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Crystal structures in an anti-HIV antibody lineage from immunization of rhesus macaques

Analyse Crystal structures in an anti-HIV antibody lineage from immunization of rhesus… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 5DD5
Type: protein
Length: 438 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Anti-HIV antibody DH570.9 Fab heavy chain
Pockets: 3 · best druggability 0.57

Structure

x-ray diffraction · 2 distinct chains · 7% helix, 51% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
H	Anti-HIV antibody DH570.9 Fab heavy chain	protein	225	8% helix, 51% strand	—
L	Anti-HIV antibody DH570.9 Fab heavy chain	protein	213	7% helix, 52% strand	—

Pockets

3 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	56	0.57	0.90	19	empty
2	234	0.53	0.76	37	empty
3	242	0.49	0.74	37	empty

Interfaces

1 interface between chains.

H–L · 1863 Å² buried · 10 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 4 disulfide (disulfide).

Compared structures

5DD5 · Crystal structures in an anti-HIV antibody lineage from immunization of Rhesus macaques · 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 5DD5 · PDBe 5DD5

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