SMTL ID : 8eiz.1

Cryo-EM structure of squid sensory receptor CRB1

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

homo-pentamer

Ligands

5 x NAG- NAG- BMA: beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-BMA.1: 6 residues within 4Å: Chain A: Y.64, Y.112, K.113, N.114, S.116, H.118 No protein-ligand interaction detected (PLIP) NAG-NAG-BMA.2: 5 residues within 4Å: Chain B: Y.64, Y.112, N.114, S.116, H.118 1 PLIP interactions: 1 interactions with chain B Hydrophobic interactions: B:Y.112 NAG-NAG-BMA.3: 6 residues within 4Å: Chain C: Y.64, Y.112, K.113, N.114, S.116, H.118 1 PLIP interactions: 1 interactions with chain C Hydrophobic interactions: C:Y.112 NAG-NAG-BMA.4: 5 residues within 4Å: Chain D: Y.64, Y.112, N.114, S.116, H.118 1 PLIP interactions: 1 interactions with chain D Hydrophobic interactions: D:Y.112 NAG-NAG-BMA.5: 6 residues within 4Å: Chain E: Y.64, Y.112, K.113, N.114, S.116, H.118 No protein-ligand interaction detected (PLIP)

5 x WK3: N-benzyl-2-(2,6-dimethylanilino)-N,N-diethyl-2-oxoethan-1-aminium(Non-covalent)

WK3.6: 15 residues within 4Å: Chain A: H.37, E.39, Y.58, L.59, I.60, F.107, W.120, K.121, S.122, I.165 Chain E: Y.95, Y.96, E.98, Y.148, E.188 15 PLIP interactions: 14 interactions with chain A, 1 interactions with chain E Hydrophobic interactions: A:E.39, A:Y.58, A:Y.58, A:I.60, A:W.120, A:W.120, A:I.165, E:Y.95 Hydrogen bonds: A:E.39 Salt bridges: A:E.39 pi-Stacking: A:H.37, A:F.107, A:W.120 pi-Cation interactions: A:Y.58, A:W.120 WK3.7: 15 residues within 4Å: Chain A: Y.95, E.98, Y.148, E.188 Chain B: H.37, L.38, E.39, Y.58, L.59, I.60, F.107, W.120, K.121, S.122, I.165 15 PLIP interactions: 14 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:E.39, B:Y.58, B:Y.58, B:I.60, B:W.120, B:W.120, B:I.165, A:Y.95 Hydrogen bonds: B:E.39 Salt bridges: B:E.39 pi-Stacking: B:H.37, B:F.107, B:W.120 pi-Cation interactions: B:Y.58, B:W.120 WK3.8: 15 residues within 4Å: Chain B: Y.95, E.98, Y.148, E.188 Chain C: H.37, L.38, E.39, Y.58, L.59, I.60, F.107, W.120, K.121, S.122, I.165 15 PLIP interactions: 1 interactions with chain B, 14 interactions with chain C Hydrophobic interactions: B:Y.95, C:E.39, C:Y.58, C:Y.58, C:I.60, C:W.120, C:W.120, C:I.165 Hydrogen bonds: C:E.39 Salt bridges: C:E.39 pi-Stacking: C:H.37, C:F.107, C:W.120 pi-Cation interactions: C:Y.58, C:W.120 WK3.9: 15 residues within 4Å: Chain C: Y.95, E.98, Y.148, E.188 Chain D: H.37, L.38, E.39, Y.58, L.59, I.60, F.107, W.120, K.121, S.122, I.165 16 PLIP interactions: 15 interactions with chain D, 1 interactions with chain C Hydrophobic interactions: D:E.39, D:Y.58, D:Y.58, D:I.60, D:W.120, D:W.120, D:W.120, D:W.120, D:I.165, C:Y.95 Hydrogen bonds: D:E.39 Salt bridges: D:E.39 pi-Stacking: D:H.37, D:F.107 pi-Cation interactions: D:Y.58, D:W.120 WK3.10: 15 residues within 4Å: Chain D: Y.95, E.98, Y.148, E.188 Chain E: H.37, L.38, E.39, Y.58, L.59, I.60, F.107, W.120, K.121, S.122, I.165 13 PLIP interactions: 12 interactions with chain E, 1 interactions with chain D Hydrophobic interactions: E:E.39, E:Y.58, E:I.60, E:W.120, E:W.120, E:I.165, D:Y.95 Hydrogen bonds: E:E.39 pi-Stacking: E:H.37, E:F.107, E:W.120 pi-Cation interactions: E:Y.58, E:W.120

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kang, G. et al., Sensory specializations drive octopus and squid behaviour. Nature (2023)

Release Date

2023-04-12

Peptides

Squid sensory receptor CRB1: ABCDE

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.
Show / Hide

Squid sensory receptor CRB1