SMTL ID : 6swr.1

Crystal structure of the lysosomal potassium channel MtTMEM175 T38A mutant soaked with zinc

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.20 Å

Oligo State

hetero-4-4-mer

Ligands

4 x GLC- GLC: alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose(Non-covalent)

GLC-GLC.1: 17 residues within 4Å: Chain A: N.129, D.131, K.132, E.161, W.179, A.180, D.182, R.183, E.228, E.270, P.271, Y.272, F.273, W.347, M.447, W.457, R.461 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:W.179, A:D.182, A:D.182, A:R.183, A:R.183, A:E.270, A:Y.272, A:R.461 GLC-GLC.2: 17 residues within 4Å: Chain C: N.129, D.131, K.132, E.161, W.179, A.180, D.182, R.183, E.228, E.270, P.271, Y.272, F.273, W.347, M.447, W.457, R.461 9 PLIP interactions: 9 interactions with chain C Hydrogen bonds: C:W.179, C:D.182, C:D.182, C:R.183, C:R.183, C:E.270, C:E.270, C:Y.272, C:R.461 GLC-GLC.6: 17 residues within 4Å: Chain E: N.129, D.131, K.132, E.161, W.179, A.180, D.182, R.183, E.228, E.270, P.271, Y.272, F.273, W.347, M.447, W.457, R.461 9 PLIP interactions: 9 interactions with chain E Hydrogen bonds: E:W.179, E:D.182, E:D.182, E:R.183, E:R.183, E:E.270, E:E.270, E:Y.272, E:R.461 GLC-GLC.7: 17 residues within 4Å: Chain G: N.129, D.131, K.132, E.161, W.179, A.180, D.182, R.183, E.228, E.270, P.271, Y.272, F.273, W.347, M.447, W.457, R.461 8 PLIP interactions: 8 interactions with chain G Hydrogen bonds: G:W.179, G:D.182, G:D.182, G:R.183, G:R.183, G:E.270, G:Y.272, G:R.461

4 x LMT: DODECYL-BETA-D-MALTOSIDE(Non-covalent)

LMT.3: 17 residues within 4Å: Chain B: S.45, T.46, A.56, S.57, R.59, D.60, I.62, P.63, R.115, S.118, E.119, G.122, I.127, I.128, R.134, F.135 Chain D: E.49 7 PLIP interactions: 7 interactions with chain B Hydrophobic interactions: B:E.119 Hydrogen bonds: B:T.46, B:E.119, B:R.134 Salt bridges: B:R.59, B:R.115, B:R.134 LMT.5: 21 residues within 4Å: Chain D: S.45, T.46, P.48, D.53, A.56, S.57, R.59, D.60, I.62, P.63, K.111, R.115, S.118, E.119, G.122, I.127, I.128, R.134, F.135 Chain F: I.47, E.49 9 PLIP interactions: 9 interactions with chain D Hydrophobic interactions: D:I.128 Hydrogen bonds: D:T.46, D:T.46, D:R.115, D:E.119, D:R.134 Salt bridges: D:R.59, D:R.115, D:R.134 LMT.8: 17 residues within 4Å: Chain F: S.45, T.46, A.56, S.57, R.59, D.60, I.62, P.63, R.115, S.118, E.119, G.122, I.127, I.128, R.134, F.135 Chain H: E.49 6 PLIP interactions: 6 interactions with chain F Hydrophobic interactions: F:E.119 Hydrogen bonds: F:T.46, F:R.134 Salt bridges: F:R.59, F:R.115, F:R.134 LMT.10: 21 residues within 4Å: Chain B: I.47, E.49 Chain H: S.45, T.46, P.48, D.53, A.56, S.57, R.59, D.60, I.62, P.63, K.111, R.115, S.118, E.119, G.122, I.127, I.128, R.134, F.135 8 PLIP interactions: 8 interactions with chain H Hydrophobic interactions: H:I.128 Hydrogen bonds: H:T.46, H:T.46, H:R.115, H:R.134 Salt bridges: H:R.59, H:R.115, H:R.134

2 x K: POTASSIUM ION(Non-functional Binders)

K.4: 1 residues within 4Å: Ligands: K.9 No protein-ligand interaction detected (PLIP) K.9: 1 residues within 4Å: Ligands: K.4 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Brunner, J.D. et al., Structural basis for ion selectivity in TMEM175 K + channels. Elife (2020)

Release Date

2020-04-15

Peptides

Nanobody, Maltose/maltodextrin-binding periplasmic protein,Maltodextrin-binding protein,Maltose/maltodextrin-binding periplasmic protein: ACEG
Uncharacterized protein: BDFH

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
D

E
A

G
D

B
B

D
E

F
B

H
E

Membrane

We predict this structure to be a membrane protein.
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Nanobody, Maltose/maltodextrin-binding periplasmic protein,Maltodextrin-binding protein,Maltose/maltodextrin-binding periplasmic protein

Uncharacterized protein

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