Jove
Visualize
Contact Us
JoVE
x logofacebook logolinkedin logoyoutube logo
ABOUT JoVE
OverviewLeadershipBlogJoVE Help Center
AUTHORS
Publishing ProcessEditorial BoardScope & PoliciesPeer ReviewFAQSubmit
LIBRARIANS
TestimonialsSubscriptionsAccessResourcesLibrary Advisory BoardFAQ
RESEARCH
JoVE JournalMethods CollectionsJoVE Encyclopedia of ExperimentsArchive
EDUCATION
JoVE CoreJoVE BusinessJoVE Science EducationJoVE Lab ManualFaculty Resource CenterFaculty Site
Terms & Conditions of Use
Privacy Policy
Policies

Related Concept Videos

Design Example: Traverse Angle Computations01:25

Design Example: Traverse Angle Computations

343
Traverse angle computations are a critical component of surveying, used to compute the internal angles within a closed traverse. A traverse consists of a series of connected lines forming a closed loop, often used for land boundary delineation or mapping. Calculating the internal angles ensures accuracy in the traverse geometry and is essential for checking survey data integrity.The process begins with known azimuths and bearings of the traverse sides. Internal angles at each vertex are...
343
Group Design02:01

Group Design

10.7K
The most basic experimental design involves two groups: the experimental group and the control group. The two groups are designed to be the same except for one difference— experimental manipulation. The experimental group gets the experimental manipulation—that is, the treatment or variable being tested—and the control group does not. Since experimental manipulation is the only difference between the experimental and control groups, we can be sure that any differences between...
10.7K
Antibody Structure01:10

Antibody Structure

65.7K
Overview
Antibodies, also known as immunoglobulins (Ig), are essential players of the adaptive immune system. These antigen-binding proteins are produced by B cells and make up 20 percent of the total blood plasma by weight. In mammals, antibodies fall into five different classes, which each elicits a different biological response upon antigen binding.
The Y-Shaped Structure of Antibodies Consists of Four Polypeptide Chains
Antibodies consist of four polypeptide chains: two identical heavy...
65.7K
Factorial Design02:01

Factorial Design

14.1K
Factorial Analysis is an experimental design that applies Analysis of Variance (ANOVA) statistical procedures to examine a change in a dependent variable due to more than one independent variable, also known as factors. Changes in worker productivity can be reasoned, for example, to be influenced by salary and other conditions, such as skill level. One way to test this hypothesis is by categorizing salary into three levels (low, moderate, and high) and skills sets into two levels (entry level...
14.1K
Computed Tomography01:10

Computed Tomography

8.9K
Tomography refers to imaging by sections. Computed tomography (CT) is a non-invasive imaging technique that uses computers to analyze several cross-sectional X-rays to reveal minute details about structures in the body.
The technique was invented in the 1970s and is based on the principle that as X-rays pass through the body, they are absorbed or reflected at different levels. In the technique, a patient lies on a motorized platform while a computerized axial tomography (CAT) scanner rotates...
8.9K
Design Example: Designing a Residential Plumbing System01:25

Design Example: Designing a Residential Plumbing System

1.1K
The design of residential plumbing systems requires carefully evaluating water demand, flow rates, and pressure dynamics to ensure both efficiency and reliability. The nature of water flow within pipes is defined by its Reynolds number, which classifies flow as either laminar (smooth) or turbulent.
1.1K

You might also read

Related Articles

Articles linked to this work by shared authors, journal, and citation graph.

Sort by
Same author

Structural basis of membrane engagement and polyreactivity control in HIV-1 MPER broadly neutralizing antibodies.

Proceedings of the National Academy of Sciences of the United States of America·2026
Same author

VRC01-CLASS PRECURSOR FREQUENCY IN AN AFRICAN POPULATION IS INFLUENCED BY IGHV1-2 ALLELIC COMPOSITION AND NOT MALARIA EXPOSURE.

Research square·2026
Same author

Vaccination elicits HIV broadly neutralizing antibodies in primates.

Nature·2026
Same author

Translating Innovation to Clinic: End-to-End Bioprocess Development and cGMP Manufacturing of N332-GT5 HIV Vaccine Candidate for First-in-Human Trials HVTN144.

bioRxiv : the preprint server for biology·2026
Same author

Rapid boosting increases germinal center responses to sequential vaccines.

Nature immunology·2026
Same author

Structural mechanism for noncanonical GPCR signaling in the Hedgehog pathway.

Nature structural & molecular biology·2026

Related Experiment Video

Updated: Feb 11, 2026

Author Spotlight: Advancing Biotherapeutic Mass Calculation by Introducing mAbScale, a Python-Based Desktop Application
04:24

Author Spotlight: Advancing Biotherapeutic Mass Calculation by Introducing mAbScale, a Python-Based Desktop Application

Published on: June 16, 2023

2.3K

RosettaAntibodyDesign (RAbD): A general framework for computational antibody design.

Jared Adolf-Bryfogle1,2,3, Oleks Kalyuzhniy3,4, Michael Kubitz3

  • 1Institute for Cancer Research, Fox Chase Cancer Center, Philadelphia, PA, United States of America.

Plos Computational Biology
|April 28, 2018
PubMed
Summary

RosettaAntibodyDesign (RAbD) is a computational tool for designing antibodies. It successfully improved antibody affinities by 10 to 50 fold in experimental tests, demonstrating its effectiveness in antibody engineering.

More Related Videos

Author Spotlight: Characterizing Porous Materials for Aiding the Development of Robust Metal-Organic Frameworks with Adsorption Behavior
06:45

Author Spotlight: Characterizing Porous Materials for Aiding the Development of Robust Metal-Organic Frameworks with Adsorption Behavior

Published on: March 8, 2024

10.0K
Synthesis and Characterization of Functionalized Metal-organic Frameworks
11:27

Synthesis and Characterization of Functionalized Metal-organic Frameworks

Published on: September 5, 2014

49.2K

Related Experiment Videos

Last Updated: Feb 11, 2026

Author Spotlight: Advancing Biotherapeutic Mass Calculation by Introducing mAbScale, a Python-Based Desktop Application
04:24

Author Spotlight: Advancing Biotherapeutic Mass Calculation by Introducing mAbScale, a Python-Based Desktop Application

Published on: June 16, 2023

2.3K
Author Spotlight: Characterizing Porous Materials for Aiding the Development of Robust Metal-Organic Frameworks with Adsorption Behavior
06:45

Author Spotlight: Characterizing Porous Materials for Aiding the Development of Robust Metal-Organic Frameworks with Adsorption Behavior

Published on: March 8, 2024

10.0K
Synthesis and Characterization of Functionalized Metal-organic Frameworks
11:27

Synthesis and Characterization of Functionalized Metal-organic Frameworks

Published on: September 5, 2014

49.2K

Area of Science:

  • Structural bioinformatics
  • Computational antibody design
  • Protein engineering

Background:

  • Antibodies are crucial for therapeutic and diagnostic applications.
  • Designing antibodies with specific binding properties computationally is challenging.
  • Existing methods often lack the flexibility to customize antibody sequence, structure, and binding.

Purpose of the Study:

  • To develop a novel computational methodology and framework for antibody design.
  • To create a tool, RosettaAntibodyDesign (RAbD), for customizable antibody sequence and structure sampling.
  • To enable redesign of antibody complementarity-determining regions (CDRs) for improved antigen binding.

Main Methods:

  • Developed RosettaAntibodyDesign (RAbD) for sampling antibody sequence, structure, and binding space.
  • Utilized canonical CDR clusters and flexible-backbone design with CDR-based constraints.
  • Benchmarked RAbD on 60 antibody-antigen complexes using Rosetta energy optimization and novel metrics (DRR, ARR).

Main Results:

  • Achieved Design Risk Ratios (DRRs) between 2.4 and 4.0 for non-H3 CDRs, indicating efficient sampling of native features.
  • Obtained Antigen Risk Ratios (ARRs) as high as 2.5 for L1 and 1.5 for H2 CDRs, showing antigen-dependent residue selection.
  • Experimental validation demonstrated 10 to 50 fold affinity improvement by redesigning individual CDRs in lambda and kappa antibodies.

Conclusions:

  • RAbD provides a robust computational framework for de novo antibody design and optimization.
  • The methodology effectively samples antibody sequence and structural diversity, guided by antigen interactions.
  • Experimental results confirm RAbD's capability to enhance antibody affinity through CDR engineering.