SMTL ID : 3uu8.1

The GLIC pentameric Ligand-Gated Ion Channel Loop2-24' mutant reduced in solution

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.25 Å

Oligo State

homo-pentamer

Ligands

15 x PLC: DIUNDECYL PHOSPHATIDYL CHOLINE(Non-covalent)(Non-functional Binders)

PLC.1: 5 residues within 4Å: Chain A: F.125, Y.198, I.206, Y.258, N.311 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:F.125, A:F.125, A:F.125, A:Y.198, A:I.206, A:Y.258 PLC.2: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) PLC.3: 5 residues within 4Å: Chain A: I.275, T.278, V.279, Y.282 Chain E: W.221 6 PLIP interactions: 3 interactions with chain A, 3 interactions with chain E Hydrophobic interactions: A:T.278, A:V.279, A:Y.282, E:W.221, E:W.221, E:W.221 PLC.4: 3 residues within 4Å: Chain A: W.221 Chain B: T.278, Y.282 4 PLIP interactions: 2 interactions with chain B, 2 interactions with chain A Hydrophobic interactions: B:T.278, B:Y.282, A:W.221, A:W.221 PLC.8: 7 residues within 4Å: Chain B: F.125, Y.198, I.206, Y.258, I.262, N.311, F.319 7 PLIP interactions: 7 interactions with chain B Hydrophobic interactions: B:F.125, B:F.125, B:F.125, B:Y.198, B:I.206, B:Y.258, B:I.262 PLC.9: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) PLC.13: 7 residues within 4Å: Chain C: R.122, F.125, Y.198, I.206, Y.258, N.311, F.319 5 PLIP interactions: 5 interactions with chain C Hydrophobic interactions: C:F.125, C:F.125, C:Y.198, C:I.206, C:Y.258 PLC.14: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) PLC.15: 2 residues within 4Å: Chain C: W.221 Chain D: Y.282 4 PLIP interactions: 3 interactions with chain C, 1 interactions with chain D Hydrophobic interactions: C:W.221, C:W.221, C:W.221, D:Y.282 PLC.16: 4 residues within 4Å: Chain B: W.221 Chain C: I.275, V.279, Y.282 7 PLIP interactions: 4 interactions with chain C, 3 interactions with chain B Hydrophobic interactions: C:I.275, C:V.279, C:Y.282, C:Y.282, B:W.221, B:W.221, B:W.221 PLC.19: 8 residues within 4Å: Chain D: R.122, F.125, Y.198, I.206, Y.258, I.262, N.311, F.319 7 PLIP interactions: 7 interactions with chain D Hydrophobic interactions: D:F.125, D:F.125, D:F.125, D:Y.198, D:I.206, D:Y.258, D:I.262 PLC.20: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) PLC.21: 4 residues within 4Å: Chain D: W.221 Chain E: I.275, T.278, Y.282 7 PLIP interactions: 4 interactions with chain E, 3 interactions with chain D Hydrophobic interactions: E:I.275, E:T.278, E:Y.282, E:Y.282, D:W.221, D:W.221, D:W.221 PLC.24: 6 residues within 4Å: Chain E: F.125, Y.198, I.206, L.210, Y.258, N.311 5 PLIP interactions: 5 interactions with chain E Hydrophobic interactions: E:F.125, E:F.125, E:I.206, E:L.210, E:Y.258 PLC.25: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP)

5 x CL: CHLORIDE ION(Non-functional Binders)

CL.5: 3 residues within 4Å: Chain A: F.82, V.85, R.89 Ligand excluded by PLIP CL.10: 3 residues within 4Å: Chain B: F.82, V.85, R.89 Ligand excluded by PLIP CL.17: 3 residues within 4Å: Chain C: R.81, F.82, V.85 Ligand excluded by PLIP CL.22: 2 residues within 4Å: Chain D: F.82, V.85 Ligand excluded by PLIP CL.26: 2 residues within 4Å: Chain E: R.81, F.82 Ligand excluded by PLIP

6 x LMT: DODECYL-BETA-D-MALTOSIDE(Non-covalent)(Non-functional Binders)

LMT.6: 6 residues within 4Å: Chain A: A.241, I.244, T.248 Chain E: A.241 Ligands: LMT.11, LMT.12 3 PLIP interactions: 1 interactions with chain E, 2 interactions with chain A Hydrophobic interactions: E:A.241, A:A.241, A:I.244 LMT.11: 4 residues within 4Å: Chain A: A.241 Chain B: A.241 Ligands: LMT.6, LMT.12 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:A.241 LMT.12: 4 residues within 4Å: Ligands: LMT.6, LMT.11, LMT.18, LMT.27 No protein-ligand interaction detected (PLIP) LMT.18: 4 residues within 4Å: Chain B: A.241 Chain C: A.241, I.244 Ligands: LMT.12 4 PLIP interactions: 1 interactions with chain B, 3 interactions with chain C Hydrophobic interactions: B:A.241, C:A.241, C:I.244, C:I.244 LMT.23: 5 residues within 4Å: Chain C: A.241 Chain D: A.241, I.244, L.245, T.248 3 PLIP interactions: 1 interactions with chain C, 2 interactions with chain D Hydrophobic interactions: C:A.241, D:I.244, D:I.244 LMT.27: 6 residues within 4Å: Chain D: A.241 Chain E: I.237, A.241, I.244, T.248 Ligands: LMT.12 4 PLIP interactions: 3 interactions with chain E, 1 interactions with chain D Hydrophobic interactions: E:I.237, E:A.241, E:I.244, D:A.241

1 x NA: SODIUM ION(Non-functional Binders)

NA.7: 0 residues within 4Å: (No contacts) 3 PLIP interactions: 2 interactions with chain D, 1 interactions with chain C Hydrogen bonds: D:T.230, D:T.230, C:T.230

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Prevost, M.S. et al., A locally closed conformation of a bacterial pentameric proton-gated ion channel. Nat.Struct.Mol.Biol. (2012)

Release Date

2012-05-16

Peptides

Glr4197 protein: ABCDE

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

Membrane

We predict this structure to be a membrane protein.
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Glr4197 protein

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