MolNFT v1 · #157172 · protein

Vaccine-elicited nhp fp-targeting neutralizing antibody DF1W-A.01 in complex with HIV fusion peptide (residue 512-519)

6MQM · Antibody Fab heavy chain: “Vaccine-elicited nhp fp-targeting neutralizing antibody DF1W-A.01 in complex with HIV fusion peptide (residue…”. X-ray diffraction, 19 pockets (best druggability 0.74). MolNFT v1 #157172 on GenesisL1: 3D…

PDB: 6MQM
Type: protein
Length: 1,784 residues
Chains: 12
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Antibody Fab heavy chain; Antibody Fab light chain; HIV env fusion peptide residue 512-519
Pockets: 19 · best druggability 0.74

Structure

x-ray diffraction · 3 distinct chains · 7% helix, 50% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, D, G, J	Antibody Fab heavy chain	protein	222	7% helix, 50% strand	—
B, E, H, K	Antibody Fab light chain	protein	217	6% helix, 52% strand	—
C, F, I, L	HIV env fusion peptide residue 512-519	protein	7	0% helix, 0% strand	—

Pockets

19 pockets found on a 1 Å grid, 6 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	1156	0.74	0.77	126	empty
2	1099	0.72	0.76	91	empty
3	575	0.61	0.74	59	empty
4	350	0.61	0.78	40	empty
5	364	0.60	0.77	50	empty

Interfaces

23 interfaces between chains.

A–B · 2020 Å² buried · 15 hydrogen bonds · protein-protein
G–H · 1979 Å² buried · 16 hydrogen bonds · protein-protein
J–K · 1967 Å² buried · 18 hydrogen bonds · protein-protein
D–E · 1944 Å² buried · 14 hydrogen bonds · protein-protein
E–G · 437 Å² buried · 2 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 16 disulfide (disulfide).

Compared structures

6MQM · Vaccine-elicited NHP FP-targeting neutralizing antibody DF1W-a.01 in complex with HIV… · the same entry in another collection · chain G against G, 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 6MQM · PDBe 6MQM

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