4RQS image
Deposition Date 2014-11-05
Release Date 2014-12-31
Last Version Date 2024-10-09
Entry Detail
PDB ID:
4RQS
Keywords:
IMMUNE SYSTEM
Title:
Crystal structure of fully glycosylated HIV-1 gp120 core bound to CD4 and 17b Fab
Biological Source:
Source Organism:
Homo sapiens (Taxon ID: 9606)
Human immunodeficiency virus type 1 (isolate YU2) (Taxon ID: 362651)
Host Organism:
Cricetulus griseus
Method Details:
Experimental Method:
X-RAY DIFFRACTION
Resolution:
4.49 Å
R-Value Free:
0.32
R-Value Work:
0.27
R-Value Observed:
0.27
Space Group:
P 43 21 2
4RQS validation report
Macromolecular Entities
Protein Blast
Polymer Type:polypeptide(L)
Molecule:2-domain CD4
Gene (Uniprot):CD4
Chain IDs:A (auth: B)
Chain Length:185
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:P01730 Pfam ID:PF00047, PF05790
Polymer Type:polypeptide(L)
Molecule:17b Fab Light Chain
Chain IDs:B (auth: C)
Chain Length:214
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Molecule:17b Fab Heavy Chain
Chain IDs:C (auth: D)
Chain Length:229
Number of Molecules:1
Biological Source:Homo sapiens
Protein Blast
Polymer Type:polypeptide(L)
Molecule:HIV-1 YU2 gp120 core chimeric protein
Gene (Uniprot):env
Chain IDs:D (auth: G)
Chain Length:313
Number of Molecules:1
Biological Source:Human immunodeficiency virus type 1 (isolate YU2)
UniProt ID:P35961 Pfam ID:PF00516
Modified Residue
Compound ID Chain ID Parent Comp ID Details 2D Image
ASN D ASN GLYCOSYLATION SITE
Ligand Molecules
NAG
Primary Citation
Crystal structure of a fully glycosylated HIV-1 gp120 core reveals a stabilizing role for the glycan at Asn262.
Proteins 83 590 596 (2015)
PMID: 25546301 DOI: 10.1002/prot.24747

Abstact

The crystal structure of a fully glycosylated HIV-1 gp120 core in complex with CD4 receptor and Fab 17b at 4.5-Å resolution reveals 9 of the 15 N-linked glycans of core gp120 to be partially ordered. The glycan at position Asn262 had the most extensive and well-ordered electron density, and a GlcNAc(2)Man(7) was modeled. The GlcNAc stem of this glycan is largely buried in a cleft in gp120, suggesting a role in gp120 folding and stability. Its arms interact with the stems of neighboring glycans from the oligomannose patch, which is a major target for broadly neutralizing antibodies.

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Disease

Primary Citation of related structures
4RQS