PDB entry 4i3s

View 4i3s on RCSB PDB site
Description: Crystal structure of the outer domain of HIV-1 gp120 in complex with VRC-PG04 space group P21
Class: Viral Protein/Immune System
Keywords: Antibody Affinity, Antibody Specificity, Binding Sites, HIV Infections, Antibodies, HIV Envelope Protein gp120, AIDS Vaccines, Amino Acid Sequence, Antigens, Epitopes, HIV Antibodies, CD4, Somatic Mutation, Sequence engineering, Complementarity Determining Regions, Immunoglobulin Fab Fragments, Sera, Viral Protein-Immune System complex
Deposited on 2012-11-26, released 2013-01-09
The last revision prior to the SCOPe 2.08 freeze date was dated 2021-05-26, with a file datestamp of 2021-05-21.
Experiment type: XRAY
Resolution: 2.85 Å
R-factor: N/A
AEROSPACI score: 0.19 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'G':
    Compound: Outer domain of HIV-1 gp120 (KER2018 OD4.2.2)
    Species: Human immunodeficiency virus [TaxId:12721]
    Database cross-references and differences (RAF-indexed):
    • PDB 4I3S (0-End)
  • Chain 'H':
    Compound: Heavy chain of VRC-PG04 Fab
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
    • PDB 4I3S (0-End)
    Domains in SCOPe 2.08: d4i3sh_
  • Chain 'L':
    Compound: Light chain of VRC-PG04 Fab
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
    • PDB 4I3S (0-207)
    Domains in SCOPe 2.08: d4i3sl1, d4i3sl2
  • Heterogens: CA

PDB Chain Sequences:

  • Chain 'G':
    No sequence available.

  • Chain 'H':
    Sequence, based on SEQRES records: (download) 
    >4i3sH (H:)
qvqlvqsgsgvkkpgasvrvscwtsedifertelihwvrqapgqglewigwvktvtgavn
fgspdfrqrvsltrdrdlftahmdirgltqgdtatyfcarqkfytggqgwyfdlwgrgtl
ivvssastkgpsvfplapsskstsggtaalgclvkdyfpepvtvswnsgaltsgvhtfpa
vlqssglyslssvvtvpssslgtqtyicnvnhkpsntkvdkkvepksc

    Sequence, based on observed residues (ATOM records): (download) 
    >4i3sH (H:)
qvqlvqsgsgvkkpgasvrvscwtsedifertelihwvrqapgqglewigwvktvtgavn
fgspdfrqrvsltrdrdlftahmdirgltqgdtatyfcarqkfytggqgwyfdlwgrgtl
ivvssastkgpsvfplapsggtaalgclvkdyfpepvtvswnsgaltsgvhtfpavlqss
glyslssvvtvpssslgtqtyicnvnhkpsntkvdkkvepks

  • Chain 'L':
    Sequence; same for both SEQRES and ATOM records: (download) 
    >4i3sL (L:)
eivltqspgtlslspgetaslsctaasyghmtwyqkkpgqppkllifatskrasgipdrf
sgsqfgkqytltitrmepedfaryycqqleffgqgtrleirrtvaapsvfifppsdeqlk
sgtasvvcllnnfypreakvqwkvdnalqsgnsqesvteqdskdstyslsstltlskady
ekhkvyacevthqglsspvtksfnrgec