SMTL ID : 6b1u.2 (1 other biounit)

Structure of full-length human AMPK (a2b1g1) in complex with a small molecule activator SC4

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.77 Å

Oligo State

hetero-1-1-1-mer

Ligands

1 x STU: STAUROSPORINE(Non-covalent)

STU.1: 16 residues within 4Å: Chain A: L.35, G.36, V.37, G.38, V.43, A.56, I.90, E.107, Y.108, V.109, E.113, E.156, N.157, L.159, A.169, D.170 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:L.35, A:L.35, A:V.43, A:V.43, A:A.56, A:Y.108, A:L.159, A:A.169, A:D.170 Hydrogen bonds: A:V.109, A:E.156

1 x CG7: 5-{[6-chloro-5-(2'-hydroxy[1,1'-biphenyl]-4-yl)-1H-imidazo[4,5-b]pyridin-2-yl]oxy}-2-methylbenzoic acid(Non-covalent)

CG7.2: 17 residues within 4Å: Chain A: V.24, L.31, G.32, G.41, K.42, K.44, I.59, N.61, D.101 Chain B: V.81, R.83, T.106, R.107, S.108, N.111, V.113 Ligands: IMD.3 13 PLIP interactions: 8 interactions with chain A, 5 interactions with chain B Hydrophobic interactions: A:V.24, A:K.42, A:K.44, A:I.59, B:T.106, B:N.111, B:V.113 Hydrogen bonds: A:D.101, B:N.111 Water bridges: A:K.42, A:K.42 pi-Cation interactions: A:K.44, B:R.83

1 x IMD: IMIDAZOLE(Non-covalent)

IMD.3: 6 residues within 4Å: Chain A: F.40, G.41, L.60, N.61, K.64 Ligands: CG7.2 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.61

2 x AMP: ADENOSINE MONOPHOSPHATE(Non-covalent)

AMP.4: 15 residues within 4Å: Chain A: P.380 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 12 PLIP interactions: 10 interactions with chain C, 2 interactions with chain A Hydrogen bonds: C:S.247, C:D.250, C:R.274, C:L.282, C:L.282, C:H.303, C:R.304, A:P.380, A:E.381 Salt bridges: C:R.75, C:K.175, C:R.304 AMP.5: 14 residues within 4Å: Chain C: H.156, T.205, N.208, I.209, A.210, V.230, S.231, A.232, P.234, H.303, I.317, S.319, S.321, D.322 11 PLIP interactions: 11 interactions with chain C Hydrogen bonds: C:T.205, C:A.210, C:A.210, C:S.231, C:S.231, C:S.231, C:S.319, C:S.321, C:D.322 Salt bridges: C:H.156, C:H.303

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ngoei, K.R.W. et al., Structural Determinants for Small-Molecule Activation of Skeletal Muscle AMPK alpha 2 beta 2 gamma 1 by the Glucose Importagog SC4. Cell Chem Biol (2018)

Release Date

2018-04-25

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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