Macromolecule Content

Total Structure Weight: 190870.91
Atom Count: 12761
Residue Count: 1796
Unique protein chains: 2

4RFE

Crystal structure of ADCC-potent ANTI-HIV-1 Rhesus macaque antibody JR4 Fab

DOI: 10.2210/pdb4RFE/pdb

Classification: IMMUNE SYSTEM
Expression System: Homo sapiens

Deposited: 2014-09-25 Released: 2015-07-15
Deposition Author(s): Wu, X., Gohain, N., Tolbert, W.D., Pazgier, M.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.91 Å
R-Value Free: 0.246
R-Value Work: 0.192

wwPDB Validation3D Report Full Report

This is version 1.1 of the entry. See complete history.

Literature

Cocrystal Structures of Antibody N60-i3 and Antibody JR4 in Complex with gp120 Define More Cluster A Epitopes Involved in Effective Antibody-Dependent Effector Function against HIV-1.

Gohain, N., Tolbert, W.D., Acharya, P., Yu, L., Liu, T., Zhao, P., Orlandi, C., Visciano, M.L., Kamin-Lewis, R., Sajadi, M.M., Martin, L., Robinson, J.E., Kwong, P.D., DeVico, A.L., Ray, K., Lewis, G.K., Pazgier, M.

(2015) J.Virol. 89: 8840-8854

PubMed: 26085162 Search on PubMedSearch on PubMed Central
DOI: 10.1128/JVI.01232-15
Primary Citation of Related Structures:
4RFO, 4RFN

Macromolecules

Find similar proteins by: Sequence | Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
Fab heavy chain of ADCC-potent anti-HIV-1 antibody JR4	H, A, C, E	233	N/A	Mutation(s): 0
Protein Feature View is not available: No corresponding UniProt sequence found.

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details
Fab light chain of ADCC-potent anti-HIV-1 antibody JR4	L, B, D, F	216	N/A	Mutation(s): 0
Protein Feature View is not available: No corresponding UniProt sequence found.

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram & Interactions	3D Interactions
SO4 Query on SO4 Download SDF File Download CCD File	E, H	SULFATE ION O₄ S QAOWNCQODCNURD-UHFFFAOYSA-L		Ligand Interaction
CL Query on CL Download SDF File Download CCD File	B, D, F, L	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M		Ligand Interaction
GOL Query on GOL Download SDF File Download CCD File	E	GLYCEROL GLYCERIN; PROPANE-1,2,3-TRIOL C₃ H₈ O₃ PEDCQBHIVMGVHV-UHFFFAOYSA-N		Ligand Interaction

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.91 Å
R-Value Free: 0.246
R-Value Work: 0.192
Space Group: P 1

Unit Cell:

Length (Å)	Angle (°)
a = 79.418	α = 78.79
b = 79.585	β = 82.89
c = 82.042	γ = 65.17

Software Package:

Software Name	Purpose
HKL-2000	data collection
HKL-2000	data scaling
PHASER	phasing
HKL-2000	data reduction
REFMAC	refinement

Structure Validation

View Full Validation Report or Ramachandran Plots

Entry History

Deposition Data

Deposited Date: 2014-09-25
Released Date: 2015-07-15
Deposition Author(s): Wu, X., Gohain, N., Tolbert, W.D., Pazgier, M.

Revision History

Version 1.0: 2015-07-15
Type: Initial release
Version 1.1: 2015-08-19
Type: Database references

RCSB PDB is funded by the National Science Foundation (DBI-1832184), the National Institutes of Health, and the US Department of Energy (DE-SC0019749).