SMTL ID : 5lwy.1

Revised crystal structure of the human adiponectin receptor 2 in complex with a C18 free fatty acid

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.2

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

OLB.2: 9 residues within 4Å: Chain A: S.37, F.38, R.39, F.42, L.106 Chain C: N.28, H.30, G.68 Ligands: OLB.3 7 PLIP interactions: 2 interactions with chain C, 5 interactions with chain A Hydrogen bonds: C:N.28, C:H.30, A:F.38 Hydrophobic interactions: A:R.39, A:F.42, A:L.106 Water bridges: A:R.39 OLB.3: 9 residues within 4Å: Chain A: F.38, F.103, L.106, V.117, L.120, L.124 Ligands: OLB.2, OLB.5, OLB.6 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:F.38, A:L.106, A:V.117, A:L.120, A:L.124 OLB.4: 2 residues within 4Å: Chain A: I.196 Ligands: OLB.9 No protein-ligand interaction detected (PLIP) OLB.5: 11 residues within 4Å: Chain A: L.95, L.99, L.120, K.123, L.124, S.127, L.131, Q.171 Ligands: OLB.3, OLB.6, OLB.7 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:L.95, A:L.99, A:K.123, A:L.124, A:L.131 Hydrogen bonds: A:K.123 Salt bridges: A:K.123 OLB.6: 3 residues within 4Å: Chain A: L.120 Ligands: OLB.3, OLB.5 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:L.120 OLB.7: 7 residues within 4Å: Chain A: M.134, C.160, I.164, I.167, I.168, Q.171 Ligands: OLB.5 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:I.164, A:I.167 OLB.8: 8 residues within 4Å: Chain A: G.182, A.185, L.189, L.193, I.228, A.231, A.232, A.235 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:A.185, A:L.189, A:I.228, A:A.235 OLB.9: 14 residues within 4Å: Chain A: G.192, G.195, I.196, T.199, V.203, F.208, A.212, I.217, L.220, M.223, A.224, Y.227, H.268 Ligands: OLB.4 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:I.196, A:V.203, A:F.208, A:L.220, A:A.224, A:Y.227

1 x OLA: OLEIC ACID(Non-covalent)

OLA.10: 17 residues within 4Å: Chain A: Y.126, I.129, R.184, A.185, F.188, L.189, M.223, L.226, Y.227, G.230, A.231, Y.234, F.257, F.260, V.261, G.264, A.265 18 PLIP interactions: 18 interactions with chain A Hydrophobic interactions: A:I.129, A:F.188, A:F.188, A:L.226, A:Y.227, A:Y.227, A:Y.227, A:A.231, A:Y.234, A:Y.234, A:F.257, A:F.257, A:F.257, A:F.260, A:V.261 Hydrogen bonds: A:Y.234 Water bridges: A:Y.126 Salt bridges: A:R.184

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.11: 6 residues within 4Å: Chain C: Q.37, L.47, G.57, P.59, F.62, D.82 3 PLIP interactions: 3 interactions with chain C Hydrogen bonds: C:Q.37, C:G.57, C:D.82

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Vasiliauskaite-Brooks, I. et al., Structural insights into adiponectin receptors suggest ceramidase activity. Nature (2017)

Release Date

2017-03-22

Peptides

Adiponectin receptor protein 2: A
V REGION HEAVY CHAIN: B
V REGION LIGHT CHAIN: 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

V REGION HEAVY CHAIN

V REGION LIGHT CHAIN

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