SMTL ID : 3rze.1

Structure of the human histamine H1 receptor in complex with doxepin

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 3.10 Å

Oligo State

monomer

Ligands

1 x 5EH: (3E)-3-(dibenzo[b,e]oxepin-11(6H)-ylidene)-N,N-dimethylpropan-1-amine(Non-covalent)

5EH.1: 15 residues within 4Å: Chain A: D.88, Y.89, S.92, T.93, I.96, W.139, T.175, N.179, F.382, W.386, Y.389, F.390, F.393, Y.416 Ligands: D7V.2 13 PLIP interactions: 13 interactions with chain A Hydrophobic interactions: A:Y.89, A:I.96, A:W.139, A:F.382, A:Y.389, A:F.390, A:F.390, A:F.393 Salt bridges: A:D.88 pi-Stacking: A:Y.89, A:W.386, A:W.386, A:F.390

1 x D7V: (3Z)-3-(dibenzo[b,e]oxepin-11(6H)-ylidene)-N,N-dimethylpropan-1-amine(Non-covalent)

D7V.2: 15 residues within 4Å: Chain A: D.88, Y.89, S.92, T.93, I.96, W.139, T.175, N.179, W.386, Y.389, F.390, F.393, Y.416 Ligands: 5EH.1, PO4.3 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:Y.89, A:I.96, A:N.179, A:Y.389, A:F.390, A:F.390, A:F.390, A:F.393, A:F.393 Salt bridges: A:D.88 pi-Stacking: A:Y.89, A:W.386

3 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.3: 8 residues within 4Å: Chain A: Y.89, D.159, K.160, K.172, Y.389, F.393, H.408 Ligands: D7V.2 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:Y.89, A:D.159, A:D.159, A:D.159, A:Y.389 Salt bridges: A:K.160, A:K.172, A:H.408 PO4.4: 2 residues within 4Å: Chain A: R.277, R.281 2 PLIP interactions: 2 interactions with chain A Salt bridges: A:R.277, A:R.281 PO4.5: 4 residues within 4Å: Chain A: T.343, P.344, N.345, R.346 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.345, A:N.345, A:R.346

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

OLC.6: 3 residues within 4Å: Chain A: N.254, N.256, V.258 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:N.256

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Shimamura, T. et al., Structure of the human histamine H1 receptor complex with doxepin. Nature (2011)

Release Date

2011-06-15

Peptides

Histamine H1 receptor, Lysozyme chimera: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Membrane

We predict this structure to be a membrane protein.
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Histamine H1 receptor, Lysozyme chimera