4WLK

Stationary Phase Survival Protein YuiC from B.subtilis complexed with reaction product

PDB DOI: https://doi.org/10.2210/pdb4WLK/pdb

Classification: LYASE
Organism(s): Bacillus subtilis subsp. subtilis str. 168
Expression System: Escherichia coli BL21(DE3)
Mutation(s): No

Deposited: 2014-10-07 Released: 2015-07-08
Deposition Author(s): Quay, D.H.X., Cole, A.R., Cryar, A., Thalassinos, K., Williams, M.A., Bhakta, S., Keep, N.H.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.03 Å
R-Value Free: 0.205
R-Value Work: 0.172
R-Value Observed: 0.173

wwPDB Validation 3D Report Full Report

Ligand Structure Quality Assessment

This is version 1.1 of the entry. See complete history.

Literature

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

PubMed: 26163297 Search on PubMedSearch on PubMed Central
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.

Organizational Affiliation

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

Macromolecule Content

Total Structure Weight: 37.77 kDa
Atom Count: 2,506
Modelled Residue Count: 289
Deposited Residue Count: 332
Unique protein chains: 1

Macromolecules

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(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
YuiC	A, B	166	Bacillus subtilis subsp. subtilis str. 168	Mutation(s): 0 Gene Names: yuiC, BSU32070
UniProt
Find proteins for O32108 (Bacillus subtilis (strain 168)) Explore O32108 Go to UniProtKB: O32108
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	O32108
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
3QL Query on 3QL Download Ideal Coordinates CCD File SDF format, chain C [auth A] SDF format, chain D [auth B] MOL2 format, chain C [auth A] MOL2 format, chain D [auth B]	C [auth A], D [auth B]	N-[(1R,2S,3R,4R,5R)-2-[(2S,3R,4R,5S,6R)-3-acetamido-6-(hydroxymethyl)-4,5-bis(oxidanyl)oxan-2-yl]oxy-3-oxidanyl-6,8-dioxabicyclo[3.2.1]octan-4-yl]ethanamide C₁₆ H₂₆ N₂ O₁₀ UVQRTGABPMLDOA-KSKNGZLJSA-N		Interactions Focus chain C [auth A] Focus chain D [auth B] Interactions & Density Focus chain C [auth A] Focus chain D [auth B]