1G9N HIV-1 YU2 GP120 ENVELOPE GLYCOPROTEIN COMPLEXED WITH CD4 AND INDUCED NEUTRALIZING ANTIBODY 17B date
authors Kwong, P.D., Wyatt, R., Majeed, S., Robinson, J., Sweet, R.W., Sodroski, J., Hendrickson, W.A.
compound source
symmetry
R_factor
R_Free 0.295
crystal
cell
length a length b length c angle alpha angle beta angle gamma
method X-Ray Diffractionresolution 2.90
ligand NAG enzyme
related structures by homologous chain: 1RZI, 1RZK
Gene
Ontology
ChainFunctionProcessComponent
C


G


Primary referenceStructures of HIV-1 gp120 envelope glycoproteins from laboratory-adapted and primary isolates., Kwong PD, Wyatt R, Majeed S, Robinson J, Sweet RW, Sodroski J, Hendrickson WA, Structure Fold Des 2000 Dec 15;8(12):1329-39. PMID:11188697
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (165 Kb) [Save to disk]
  • Biological Unit Coordinates (1g9n.pdb1.gz) 155 Kb
  • LPC: Ligand-Protein Contacts for 1G9N
  • CSU: Contacts of Structural Units for 1G9N
  • Likely Quarternary Molecular Structure file(s) for 1G9N
  • Retrieve 1G9N in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1G9N from S2C, [Save to disk]
    • View 1G9N 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 1G9N
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
    • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 1G9N, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1g9nc1, region C:1-97 [Jmol] [rasmolscript] [script source]
        - Domain d1g9nc2, region C:98-181 [Jmol] [rasmolscript] [script source]
        - Domain d1g9ng_, region G [Jmol] [rasmolscript] [script source]
        - Domain d1g9nh1, region H:1-129 [Jmol] [rasmolscript] [script source]
        - Domain d1g9nh2, region H:130-229 [Jmol] [rasmolscript] [script source]
        - Domain d1g9nl1, region L:1-109 [Jmol] [rasmolscript] [script source]
        - Domain d1g9nl2, region L:110-214 [Jmol] [rasmolscript] [script source]
  • Fold representative 1g9n from FSSP and Dali (Families of Structurally Similar Proteins)
  • 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: [1g9n] [1g9n_L] [1g9n_H] [1g9n_C] [1g9n_G]
  • SWISS-PROT database: [P01730] [P35961]
  • Domain organization of [CD4_HUMAN] [ENV_HV1Y2] by SWISSPFAM
  • Domains found in 1G9N: [IG_like] [IGv ] by SMART
    • Other resources with information on 1G9N
  • Community annotation for 1G9N at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
    • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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