SMTL ID : 7myj.2 (1 other biounit)

Structure of full length human AMPK (a2b1g1) in complex with a small molecule activator MSG011

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.95 Å

Oligo State

hetero-1-1-1-mer

Ligands

1 x 4O7: (5S,6R,7R,9R,13cR,14R,16aS)-6-methoxy-5-methyl-7-(methylamino)-6,7,8,9,14,15,16,16a-octahydro-5H,13cH-5,9-epoxy-4b,9a,1 5-triazadibenzo[b,h]cyclonona[1,2,3,4-jkl]cyclopenta[e]-as-indacen-14-ol(Non-covalent)

4O7.1: 17 residues within 4Å: Chain A: L.35, G.36, V.37, G.38, V.43, A.56, K.58, I.90, E.107, Y.108, V.109, E.113, E.156, N.157, L.159, A.169, D.170 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:L.35, A:L.35, A:V.43, A:A.56, A:K.58, A:Y.108, A:L.159 Hydrogen bonds: A:E.107, A:V.109, A:E.156

1 x ZQV: 5-({5-[(4'R)-4'-acetamido-2',3',4',5'-tetrahydro[1,1'-biphenyl]-4-yl]-6-chloro-1H-imidazo[4,5-b]pyridin-2-yl}oxy)-2-methylbenzoic acid(Non-covalent)

ZQV.2: 17 residues within 4Å: Chain A: V.24, L.31, G.32, G.41, K.42, K.44, I.59, N.61, D.101, F.103 Chain B: V.81, R.83, T.106, S.108, N.111, V.113, I.115 11 PLIP interactions: 3 interactions with chain B, 8 interactions with chain A Hydrophobic interactions: B:V.113, A:V.24, A:V.24, A:L.31, A:K.42, A:K.44, A:I.59 Hydrogen bonds: B:N.111, A:D.101 pi-Cation interactions: B:R.83, A:K.44

2 x AMP: ADENOSINE MONOPHOSPHATE(Non-covalent)

AMP.3: 13 residues within 4Å: Chain C: H.156, T.205, N.208, I.209, A.210, V.230, S.231, A.232, H.303, I.317, S.319, S.321, D.322 11 PLIP interactions: 11 interactions with chain C Hydrogen bonds: C:T.205, C:T.205, C:A.210, C:A.210, C:S.231, C:S.231, C:S.319, C:S.321, C:D.322 Salt bridges: C:H.156, C:H.303 AMP.4: 16 residues within 4Å: Chain A: P.380, E.381 Chain C: R.75, K.175, I.245, S.247, F.249, D.250, R.274, F.278, G.280, V.281, L.282, V.302, H.303, R.304 11 PLIP interactions: 10 interactions with chain C, 1 interactions with chain A Hydrogen bonds: C:S.247, C:D.250, C:R.274, C:R.274, C:L.282, C:L.282, C:H.303, A:P.380 Salt bridges: C:R.75, C:K.175, C:R.304

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ovens, A.J. et al., Structure-function analysis of the AMPK activator SC4 and identification of a potent pan AMPK activator. Biochem.J. (2022)

Release Date

2022-06-29

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
C

B
D

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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