SMTL ID : 7mlv.1

Cryo-EM reveals partially and fully assembled native glycine receptors,homomeric tetramer

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-4-4-4-mer

Ligands

1 x NAG- NAG- BMA- MAN- MAN: alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-6)]beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-BMA-MAN-MAN.1: 4 residues within 4Å: Chain J: N.66, V.67, S.68, E.197 No protein-ligand interaction detected (PLIP)

1 x NAG- NAG- BMA- MAN: alpha-D-mannopyranose-(1-3)-beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-BMA-MAN.2: 2 residues within 4Å: Chain K: N.66, E.197 No protein-ligand interaction detected (PLIP)

1 x NAG- NAG- BMA- MAN- MAN- MAN: alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose-(1-6)-alpha-D-mannopyranose-(1-6)-beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-BMA-MAN-MAN-MAN.3: 3 residues within 4Å: Chain L: N.66, N.97, E.197 No protein-ligand interaction detected (PLIP)

4 x MAN: alpha-D-mannopyranose(Non-functional Binders)

MAN.4: 2 residues within 4Å: Ligands: MAN.5, BMA.6 No protein-ligand interaction detected (PLIP) MAN.5: 3 residues within 4Å: Ligands: MAN.4, BMA.6, MAN.10 No protein-ligand interaction detected (PLIP) MAN.7: 1 residues within 4Å: Ligands: MAN.10 No protein-ligand interaction detected (PLIP) MAN.10: 3 residues within 4Å: Ligands: MAN.5, BMA.6, MAN.7 No protein-ligand interaction detected (PLIP)

1 x BMA: beta-D-mannopyranose(Non-functional Binders)

BMA.6: 4 residues within 4Å: Ligands: MAN.4, MAN.5, NAG.9, MAN.10 No protein-ligand interaction detected (PLIP)

2 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Non-covalent)

NAG.8: 6 residues within 4Å: Chain I: N.66, S.68, E.197, W.198, E.200 Ligands: NAG.9 1 PLIP interactions: 1 interactions with chain I Hydrogen bonds: I:N.66 NAG.9: 3 residues within 4Å: Chain I: N.97 Ligands: BMA.6, NAG.8 1 PLIP interactions: 1 interactions with chain I Hydrogen bonds: I:N.97

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zhu, H. et al., Architecture and assembly mechanism of native glycine receptors. Nature (2021)

Release Date

2021-09-29

Peptides

3D1 Fab Light Chain: ACEG
3D1 Fab Heavy Chain: BDFH
Glycine receptor alpha 1: IJKL

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
J

C
K

E
M

G
I

B
G

D
F

F
L

H
H

I
D

J
A

K
B

L
C

Membrane

We predict this structure to be a membrane protein.
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3D1 Fab Light Chain

3D1 Fab Heavy Chain

Glycine receptor alpha 1

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