2RUJ | pdb_00002ruj

Solution structure of MTSL spin-labeled Schizosaccharomyces pombe Sin1 CRIM domain

• PDB DOI: https://doi.org/10.2210/pdb2RUJ/pdb

• Classification: PROTEIN BINDING
• Organism(s): Schizosaccharomyces pombe 972h-
• Expression System: Escherichia coli
• Mutation(s): Yes 


• Deposited: 2014-07-24 Released: 2015-07-29 
• Deposition Author(s): Furuita, K., Kataoka, S., Sugiki, T., Kobayashi, N., Ikegami, T., Shiozaki, K., Fujiwara, T., Kojima, C.

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Experimental Data Snapshot

• Method: SOLUTION NMR
• Conformers Calculated: 100 
• Conformers Submitted: 10 
• Selection Criteria: structures with the lowest energy 

Literature

Utilization of paramagnetic relaxation enhancements for high-resolution NMR structure determination of a soluble loop-rich protein with sparse NOE distance restraints

Furuita, K., Kataoka, S., Sugiki, T., Hattori, Y., Kobayashi, N., Ikegami, T., Shiozaki, K., Fujiwara, T., Kojima, C.

(2015) J Biomol NMR 61: 55-64

• PubMed: 25428765 
• DOI: https://doi.org/10.1007/s10858-014-9882-7
• Primary Citation Related Structures: 
  2RUJ


• PubMed Abstract: 
  

  NMR structure determination of soluble proteins depends in large part on distance restraints derived from NOE. In this study, we examined the impact of paramagnetic relaxation enhancement (PRE)-derived distance restraints on protein structure determination. A high-resolution structure of the loop-rich soluble protein Sin1 could not be determined by conventional NOE-based procedures due to an insufficient number of NOE restraints. By using the 867 PRE-derived distance restraints obtained from the NOE-based structure determination procedure, a high-resolution structure of Sin1 could be successfully determined. The convergence and accuracy of the determined structure were improved by increasing the number of PRE-derived distance restraints. This study demonstrates that PRE-derived distance restraints are useful in the determination of a high-resolution structure of a soluble protein when the number of NOE constraints is insufficient.

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Organizational Affiliation: 
• Institute for Protein Research, Osaka University, 3-2 Yamadaoka, Suita, Osaka, 565-0871, Japan.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 19.24 kDa 
• Atom Count: 1,341 
• Modeled Residue Count: 160 
• Deposited Residue Count: 160 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Stress-activated map kinase-interacting protein 1	A	160	Schizosaccharomyces pombe 972h-	Mutation(s): 9  Gene Names: sin1, SPAPYUG7.02c
UniProt
Find proteins for Q9P7Y9 (Schizosaccharomyces pombe (strain 972 / ATCC 24843)) Explore Q9P7Y9  Go to UniProtKB:  Q9P7Y9

Small Molecules

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
R1A	A	L-PEPTIDE LINKING	C12 H21 N2 O3 S2		CYS

Experimental Data & Validation

Experimental Data

• Method: SOLUTION NMR
• Conformers Calculated: 100 
• Conformers Submitted: 10 
• Selection Criteria: structures with the lowest energy 

Structure Validation

Entry History 

Deposition Data

• Released Date: 2015-07-29 
Deposition Author(s): Furuita, K., Kataoka, S., Sugiki, T., Kobayashi, N., Ikegami, T., Shiozaki, K., Fujiwara, T., Kojima, C.

Revision History  

• Version 1.0: 2015-07-29
  Type: Initial release
  
• Version 1.1: 2025-03-26
  Changes: Data collection, Database references, Derived calculations, Structure summary