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Humanized antibody C25 Fab fragment

Analyse Humanized antibody C25 Fab fragment in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 2GCY
Type: protein
Length: 434 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: HUC25 Fab fragment light chain; HUC25 Fab fragment heavy chain
Ligands: SO4
Pockets: 5 · best druggability 0.60

Structure

x-ray diffraction · 2 distinct chains · 5% helix, 51% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	HUC25 Fab fragment light chain	protein	216	6% helix, 52% strand	—
B	HUC25 Fab fragment heavy chain	protein	218	4% helix, 50% strand	—

Ligands and binding sites

SO4 · Sulfate ion · ion · 4 copies · chains A, B

Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.

Pockets

5 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	564	0.60	0.73	58	empty
2	109	0.38	0.74	20	empty
3	73	0.31	0.74	21	empty
4	64	0.31	0.75	23	empty
5	58	0.27	0.73	14	empty

Interfaces

1 interface between chains.

A–B · 1808 Å² buried · 16 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 4 disulfide (disulfide).

Compared structures

2GCY · humanized antibody C25 Fab fragment · 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 2GCY · PDBe 2GCY

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