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SMTL ID : 7vfx.1

The structure of Formyl Peptide Receptor 1 in complex with Gi and peptide agonist fMIFL

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

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

Ligands

1 x FME- ILE- PHE- LEU: Peptide agonist fMIFL(Non-covalent)

FME-ILE-PHE-LEU.1:

16 residues within 4Å:

Chain A: F.99, F.120, D.124, L.127, F.128, C.194, T.195, F.196, R.219, R.223, G.227, Y.275, A.282, I.286, V.301, F.309

14 PLIP interactions:

14 interactions with chain A

Hydrophobic interactions: A:F.99, A:F.120, A:L.127, A:F.196, A:A.282, A:I.286, A:V.301, A:F.309
Hydrogen bonds: A:D.124, A:D.124, A:R.219, A:R.223, A:Y.275, A:Y.275

3 x CLR: CHOLESTEROL(Non-covalent)

CLR.2:	9 residues within 4Å: Chain A: F.132, A.135, L.136, V.163, G.166, P.167, M.170, P.231, I.234 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:A.135, A:L.136, A:P.231, A:I.234
CLR.3:	9 residues within 4Å: Chain A: H.75, I.80, L.83, N.84, V.87, K.161, I.164, W.168 Ligands: CLR.4 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:L.83, A:V.87, A:I.164, A:W.168, A:W.168 Hydrogen bonds: A:H.75, A:K.161
CLR.4:	7 residues within 4Å: Chain A: G.70, F.71, H.75, L.83, V.87, C.91 Ligands: CLR.3 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:F.71, A:L.83, A:V.87 Hydrogen bonds: A:H.75

1 x PLM: PALMITIC ACID(Non-covalent)

PLM.5:

5 residues within 4Å:

Chain A: V.77, L.136, L.139, H.147, W.150

5 PLIP interactions:

5 interactions with chain A

Hydrophobic interactions: A:V.77, A:L.136, A:L.139, A:W.150
Salt bridges: A:H.147

Links

RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP

Citation

Chen, G. et al., Structural basis for recognition of N-formyl peptides as pathogen-associated molecular patterns. Nat Commun (2022)

Release Date

2022-09-21

Peptides

fMet-Leu-Phe receptor: A
Guanine nucleotide-binding protein G(i) subunit alpha-1: B
Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1: C
Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2: D
scFv16: E

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
R

B
A

C
B

D
G

E
S

Membrane

We predict this structure to be a membrane protein.
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Secondary Structure
NoneDSSPPSIPREDSSpro

Colour Scheme

Fade MismatchesEnhance Mismatches

ChainUnique ChainRainbow2° StructureBfactorBfactor RangeSOAEntropyClustalHydrophobicSizeChargedPolarProlineSer/ThrCysteineAliphaticAromaticNo Colour

Background

3D Viewer
NGLPV2D

fMet-Leu-Phe receptor

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

scFv16

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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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