SMTL ID : 7x2u.1

Structure of a human NHE3-CHP1 complex in the autoinhibited state

Coordinates

PDB Format

Method

ELECTRON MICROSCOPY

Oligo State

hetero-2-2-mer

Ligands

2 x 85R: [(2~{R})-2-hexadecanoyloxy-3-[oxidanyl-[(2~{S},3~{S},5~{R},6~{S})-2,3,4,5,6-pentakis(oxidanyl)cyclohexyl]oxy-phosphoryl]oxy-propyl] hexadecanoate(Non-covalent)

85R.1: 21 residues within 4Å: Chain A: G.99, N.100, L.101, G.102, T.103, L.105, L.106, V.109, V.110, V.113, F.216, L.353, L.354, Y.357, R.358, M.359, V.360, Q.458, I.459, H.461 Chain C: L.184 19 PLIP interactions: 19 interactions with chain A Hydrophobic interactions: A:L.105, A:L.106, A:V.109, A:V.110, A:V.113, A:F.216, A:L.353, A:L.353, A:Y.357 Hydrogen bonds: A:N.100, A:G.102, A:T.103, A:T.103, A:Y.357, A:R.358, A:M.359, A:V.360, A:I.459 Salt bridges: A:H.461 85R.8: 21 residues within 4Å: Chain B: G.99, N.100, L.101, G.102, T.103, L.105, L.106, V.109, V.110, V.113, F.216, L.353, L.354, Y.357, R.358, M.359, V.360, Q.458, I.459, H.461 Chain D: L.184 19 PLIP interactions: 19 interactions with chain B Hydrophobic interactions: B:L.105, B:L.106, B:V.109, B:V.110, B:V.113, B:F.216, B:L.353, B:L.353, B:Y.357 Hydrogen bonds: B:N.100, B:G.102, B:T.103, B:T.103, B:Y.357, B:R.358, B:M.359, B:V.360, B:I.459 Salt bridges: B:H.461

10 x PGT: (1S)-2-{[{[(2R)-2,3-DIHYDROXYPROPYL]OXY}(HYDROXY)PHOSPHORYL]OXY}-1-[(PALMITOYLOXY)METHYL]ETHYL STEARATE(Non-covalent)

PGT.2: 12 residues within 4Å: Chain A: Q.14, D.15, V.18, I.19, W.22, I.59, V.60, A.63, H.65, S.68, F.69 Ligands: PGT.3 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:Q.14, A:V.18, A:I.19, A:I.59, A:V.60, A:A.63, A:H.65, A:F.69, A:F.69, A:F.69 PGT.3: 9 residues within 4Å: Chain A: I.19, T.70, V.75, L.80, I.310 Ligands: PGT.2, PGT.4, PGT.5, PGT.7 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:I.19, A:V.75, A:L.80 PGT.4: 16 residues within 4Å: Chain A: F.78, Y.79, P.83, L.86, F.252, Y.256, I.273, M.302, L.303, S.306, A.307 Chain B: G.249 Ligands: PGT.3, PGT.5, PGT.6, PGT.7 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:P.83, A:L.86, A:Y.256, A:Y.256, A:I.273, A:L.303 PGT.5: 7 residues within 4Å: Chain A: V.75, Y.79 Ligands: PGT.3, PGT.4, PGT.6, PGT.7, PGT.10 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:V.75, A:Y.79 PGT.6: 12 residues within 4Å: Chain A: Y.79, F.252, I.253, Y.256 Chain B: D.15, P.16, I.19 Ligands: PGT.4, PGT.5, PGT.9, PGT.10, PGT.12 5 PLIP interactions: 2 interactions with chain B, 3 interactions with chain A Hydrophobic interactions: B:D.15, B:I.19, A:F.252, A:Y.256, A:Y.256 PGT.7: 14 residues within 4Å: Chain A: D.15, P.16, I.19, M.302 Chain B: Y.79, F.252, I.253, Y.256, L.303 Ligands: PGT.3, PGT.4, PGT.5, PGT.10, PGT.12 8 PLIP interactions: 5 interactions with chain B, 3 interactions with chain A Hydrophobic interactions: B:Y.79, B:F.252, B:Y.256, B:Y.256, B:L.303, A:D.15, A:P.16, A:I.19 PGT.9: 8 residues within 4Å: Chain B: I.19, V.75, L.80, I.310 Ligands: PGT.6, PGT.10, PGT.11, PGT.12 6 PLIP interactions: 6 interactions with chain B Hydrophobic interactions: B:I.19, B:I.19, B:V.75, B:V.75, B:L.80, B:I.310 PGT.10: 7 residues within 4Å: Chain B: V.75, Y.79 Ligands: PGT.5, PGT.6, PGT.7, PGT.9, PGT.12 3 PLIP interactions: 3 interactions with chain B Hydrophobic interactions: B:V.75, B:Y.79, B:Y.79 PGT.11: 10 residues within 4Å: Chain B: Q.14, D.15, V.18, I.59, V.60, H.65, S.68, F.69, F.314 Ligands: PGT.9 8 PLIP interactions: 8 interactions with chain B Hydrophobic interactions: B:V.18, B:I.59, B:V.60, B:H.65, B:F.69, B:F.69, B:F.69, B:F.314 PGT.12: 13 residues within 4Å: Chain B: Y.79, P.82, P.83, L.86, Y.256, I.273, M.302, L.303, S.306 Ligands: PGT.6, PGT.7, PGT.9, PGT.10 6 PLIP interactions: 6 interactions with chain B Hydrophobic interactions: B:P.82, B:P.83, B:L.86, B:Y.256, B:I.273, B:L.303

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Dong, Y. et al., Structure of a human NHE3-CHP1 complex in the autoinhibited state. Sci Adv (2022)

Release Date

2022-04-20

Peptides

Sodium/hydrogen exchanger 3: AB
Calcineurin B homologous protein 1: CD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

Membrane

We predict this structure to be a membrane protein.
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Sodium/hydrogen exchanger 3

Calcineurin B homologous protein 1