SMTL ID : 8wg4.1

mouse TMEM63b in DDM-CHS micelle with YN9303-24 Fab

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY 3.50 Å

Oligo State

monomer

Ligands

1 x LBN: 1-palmitoyl-2-oleoyl-sn-glycero-3-phosphocholine

LBN.1: 14 residues within 4Å: Chain A: W.430, W.431, C.434, N.438, H.504, W.505, T.506, G.509, R.512, T.513, H.516, T.520 Ligands: Y01.6, Y01.7 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:H.516, A:T.520 Hydrogen bonds: A:W.505, A:T.513 Salt bridges: A:H.504, A:H.504, A:R.512 pi-Cation interactions: A:W.430, A:W.430, A:W.505, A:W.505

7 x Y01: CHOLESTEROL HEMISUCCINATE

Y01.2: 4 residues within 4Å: Chain A: V.167, F.178, R.192 Ligands: Y01.3 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:V.167, A:F.178, A:F.178, A:F.178 Salt bridges: A:R.192 Y01.3: 6 residues within 4Å: Chain A: V.170, F.178, I.643, L.649 Ligands: Y01.2, Y01.4 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:V.170, A:L.649 Y01.4: 9 residues within 4Å: Chain A: F.38, P.42, L.45, S.189, I.643, P.646, F.647, M.650 Ligands: Y01.3 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:F.38, A:F.38, A:L.45, A:I.643, A:P.646, A:F.647, A:M.650 Hydrogen bonds: A:F.38, A:S.189 Y01.5: 4 residues within 4Å: Chain A: N.203, S.210, L.214 Ligands: Y01.8 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:N.203, A:L.214 Y01.6: 3 residues within 4Å: Chain A: V.728 Ligands: LBN.1, Y01.7 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:V.728 Y01.7: 12 residues within 4Å: Chain A: R.512, H.516, T.520, I.523, F.524, L.528, N.682, A.686, L.690, W.694 Ligands: LBN.1, Y01.6 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:I.523, A:F.524, A:L.528, A:L.528, A:A.686, A:W.694 Hydrogen bonds: A:N.682 Salt bridges: A:R.512, A:H.516, A:H.516 Y01.8: 5 residues within 4Å: Chain A: L.214, L.218, Y.221, R.225 Ligands: Y01.5 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:L.214, A:L.218, A:Y.221 Salt bridges: A:R.225, A:R.225

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Miyata, Y. et al., Mechanosensitive channel TMEM63B functions as a plasma membrane lipid scramblase. To Be Published

Release Date

2024-09-25

Peptides

CSC1-like protein 2,Green fluorescent protein: 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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CSC1-like protein 2,Green fluorescent protein

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