4H8W

Crystal structure of non-neutralizing and ADCC-potent antibody N5-i5 in complex with HIV-1 clade A/E gp120 and sCD4.


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.85 Å
  • R-Value Free: 0.215
  • R-Value Work: 0.182

Literature

Macromolecules
Sequence Display for 4H8W

Classification: VIRAL PROTEIN / IMMUNE SYSTEM

Total Structure Weight: 109055.17

Macromolecule Entities
Molecule Chains Length Organism Details
HIV-1 CLADE A/E 93TH057 (H375S) GP120 G 353 Homo sapiens Gene Name(s): env
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
FAB HEAVY CHAIN OF ADCC AND NON-NEUTRALIZING ANTI-HIV-1 ANTIBODY N5-I5 H 226 Homo sapiens
FAB LIGHT CHAIN OF ADCC AND NON-NEUTRALIZING ANTI-HIV-1 ANTIBODY N5-I5 L 217 Homo sapiens
T-cell surface glycoprotein CD4 C 185 Homo sapiens Gene Name(s): CD4 Gene View
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

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

G, L (4R)-2-METHYLPENTANE-2,4-DIOL
C6 H14 O2
SVTBMSDMJJWYQN-RXMQYKEDSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
GOL
Query on GOL

C GLYCEROL
2, (Synonym)
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.85 Å
  • R-Value Free: 0.215
  • R-Value Work: 0.182
  • Space Group: P 21 21 21

Unit Cell:

Length (Å) Angle (°)
a = 92.25 α = 90.00
b = 103.91 β = 90.00
c = 134.65 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2012-09-24
  • Released Date: 2014-04-09
  • Deposition author(s): Tolbert, W.D., Acharya, P., Kwong, P.D., Pazgier, M.

Revision History

  • Version 1_0: 2014-04-09

    Type: Initial release

  • Version 1_1: 2014-10-15

    Type: Database references

  • Version 1_2: 2014-10-22

    Type: Database references

  • Version 1_3: 2017-11-15

    Type: Refinement description