6K8Q

Solution structure of the intermembrane space domain of the mitochondrial import protein Tim21 from S. cerevisiae

• PDB DOI: https://doi.org/10.2210/pdb6K8Q/pdb
• BMRB: 36264

• Classification: PROTEIN TRANSPORT
• Organism(s): Saccharomyces cerevisiae S288C
• Expression System: Escherichia coli BL21
• Mutation(s): No 


• Deposited: 2019-06-13 Released: 2019-09-11 
• Deposition Author(s): Bala, S., Shinya, S., Srivastava, A., Shimada, A., Kobayashi, N., Kojima, C., Tama, F., Miyashita, O., Kohda, D.
• Funding Organization(s): Japan Society for the Promotion of Science

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Experimental Data Snapshot

• Method: SOLUTION NMR
• Conformers Calculated: 100 
• Conformers Submitted: 20 
• Selection Criteria: structures with the lowest energy 

Literature

Crystal contact-free conformation of an intrinsically flexible loop in protein crystal: Tim21 as the case study.

Bala, S., Shinya, S., Srivastava, A., Ishikawa, M., Shimada, A., Kobayashi, N., Kojima, C., Tama, F., Miyashita, O., Kohda, D.

(2020) Biochim Biophys Acta Gen Subj 1864: 129418-129418

• PubMed: 31449839 
• DOI: https://doi.org/10.1016/j.bbagen.2019.129418
• Primary Citation of Related Structures:  
  6K7D, 6K7E, 6K7F, 6K8Q


• PubMed Abstract: 
  

  In protein crystals, flexible loops are frequently deformed by crystal contacts, whereas in solution, the large motions result in the poor convergence of such flexible loops in NMR structure determinations. We need an experimental technique to characterize the structural and dynamic properties of intrinsically flexible loops of protein molecules.

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Organizational Affiliation: 

Division of Structural Biology, Medical Institute of Bioregulation, Kyushu University, Maidashi 3-1-1, Higashi-ku, Fukuoka 812-8582, Japan.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 13.57 kDa 
• Atom Count: 952 
• Modelled Residue Count: 115 
• Deposited Residue Count: 115 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Mitochondrial import inner membrane translocase subunit TIM21	A	115	Saccharomyces cerevisiae S288C	Mutation(s): 0  Gene Names: TIM21, YGR033C
UniProt
Find proteins for P53220 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore P53220  Go to UniProtKB:  P53220

Experimental Data & Validation

Experimental Data

• Method: SOLUTION NMR
• Conformers Calculated: 100 
• Conformers Submitted: 20 
• Selection Criteria: structures with the lowest energy 

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2019-09-11 
Deposition Author(s): Bala, S., Shinya, S., Srivastava, A., Shimada, A., Kobayashi, N., Kojima, C., Tama, F., Miyashita, O., Kohda, D.

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Funding Organization	Location	Grant Number
Japan Society for the Promotion of Science	Japan	JP26119002
Japan Society for the Promotion of Science	Japan	JP19H05452

Revision History  

• Version 1.0: 2019-09-11
  Type: Initial release
  
• Version 1.1: 2019-12-11
  Changes: Database references
• Version 1.2: 2023-06-14
  Changes: Database references, Other