SMTL ID : 7cm3.1

Cryo-EM structure of human NALCN in complex with FAM155A

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-1-1-mer

Ligands

1 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG-NAG.1: 6 residues within 4Å: Chain A: P.1049, F.1061, R.1062, N.1064, K.1081 Chain B: E.350 No protein-ligand interaction detected (PLIP)

1 x NAG- NAG- BMA: beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-BMA.2: 4 residues within 4Å: Chain A: N.210, G.242, F.243, K.244 No protein-ligand interaction detected (PLIP)

2 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG.3: 2 residues within 4Å: Chain A: K.213, N.216 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.213 NAG.14: 3 residues within 4Å: Chain B: N.217, L.218, S.219 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:L.218 Hydrogen bonds: B:S.219

10 x PC1: 1,2-DIACYL-SN-GLYCERO-3-PHOSPHOCHOLINE(Non-covalent)

PC1.4: 8 residues within 4Å: Chain A: I.178, F.325, F.332, K.504, K.505, S.508, F.512, F.585 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:I.178, A:F.325, A:F.585 Hydrogen bonds: A:S.508 Salt bridges: A:K.504, A:K.505 PC1.5: 8 residues within 4Å: Chain A: D.952, F.953, G.954, R.1004, V.1007, R.1008, F.1011 Ligands: PC1.11 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:F.953, A:F.1011, A:F.1011 Salt bridges: A:R.1008 PC1.6: 10 residues within 4Å: Chain A: I.183, L.186, R.1214, A.1217, V.1225, R.1273, I.1314, K.1317, H.1318, R.1468 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:I.183, A:L.186, A:V.1225, A:I.1314 PC1.7: 8 residues within 4Å: Chain A: P.541, R.542, F.544, M.545, I.1125, H.1126, P.1130, H.1137 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:P.541, A:F.544, A:P.1130 Hydrogen bonds: A:H.1126 Salt bridges: A:R.542, A:R.542 PC1.8: 6 residues within 4Å: Chain A: M.141, V.531, V.567, W.571, V.574, V.575 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:W.571, A:W.571, A:V.574, A:V.575 PC1.9: 6 residues within 4Å: Chain A: D.880, L.881, L.884, Q.1002, Y.1333, F.1343 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:L.881, A:Y.1333, A:F.1343 Hydrogen bonds: A:D.880, A:D.880, A:Q.1002, A:Y.1333 PC1.10: 9 residues within 4Å: Chain A: Y.299, I.303, M.1342, F.1343, L.1346, S.1374, I.1379, T.1380, F.1383 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:M.1342, A:I.1379 Hydrogen bonds: A:S.1374 PC1.11: 11 residues within 4Å: Chain A: M.957, S.980, G.981, L.984, L.988, L.991, Y.1349, L.1356, G.1422, M.1425 Ligands: PC1.5 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:L.984, A:L.988, A:L.991, A:Y.1349, A:L.1356 PC1.12: 8 residues within 4Å: Chain A: L.1025, Y.1420, A.1421, L.1424, S.1429, V.1432, I.1433 Ligands: PC1.13 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:L.1025, A:L.1424, A:V.1432, A:I.1433 pi-Cation interactions: A:Y.1420 PC1.13: 6 residues within 4Å: Chain A: I.399, S.403, Y.405, L.1029, N.1100 Ligands: PC1.12 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:I.399 Hydrogen bonds: A:N.1100

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Xie, J. et al., Structure of the human sodium leak channel NALCN in complex with FAM155A. Nat Commun (2020)

Release Date

2020-11-11

Peptides

Sodium leak channel non-selective protein: A
Transmembrane protein FAM155A: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Membrane

We predict this structure to be a membrane protein.
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Sodium leak channel non-selective protein

Transmembrane protein FAM155A