1RZJ

HIV-1 HXBC2 GP120 ENVELOPE GLYCOPROTEIN COMPLEXED WITH CD4 AND INDUCED NEUTRALIZING ANTIBODY 17B

Structural Biology Knowledgebase: 1RZJ SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.2 Å
  • R-Value Free: 0.323
  • R-Value Work: 0.262

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 1RZJ

Classification: Viral protein / Immune system

Total Structure Weight: 107239.82

Macromolecule Entities
Molecule Chains Length Organism Details
ENVELOPE GLYCOPROTEIN GP120 G 321 Human immunodeficiency virus 1 Fragment: CORE
Mutation: ΔR298, ΔP299, ΔN300, ΔN301, ΔN302, ΔT303, ΔR304, ΔK305, ΔR306, ΔI307, ΔR308, ΔI309, ΔQ310, ΔR311, ΔG312, ΔP313, ΔR315, ΔF317, ΔV318, ΔT319, ΔI320, ΔG321, ΔK322, ΔI323, ΔN325, ΔM326, ΔR327, ΔQ328, ΔA329
Details: part of Envelope polyprotein GP160
Gene Name(s): env
T-CELL SURFACE GLYCOPROTEIN CD4 C 185 Homo sapiens Fragment: D1D2, N-TERMINAL TWO DOMAIN FRAGMENT
Mutation: S184N, I185T
Gene Name(s): CD4 Gene View
ANTIBODY 17B, LIGHT CHAIN L 214 Homo sapiens Fragment: FAB
ANTIBODY 17B, HEAVY CHAIN H 229 Homo sapiens Fragment: FAB

Small Molecules
Ligands 4 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
NDG
Query on NDG

G 2-(ACETYLAMINO)-2-DEOXY-A-D-GLUCOPYRANOSE
C8 H15 N O6
OVRNDRQMDRJTHS-PVFLNQBWSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
NAG
Query on NAG

G N-ACETYL-D-GLUCOSAMINE
C8 H15 N O6
OVRNDRQMDRJTHS-FMDGEEDCSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
FUC
Query on FUC

G ALPHA-L-FUCOSE
C6 H12 O5
SHZGCJCMOBCMKK-SXUWKVJYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
IPA
Query on IPA

G ISOPROPYL ALCOHOL
2-PROPANOL (Synonym)
C3 H8 O
KFZMGEQAYNKOFK-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.2 Å
  • R-Value Free: 0.323
  • R-Value Work: 0.262
  • Space Group: P 2 2 21
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 71.25 α = 90.00
b = 88.11 β = 90.00
c = 196.54 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2003-12-24
  • Released Date: 2004-02-03
  • Deposition author(s): 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.

Revision History

  • 2011-07-13
    Type: Non-polymer description | Details: chemical name/synonym update
  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4