Related Experiment Video
Updated: Jul 31, 2026
14:55
Atomic Scale Structural Studies of Macromolecular Assemblies by Solid-state Nuclear Magnetic Resonance Spectroscopy
Published on: September 17, 2017
Homology model for oncostatin M based on NMR structural data
D Kitchen1, R C Hoffman, F J Moy
1Immunex Corporation, Seattle, Washington 98101, USA.
Biochemistry
|August 7, 1998
Summary
This study presents a homology model for Oncostatin M (OM), a cytokine regulating cell growth. The model was built using structural data from related proteins due to the lack of direct OM structural information.
Area of Science:
- Biochemistry
- Structural Biology
- Immunology
Background:
- Oncostatin M (OM) is a cytokine involved in cell proliferation and differentiation.
- OM belongs to a protein family characterized by a four-helix bundle fold and disulfide bonds.
- Direct structural data (X-ray or NMR) for OM is currently unavailable.
Purpose of the Study:
- To develop a homology model for Oncostatin M (OM).
- To provide insights into OM's structure in the absence of experimental data.
Main Methods:
- Homology modeling was employed using X-ray structures of related proteins: human growth hormone (hGH), leukemia inhibitory factor (LIF), and granulocyte-colony stimulating factor (G-CSF).
- Alignment for modeling was based on secondary structure, not sequence.
- Nuclear Magnetic Resonance (NMR) data determined OM's secondary structure.
- The homology model was refined using NMR-derived restraints (NOE distances, chemical shift) and a conformational database.
Main Results:
- A refined homology model for Oncostatin M was successfully generated.
- The model incorporates secondary structure information from NMR and experimental structures of related cytokines.
- Refinement utilized NOE distance restraints and chemical shift data.
Conclusions:
- The developed homology model provides a structural representation of Oncostatin M.
- This model serves as a valuable tool for understanding OM's function and interactions.
- Further structural studies can validate and refine this computational model.
Related Concept Videos
02:00Molecular Models
Physical models representing molecular architectures of chemical compounds play essential roles in understanding chemistry. The use of molecular models makes it easier to visualize the structures and shapes of atoms and molecules.
01:57Gene Families
Gene families consist of groups of genes proposed to have originated from a common ancestor. Typically these arise through events in which a gene or genes are mistakenly duplicated during cell division. Unlike their parent genes (which are subject to selection pressure to maintain function), these gene copies do not need to preserve their sequences and may evolve at a relatively faster rate.
Occasionally these regions can be adapted to take on new roles within the organism, becoming novel genes...
Occasionally these regions can be adapted to take on new roles within the organism, becoming novel genes...
02:21Globular and Fibrous Proteins
Many proteins can be classified into two distinct subtypes - globular or fibrous. These two types differ in their shapes and solubilities.
Globular proteins are also known as spheroproteins and typically are approximately round in shape. They contain a mix of amino acid types and contain differing sequences in their primary structures. Globular proteins have many different functions, such as enzymes, cellular messengers, and molecular transporters. These roles often require the proteins to be...
Globular proteins are also known as spheroproteins and typically are approximately round in shape. They contain a mix of amino acid types and contain differing sequences in their primary structures. Globular proteins have many different functions, such as enzymes, cellular messengers, and molecular transporters. These roles often require the proteins to be...
01:062D NMR: Homonuclear Correlation Spectroscopy (COSY)
Homonuclear correlation spectroscopy, or COSY, is a 2-dimensional NMR technique that provides information about coupled protons. Typically, the geminal and vicinal coupling are observed. For example, consider the COSY spectrum of ethyl acetate, where its 1D proton NMR spectrum is plotted along the vertical and horizontal axes with their corresponding chemical shift scale. Three spots on the diagonal corresponding to the three peaks in the 1D proton spectrum are called diagonal peaks. The COSY...
01:03¹H NMR Chemical Shift Equivalence: Homotopic and Heterotopic Protons
Protons in identical electronic environments within a molecule are chemically equivalent and have the same chemical shift. The replacement test is a useful tool to identify chemical equivalence and predict NMR spectra. A substituent replaces each of the protons being examined and the resulting molecules are compared. If the same molecule is obtained, the protons are equivalent or homotopic. Replacement of any hydrogens in ethane by chlorine yields chloroethane because all six protons are...
01:162D NMR: Overview of Homonuclear Correlation Techniques
Homonuclear correlation spectroscopy (COSY) is a powerful technique used in Nuclear Magnetic Resonance (NMR) spectroscopy to study the correlations between nuclei of the same type within a molecule. It provides information about scalar couplings between adjacent nuclei, which helps determine connectivity and structural information. There are several COSY variants, each with its unique strengths and experimental parameters.
COSY90 is the standard two-dimensional (2D) COSY experiment that...
COSY90 is the standard two-dimensional (2D) COSY experiment that...