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SMTL ID : 7yfd.1

Cryo-EM structure of the imetit-bound histamine H4 receptor and Gq complex

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

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

Ligands

1 x ITF: 2-(1~{H}-imidazol-5-yl)ethyl carbamimidothioate(Non-covalent)

ITF.1:

11 residues within 4Å:

Chain D: D.94, Y.95, C.98, T.99, N.147, E.182, W.316, Y.319, F.344, Q.347, W.348

5 PLIP interactions:

5 interactions with chain D

Hydrogen bonds: D:Y.95, D:N.147, D:F.344, D:W.348
pi-Stacking: D:Y.95

2 x CLR: CHOLESTEROL(Non-covalent)

CLR.2:	5 residues within 4Å: Chain D: Y.52, I.59, V.133, M.136, W.140 4 PLIP interactions: 4 interactions with chain D Hydrophobic interactions: D:I.59, D:I.59, D:V.133, D:W.140
CLR.3:	9 residues within 4Å: Chain D: Y.103, V.106, L.107, Y.110, K.131, L.135, L.181, I.185, L.189 9 PLIP interactions: 9 interactions with chain D Hydrophobic interactions: D:Y.103, D:Y.103, D:V.106, D:L.107, D:L.135, D:L.181, D:I.185, D:I.185 Hydrogen bonds: D:K.131

Links

RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP

Citation

Im, D. et al., Structural insights into the agonists binding and receptor selectivity of human histamine H 4 receptor. Nat Commun (2023)

Release Date

2023-10-25

Peptides

Engineered G-alpha-q: A
Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1: B
scFv16: C
Histamine H4 receptor: D
Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2: E
Nb35: F

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
R

E
G

F
N

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

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

scFv16

Histamine H4 receptor

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

Nb35

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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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