G.109, K.201, T.234, L.235, G.236, A.237, G.239, A.240, K.254, A.255, V.256, K.257, P.258, T.261, T.262, G.263, A.264, G.265, D.266, F.268, N.296, G.299, A.300, T.303 Ligands: CA.3 16 PLIP interactions: 16 interactions with chain A Hydrogen bonds: A:G.239, A:V.256, A:V.256, A:G.263, A:A.264, A:G.265, A:N.296 Water bridges: A:G.109, A:G.109, A:N.174, A:K.201, A:K.201, A:K.201, A:E.205, A:T.261, A:G.265 ADP.6: 25 residues within 4Å: Chain B: G.109, K.201, T.234, L.235, G.236, A.237, G.239, A.240, K.254, A.255, V.256, K.257, P.258, T.261, T.262, G.263, A.264, G.265, D.266, F.268, N.296, G.299, A.300, T.303 Ligands: CA.7 16 PLIP interactions: 16 interactions with chain B Hydrogen bonds: B:G.239, B:V.256, B:V.256, B:G.263, B:A.264, B:G.265, B:N.296 Water bridges: B:G.109, B:G.109, B:N.174, B:K.201, B:K.201, B:K.201, B:E.205, B:T.261, B:G.265

2 x CA: CALCIUM ION(Non-covalent)

CA.3: 6 residues within 4Å: Chain A: N.174, R.176, K.201, G.265 Ligands: FRU.1, ADP.2 No protein-ligand interaction detected (PLIP) CA.7: 6 residues within 4Å: Chain B: N.174, R.176, K.201, G.265 Ligands: FRU.5, ADP.6 No protein-ligand interaction detected (PLIP)

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

NA.4: 7 residues within 4Å: Chain A: A.302, T.303, Q.305, G.307, A.308, T.310, A.311 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Q.305 NA.8: 7 residues within 4Å: Chain B: A.302, T.303, Q.305, G.307, A.308, T.310, A.311 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:G.307

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Paul, R. et al., Crystal structure of Fructokinase from Vibrio cholerae O395 in apo form. To Be Published

Release Date

2016-11-30

Peptides

Fructokinase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Fructokinase

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