SMTL ID : 5lx9.1

CRYSTAL STRUCTURE OF HUMAN ADIPONECTIN RECEPTOR 2 IN COMPLEX WITH A C18 FREE FATTY ACID AT 2.4 ANGSTROM RESOLUTION

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.40 Å

Oligo State

hetero-oligomer

Ligands

1 x ZN: ZINC ION(Non-covalent)

ZN.1: 4 residues within 4Å: Chain A: H.123, H.269, H.273 Ligands: OLA.2 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.123, A:H.269, A:H.273, H2O.1

1 x OLA: OLEIC ACID(Non-covalent)

OLA.2: 16 residues within 4Å: Chain A: D.140, Y.141, I.144, R.199, F.203, L.241, Y.242, A.246, Y.249, H.269, F.272, F.275, G.279, A.280 Ligands: ZN.1, OLB.4 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:Y.141, A:F.203, A:F.203, A:Y.242, A:A.246, A:Y.249, A:Y.249, A:F.272, A:F.272 Water bridges: A:D.140 Salt bridges: A:H.269

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

OLB.3: 7 residues within 4Å: Chain A: S.117, F.118, L.121, L.135, L.139 Ligands: OLB.13, OLB.14 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:L.121, A:L.135, A:L.139 OLB.4: 13 residues within 4Å: Chain A: S.151, W.155, G.207, G.210, F.223, I.232, W.234, L.235, M.238, A.239, Y.242, H.283 Ligands: OLA.2 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:W.155, A:I.232, A:W.234, A:L.235, A:M.238, A:A.239, A:Y.242 OLB.5: 8 residues within 4Å: Chain A: Q.194, Y.195, V.198, G.201, L.204, G.205, L.208 Ligands: OLB.12 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:V.198, A:L.208 OLB.6: 8 residues within 4Å: Chain A: G.84, M.88, F.89, R.90, P.91, N.92, K.102 Ligands: OLB.11 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:F.89 Hydrogen bonds: A:N.92, A:N.92 Water bridges: A:N.92 Salt bridges: A:K.102 OLB.7: 6 residues within 4Å: Chain A: V.78, F.79, C.82, F.86, F.89, R.90 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:F.86, A:F.86, A:F.86, A:F.89, A:R.90 OLB.8: 2 residues within 4Å: Chain A: I.219, S.220 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:I.219 Hydrogen bonds: A:S.220 OLB.9: 8 residues within 4Å: Chain A: L.114, L.135, K.138, L.139, S.142, L.146, Q.186 Ligands: OLB.10 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:L.135, A:K.138, A:L.139, A:L.146 OLB.10: 11 residues within 4Å: Chain A: Q.100, V.104, L.107, L.146, M.149, G.150, V.153, Y.157, Y.161, C.175 Ligands: OLB.9 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:V.104, A:L.107, A:L.146, A:M.149, A:V.153, A:V.153 Hydrogen bonds: A:Q.100 OLB.11: 8 residues within 4Å: Chain A: M.88, N.92, L.99, K.102, V.103, G.106, L.107 Ligands: OLB.6 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:L.99, A:L.107 Hydrogen bonds: A:N.92 OLB.12: 11 residues within 4Å: Chain A: L.177, A.180, A.181, V.184, W.187, Y.195, V.198, V.202, G.205, L.206 Ligands: OLB.5 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:L.177, A:A.180, A:V.184, A:W.187, A:Y.195, A:V.198, A:V.202, A:V.202 Hydrogen bonds: A:Y.195 OLB.13: 13 residues within 4Å: Chain A: S.52, F.53, R.54, F.57, L.121 Chain B: N.167, H.169, N.170, S.206, G.207, Y.210 Ligands: OLB.3, OLB.14 10 PLIP interactions: 5 interactions with chain A, 5 interactions with chain B Hydrophobic interactions: A:F.53, A:F.57, A:L.121 Hydrogen bonds: A:F.53, A:R.54, B:N.167, B:N.170, B:G.207 Water bridges: B:N.170 Salt bridges: B:H.169 OLB.14: 10 residues within 4Å: Chain A: F.53, L.121, G.131, V.132, R.134, L.135, F.136 Chain B: K.191 Ligands: OLB.3, OLB.13 9 PLIP interactions: 1 interactions with chain B, 8 interactions with chain A Salt bridges: B:K.191 Hydrophobic interactions: A:F.53, A:F.53, A:L.121, A:L.135, A:F.136 Hydrogen bonds: A:R.134 Water bridges: A:G.131, A:R.134

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

HUMAN ADIPONECTIN RECEPTOR 2: A
single-chain variable fragment: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
H

Membrane

We predict this structure to be a membrane protein.
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HUMAN ADIPONECTIN RECEPTOR 2

single-chain variable fragment

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