Solution NMR structure of CBM64 from S.thermophila using 20% 13C, 100% 15N

Experimental Data Snapshot

  • Method: SOLUTION NMR
  • Conformers Calculated: 20 
  • Conformers Submitted: 20 
  • Selection Criteria: all calculated structures submitted 

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NMR Structure Determinations of Small Proteins Using only One Fractionally 20% 13 C- and Uniformly 100% 15 N-Labeled Sample.

Heikkinen, H.A.Backlund, S.M.Iwai, H.

(2021) Molecules 26

  • DOI: https://doi.org/10.3390/molecules26030747
  • Primary Citation of Related Structures:  
    6FFQ, 6FFU, 6SOW

  • PubMed Abstract: 

    Uniformly 13 C- and 15 N-labeled samples ensure fast and reliable nuclear magnetic resonance (NMR) assignments of proteins and are commonly used for structure elucidation by NMR. However, the preparation of uniformly labeled samples is a labor-intensive and expensive step. Reducing the portion of 13 C-labeled glucose by a factor of five using a fractional 20% 13 C- and 100% 15 N-labeling scheme could lower the total chemical costs, yet retaining sufficient structural information of uniformly [ 13 C, 15 N]-labeled sample as a result of the improved sensitivity of NMR instruments. Moreover, fractional 13 C-labeling can facilitate reliable resonance assignments of sidechains because of the biosynthetic pathways of each amino-acid. Preparation of only one [20% 13 C, 100% 15 N]-labeled sample for small proteins (<15 kDa) could also eliminate redundant sample preparations of 100% 15 N-labeled and uniformly 100% [ 13 C, 15 N]-labeled samples of proteins. We determined the NMR structures of a small alpha-helical protein, the C domain of IgG-binding protein A from Staphylococcus aureus (SpaC), and a small beta-sheet protein, CBM64 module using [20% 13 C, 100% 15 N]-labeled sample and compared with the crystal structures and the NMR structures derived from the 100% [ 13 C, 15 N]-labeled sample. Our results suggest that one [20% 13 C, 100% 15 N]-labeled sample of small proteins could be routinely used as an alternative to conventional 100% [ 13 C, 15 N]-labeling for backbone resonance assignments, NMR structure determination, 15 N-relaxation analysis, and ligand-protein interaction.

  • Organizational Affiliation

    Institute of Biotechnology, University of Helsinki. P.O. Box 65, FIN-00014 Helsinki, Finland.

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Glycosyl hydrolase family 5 cellulase CBM6486Spirochaeta thermophilaMutation(s): 0 
Gene Names: STHERM_c20620
Find proteins for E0RQU0 (Spirochaeta thermophila (strain ATCC 49972 / DSM 6192 / RI 19.B1))
Explore E0RQU0 
Go to UniProtKB:  E0RQU0
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupE0RQU0
Sequence Annotations
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: SOLUTION NMR
  • Conformers Calculated: 20 
  • Conformers Submitted: 20 
  • Selection Criteria: all calculated structures submitted 

Structure Validation

View Full Validation Report

Entry History & Funding Information

Deposition Data

Funding OrganizationLocationGrant Number
Academy of FinlandFinland# 1277335
Sigrid Juselius FoundationFinland--

Revision History  (Full details and data files)

  • Version 1.0: 2019-01-30
    Type: Initial release
  • Version 1.1: 2019-05-08
    Changes: Data collection
  • Version 1.2: 2021-02-10
    Changes: Data collection, Database references
  • Version 1.3: 2021-03-03
    Changes: Database references
  • Version 1.4: 2023-06-14
    Changes: Database references, Other