SMTL ID : 8bik.2 (1 other biounit)

Crystal structure of human AMPK heterotrimer in complex with allosteric activator C455

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.50 Å

Oligo State

hetero-1-1-1-mer

Ligands

1 x STU: STAUROSPORINE(Non-covalent)

STU.1: 18 residues within 4Å: Chain A: L.29, G.30, V.31, G.32, V.37, A.50, K.52, I.84, E.101, Y.102, V.103, G.106, E.107, E.150, N.151, L.153, A.163, D.164 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:L.29, A:Y.102, A:E.107, A:L.153, A:D.164 Hydrogen bonds: A:V.103, A:E.107, A:E.150

1 x QTN: (3~{R},3~{a}~{R},6~{R},6~{a}~{R})-6-[[6-chloranyl-5-[4-[4-[[dimethyl(oxidanyl)-$l^{4}-sulfanyl]amino]phenyl]phenyl]-3~{H}-imidazo[4,5-b]pyridin-2-yl]oxy]-2,3,3~{a},5,6,6~{a}-hexahydrofuro[3,2-b]furan-3-ol(Non-covalent)

QTN.2: 17 residues within 4Å: Chain A: V.18, L.25, G.26, G.35, K.36, K.38, I.53, N.55, K.58, D.95, F.97 Chain B: V.81, R.83, R.107, S.108, V.113, I.115 15 PLIP interactions: 11 interactions with chain A, 4 interactions with chain B Hydrophobic interactions: A:V.18, A:V.18, A:L.25, A:K.38, A:I.53, B:V.81, B:V.113 Hydrogen bonds: A:G.35, A:K.36, A:K.36, A:N.55, A:N.55, A:K.58 Water bridges: B:R.83 pi-Cation interactions: B:R.83

3 x AMP: ADENOSINE MONOPHOSPHATE(Non-covalent)

AMP.3: 12 residues within 4Å: Chain C: M.85, T.87, T.89, D.90, Y.121, K.127, P.128, V.130, I.150, H.151, R.152, P.154 14 PLIP interactions: 14 interactions with chain C Hydrogen bonds: C:T.89, C:D.90, C:Y.121, C:Y.121, C:V.130, C:V.130, C:H.151, C:R.152 Water bridges: C:M.85, C:M.85, C:I.88 Salt bridges: C:H.151, C:R.152, C:K.243 AMP.4: 16 residues within 4Å: Chain A: P.374, E.375 Chain C: R.70, K.170, I.240, S.242, F.244, D.245, R.269, F.273, G.275, V.276, L.277, V.297, H.298, R.299 13 PLIP interactions: 12 interactions with chain C, 1 interactions with chain A Hydrogen bonds: C:S.242, C:D.245, C:R.269, C:R.269, C:L.277, C:L.277, C:H.298, C:R.299, A:E.375 Water bridges: C:R.70 Salt bridges: C:R.70, C:K.170, C:R.299 AMP.5: 14 residues within 4Å: Chain C: H.151, T.200, N.203, I.204, A.205, V.225, S.226, A.227, P.229, H.298, I.312, S.314, S.316, D.317 11 PLIP interactions: 11 interactions with chain C Hydrogen bonds: C:T.200, C:T.200, C:A.205, C:A.205, C:S.226, C:S.226, C:S.314, C:S.316, C:D.317 Salt bridges: C:H.151, C:H.298

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Mather, K.M. et al., Direct beta 1/ beta 2 AMPK activation reduces liver steatosis but not fibrosis in a mouse model of non-alcoholic steatohepatitis. Biorxiv (2024)

Release Date

2024-05-15

Peptides

5'-AMP-activated protein kinase catalytic subunit alpha-2: A
5'-AMP-activated protein kinase subunit beta-1: B
5'-AMP-activated protein kinase subunit gamma-1: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
D

B
E

C
F

5'-AMP-activated protein kinase catalytic subunit alpha-2

5'-AMP-activated protein kinase subunit beta-1

5'-AMP-activated protein kinase subunit gamma-1

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