MolNFT v1 · #108634 · protein

Fab fragment of mouse AZ130 monoclonal antibody

4WCY · AZ130 heavy chain: “Fab fragment of mouse AZ130 monoclonal antibody”. X-ray diffraction, 1 ligand (SO4), 4 pockets (best druggability 0.66). MolNFT v1 #108634 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 4WCY
Type: protein
Length: 427 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: AZ130 heavy chain; AZ130 light chain
Ligands: SO4
Pockets: 4 · best druggability 0.66

Structure

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

Chain	Molecule	Type	Residues	Secondary structure	UniProt
H	AZ130 heavy chain	protein	210	6% helix, 54% strand	—
L	AZ130 light chain	protein	217	6% helix, 53% strand	—

Ligands and binding sites

SO4 · Sulfate ion · ion · chains H
GOL · Glycerol · additive · 3 copies · chains H, L

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

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	676	0.66	0.75	58	GOL
2	77	0.53	0.86	22	empty
3	96	0.35	0.74	17	empty
4	74	0.31	0.73	17	empty

Interfaces

1 interface between chains.

H–L · 1735 Å² buried · 16 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 4 disulfide (disulfide).

Compared structures

4WCY · Fab fragment of mouse AZ130 monoclonal antibody · 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 4WCY · PDBe 4WCY

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