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SMTL ID : 7vkt.1

cryo-EM structure of LTB4-bound BLT1 in complex with Gi protein

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

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

Ligands

1 x LTB: LEUKOTRIENE B4(Non-covalent)

LTB.1:

13 residues within 4Å:

Chain A: F.74, F.77, L.78, G.98, M.101, Y.102, V.105, V.152, E.185, W.234, N.268, I.271, F.275

13 PLIP interactions:

13 interactions with chain A

Hydrophobic interactions: A:F.74, A:F.74, A:L.78, A:M.101, A:Y.102, A:V.105, A:E.185, A:W.234, A:I.271, A:I.271, A:F.275, A:F.275
Hydrogen bonds: A:N.268

4 x Y01: CHOLESTEROL HEMISUCCINATE(Non-covalent)

Y01.2:	7 residues within 4Å: Chain A: R.50, N.59, L.62, V.96, R.135, W.142, F.146 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:L.62, A:V.96, A:W.142, A:W.142, A:W.142, A:F.146 Salt bridges: A:R.50, A:R.135
Y01.3:	4 residues within 4Å: Chain A: A.232, R.262, A.266 Ligands: Y01.4 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:A.266 Salt bridges: A:R.262, A:R.262
Y01.4:	6 residues within 4Å: Chain A: L.235, P.236, V.239, A.243, L.263 Ligands: Y01.3 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:P.236, A:P.236, A:V.239, A:L.263
Y01.5:	7 residues within 4Å: Chain A: Y.201, G.205, Q.209, S.216, T.219, G.220, V.224 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:V.224 Hydrogen bonds: A:Q.209, A:T.219 Salt bridges: A:R.215

1 x 8IO: [(2R)-2-[(Z)-hexadec-9-enoyl]oxy-3-[oxidanyl-[(2S,3R,5R,6S)-2,3,4,5,6-pentakis(oxidanyl)cyclohexyl]oxy-phosphoryl]oxy-propyl] octadecanoate(Non-covalent)

8IO.6:

15 residues within 4Å:

Chain A: M.56, W.106, A.110, L.113, D.114, S.116, L.117, A.120, R.121, L.128, R.129, T.130, M.133, A.134, V.137

8 PLIP interactions:

8 interactions with chain A

Hydrophobic interactions: A:W.106, A:W.106, A:L.113, A:L.117, A:L.117, A:A.120
Hydrogen bonds: A:D.114, A:T.130

Links

RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP

Citation

Wang, N. et al., Structural basis of leukotriene B4 receptor 1 activation. Nat Commun (2022)

Release Date

2022-03-09

Peptides

Leukotriene B4 receptor 1: 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
A

B
B

C
C

D
D

E
E

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

Leukotriene B4 receptor 1

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
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Surface
Spacefill
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