SMTL ID : 4rer.1

Crystal structure of the phosphorylated human alpha1 beta2 gamma1 holo-AMPK complex bound to AMP and cyclodextrin

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 4.05 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: 8 residues within 4Å: Chain B: W.24, K.51, W.58, S.69, Q.70, L.71, T.73, N.75 No protein-ligand interaction detected (PLIP)

1 x STU: STAUROSPORINE(Non-covalent)

STU.2: 17 residues within 4Å: Chain A: L.14, G.15, V.16, G.17, V.22, A.35, M.85, E.86, Y.87, V.88, G.91, E.92, E.135, N.136, L.138, A.148, D.149 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:L.14, A:L.14, A:V.22, A:Y.87, A:L.138, A:L.138 Hydrogen bonds: A:V.88

1 x EPE: 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID(Non-functional Binders)

EPE.3: 5 residues within 4Å: Chain A: K.4, G.6, T.77 Chain B: P.3, V.5 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:G.6 Salt bridges: A:K.4

3 x AMP: ADENOSINE MONOPHOSPHATE(Non-covalent)

AMP.4: 12 residues within 4Å: Chain C: M.62, T.64, T.66, D.67, Y.98, P.105, L.106, V.107, I.127, H.128, R.129, P.131 11 PLIP interactions: 11 interactions with chain C Hydrogen bonds: C:T.64, C:D.67, C:Y.98, C:Y.98, C:V.107, C:V.107, C:H.128, C:R.129 Salt bridges: C:H.128, C:R.129, C:K.220 AMP.5: 15 residues within 4Å: Chain A: P.353, V.356 Chain C: R.47, K.147, I.217, S.219, F.221, D.222, R.246, G.252, V.253, L.254, V.274, H.275, R.276 12 PLIP interactions: 10 interactions with chain C, 2 interactions with chain A Hydrogen bonds: C:S.219, C:D.222, C:R.246, C:R.246, C:L.254, C:L.254, C:H.275, A:P.353, A:E.354 Salt bridges: C:R.47, C:K.147, C:R.276 AMP.6: 16 residues within 4Å: Chain C: H.128, G.176, T.177, N.180, A.182, R.201, V.202, S.203, A.204, P.206, H.275, R.276, I.289, S.291, S.293, D.294 14 PLIP interactions: 14 interactions with chain C Hydrogen bonds: C:T.177, C:T.177, C:A.182, C:A.182, C:S.203, C:S.203, C:S.203, C:S.203, C:R.276, C:S.291, C:S.293, C:D.294 Salt bridges: C:H.128, C:H.275

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Li, X. et al., Structural basis of AMPK regulation by adenine nucleotides and glycogen. Cell Res. (2015)

Release Date

2014-12-10

Peptides

5'-AMP-activated protein kinase catalytic subunit alpha-1: 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
G

5'-AMP-activated protein kinase catalytic subunit alpha-1

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

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

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