SMTL ID : 8rsq.1

Crystal structure of marine actinobacteria clade rhodopsin (MAR) - human GTPase Arf1 (L8K,Q71L) chimera; Ground state

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

monomer

Ligands

1 x GDP: GUANOSINE-5'-DIPHOSPHATE(Non-covalent)

GDP.1: 14 residues within 4Å: Chain A: L.241, A.243, A.244, G.245, K.246, T.247, T.248, N.342, K.343, D.345, L.346, C.375, A.376, T.377 17 PLIP interactions: 17 interactions with chain A Hydrogen bonds: A:A.243, A:A.244, A:G.245, A:K.246, A:T.247, A:T.248, A:T.248, A:N.342, A:K.343, A:K.343, A:A.376, A:T.377 Water bridges: A:K.246, A:T.247, A:E.270 Salt bridges: A:K.246, A:D.345

8 x LFA: EICOSANE(Non-covalent)

LFA.2: 2 residues within 4Å: Chain A: G.202, L.206 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:L.206 LFA.3: 3 residues within 4Å: Chain A: M.133, I.170, L.174 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:I.170, A:L.174 LFA.4: 2 residues within 4Å: Chain A: G.110, A.111 No protein-ligand interaction detected (PLIP) LFA.5: 1 residues within 4Å: Chain A: A.134 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:A.134 LFA.6: 4 residues within 4Å: Chain A: Y.70, V.71, G.110, Y.113 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:Y.70, A:V.71, A:Y.113 LFA.7: 3 residues within 4Å: Chain A: A.134, T.135, W.138 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:T.135, A:W.138, A:W.138 LFA.8: 4 residues within 4Å: Chain A: T.20, A.42, L.43, G.46 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:T.20, A:L.43, A:L.43 LFA.9: 2 residues within 4Å: Chain A: G.19, F.22 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:F.22

1 x RET: RETINAL(Covalent)

RET.10: 19 residues within 4Å: Chain A: Y.70, W.73, T.76, V.77, M.80, M.108, I.109, G.112, F.129, A.132, M.133, Y.136, W.169, Y.172, P.173, Y.176, Y.192, D.196, K.200 15 PLIP interactions: 15 interactions with chain A Hydrophobic interactions: A:W.73, A:V.77, A:I.109, A:F.129, A:Y.136, A:Y.136, A:W.169, A:W.169, A:Y.172, A:Y.172, A:Y.172, A:P.173, A:Y.176, A:Y.176, A:K.200

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Bukhdruker, S. et al., Proteorhodopsin insights into the molecular mechanism of vectorial proton transport. Sci Adv (2025)

Release Date

2025-04-02

Peptides

MIcrobial rhodopsin - GTPase chimera,ADP-ribosylation factor 1: 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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MIcrobial rhodopsin - GTPase chimera,ADP-ribosylation factor 1

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