Function and Biology

Crystal Structure of HIV-1 ConC_Base0 Prefusion Env Trimer in Complex with Human Antibody Fragment 3H109L and 35O22 variants at 3.5 Angstrom

Source organisms:
Biochemical function: structural molecule activity
Biological process: not assigned
Cellular component: viral envelope

GO terms

Biochemical function:
Biological process:
  • not assigned
Cellular component:

Sequence families

Pfam Protein families (Pfam)
PF00516
Domain description: Envelope glycoprotein GP120
Occurring in:
  1. Envelope glycoprotein gp160
The deposited structure of PDB entry 6ck9 contains 2 copies of Pfam domain PF00516 (Envelope glycoprotein GP120) in Envelope glycoprotein gp160. Showing 2 copies in chain D [auth G].

PF00517
Domain description: Retroviral envelope protein
Occurring in:
  1. Transmembrane protein gp41
The deposited structure of PDB entry 6ck9 contains 1 copy of Pfam domain PF00517 (Retroviral envelope protein) in Transmembrane protein gp41. Showing 1 copy in chain A [auth B].

InterPro InterPro annotations
IPR013106
IPR036179
Domain description: Immunoglobulin-like domain superfamily
Occurring in:
  1. 35O22 scFv heavy chain portion
  2. 35O22 scFv light chain portion
  3. 3H109L Fab heavy chain
  4. 3H109L Fab light chain
IPR013783
IPR007110
IPR003599
IPR003597
Domain description: Immunoglobulin C1-set
Occurring in:
  1. 3H109L Fab heavy chain
  2. 3H109L Fab light chain
IPR036377
Domain description: Gp120 core superfamily
Occurring in:
  1. Envelope glycoprotein gp160
IPR003006
Domain description: Immunoglobulin/major histocompatibility complex, conserved site
Occurring in:
  1. 3H109L Fab heavy chain
  2. 3H109L Fab light chain
IPR000777
Domain description: Human immunodeficiency virus 1, envelope glycoprotein Gp120
Occurring in:
  1. Envelope glycoprotein gp160
IPR000328
Domain description: Retroviral envelope protein GP41-like
Occurring in:
  1. Transmembrane protein gp41

Structure domain

CATH CATH domain
2.60.40.10
Class: Mainly Beta
Architecture: Sandwich
Topology: Immunoglobulin-like
Homology: Immunoglobulins
Occurring in:
  1. 35O22 scFv heavy chain portion
  2. 35O22 scFv light chain portion
  3. 3H109L Fab heavy chain
  4. 3H109L Fab light chain
The deposited structure of PDB entry 6ck9 contains 1 copy of CATH domain 2.60.40.10 (Immunoglobulin-like) in 35O22 scFv heavy chain portion. Showing 1 copy in chain B [auth D].
The deposited structure of PDB entry 6ck9 contains 1 copy of CATH domain 2.60.40.10 (Immunoglobulin-like) in 35O22 scFv light chain portion. Showing 1 copy in chain C [auth E].
The deposited structure of PDB entry 6ck9 contains 1 copy of CATH domain 2.60.40.10 (Immunoglobulin-like) in 3H109L Fab heavy chain. Showing 1 copy in chain E [auth H].
The deposited structure of PDB entry 6ck9 contains 2 copies of CATH domain 2.60.40.10 (Immunoglobulin-like) in 3H109L Fab light chain. Showing 2 copies in chain F [auth L].