SMTL ID : 7bu7.1

Structure of human beta1 adrenergic receptor bound to BI-167107 and nanobody 6B9

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.60 Å

Oligo State

hetero-1-1-mer

Ligands

2 x GLC- GLC: alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose(Non-covalent)

GLC-GLC.1: 5 residues within 4Å: Chain A: Q.112, R.144, W.145, Q.148 Ligands: GLC-GLC.2 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:W.145 GLC-GLC.2: 8 residues within 4Å: Chain A: E.18, I.36, G.37, V.110, F.111, M.113, G.114 Ligands: GLC-GLC.1 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:M.113

6 x SO4: SULFATE ION(Non-functional Binders)

SO4.3: 4 residues within 4Å: Chain A: T.149, P.150, N.151, R.152 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.151, A:N.151, A:R.152 SO4.4: 6 residues within 4Å: Chain A: G.120, F.121, T.122, N.123, S.124, N.139 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:T.122, A:N.123, A:N.123, A:S.124, A:N.139 SO4.5: 2 residues within 4Å: Chain A: R.126, R.132 2 PLIP interactions: 2 interactions with chain A Salt bridges: A:R.126, A:R.132 SO4.6: 2 residues within 4Å: Chain A: R.83, R.87 2 PLIP interactions: 2 interactions with chain A Salt bridges: A:R.83, A:R.87 SO4.7: 3 residues within 4Å: Chain A: R.21, L.22, K.23 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.21, A:L.22, A:K.23 Water bridges: A:E.242 SO4.8: 2 residues within 4Å: Chain A: N.338, R.339 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.339

1 x CLR: CHOLESTEROL(Non-covalent)

CLR.9: 4 residues within 4Å: Chain A: Y.351, V.462, F.466, H.467 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:Y.351, A:V.462, A:F.466, A:F.466

1 x 1WV: (2S)-2,3-dihydroxypropyl (7Z)-tetradec-7-enoate(Non-covalent)

1WV.10: 6 residues within 4Å: Chain A: M.178, V.236, R.474, V.477, F.478, W.481 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:F.478, A:W.481

1 x NA: SODIUM ION(Non-functional Binders)

NA.11: 3 residues within 4Å: Chain A: C.326, D.329, C.332 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Y.327

1 x EPE: 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID(Non-functional Binders)

EPE.12: 8 residues within 4Å: Chain A: I.16, R.155, S.171, W.174, W.238, G.239, R.240, R.474 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.155 Salt bridges: A:R.474

1 x P0G: 8-[(1R)-2-{[1,1-dimethyl-2-(2-methylphenyl)ethyl]amino}-1-hydroxyethyl]-5-hydroxy-2H-1,4-benzoxazin-3(4H)-one(Non-covalent)

P0G.13: 15 residues within 4Å: Chain A: W.251, D.255, V.256, C.333, D.334, F.335, A.342, S.345, S.346, S.349, F.457, N.461, V.477, N.480, Y.484 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:W.251, A:W.251, A:V.256, A:V.477 Hydrogen bonds: A:D.255, A:S.345, A:S.345, A:S.349, A:S.349, A:N.461, A:N.480, A:Y.484

1 x P6G: HEXAETHYLENE GLYCOL(Non-functional Binders)

P6G.14: 8 residues within 4Å: Chain A: N.9, E.12, M.13, I.16, W.165, Y.168, A.169, Q.172 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Xu, X. et al., Binding pathway determines norepinephrine selectivity for the human beta 1 AR over beta 2 AR. Cell Res. (2021)

Release Date

2020-12-02

Peptides

Endolysin,Endolysin,Beta-1 adrenergic receptor chimera: A
camelid antibody fragment: B

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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Endolysin,Endolysin,Beta-1 adrenergic receptor chimera

camelid antibody fragment

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