Research workbench

Anti NEUGCGM3 ganglioside chimeric antibody CHP3

Analyse Anti NEUGCGM3 ganglioside chimeric antibody CHP3 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 3IU4
Type: protein
Length: 429 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: CHP3 Fab heavy chain; CHP3 Fab light chain
Ligands: SO4
Pockets: 3 · best druggability 0.68

Structure

x-ray diffraction · 2 distinct chains · 8% helix, 51% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
H	CHP3 Fab heavy chain	protein	216	10% helix, 52% strand	—
L	CHP3 Fab light chain	protein	213	7% helix, 50% strand	—

Ligands and binding sites

SO4 · Sulfate ion · ion · 5 copies · chains H, L

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

Pockets

3 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	745	0.68	0.75	69	empty
2	175	0.44	0.74	33	empty
3	59	0.26	0.72	14	empty

Interfaces

1 interface between chains.

H–L · 1708 Å² buried · 14 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 4 disulfide, 1 modified (disulfide, cyclization).

Compared structures

3IU4 · anti NeuGcGM3 ganglioside chimeric antibody chP3 · 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 3IU4 · PDBe 3IU4

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