Research workbench

Fab fragment of engineered human monoclonal antibody A5B7

Analyse Fab fragment of engineered human monoclonal antibody A5B7 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 1AD0
Type: protein
Length: 866 residues
Chains: 4
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Antibody A5B7 (light chain); Antibody A5B7 (heavy chain)
Pockets: 11 · best druggability 0.61

Structure

x-ray diffraction · 2 distinct chains · 6% helix, 53% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, C	Antibody A5B7 (light chain)	protein	213	5% helix, 54% strand	—
B, D	Antibody A5B7 (heavy chain)	protein	220	7% helix, 51% strand	—

Pockets

11 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	610	0.61	0.73	65	empty
2	536	0.60	0.74	55	empty
3	53	0.47	0.86	22	empty
4	99	0.44	0.79	19	empty
5	107	0.43	0.77	22	empty

Interfaces

3 interfaces between chains.

A–B · 1870 Å² buried · 14 hydrogen bonds · protein-protein
C–D · 1866 Å² buried · 15 hydrogen bonds · protein-protein
B–C · 328 Å² buried · 7 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 10 disulfide (disulfide).

Compared structures

1AD0 · Fab fragment of engineered human monoclonal antibody A5B7 · the same entry in another collection · chain A against A, 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 1AD0 · PDBe 1AD0

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