4YWG

Crystal structure of 830A in complex with V1V2


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.998 Å
  • R-Value Free: 0.296 
  • R-Value Work: 0.219 

wwPDB Validation 3D Report Full Report


This is version 1.3 of the entry. See complete history

Literature

The V1V2 Region of HIV-1 gp120 Forms a Five-Stranded Beta Barrel.

Pan, R.Gorny, M.K.Zolla-Pazner, S.Kong, X.P.

(2015) J.Virol. 89: 8003-8010


Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Light chain of anti-HIV-1 gp120 V1V2 antibody 830A
L, M
216N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Heavy chain of anti-HIV-1 gp120 V1V2 antibody 830A
H, I
226N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
Scaffold HIV-1 gp120 V1V2 region derived from strain ZM109
G, Q
124Human immunodeficiency virus 1Mutation(s): 0 
Gene Names: env
Find proteins for Q6TCP8 (Human immunodeficiency virus 1)
Go to UniProtKB:  Q6TCP8
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
NAG
Query on NAG

Download SDF File 
Download CCD File 
G, Q
N-ACETYL-D-GLUCOSAMINE
C8 H15 N O6
OVRNDRQMDRJTHS-FMDGEEDCSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.998 Å
  • R-Value Free: 0.296 
  • R-Value Work: 0.219 
  • Space Group: P 21 21 21
Unit Cell:
Length (Å)Angle (°)
a = 64.725α = 90.00
b = 159.168β = 90.00
c = 170.358γ = 90.00
Software Package:
Software NamePurpose
PHENIXphasing
PHENIXrefinement
XDSdata reduction
XDSdata scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History & Funding Information

Deposition Data

  • Deposited Date: 2015-03-20 
  • Released Date: 2015-07-15 
  • Deposition Author(s): Pan, R., Kong, X.

Funding OrganizationLocationGrant Number
National Institutes of Health/National Institute Of Allergy and Infectious DiseasesUnited StatesAI100151
National Institutes of Health/National Institute Of Allergy and Infectious DiseasesUnited StatesAI082274
National Institutes of Health/National Institute Of Allergy and Infectious DiseasesUnited StatesAI084119

Revision History 

  • Version 1.0: 2015-07-15
    Type: Initial release
  • Version 1.1: 2015-07-22
    Type: Database references
  • Version 1.2: 2016-07-27
    Type: Data collection
  • Version 1.3: 2017-09-13
    Type: Author supporting evidence, Derived calculations