SMTL ID : 8q8q.1

Cryo-EM structure of the magnesium channel CtMrs2 in the open state

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

homo-pentamer

Ligands

5 x LOP: (1R)-2-{[(R)-(2-AMINOETHOXY)(HYDROXY)PHOSPHORYL]OXY}-1-[(DODECANOYLOXY)METHYL]ETHYL (9Z)-OCTADEC-9-ENOATE(Non-covalent)

LOP.1: 13 residues within 4Å: Chain A: L.322, Y.366, K.370 Chain E: K.316, F.317, G.320, L.324, L.358, S.360, L.361, C.364, W.365, L.368 8 PLIP interactions: 6 interactions with chain E, 2 interactions with chain A Hydrophobic interactions: E:L.324, E:L.358, E:W.365, E:L.368 Hydrogen bonds: E:G.320, A:Y.366 Salt bridges: E:K.316, A:K.370 LOP.5: 13 residues within 4Å: Chain A: K.316, F.317, G.320, L.324, L.358, S.360, L.361, C.364, W.365, L.368 Chain B: L.322, Y.366, K.370 8 PLIP interactions: 6 interactions with chain A, 2 interactions with chain B Hydrophobic interactions: A:L.324, A:L.358, A:W.365, A:L.368 Hydrogen bonds: A:G.320, B:Y.366 Salt bridges: A:K.316, B:K.370 LOP.6: 13 residues within 4Å: Chain B: K.316, F.317, G.320, L.324, L.358, S.360, L.361, C.364, W.365, L.368 Chain C: L.322, Y.366, K.370 8 PLIP interactions: 6 interactions with chain B, 2 interactions with chain C Hydrophobic interactions: B:L.324, B:L.358, B:W.365, B:L.368 Hydrogen bonds: B:G.320, C:Y.366 Salt bridges: B:K.316, C:K.370 LOP.7: 13 residues within 4Å: Chain C: K.316, F.317, G.320, L.324, L.358, S.360, L.361, C.364, W.365, L.368 Chain D: L.322, Y.366, K.370 8 PLIP interactions: 6 interactions with chain C, 2 interactions with chain D Hydrophobic interactions: C:L.324, C:L.358, C:W.365, C:L.368 Hydrogen bonds: C:G.320, D:Y.366 Salt bridges: C:K.316, D:K.370 LOP.8: 13 residues within 4Å: Chain D: K.316, F.317, G.320, L.324, L.358, S.360, L.361, C.364, W.365, L.368 Chain E: L.322, Y.366, K.370 8 PLIP interactions: 6 interactions with chain D, 2 interactions with chain E Hydrophobic interactions: D:L.324, D:L.358, D:W.365, D:L.368 Hydrogen bonds: D:G.320, E:Y.366 Salt bridges: D:K.316, E:K.370

3 x MG: MAGNESIUM ION(Non-functional Binders)

MG.2: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) MG.3: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) MG.4: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Li, P. et al., Closed and open structures of the eukaryotic magnesium channel Mrs2 reveal the auto-ligand-gating regulation mechanism. Nat.Struct.Mol.Biol. (2025)

Release Date

2024-11-27

Peptides

Magnesium channel Mrs2: ABCDE

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

Membrane

We predict this structure to be a membrane protein.
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Magnesium channel Mrs2