SMTL ID : 6rf7.1

Crystal structure of the light-driven sodium pump KR2 in the monomeric form, pH 8.9

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.60 Å

Oligo State

monomer

Ligands

5 x LFA: EICOSANE(Non-covalent)

LFA.1: 4 residues within 4Å: Chain A: V.252, V.260, N.264 Ligands: LFA.2 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:V.252, A:V.260 LFA.2: 3 residues within 4Å: Chain A: Y.45, N.264 Ligands: LFA.1 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:Y.45, A:Y.45, A:Y.45 LFA.3: 4 residues within 4Å: Chain A: G.107, Y.108, Y.110, Y.154 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:Y.108, A:Y.110, A:Y.154, A:Y.154 LFA.4: 4 residues within 4Å: Chain A: F.179, L.182, W.183, K.186 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:F.179, A:L.182, A:W.183 LFA.5: 3 residues within 4Å: Chain A: F.72, L.73, Y.76 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:F.72, A:L.73, A:Y.76

1 x RET: RETINAL(Covalent)

RET.6: 16 residues within 4Å: Chain A: W.113, D.116, V.117, L.120, M.149, G.153, G.171, S.174, S.175, F.178, W.215, Y.218, P.219, Y.222, S.254, K.255 15 PLIP interactions: 15 interactions with chain A Hydrophobic interactions: A:W.113, A:D.116, A:V.117, A:F.178, A:W.215, A:W.215, A:Y.218, A:Y.218, A:Y.218, A:Y.218, A:P.219, A:Y.222, A:Y.222, A:Y.222, A:K.255

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kovalev, K. et al., Structure and mechanisms of sodium-pumping KR2 rhodopsin. Sci Adv (2019)

Release Date

2019-04-24

Peptides

Sodium pumping rhodopsin: 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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Sodium pumping rhodopsin

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