MolNFT v1 · #135871 · protein

Fab structure of HIV GP120 specific mab 1E12

5UBZ · Anti-HIV1 GP120 mab 1E12 Fab heavy chain: “Fab structure of HIV GP120 specific mab 1E12”. X-ray diffraction, 3 pockets (best druggability 0.56). MolNFT v1 #135871 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 5UBZ
Type: protein
Length: 435 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Anti-HIV1 GP120 mab 1E12 Fab heavy chain; Anti-HIV1 GP120 mab 1E12 Fab light chain
Pockets: 3 · best druggability 0.56

Structure

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

Chain	Molecule	Type	Residues	Secondary structure	UniProt
H	Anti-HIV1 GP120 mab 1E12 Fab heavy chain	protein	222	8% helix, 50% strand	—
L	Anti-HIV1 GP120 mab 1E12 Fab light chain	protein	213	6% helix, 46% strand	—

Pockets

3 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	374	0.56	0.74	40	empty
2	84	0.36	0.76	20	empty
3	64	0.28	0.73	21	empty

Interfaces

1 interface between chains.

H–L · 1708 Å² buried · 18 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 4 disulfide (disulfide).

Compared structures

5UBZ · Fab structure of HIV gp120 specific mAb 1E12 · 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 5UBZ · PDBe 5UBZ

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