SMTL ID : 1zv8.2 (1 other biounit)

A structure-based mechanism of SARS virus membrane fusion

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.94 Å

Oligo State

hetero-3-3-mer

Ligands

1 x CAC: CACODYLATE ION(Non-covalent)

CAC.1: 5 residues within 4Å: Chain A: S.50 Chain B: D.1 Ligands: ZN.2, ACT.4, ZN.5 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:D.1

2 x ZN: ZINC ION(Non-covalent)

ZN.2: 3 residues within 4Å: Chain A: S.50 Chain B: D.1 Ligands: CAC.1 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:S.50 ZN.5: 3 residues within 4Å: Chain B: D.1 Ligands: CAC.1, ACT.4 3 PLIP interactions: 2 Ligand-Water interactions, 1 Ligand-Ligand interactions Metal complexes: H2O.1, H2O.1, ACT.4

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

NA.3: 2 residues within 4Å: Chain A: Q.31, D.32 3 PLIP interactions: 2 interactions with chain A, 1 interactions with chain F Hydrogen bonds: A:Q.31, A:D.32 Water bridges: F:Q.13 NA.6: 1 residues within 4Å: Chain B: D.32 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:D.32 NA.7: 1 residues within 4Å: Chain D: E.28 No protein-ligand interaction detected (PLIP) NA.8: 2 residues within 4Å: Chain E: Q.31, D.32 3 PLIP interactions: 1 interactions with chain D, 2 interactions with chain E Water bridges: D:Q.13 Hydrogen bonds: E:Q.31, E:D.32

1 x ACT: ACETATE ION(Non-functional Binders)

ACT.4: 5 residues within 4Å: Chain A: Q.47 Chain B: D.1, S.3 Ligands: CAC.1, ZN.5 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:D.1, B:S.3

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Deng, Y. et al., Structures and Polymorphic Interactions of Two Heptad-Repeat Regions of the SARS Virus S2 Protein. Structure (2006)

Release Date

2006-05-16

Peptides

E2 glycoprotein: ACE
E2 glycoprotein: BDF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
G

C
I

E
K

B
H

D
J

F
L

E2 glycoprotein

E2 glycoprotein

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