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Fitting of Fab into the cryoem density MAP of EV71 procapsid in complex with FAB22A12

Analyse Fitting of Fab into the cryoem density MAP of EV71 procapsid 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: 3J93
Type: protein
Length: 434 residues
Chains: 2
Method: electron microscopy
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Neutralizing antibody 22A12, light chain; Neutralizing antibody 22A12, heavy chain
Pockets: 4 · best druggability 0.52

Structure

electron microscopy · 2 distinct chains · 6% helix, 47% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
L	Neutralizing antibody 22A12, light chain	protein	214	6% helix, 50% strand	—
H	Neutralizing antibody 22A12, heavy chain	protein	220	7% helix, 45% strand	—

Pockets

4 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	333	0.52	0.73	48	empty
2	127	0.42	0.75	18	empty
3	60	0.34	0.78	17	empty
4	82	0.31	0.72	19	empty

Interfaces

1 interface between chains.

L–H · 1889 Å² buried · 15 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 4 disulfide (disulfide).

Compared structures

3J93 · Fitting of Fab into the cryoEM density map of EV71 procapsid in complex with Fab22A12 · the same entry in another collection · chain L against L, TM-score 1.00

Analyse

Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
Elsewhere: RCSB PDB 3J93 · PDBe 3J93

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