MolNFT v1 · #135870 · protein

Fab structure of anti-HIV-1 GP120 mab 1A8

5UBY · Heavy chain of Fab fragment of anti-HIV1 GP120 mab 1A8: “Fab structure of anti-HIV-1 GP120 mab 1A8”. X-ray diffraction, 4 pockets (best druggability 0.66). MolNFT v1 #135870 on GenesisL1: 3D structure, binding sites and pockets in…

PDB: 5UBY
Type: protein
Length: 439 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Heavy chain of Fab fragment of anti-HIV1 GP120 mab 1A8; Light chain of Fab fragment of…
Pockets: 4 · best druggability 0.66

Structure

x-ray diffraction · 2 distinct chains · 7% helix, 48% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
H	Heavy chain of Fab fragment of anti-HIV1 GP120 mab 1A8	protein	228	6% helix, 50% strand	—
L	Light chain of Fab fragment of anti-HIV1 GP120 mab 1A8	protein	211	8% helix, 45% strand	—

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	610	0.66	0.76	57	empty
2	384	0.63	0.78	54	empty
3	82	0.36	0.76	22	empty
4	75	0.34	0.76	16	empty

Interfaces

1 interface between chains.

H–L · 1842 Å² buried · 16 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 4 disulfide (disulfide).

Compared structures

5UBY · Fab structure of anti-HIV-1 gp120 mAb 1A8 · 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 5UBY · PDBe 5UBY

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