SMTL ID : 8hub.1

AMP deaminase 2 in complex with an inhibitor

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.25 Å

Oligo State

homo-tetramer

Ligands

4 x ZN: ZINC ION(Non-covalent)

ZN.1: 6 residues within 4Å: Chain A: H.217, H.219, V.426, H.486, H.508, D.563 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:H.217, A:H.219, A:H.486, A:D.563 ZN.2: 4 residues within 4Å: Chain B: H.217, H.219, H.486, D.563 5 PLIP interactions: 5 interactions with chain B Metal complexes: B:H.217, B:H.219, B:H.486, B:D.563, B:D.563 ZN.4: 5 residues within 4Å: Chain C: H.217, H.219, H.486, H.508, D.563 4 PLIP interactions: 4 interactions with chain C Metal complexes: C:H.217, C:H.219, C:H.486, C:D.563 ZN.6: 5 residues within 4Å: Chain D: H.217, H.219, H.486, H.508, D.563 4 PLIP interactions: 4 interactions with chain D Metal complexes: D:H.217, D:H.219, D:H.486, D:D.563

3 x N4X: 3,3-dimethyl-4-(phenylmethyl)-2~{H}-quinoxaline-1-carboxamide(Non-covalent)

N4X.3: 15 residues within 4Å: Chain B: S.221, M.224, L.301, R.302, I.304, F.305, S.313, G.314, Y.316, F.317, L.340, S.341, Y.343, L.353, W.356 11 PLIP interactions: 11 interactions with chain B Hydrophobic interactions: B:L.301, B:L.301, B:I.304, B:F.317, B:F.317, B:L.353, B:W.356 Hydrogen bonds: B:S.341, B:S.341, B:S.341 pi-Stacking: B:F.305 N4X.5: 18 residues within 4Å: Chain C: S.221, M.224, L.229, F.232, L.301, R.302, I.304, F.305, N.310, S.313, G.314, Y.316, F.317, L.340, S.341, Y.343, L.353, W.356 13 PLIP interactions: 13 interactions with chain C Hydrophobic interactions: C:L.229, C:L.301, C:L.301, C:I.304, C:F.305, C:F.305, C:F.317, C:F.317, C:L.353, C:W.356 Hydrogen bonds: C:S.341, C:S.341 pi-Stacking: C:W.356 N4X.7: 18 residues within 4Å: Chain D: S.221, M.224, L.229, F.232, L.301, R.302, I.304, F.305, N.310, S.313, G.314, Y.316, F.317, L.340, S.341, Y.343, L.353, W.356 12 PLIP interactions: 12 interactions with chain D Hydrophobic interactions: D:L.229, D:L.301, D:L.301, D:I.304, D:F.305, D:N.310, D:Y.316, D:F.317, D:L.353, D:W.356 Hydrogen bonds: D:S.341, D:S.341

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kitao, Y. et al., The discovery of 3,3-dimethyl-1,2,3,4-tetrahydroquinoxaline-1-carboxamides as AMPD2 inhibitors with a novel mechanism of action. Bioorg.Med.Chem.Lett. (2023)

Release Date

2023-01-18

Peptides

AMP deaminase 2: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

AMP deaminase 2

Related Entries With Identical Sequence