MolNFT v1 · #144122 · protein

Crystal structure of the Fab fragment of humanized 5C8 antibody containing the fluorescent non-canonical amino acid L-(7- hydroxycoumarin-4-YL)ETHYLGLYCINE at pH 5.5

6BJZ · 5C8 Fab heavy chain: “Crystal structure of the Fab fragment of humanized 5C8 antibody containing the fluorescent non-canonical…”. X-ray diffraction, 3 pockets (best druggability 0.65). MolNFT v1 #144122 on GenesisL1: 3D structure…

PDB: 6BJZ
Type: protein
Length: 440 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: 5C8 Fab heavy chain; 5C8 Fab light chain
Pockets: 3 · best druggability 0.65

Structure

x-ray diffraction · 2 distinct chains · 7% helix, 50% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
H	5C8 Fab heavy chain	protein	225	8% helix, 48% strand	—
L	5C8 Fab light chain	protein	215	6% helix, 51% strand	—

Pockets

3 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	0.65	0.75	66	empty
2	62	0.52	0.87	20	empty
3	180	0.45	0.74	31	empty

Interfaces

1 interface between chains.

H–L · 1827 Å² buried · 17 hydrogen bonds · protein-protein

Modifications

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

Compared structures

6BJZ · Crystal Structure of the Fab fragment of humanized 5c8 antibody containing the… · 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 6BJZ · PDBe 6BJZ

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