1GC1 HIV-1 GP120 CORE COMPLEXED WITH CD4 AND A NEUTRALIZING HUMAN ANTIBODY date
authors Kwong, P.D., Wyatt, R., Robinson, J., Sweet, R.W., Sodroski, J., Hendrickson, W.A.
compound source
symmetry
R_factor
R_Free 0.302
crystal
cell
length a length b length c angle alpha angle beta angle gamma
method X-Ray Diffractionresolution 2.50
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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