SMTL ID : 6w2y.1

CryoEM Structure of GABAB1b Homodimer

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

homo-dimer

Ligands

2 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG-NAG.1: 2 residues within 4Å: Chain A: R.298, N.302 No protein-ligand interaction detected (PLIP) NAG-NAG.2: 2 residues within 4Å: Chain B: R.298, N.302 No protein-ligand interaction detected (PLIP)

4 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)(Non-covalent)

NAG.3: 3 residues within 4Å: Chain A: D.66, L.341, N.344 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:D.66 NAG.4: 2 residues within 4Å: Chain A: Y.372, N.376 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Y.372, A:N.376 NAG.8: 4 residues within 4Å: Chain B: Y.372, R.373, N.376, A.391 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.376 NAG.9: 3 residues within 4Å: Chain B: D.66, I.67, N.344 3 PLIP interactions: 3 interactions with chain B Hydrophobic interactions: B:I.67 Hydrogen bonds: B:D.66, B:N.344

2 x MG: MAGNESIUM ION(Non-covalent)

MG.5: 5 residues within 4Å: Chain A: G.256, Y.258, D.260, E.288, E.402 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:G.256, A:E.288, A:E.402 MG.10: 4 residues within 4Å: Chain B: G.256, Y.258, E.288, E.402 3 PLIP interactions: 3 interactions with chain B Metal complexes: B:G.256, B:E.288, B:E.402

2 x L9Q: (1S)-2-{[(S)-(2-aminoethoxy)(hydroxy)phosphoryl]oxy}-1-[(octadecanoyloxy)methyl]ethyl (9Z)-octadec-9-enoate(Non-covalent)

L9Q.6: 16 residues within 4Å: Chain A: C.499, A.502, L.509, R.528, L.532, G.533, F.536, G.539, H.622, C.623, Y.636, L.643, C.678, L.679, T.685, I.703 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:A.502, A:L.532, A:F.536, A:F.536, A:Y.636, A:Y.636, A:L.643 Hydrogen bonds: A:L.509, A:R.528, A:C.623, A:Y.636 Salt bridges: A:H.622 L9Q.11: 15 residues within 4Å: Chain B: C.499, A.502, L.509, R.528, L.532, F.536, L.596, H.622, C.623, Y.636, K.639, C.678, T.681, T.685, T.710 12 PLIP interactions: 12 interactions with chain B Hydrophobic interactions: B:A.502, B:L.532, B:F.536, B:L.596, B:Y.636, B:Y.636, B:K.639, B:T.681, B:T.710 Hydrogen bonds: B:Y.636 Salt bridges: B:R.528, B:H.622

2 x SGG: [(2~{S})-3-[[(1~{S})-1-(3,4-dichlorophenyl)ethyl]amino]-2-oxidanyl-propyl]-(phenylmethyl)phosphinic acid(Non-covalent)

SGG.7: 11 residues within 4Å: Chain A: G.43, W.44, S.109, G.130, S.131, S.132, H.149, W.257, M.291, Q.327, E.328 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:W.44, A:W.257, A:W.257 Hydrogen bonds: A:S.109, A:S.132, A:S.132, A:H.149, A:H.149, A:E.328 pi-Stacking: A:W.257 SGG.12: 11 residues within 4Å: Chain B: G.43, W.44, C.108, S.109, G.130, S.131, S.132, H.149, W.257, M.291, E.328 9 PLIP interactions: 9 interactions with chain B Hydrophobic interactions: B:W.44, B:W.257, B:W.257 Hydrogen bonds: B:S.109, B:S.132, B:S.132, B:H.149, B:H.149 pi-Stacking: B:W.257

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Papasergi-Scott, M.M. et al., Structures of metabotropic GABABreceptor. Nature (2020)

Release Date

2020-07-01

Peptides

Gamma-aminobutyric acid type B receptor subunit 1: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Membrane

We predict this structure to be a membrane protein.
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Gamma-aminobutyric acid type B receptor subunit 1

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