5T4Z

STRUCTURE OF THE ANTI-HIV ANTIBODY DH501 THAT BINDS GP120 V3 GLYCAN AND THE BASE OF V3 WITH FREE MAN9 GLYCAN


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.991 Å
  • R-Value Free: 0.239 
  • R-Value Work: 0.187 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

HIV Envelope vaccination elicits asparagine 332 glycan-dependent antibodies that resemble broadly neutralizing antibody precursors

Saunders, K.O.Nicely, N.I.Aussedat, B.Wiehe, K.Parks, R.Vohra, Y.Walkowicz, W.E.Park, P.K.Eaton, A.Sutherland, L.L.Scearce, R.Wu, N.Bonsignori, M.Meyerhoff, R.R.Lloyd, K.E.Stolarchuk, C.Foulger, A.Anasti, K.Moody, M.A.Barouch, D.Korber, B.T.Santra, S.Letvin, N.Montefiori, D.C.Tomaras, G.D.Liao, H.-X.Alam, S.M.Danishefsky, S.J.Haynes, B.F.

(2017) Cell Rep --: --


Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
antibody DH501 Fab heavy chain
H, A
230N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
antibody DH501 Fab light chain
L, B
216N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
CA
Query on CA

Download SDF File 
Download CCD File 
H, L
CALCIUM ION
Ca
BHPQYMZQTOCNFJ-UHFFFAOYSA-N
 Ligand Interaction
MAN
Query on MAN

Download SDF File 
Download CCD File 
H
ALPHA-D-MANNOSE
C6 H12 O6
WQZGKKKJIJFFOK-PQMKYFCFSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.991 Å
  • R-Value Free: 0.239 
  • R-Value Work: 0.187 
  • Space Group: P 1 21 1
Unit Cell:
Length (Å)Angle (°)
a = 49.757α = 90.00
b = 115.997β = 97.39
c = 76.889γ = 90.00
Software Package:
Software NamePurpose
HKL-2000data scaling
PHENIXrefinement
PHASERphasing
HKL-2000data reduction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Institutes of HealthUnited States--

Revision History 

  • Version 1.0: 2017-03-08
    Type: Initial release
  • Version 1.1: 2017-03-15
    Type: Structure summary
  • Version 1.2: 2017-09-27
    Type: Author supporting evidence