SMTL ID : 8j6q.1

Cryo-EM structure of the 3-HB and compound 9n-bound human HCAR2-Gi1 complex

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-1-1-1-1-1-mer

Ligands

1 x IX8: 7-methyl-N-[(2R)-1-phenoxypropan-2-yl]-3-(4-propan-2-ylphenyl)pyrazolo[1,5-a]pyrimidine-6-carboxamide(Non-covalent)

IX8.1: 11 residues within 4Å: Chain E: C.176, H.177, T.178, F.179, Q.180, E.183, A.184, L.188, F.191, F.248, L.251 11 PLIP interactions: 11 interactions with chain E Hydrophobic interactions: E:F.179, E:F.179, E:F.179, E:E.183, E:L.188, E:F.191, E:F.248, E:F.248, E:F.248, E:L.251 Hydrogen bonds: E:Q.180

2 x CLR: CHOLESTEROL(Non-covalent)

CLR.2: 8 residues within 4Å: Chain E: W.52, I.57, F.60, N.61, N.134, A.138, C.142, W.145 6 PLIP interactions: 6 interactions with chain E Hydrophobic interactions: E:I.57, E:F.60, E:F.60, E:N.134, E:A.138, E:W.145 CLR.4: 13 residues within 4Å: Chain E: F.58, Q.105, I.109, T.112, V.113, V.116, D.117, L.129, I.140, L.144, L.188, E.189, L.192 10 PLIP interactions: 10 interactions with chain E Hydrophobic interactions: E:F.58, E:T.112, E:V.116, E:V.116, E:L.129, E:I.140, E:L.144, E:L.188, E:L.192 Hydrogen bonds: E:Q.105

1 x 3HR: (3R)-3-hydroxybutanoic acid(Non-functional Binders)

3HR.3: 11 residues within 4Å: Chain E: L.76, Y.80, W.84, L.97, L.100, R.104, S.171, S.172, F.173, L.273, Y.277 9 PLIP interactions: 9 interactions with chain E Hydrophobic interactions: E:L.76, E:W.84, E:L.100 Hydrogen bonds: E:S.172, E:S.172, E:S.172, E:F.173, E:Y.277 Salt bridges: E:R.104

1 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG.5: 1 residues within 4Å: Chain E: N.10 1 PLIP interactions: 1 interactions with chain E Hydrogen bonds: E:N.10

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Mao, C. et al., Orthosteric and allosteric modulation of human HCAR2 signaling complex. Nat Commun (2023)

Release Date

2023-12-06

Peptides

Guanine nucleotide-binding protein G(i) subunit alpha-1: A
Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1: B
Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2: C
single Fab chain (scFv16): D
Hydroxycarboxylic acid receptor 2: E

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
G

D
S

E
R

Membrane

We predict this structure to be a membrane protein.
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Guanine nucleotide-binding protein G(i) subunit alpha-1

Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1

Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2

single Fab chain (scFv16)

Hydroxycarboxylic acid receptor 2

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