SMTL ID : 9cxw.1

Crystal structure of Human FN3K bound with ADP and DMF (II)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

homo-dimer

Ligands

1 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 3 residues within 4Å: Chain A: N.204, D.216 Ligands: ADP.3 3 PLIP interactions: 1 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.216, H2O.1, H2O.2

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

SO4.2: 3 residues within 4Å: Chain A: E.170, R.279, R.287 2 PLIP interactions: 2 interactions with chain A Salt bridges: A:R.279, A:R.287 SO4.6: 5 residues within 4Å: Chain B: A.1, M.2, E.3, G.235, G.236 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:A.1, B:A.1, B:M.2, B:E.3, B:G.236 SO4.7: 2 residues within 4Å: Chain B: P.238, R.239 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:R.239 Water bridges: B:S.240

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

ADP.3: 16 residues within 4Å: Chain A: C.25, I.26, S.27, E.28, F.40, K.42, P.72, M.89, E.90, H.91, L.92, M.94, N.204, Y.215, D.216 Ligands: MG.1 11 PLIP interactions: 11 interactions with chain A Hydrogen bonds: A:C.25, A:I.26, A:E.90, A:L.92, A:G.203, A:Y.215 Water bridges: A:K.42 Salt bridges: A:K.42, A:K.42 pi-Stacking: A:F.40, A:F.40 ADP.8: 18 residues within 4Å: Chain B: G.19, A.23, G.24, C.25, I.26, S.27, F.40, K.42, P.72, M.89, E.90, H.91, L.92, M.94, G.203, N.204, Y.215, D.216 16 PLIP interactions: 16 interactions with chain B Hydrogen bonds: B:G.19, B:C.25, B:I.26, B:S.27, B:E.90, B:L.92, B:G.203, B:D.216 Water bridges: B:K.42, B:K.42, B:N.204, B:D.216 Salt bridges: B:K.42, B:K.42 pi-Stacking: B:F.40, B:F.40

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.4: 2 residues within 4Å: Chain A: G.67, V.69 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:Q.107 Water bridges: A:G.67, A:V.69, A:V.69, A:R.70 GOL.9: 2 residues within 4Å: Chain B: K.103, V.210 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:V.210

2 x 01: 1-deoxy-1-(morpholin-4-yl)-D-fructose

01.5: 10 residues within 4Å: Chain A: G.134, D.199, W.201, I.230, F.234, N.269, H.270, H.273, F.274, Y.278 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:D.199, A:W.201, A:N.204, A:N.269, A:H.270 pi-Cation interactions: A:W.201, A:W.201 01.10: 12 residues within 4Å: Chain A: S.27 Chain B: C.25, I.26, G.134, D.199, W.201, I.230, F.234, N.269, H.270, F.274, Y.278 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:D.199, B:D.216, B:N.269, B:H.270 pi-Cation interactions: B:W.201, B:W.201

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Garg, A. et al., Crystal structure of Human FN3K bound with ADP and DMF (II). To Be Published

Release Date

2024-12-18

Peptides

Fructosamine-3-kinase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Fructosamine-3-kinase

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