SMTL ID : 5joo.1

XFEL structure of influenza A M2 wild type TM domain at low pH in the lipidic cubic phase at room temperature

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.41 Å

Oligo State

homo-tetramer

Ligands

8 x CA: CALCIUM ION(Non-covalent)

CA.1: 2 residues within 4Å: Chain A: D.4, P.5 3 PLIP interactions: 1 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.4, H2O.1, H2O.1 CA.3: 11 residues within 4Å: Chain A: S.2, S.3 Chain B: S.2, S.3 Chain C: S.2, S.3 Chain D: S.2, S.3 Ligands: CA.6, CA.9, CA.12 5 PLIP interactions: 1 interactions with chain B, 1 interactions with chain D, 1 interactions with chain C, 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: B:S.2, D:S.2, C:S.2, A:S.2, H2O.2 CA.4: 2 residues within 4Å: Chain B: D.4, P.5 3 PLIP interactions: 1 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:D.4, H2O.2, H2O.2 CA.6: 11 residues within 4Å: Chain A: S.2, S.3 Chain B: S.2, S.3 Chain C: S.2, S.3 Chain D: S.2, S.3 Ligands: CA.3, CA.9, CA.12 5 PLIP interactions: 1 interactions with chain B, 1 interactions with chain D, 1 interactions with chain C, 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: B:S.2, D:S.2, C:S.2, A:S.2, H2O.1 CA.7: 2 residues within 4Å: Chain C: D.4, P.5 3 PLIP interactions: 1 interactions with chain C, 2 Ligand-Water interactions Metal complexes: C:D.4, H2O.2, H2O.3 CA.9: 11 residues within 4Å: Chain A: S.2, S.3 Chain B: S.2, S.3 Chain C: S.2, S.3 Chain D: S.2, S.3 Ligands: CA.3, CA.6, CA.12 5 PLIP interactions: 1 interactions with chain B, 1 interactions with chain D, 1 interactions with chain C, 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: B:S.2, D:S.2, C:S.2, A:S.2, H2O.4 CA.10: 2 residues within 4Å: Chain D: D.4, P.5 3 PLIP interactions: 1 interactions with chain D, 2 Ligand-Water interactions Metal complexes: D:D.4, H2O.3, H2O.4 CA.12: 11 residues within 4Å: Chain A: S.2, S.3 Chain B: S.2, S.3 Chain C: S.2, S.3 Chain D: S.2, S.3 Ligands: CA.3, CA.6, CA.9 5 PLIP interactions: 1 interactions with chain B, 1 interactions with chain D, 1 interactions with chain C, 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: B:S.2, D:S.2, C:S.2, A:S.2, H2O.3

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

CL.2: 11 residues within 4Å: Chain A: S.3, V.7 Chain B: S.3, V.7 Chain C: S.3, V.7 Chain D: S.3, V.7 Ligands: CL.5, CL.8, CL.11 Ligand excluded by PLIP CL.5: 11 residues within 4Å: Chain A: S.3, V.7 Chain B: S.3, V.7 Chain C: S.3, V.7 Chain D: S.3, V.7 Ligands: CL.2, CL.8, CL.11 Ligand excluded by PLIP CL.8: 11 residues within 4Å: Chain A: S.3, V.7 Chain B: S.3, V.7 Chain C: S.3, V.7 Chain D: S.3, V.7 Ligands: CL.2, CL.5, CL.11 Ligand excluded by PLIP CL.11: 11 residues within 4Å: Chain A: S.3, V.7 Chain B: S.3, V.7 Chain C: S.3, V.7 Chain D: S.3, V.7 Ligands: CL.2, CL.5, CL.8 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Thomaston, J.L. et al., XFEL structures of the influenza M2 proton channel: Room temperature water networks and insights into proton conduction. Proc. Natl. Acad. Sci. U.S.A. (2017)

Release Date

2017-08-02

Peptides

Matrix protein 2: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

D
A

Membrane

We predict this structure to be a membrane protein.
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Matrix protein 2

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