MolNFT v1 · #3056 · protein

Anti-P24 (HIV-1) Fab fragment CB41 complexed with an epitope-unrelated D-peptide

1CFT · Protein (IGG2A kappa antibody CB41 (light chain) ): “Anti-P24 (HIV-1) Fab fragment CB41 complexed with an epitope-unrelated D-peptide”. X-ray diffraction, 7 pockets (best druggability 0.48). MolNFT v1 #3056 on GenesisL1: 3D…

PDB: 1CFT
Type: protein
Length: 432 residues
Chains: 3
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Protein (IGG2A kappa antibody CB41 (light chain) ); Protein (IGG2A kappa antibody CB41…
Pockets: 7 · best druggability 0.48

Structure

x-ray diffraction · 3 distinct chains · 5% helix, 50% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Protein (IGG2A kappa antibody CB41 (light chain) )	protein	214	6% helix, 50% strand	—
B	Protein (IGG2A kappa antibody CB41 (heavy chain) )	protein	213	4% helix, 51% strand	—
C	Protein (antigen bound peptide)	protein	5	0% helix, 0% strand	—

Pockets

7 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	177	0.48	0.76	30	empty
2	113	0.41	0.76	24	empty
3	88	0.35	0.75	17	empty
4	50	0.29	0.76	12	empty
5	54	0.28	0.74	13	empty

Interfaces

3 interfaces between chains.

A–B · 1793 Å² buried · 12 hydrogen bonds · protein-protein
A–C · 230 Å² buried · 2 hydrogen bonds · protein-protein
B–C · 221 Å² buried · 4 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 4 disulfide (disulfide).

Compared structures

1CFT · Anti-P24 (HIV-1) Fab fragment CB41 complexed with an epitope-unrelated D-peptide · the same entry in another collection · chain B against B, 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 1CFT · PDBe 1CFT

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