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Crystal structure of the Fab fragment of 9E5, a murine monoclonal antibody specific for human epiregulin

Analyse Crystal structure of the Fab fragment of 9E5, a murine monoclonal antibody… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 5AZ2
Type: protein
Length: 433 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Anti-human epiregulin antibody 9E5 Fab heavy chain; Anti-human epiregulin antibody 9E5…
Pockets: 3 · best druggability 0.63

Structure

x-ray diffraction · 2 distinct chains · 7% helix, 52% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
H	Anti-human epiregulin antibody 9E5 Fab heavy chain	protein	220	10% helix, 50% strand	—
L	Anti-human epiregulin antibody 9E5 Fab light chain	protein	213	5% helix, 54% strand	—

Pockets

3 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	583	0.63	0.75	65	empty
2	270	0.55	0.76	44	empty
3	96	0.54	0.85	23	empty

Interfaces

1 interface between chains.

H–L · 1835 Å² buried · 11 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 4 disulfide (disulfide).

Compared structures

5AZ2 · Crystal structure of the Fab fragment of 9E5, a murine monoclonal antibody specific for… · 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 5AZ2 · PDBe 5AZ2

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