1RZK HIV-1 YU2 GP120 ENVELOPE GLYCOPROTEIN COMPLEXED WITH CD4 AND INDUCED NEUTRALIZING ANTIBODY 17B date
authors Huang, C.C., Venturi, M., Majeed, S., Moore, M.J., Phogat, S., Zhang, M.Y., Dimitrov, D.S., Hendrickson, W.A., Robinson, J., Sodroski, J., Wyatt, R., Choe, H., Farzan, M., Kwong, P.D.
compound source
symmetry
R_factor
R_Free 0.297
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: 1B4J, 1CDI, 1FH5, 1G9N, 1YYL
Gene
Ontology
ChainFunctionProcessComponent
C


G


Primary referenceStructural basis of tyrosine sulfation and VH-gene usage in antibodies that recognize the HIV type 1 coreceptor-binding site on gp120., Huang CC, Venturi M, Majeed S, Moore MJ, Phogat S, Zhang MY, Dimitrov DS, Hendrickson WA, Robinson J, Sodroski J, Wyatt R, Choe H, Farzan M, Kwong PD, Proc Natl Acad Sci U S A 2004 Mar 2;101(9):2706-11. Epub 2004 Feb 23. PMID:14981267
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (166 Kb) [Save to disk]
  • Biological Unit Coordinates (1rzk.pdb1.gz) 156 Kb
  • LPC: Ligand-Protein Contacts for 1RZK
  • CSU: Contacts of Structural Units for 1RZK
  • Likely Quarternary Molecular Structure file(s) for 1RZK
  • Structure Factors (239 Kb)
  • Retrieve 1RZK in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1RZK from S2C, [Save to disk]
  • Re-refined 1rzk structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1RZK 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 1RZK
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Electron Density related parameters from EDS Electron Density Server, at Upsala
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 1RZK, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1rzkc1, region C:1-97 [Jmol] [rasmolscript] [script source]
        - Domain d1rzkc2, region C:98-181 [Jmol] [rasmolscript] [script source]
        - Domain d1rzkg_, region G [Jmol] [rasmolscript] [script source]
        - Domain d1rzkh1, region H:1-113 [Jmol] [rasmolscript] [script source]
        - Domain d1rzkh2, region H:114-214 [Jmol] [rasmolscript] [script source]
        - Domain d1rzkl1, region L:1-109 [Jmol] [rasmolscript] [script source]
        - Domain d1rzkl2, region L:110-212 [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: [1rzk_L] [1rzk_H] [1rzk] [1rzk_C] [1rzk_G]
  • SWISS-PROT database: [P01730]
  • Domain organization of [CD4_HUMAN] by SWISSPFAM
  • Domains found in 1RZK: [IG_like] [IGv ] by SMART
  • Other resources with information on 1RZK
  • Community annotation for 1RZK at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

  • You may enter another PDB ID code
    Go [Back], to the [PDB Lite page], to the [OCA Search page] or to the [PDB Home page]
    OCA© by Jaime Prilusky, 1996-2014,2022
    Bioinformatics Unit
    Weizmann Institute of Science