SMTL ID : 8jc7.1

Cryo-EM structure of Vibrio campbellii alpha-hemolysin

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

homo-heptamer

Ligands

7 x K: POTASSIUM ION(Non-covalent)

K.1: 3 residues within 4Å: Chain A: R.280, W.315 Chain G: R.280 No protein-ligand interaction detected (PLIP) K.3: 3 residues within 4Å: Chain A: R.280 Chain B: R.280, W.315 No protein-ligand interaction detected (PLIP) K.5: 3 residues within 4Å: Chain B: R.280 Chain C: R.280, W.315 No protein-ligand interaction detected (PLIP) K.7: 3 residues within 4Å: Chain C: R.280 Chain D: R.280, W.315 No protein-ligand interaction detected (PLIP) K.9: 3 residues within 4Å: Chain D: R.280 Chain E: R.280, W.315 No protein-ligand interaction detected (PLIP) K.11: 3 residues within 4Å: Chain E: R.280 Chain F: R.280, W.315 No protein-ligand interaction detected (PLIP) K.13: 3 residues within 4Å: Chain F: R.280 Chain G: R.280, W.315 No protein-ligand interaction detected (PLIP)

7 x CA: CALCIUM ION(Non-covalent)

CA.2: 2 residues within 4Å: Chain A: H.138, E.186 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:H.138, A:E.186, H2O.3, H2O.3, H2O.4 CA.4: 2 residues within 4Å: Chain B: H.138, E.186 5 PLIP interactions: 2 interactions with chain B, 3 Ligand-Water interactions Metal complexes: B:H.138, B:E.186, H2O.7, H2O.7, H2O.7 CA.6: 2 residues within 4Å: Chain C: H.138, E.186 5 PLIP interactions: 2 interactions with chain C, 3 Ligand-Water interactions Metal complexes: C:H.138, C:E.186, H2O.10, H2O.10, H2O.10 CA.8: 2 residues within 4Å: Chain D: H.138, E.186 5 PLIP interactions: 2 interactions with chain D, 3 Ligand-Water interactions Metal complexes: D:H.138, D:E.186, H2O.13, H2O.13, H2O.13 CA.10: 2 residues within 4Å: Chain E: H.138, E.186 5 PLIP interactions: 2 interactions with chain E, 3 Ligand-Water interactions Metal complexes: E:H.138, E:E.186, H2O.16, H2O.17, H2O.17 CA.12: 2 residues within 4Å: Chain F: H.138, E.186 5 PLIP interactions: 2 interactions with chain F, 3 Ligand-Water interactions Metal complexes: F:H.138, F:E.186, H2O.20, H2O.20, H2O.20 CA.14: 2 residues within 4Å: Chain G: H.138, E.186 5 PLIP interactions: 2 interactions with chain G, 3 Ligand-Water interactions Metal complexes: G:H.138, G:E.186, H2O.23, H2O.23, H2O.23

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Chiu, Y.C. et al., Structural basis for calcium-stimulating pore formation of Vibrio alpha-hemolysin. Nat Commun (2023)

Release Date

2023-09-27

Peptides

Hemolysin: ABCDEFG

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

F
F

G
G

Membrane

We predict this structure to be a membrane protein.
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Hemolysin

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