SMTL ID : 6c1e.1

NavAb NormoPP mutant

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.86 Å

Oligo State

homo-tetramer

Ligands

36 x PX4: 1,2-DIMYRISTOYL-SN-GLYCERO-3-PHOSPHOCHOLINE(Non-covalent)(Non-functional Binders)

PX4.1: 16 residues within 4Å: Chain A: T.156, Y.160, T.180, L.181, G.182 Chain D: I.40, G.44, I.45, G.48, L.49, S.52, K.53, T.54, L.124 Ligands: PX4.5, PX4.12 Ligand excluded by PLIP PX4.2: 14 residues within 4Å: Chain A: F.162, M.165, L.169, R.173, V.208, Y.209, Y.211, A.212, V.214, F.215, P.218 Chain D: I.115, L.122 Ligands: PX4.37 Ligand excluded by PLIP PX4.3: 9 residues within 4Å: Chain A: F.221, T.224, F.225 Chain D: M.148, F.189, M.192, T.193 Ligands: PX4.34, PX4.39 Ligand excluded by PLIP PX4.4: 2 residues within 4Å: Chain A: T.54 Ligands: PX4.9 Ligand excluded by PLIP PX4.5: 5 residues within 4Å: Chain A: S.150 Chain D: V.41, Q.133, M.134 Ligands: PX4.1 Ligand excluded by PLIP PX4.6: 4 residues within 4Å: Chain A: F.113 Chain B: Y.211 Ligands: PX4.13, PX4.15 Ligand excluded by PLIP PX4.7: 9 residues within 4Å: Chain A: P.93, W.94, F.97, F.125, V.138, S.139, I.142 Chain B: L.154, F.158 Ligand excluded by PLIP PX4.9: 17 residues within 4Å: Chain A: V.41, G.44, I.45, G.48, L.49, S.52, K.53, T.54, L.124 Chain B: T.156, L.157, Y.160, T.180, L.181, G.182 Ligands: PX4.4, PX4.14 Ligand excluded by PLIP PX4.10: 11 residues within 4Å: Chain A: M.148, F.189, M.192, T.193, L.194, M.227 Chain B: F.221, V.222, T.224, F.225 Ligands: PX4.12 Ligand excluded by PLIP PX4.11: 6 residues within 4Å: Chain A: V.41, Q.133, M.134 Chain B: P.146, S.150 Ligands: BNC.8 Ligand excluded by PLIP PX4.12: 17 residues within 4Å: Chain A: M.155, T.156, F.159, G.182, E.183, F.185, Y.186, F.189, M.227 Chain B: M.206, P.210, W.213, I.217, F.221 Ligands: PX4.1, PX4.10, PX4.13 Ligand excluded by PLIP PX4.13: 3 residues within 4Å: Chain B: Y.211 Ligands: PX4.6, PX4.12 Ligand excluded by PLIP PX4.14: 15 residues within 4Å: Chain B: M.155, F.159, G.182, E.183, F.185, Y.186, F.189, M.227 Chain C: M.206, P.210, W.213, F.221 Ligands: PX4.9, PX4.18, PX4.23 Ligand excluded by PLIP PX4.15: 12 residues within 4Å: Chain A: I.115, L.119 Chain B: F.162, L.169, F.170, R.173, V.208, Y.209, Y.211, A.212, V.214 Ligands: PX4.6 Ligand excluded by PLIP PX4.16: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP PX4.17: 4 residues within 4Å: Chain B: F.113 Chain C: Y.211 Ligands: PX4.18, PX4.22 Ligand excluded by PLIP PX4.18: 3 residues within 4Å: Chain C: Y.211 Ligands: PX4.14, PX4.17 Ligand excluded by PLIP PX4.19: 11 residues within 4Å: Chain B: P.93, W.94, F.97, F.125, V.138, S.139, I.142 Chain C: L.154, F.158, V.222 Ligands: PX4.23 Ligand excluded by PLIP PX4.21: 16 residues within 4Å: Chain B: I.40, G.44, I.45, G.48, L.49, S.52, K.53, T.54, L.124 Chain C: T.156, Y.160, T.180, L.181, G.182 Ligands: PX4.25, PX4.32 Ligand excluded by PLIP PX4.22: 14 residues within 4Å: Chain B: I.115, L.122 Chain C: F.162, M.165, L.169, R.173, V.208, Y.209, Y.211, A.212, V.214, F.215, P.218 Ligands: PX4.17 Ligand excluded by PLIP PX4.23: 9 residues within 4Å: Chain B: M.148, F.189, M.192, T.193 Chain C: F.221, T.224, F.225 Ligands: PX4.14, PX4.19 Ligand excluded by PLIP PX4.24: 2 residues within 4Å: Chain C: T.54 Ligands: PX4.29 Ligand excluded by PLIP PX4.25: 5 residues within 4Å: Chain B: V.41, Q.133, M.134 Chain C: S.150 Ligands: PX4.21 Ligand excluded by PLIP PX4.26: 4 residues within 4Å: Chain C: F.113 Chain D: Y.211 Ligands: PX4.33, PX4.35 Ligand excluded by PLIP PX4.27: 9 residues within 4Å: Chain C: P.93, W.94, F.97, F.125, V.138, S.139, I.142 Chain D: L.154, F.158 Ligand excluded by PLIP PX4.29: 17 residues within 4Å: Chain C: V.41, G.44, I.45, G.48, L.49, S.52, K.53, T.54, L.124 Chain D: T.156, L.157, Y.160, T.180, L.181, G.182 Ligands: PX4.24, PX4.34 Ligand excluded by PLIP PX4.30: 11 residues within 4Å: Chain C: M.148, F.189, M.192, T.193, L.194, M.227 Chain D: F.221, V.222, T.224, F.225 Ligands: PX4.32 Ligand excluded by PLIP PX4.31: 6 residues within 4Å: Chain C: V.41, Q.133, M.134 Chain D: P.146, S.150 Ligands: BNC.28 Ligand excluded by PLIP PX4.32: 17 residues within 4Å: Chain C: M.155, T.156, F.159, G.182, E.183, F.185, Y.186, F.189, M.227 Chain D: M.206, P.210, W.213, I.217, F.221 Ligands: PX4.21, PX4.30, PX4.33 Ligand excluded by PLIP PX4.33: 3 residues within 4Å: Chain D: Y.211 Ligands: PX4.26, PX4.32 Ligand excluded by PLIP PX4.34: 15 residues within 4Å: Chain A: M.206, P.210, W.213, F.221 Chain D: M.155, F.159, G.182, E.183, F.185, Y.186, F.189, M.227 Ligands: PX4.3, PX4.29, PX4.38 Ligand excluded by PLIP PX4.35: 12 residues within 4Å: Chain C: I.115, L.119 Chain D: F.162, L.169, F.170, R.173, V.208, Y.209, Y.211, A.212, V.214 Ligands: PX4.26 Ligand excluded by PLIP PX4.36: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP PX4.37: 4 residues within 4Å: Chain A: Y.211 Chain D: F.113 Ligands: PX4.2, PX4.38 Ligand excluded by PLIP PX4.38: 3 residues within 4Å: Chain A: Y.211 Ligands: PX4.34, PX4.37 Ligand excluded by PLIP PX4.39: 11 residues within 4Å: Chain A: L.154, F.158, V.222 Chain D: P.93, W.94, F.97, F.125, V.138, S.139, I.142 Ligands: PX4.3 Ligand excluded by PLIP

2 x BNC: 5-BETA-24-NOR-CHOLANE-3(ALPHA),7(ALPHA),12(ALPHA)-TRIOL(Non-covalent)

BNC.8: 7 residues within 4Å: Chain A: T.33, K.34, I.37, V.131, P.132, Q.133 Ligands: PX4.11 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:V.131 Hydrogen bonds: A:Q.133 BNC.28: 7 residues within 4Å: Chain C: T.33, K.34, I.37, V.131, P.132, Q.133 Ligands: PX4.31 2 PLIP interactions: 2 interactions with chain C Hydrophobic interactions: C:V.131 Hydrogen bonds: C:Q.133

2 x UHH: (3ALPHA,5ALPHA,7ALPHA,8ALPHA,12ALPHA,14BETA,17ALPHA)-3,7,12-TRIHYDROXYCHOL-1-EN-24-AMIDE(Non-covalent)

UHH.20: 7 residues within 4Å: Chain B: S.29, S.30, T.33, K.34, I.37, P.132, Q.133 3 PLIP interactions: 3 interactions with chain B Hydrophobic interactions: B:T.33 Hydrogen bonds: B:T.33, B:Q.133 UHH.40: 7 residues within 4Å: Chain D: S.29, S.30, T.33, K.34, I.37, P.132, Q.133 3 PLIP interactions: 3 interactions with chain D Hydrophobic interactions: D:T.33 Hydrogen bonds: D:T.33, D:Q.133

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Jiang, D. et al., Structural basis for gating pore current in periodic paralysis. Nature (2018)

Release Date

2018-05-16

Peptides

Ion transport protein: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

Membrane

We predict this structure to be a membrane protein.
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Ion transport protein