MolNFT v1 · #134776 · protein

Structure of chimeric 02-cc Fab, a VRC01-like germline antibody

5TF1 · 02-cc Fab heavy chain: “Structure of chimeric 02-cc Fab, a VRC01-like germline antibody”. X-ray diffraction, 3 pockets (best druggability 0.50). MolNFT v1 #134776 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 5TF1
Type: protein
Length: 420 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: 02-cc Fab heavy chain; O2-cc Fab light chain
Pockets: 3 · best druggability 0.50

Structure

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

Chain	Molecule	Type	Residues	Secondary structure	UniProt
H	02-cc Fab heavy chain	protein	213	8% helix, 50% strand	—
L	O2-cc Fab light chain	protein	207	7% helix, 51% strand	—

Pockets

3 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	244	0.50	0.75	37	empty
2	96	0.35	0.74	17	empty
3	70	0.32	0.74	11	empty

Interfaces

1 interface between chains.

H–L · 1539 Å² buried · 11 hydrogen bonds · protein-protein

Modifications

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

Compared structures

5TF1 · Structure of chimeric 02-CC Fab, a VRC01-like germline 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 5TF1 · PDBe 5TF1

GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.