Biological Assembly 1  

 3D View: Structure | Electron Density

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 3-mer - A1BC 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: gel filtration

Macromolecule Content

• Total Structure Weight: 55.32 kDa 
• Atom Count: 4473 
• Residue Count: 489 
• Unique protein chains: 3

6OC7

HMP42 Fab in complex with Protein G

• DOI: 10.2210/pdb6OC7/pdb

• Classification: IMMUNE SYSTEM
• Organism(s): Homo sapiens, Streptococcus sp. 'group G
• Expression System: Homo sapiens, Escherichia coli
• Mutation(s): No 


• Deposited: 2019-03-22 Released: 2020-02-05 
• Deposition Author(s): Bernard, S.M., Wilson, I.A.
• Funding Organization(s): National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.30 Å
• R-Value Free: 0.184 
• R-Value Work: 0.168 
• R-Value Observed: 0.169 

Literature

A generalized HIV vaccine design strategy for priming of broadly neutralizing antibody responses.

Steichen, J.M., Lin, Y.C., Havenar-Daughton, C., Pecetta, S., Ozorowski, G., Willis, J.R., Toy, L., Sok, D., Liguori, A., Kratochvil, S., Torres, J.L., Kalyuzhniy, O., Melzi, E., Kulp, D.W., Raemisch, S., Hu, X., Bernard, S.M., Georgeson, E., Phelps, N., Adachi, Y., Kubitz, M., Landais, E., Umotoy, J., Robinson, A., Briney, B., Wilson, I.A., Burton, D.R., Ward, A.B., Crotty, S., Batista, F.D., Schief, W.R.

(2019) Science 366

• PubMed: 31672916 
• DOI: 10.1126/science.aax4380
• Structures With Same Primary Citation


• PubMed Abstract: 
  

Vaccine induction of broadly neutralizing antibodies (bnAbs) to HIV remains a major challenge. Germline-targeting immunogens hold promise for initiating the induction of certain bnAb classes; yet for most bnAbs, a strong dependence on antibody heavy chain complementarity-determining region 3 (HCDR3) is a major barrier. Exploiting ultradeep human antibody sequencing data, we identified a diverse set of potential antibody precursors for a bnAb with dominant HCDR3 contacts. We then developed HIV envelope trimer-based immunogens that primed responses from rare bnAb-precursor B cells in a mouse model and bound a range of potential bnAb-precursor human naïve B cells in ex vivo screens. Our repertoire-guided germline-targeting approach provides a framework for priming the induction of many HIV bnAbs and could be applied to most HCDR3-dominant antibodies from other pathogens.

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Organizational Affiliation: 

The Ragon Institute of Massachusetts General Hospital, Massachusetts Institute of Technology and Harvard University, Cambridge, MA 02139, USA.

Macromolecules

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details
Light chain for HMP42 Fab	L	214	Homo sapiens	Mutation(s): 0

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details
Immunoglobulin G-binding protein G	C	66	Streptococcus sp. 'group G	Mutation(s): 0  Gene Names: spg
Find proteins for P19909 (Streptococcus sp. group G) Explore P19909  Go to UniProtKB:  P19909

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
Heavy chain of HMP42 Fab	H	231	Homo sapiens	Mutation(s): 0

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.30 Å
• R-Value Free: 0.184 
• R-Value Work: 0.168 
• R-Value Observed: 0.169 
• Space Group: I 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 91.132	α = 90
b = 54.388	β = 90.01
c = 103.081	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
XDS	data reduction
Aimless	data scaling
PHASER	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Deposited Date: 2019-03-22 
• Released Date: 2020-02-05 
Deposition Author(s): Bernard, S.M., Wilson, I.A.

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Funding Organization	Location	Grant Number
National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)	United States	UM1 Al100663

Revision History 

• Version 1.0: 2020-02-05
  Type: Initial release