SMTL ID : 6ks1.1

Crystal structure of the human adiponectin receptor 2

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.40 Å

Oligo State

hetero-1-1-1-mer

Ligands

1 x ZN: ZINC ION(Non-covalent)

ZN.1: 4 residues within 4Å: Chain A: S.104, H.108, H.254, H.258 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:H.108, A:H.254, A:H.258, H2O.1, H2O.1

1 x OLA: OLEIC ACID(Non-covalent)

OLA.2: 18 residues within 4Å: Chain A: D.125, Y.126, L.132, R.184, A.185, F.188, L.189, M.223, L.226, Y.227, A.231, Y.234, F.257, F.260, V.261, G.264, A.265, H.268 15 PLIP interactions: 15 interactions with chain A Hydrophobic interactions: A:L.132, A:F.188, A:Y.227, A:Y.227, A:A.231, A:Y.234, A:Y.234, A:Y.234, A:F.257, A:V.261, A:H.268 Hydrogen bonds: A:Y.234 Water bridges: A:D.125, A:Y.126 Salt bridges: A:R.184

5 x OLB: (2S)-2,3-dihydroxypropyl (9Z)-octadec-9-enoate(Non-covalent)

OLB.3: 3 residues within 4Å: Chain A: L.193, L.200 Ligands: OLB.7 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:L.200 OLB.4: 9 residues within 4Å: Chain A: L.95, L.99, K.123, L.124, S.127, L.131, I.167, Q.171 Ligands: OLB.6 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:L.95, A:L.99, A:K.123, A:L.124, A:L.131, A:I.167 OLB.5: 3 residues within 4Å: Chain A: L.99, L.120 Ligands: OLC.8 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:L.99, A:L.120 OLB.6: 6 residues within 4Å: Chain A: C.160, I.164, I.167, I.168, Q.171 Ligands: OLB.4 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:I.164, A:I.167 OLB.7: 7 residues within 4Å: Chain A: G.182, L.189, L.193, I.228, A.232, A.235 Ligands: OLB.3 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:I.228, A:A.232, A:A.235

1 x OLC: (2R)-2,3-dihydroxypropyl (9Z)-octadec-9-enoate(Non-covalent)

OLC.8: 10 residues within 4Å: Chain A: F.38, I.98, L.99, F.103, L.106, V.117, L.120, F.121, L.124 Ligands: OLB.5 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:I.98, A:L.99, A:F.103, A:L.106, A:L.120, A:F.121, A:L.124

1 x LPX: (2S)-3-{[(R)-(2-aminoethoxy)(hydroxy)phosphoryl]oxy}-2-hydroxypropyl hexadecanoate(Non-covalent)

LPX.9: 9 residues within 4Å: Chain A: S.37, F.38, R.39, F.42, L.59, C.62, W.105 Chain C: N.28, H.30 9 PLIP interactions: 6 interactions with chain A, 3 interactions with chain C Hydrophobic interactions: A:F.42, A:L.59, A:W.105, A:W.105 Hydrogen bonds: A:F.38, A:R.39 Water bridges: C:N.31, C:G.68 Salt bridges: C:H.30

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Tanabe, H. et al., Human adiponectin receptor AdipoR1 assumes closed and open structures. Commun Biol (2020)

Release Date

2020-08-19

Peptides

Adiponectin receptor protein 2: A
The heavy chain variable domain (Antibody): B
The light chain variable domain (Antibody): C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
H

C
L

Membrane

We predict this structure to be a membrane protein.
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Adiponectin receptor protein 2

The heavy chain variable domain (Antibody)

The light chain variable domain (Antibody)

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