SMTL ID : 4cff.1 (1 other biounit)

Structure of full length human AMPK in complex with a small molecule activator, a thienopyridone derivative (A-769662)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.92 Å

Oligo State

hetero-1-1-1-mer

Ligands

1 x STU: STAUROSPORINE(Non-covalent)

STU.1: 15 residues within 4Å: Chain A: L.41, G.42, V.43, G.44, V.49, A.62, K.64, E.113, Y.114, V.115, E.119, E.162, N.163, L.165, D.176 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:L.41, A:V.49, A:V.49, A:K.64, A:E.119, A:L.165, A:D.176 Hydrogen bonds: A:V.115, A:E.162

1 x C1V: 3-[4-(2-hydroxyphenyl)phenyl]-4-oxidanyl-6-oxidanylidene-7H-thieno[2,3-b]pyridine-5-carbonitrile(Non-covalent)

C1V.2: 12 residues within 4Å: Chain A: V.30, L.37, G.38, K.48, K.50, I.65, N.67, D.107 Chain B: T.122, R.123, S.124, V.129 12 PLIP interactions: 10 interactions with chain A, 2 interactions with chain B Hydrophobic interactions: A:V.30, A:L.37, A:K.50, A:I.65, B:T.122, B:V.129 Hydrogen bonds: A:K.50, A:K.50, A:K.50, A:N.67, A:D.107 pi-Cation interactions: A:K.50

2 x AMP: ADENOSINE MONOPHOSPHATE(Non-covalent)

AMP.3: 13 residues within 4Å: Chain A: P.386 Chain C: R.70, K.170, I.240, S.242, F.244, D.245, R.269, V.276, L.277, V.297, H.298, R.299 10 PLIP interactions: 10 interactions with chain C Hydrogen bonds: C:S.242, C:D.245, C:R.269, C:R.269, C:L.277, C:H.298, C:R.299 Salt bridges: C:R.70, C:K.170, C:R.299 AMP.4: 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 12 PLIP interactions: 12 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.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

Xiao, B. et al., Structural Basis of Ampk Regulation by Small Molecule Activators. Nat.Commun. (2013)

Release Date

2013-12-25

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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