1GC1 Viral Protein Receptor Immune System date Jun 15, 1998
title Hiv-1 Gp120 Core Complexed With Cd4 And A Neutralizing Human
authors P.D.Kwong, R.Wyatt, J.Robinson, R.W.Sweet, J.Sodroski, W.A.Hendri
compound source
Molecule: Envelope Protein Gp120
Chain: G
Fragment: Core
Engineered: Yes
Mutation: Yes
Organism_scientific: Human Immunodeficiency Virus 1
Organism_taxid: 11676
Strain: Clade B
Variant: Hxbc2
Organ: Ovary
Gene: Env
Expression_system: Drosophila Melanogaster
Expression_system_common: Fruit Fly
Expression_system_taxid: 7227
Other_details: Secreted From Drosophila Schneider 2 Lines U Control Of An Inducible Metallothionein Promoter;

Molecule: Cd4
Chain: C
Fragment: D1d2, N-Terminal Two Domain Fragment
Engineered: Yes
Mutation: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Cricetulus Griseus
Expression_system_common: Chinese Hamster
Expression_system_taxid: 10029
Expression_system_cell_line: Cho

Molecule: Antibody 17b
Chain: L
Fragment: Antigen-Binding Fragment, Fab
Engineered: Yes
Other_details: Monoclonal Antibody 17b Binds To A Cd4-Induc Gp120;

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Mus Musculus
Expression_system_common: House Mouse
Expression_system_taxid: 10090
Other_details: Epstein-Barr Virus Immortalized B-Cell Clone With A Murine B-Cell Fusion Partner;

Molecule: Antibody 17b
Chain: H
Fragment: Antigen-Binding Fragment, Fab
Engineered: Yes
Other_details: Monoclonal Antibody 17b Binds To A Cd4-Induc Gp120

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Mus Musculus
Expression_system_common: House Mouse
Expression_system_taxid: 10090
Other_details: Epstein-Barr Virus Immortalized B-Cell Clone With A Murine B-Cell Fusion Partner
symmetry Space Group: P 2 2 21
R_factor 0.210 R_Free 0.302
crystal
cell
length a length b length c angle alpha angle beta angle gamma
71.640 88.130 196.700 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.50 Å
ligand FUC, NAG enzyme
note 1GC1 (Molecule of the Month:pdb169)
related structures by homologous chain: 1AD0, 1CDJ, 1CDU, 1G9M, 1NCC, 1PG7, 1YYL
Gene
Ontology
ChainFunctionProcessComponent
C


G


Primary referenceStructure of an HIV gp120 envelope glycoprotein in complex with the CD4 receptor and a neutralizing human antibody., Kwong PD, Wyatt R, Robinson J, Sweet RW, Sodroski J, Hendrickson WA, Nature 1998 Jun 18;393(6686):648-59. PMID:9641677
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (166 Kb) [Save to disk]
  • Biological Unit Coordinates (1gc1.pdb1.gz) 158 Kb
  • LPC: Ligand-Protein Contacts for 1GC1
  • CSU: Contacts of Structural Units for 1GC1
  • Likely Quarternary Molecular Structure file(s) for 1GC1
  • Retrieve 1GC1 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1GC1 from S2C, [Save to disk]
  • View 1GC1 in 3D
  • Proteopedia, because life has more than 2D.
  • On Jmol, a nice Rasmol like molecule viewer. This is good for easiest viewing of basic structure.
  • On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz.
  • Visual 3D analysis of 1GC1
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 1GC1, from MSDmotif at EBI
  • Genome occurence of 1GC1's fold from GeneCensus
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1gc1c1, region C:1-97 [Jmol] [rasmolscript] [script source]
        - Domain d1m1gc1, region C:51-131 [Jmol] [rasmolscript] [script source]
        - Domain d1gc1c2, region C:98-181 [Jmol] [rasmolscript] [script source]
        - Domain d1gc1g_, region G [Jmol] [rasmolscript] [script source]
        - Domain d1gc1h1, region H:1-129 [Jmol] [rasmolscript] [script source]
        - Domain d1gc1h2, region H:130-229 [Jmol] [rasmolscript] [script source]
        - Domain d1gc1l1, region L:1-109 [Jmol] [rasmolscript] [script source]
        - Domain d1gc1l2, region L:110-213 [Jmol] [rasmolscript] [script source]
  • Class (fold), Architecture (subfold), Topology, Homologous superfamily from CATH
  • Summaries and structural analyses of PDB data files from PDBSum
  • Identification of Protein Pockets & Cavities at CASTp
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1gc1_H] [1gc1] [1gc1_L] [1gc1_G] [1gc1_C]
  • SWISS-PROT database: [P01730] [P04578]
  • Belongs to the human immunodeficiency virus type 1 (hiv-1) fusion peptide (hiv-fp) family according to TCDB.
  • Domain organization of [CD4_HUMAN] [ENV_HV1H2] by SWISSPFAM
  • Domains found in 1GC1: [IG_like] [IGv ] by SMART
  • Other resources with information on 1GC1
  • Community annotation for 1GC1 at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Domain movements in 1GC1 from the Database of Macromolecular Movements.
  • Images from IMB Jena Image Library of Biological Macromolecules.

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