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Cryo-EM structure of dengue virus serotype 1 strain westpac 74 in complex with human antibody 1C19 Fab at 37 deg C (class 2 particle)

Analyse Cryo-EM structure of dengue virus serotype 1 strain westpac 74 in complex with… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 7DWU
Type: protein
Length: 1,408 residues
Chains: 5
Method: electron microscopy
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Envelope protein; Anti-dengue virus human monoclonal antibody 1C19 Fab heavy chain…
Pockets: 2 · best druggability 0.52

Structure

electron microscopy · 3 distinct chains · 0% helix, 0% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B, C	Envelope protein	protein	394	0% helix, 0% strand	—
H	Anti-dengue virus human monoclonal antibody 1C19 Fab heavy chain	protein	120	0% helix, 0% strand	—
L	Anti-dengue virus human monoclonal antibody 1C19 Fab light chain	protein	106	0% helix, 0% strand	—

Pockets

2 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	259	0.52	0.73	44	empty
2	69	0.31	0.72	18	empty

Interfaces

5 interfaces between chains.

A–C · 302 Å² buried · 0 hydrogen bonds · protein-protein
A–L · 195 Å² buried · 0 hydrogen bonds · protein-protein
A–B · 158 Å² buried · 0 hydrogen bonds · protein-protein
H–L · 70 Å² buried · 0 hydrogen bonds · protein-protein
C–L · 41 Å² buried · 0 hydrogen bonds · protein-protein

Compared structures

7DWU · Cryo-EM structure of Dengue virus serotype 1 strain WestPac 74 in complex with human… · the same entry in another collection · chain A against A, TM-score 1.00

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Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
Elsewhere: RCSB PDB 7DWU · PDBe 7DWU

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