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Crystal structure of anti- SARS-cov human neutralizing S230 antibody Fab fragment

Analyse Crystal structure of anti- SARS-cov human neutralizing S230 antibody Fab… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 6NB8
Type: protein
Length: 449 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: S230 antigen-binding (Fab) fragment, heavy chain; S230 antigen-binding (Fab) fragment…
Pockets: 4 · best druggability 0.66

Structure

x-ray diffraction · 2 distinct chains · 8% helix, 50% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
H	S230 antigen-binding (Fab) fragment, heavy chain	protein	230	10% helix, 49% strand	—
L	S230 antigen-binding (Fab) fragment, light chain	protein	219	5% helix, 51% strand	—

Pockets

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

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	710	0.66	0.75	67	empty
2	61	0.51	0.87	21	empty
3	67	0.33	0.76	20	empty
4	64	0.27	0.73	17	empty

Interfaces

1 interface between chains.

H–L · 2108 Å² buried · 21 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 5 disulfide (disulfide).

Compared structures

6NB8 · Crystal structure of anti- SARS-CoV human neutralizing S230 antibody Fab fragment · the same entry in another collection · chain H against H, 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 6NB8 · PDBe 6NB8

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