MolNFT v1 · #179766 · protein

Antibody Fab bdbv-289

7KFG · Antibody Fab bdbv-289 heavy chain: “Antibody Fab bdbv-289”. X-ray diffraction, 5 pockets (best druggability 0.53). MolNFT v1 #179766 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 7KFG
Type: protein
Length: 434 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Antibody Fab bdbv-289 heavy chain; Antibody Fab bdbv-289 light chain
Pockets: 5 · best druggability 0.53

Structure

x-ray diffraction · 2 distinct chains · 4% helix, 52% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Antibody Fab bdbv-289 heavy chain	protein	223	1% helix, 53% strand	—
B	Antibody Fab bdbv-289 light chain	protein	211	6% helix, 51% strand	—

Ligands and binding sites

PEG · Di(hydroxyethyl)ether · additive · 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	360	0.53	0.73	51	PEG
2	115	0.38	0.74	26	empty
3	70	0.34	0.76	18	empty
4	94	0.33	0.73	15	empty
5	55	0.30	0.76	15	empty

Interfaces

1 interface between chains.

A–B · 1893 Å² buried · 16 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 4 disulfide (disulfide).

Compared structures

7KFG · Antibody Fab BDBV-289 · 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 7KFG · PDBe 7KFG

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