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SMTL ID : 7f9y.1

ghrelin-bound ghrelin receptor in complex with Gq

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

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

Ligands

1 x OCA: OCTANOIC ACID (CAPRYLIC ACID)(Covalent)

OCA.1:

10 residues within 4Å:

Chain C: G.1, S.2, S.3
Chain F: Q.252, E.256, Y.260, I.310, V.344, M.345, R.415

3 PLIP interactions:

3 interactions with chain F

Hydrophobic interactions: F:I.310, F:M.345
Hydrogen bonds: F:Q.252

2 x CLR: CHOLESTEROL(Non-covalent)

CLR.2:	6 residues within 4Å: Chain F: R.207, L.212, F.219, I.296, W.300, F.304 5 PLIP interactions: 5 interactions with chain F Hydrophobic interactions: F:F.219, F:I.296, F:W.300, F:F.304 Hydrogen bonds: F:R.207
CLR.3:	9 residues within 4Å: Chain F: T.361, Y.364, S.365, G.368, W.372, V.394, L.397, A.398, V.401 6 PLIP interactions: 6 interactions with chain F Hydrophobic interactions: F:T.361, F:Y.364, F:W.372, F:V.394, F:L.397, F:V.401

Links

RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP

Citation

Wang, Y. et al., Molecular recognition of an acyl-peptide hormone and activation of ghrelin receptor. Nat Commun (2021)

Release Date

2021-08-18

Peptides

Engineered G-alpha-q subunit: A
Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1: B
Ghrelin-28: C
Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2: D
NB35: E
Soluble cytochrome b562: F

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
G

E
N

F
R

Membrane

We predict this structure to be a membrane protein.
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Export Alignment

Secondary Structure
NoneDSSPPSIPREDSSpro

Colour Scheme

Fade MismatchesEnhance Mismatches

ChainUnique ChainRainbow2° StructureBfactorBfactor RangeSOAEntropyClustalHydrophobicSizeChargedPolarProlineSer/ThrCysteineAliphaticAromaticNo Colour

Background

3D Viewer
NGLPV2D

Engineered G-alpha-q subunit

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

Ghrelin-28

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

NB35

Soluble cytochrome b562

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Cartoon
Tube
Trace
Lines
Ball+Stick
Licorice
Hyperball
Rope
Surface
Spacefill
Outline
Fog

Background

Transparent

Resolution

Low
Medium
High
Extreme

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