Stationary Phase Survival Protein YuiC from B.subtilis complexed with NAG

Experimental Data Snapshot

  • Resolution: 1.21 Å
  • R-Value Free: 0.144 
  • R-Value Work: 0.111 
  • R-Value Observed: 0.112 

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This is version 1.3 of the entry. See complete history


Structure of the stationary phase survival protein YuiC from B.subtilis.

Quay, D.H.Cole, A.R.Cryar, A.Thalassinos, K.Williams, M.A.Bhakta, S.Keep, N.H.

(2015) BMC Struct Biol 15: 12-12

  • DOI: https://doi.org/10.1186/s12900-015-0039-z
  • Primary Citation of Related Structures:  
    4WJT, 4WLI, 4WLK

  • PubMed Abstract: 

    Stationary phase survival proteins (Sps) were found in Firmicutes as having analogous domain compositions, and in some cases genome context, as the resuscitation promoting factors of Actinobacteria, but with a different putative peptidoglycan cleaving domain. The first structure of a Firmicute Sps protein YuiC from B. subtilis, is found to be a stripped down version of the cell-wall peptidoglycan hydrolase MltA. The YuiC structures are of a domain swapped dimer, although some monomer is also found in solution. The protein crystallised in the presence of pentasaccharide shows a 1,6-anhydrodisaccharide sugar product, indicating that YuiC cleaves the sugar backbone to form an anhydro product at least on lengthy incubation during crystallisation. The structural simplification of MltA in Sps proteins is analogous to that of the resuscitation promoting factor domains of Actinobacteria, which are stripped down versions of lysozyme and soluble lytic transglycosylase proteins.

  • Organizational Affiliation

    Institute for Structural and Molecular Biology, Crystallography, Department of Biological Sciences, Birkbeck University of London, Malet Street, London, WC1E 7HX, UK. d.quay@mail.cryst.bbk.ac.uk.

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Uncharacterized protein YuiC
A, B
167Bacillus subtilis subsp. subtilis str. 168Mutation(s): 0 
Gene Names: yuiCBSU32070
Find proteins for O32108 (Bacillus subtilis (strain 168))
Explore O32108 
Go to UniProtKB:  O32108
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupO32108
Sequence Annotations
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Resolution: 1.21 Å
  • R-Value Free: 0.144 
  • R-Value Work: 0.111 
  • R-Value Observed: 0.112 
  • Space Group: H 3
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 145.48α = 90
b = 145.48β = 90
c = 37.82γ = 120
Software Package:
Software NamePurpose
XDSdata reduction
XSCALEdata scaling

Structure Validation

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Ligand Structure Quality Assessment 

Entry History & Funding Information

Deposition Data

Funding OrganizationLocationGrant Number
Commonwealth Studies CommissionUnited KingdomMYCS-2011-252

Revision History  (Full details and data files)

  • Version 1.0: 2015-07-08
    Type: Initial release
  • Version 1.1: 2016-09-21
    Changes: Database references
  • Version 1.2: 2020-07-29
    Type: Remediation
    Reason: Carbohydrate remediation
    Changes: Data collection, Derived calculations, Structure summary
  • Version 1.3: 2024-01-10
    Changes: Data collection, Database references, Refinement description, Structure summary