SMTL ID : 6b2e.1

Structure of full length human AMPK (a2b2g1) in complex with a small molecule activator SC4.

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.80 Å

Oligo State

hetero-1-1-1-mer

Ligands

1 x GLC- GLC- GLC- GLC- GLC- GLC- GLC: Cycloheptakis-(1-4)-(alpha-D-glucopyranose)(Non-covalent)

GLC-GLC-GLC-GLC-GLC-GLC-GLC.1: 6 residues within 4Å: Chain B: K.126, W.133, Q.145, L.146, T.148, N.150 No protein-ligand interaction detected (PLIP)

1 x STU: STAUROSPORINE(Non-covalent)

STU.2: 16 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, G.112, E.156, N.157, L.159, D.170 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:L.35, A:L.35, A:K.58, A:Y.108, A:L.159, A:D.170 Hydrogen bonds: A:V.109

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)

CG7.3: 14 residues within 4Å: Chain A: V.24, L.31, G.32, G.41, I.59, N.61, D.101, F.103 Chain B: R.82, I.106, K.107, S.108, D.111, V.113 7 PLIP interactions: 2 interactions with chain B, 5 interactions with chain A Hydrophobic interactions: B:I.106, B:V.113, A:V.24, A:I.59, A:N.61 Hydrogen bonds: A:D.101, A:D.101

2 x AMP: ADENOSINE MONOPHOSPHATE(Non-covalent)

AMP.4: 13 residues within 4Å: Chain A: P.380 Chain C: R.75, I.245, S.247, F.249, D.250, R.274, F.278, V.281, L.282, V.302, H.303, R.304 8 PLIP interactions: 1 interactions with chain A, 7 interactions with chain C Hydrogen bonds: A:P.380, C:S.247, C:D.250, C:R.274, C:L.282, C:L.282, C:H.303 Salt bridges: C:R.75 AMP.5: 13 residues within 4Å: Chain C: H.156, T.205, I.209, A.210, V.230, S.231, A.232, P.234, H.303, I.317, S.319, S.321, D.322 10 PLIP interactions: 10 interactions with chain C Hydrogen bonds: C:T.205, C:T.205, C:A.210, C:A.210, 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-2: B
5'-AMP-activated protein kinase subunit gamma-1: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

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

5'-AMP-activated protein kinase subunit beta-2

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

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