Biological Assembly 1  

 3D View: Structure | 1D-3D View | Electron Density | Validation Report

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

Biological assembly 1 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 10.12 kDa 
• Atom Count: 965 
• Modelled Residue Count: 86 
• Deposited Residue Count: 86 
• Unique protein chains: 1

4BPF

High resolution crystal structure of Bacillus subtilis DltC S36A

• PDB DOI: 10.2210/pdb4BPF/pdb

• Classification: LIGASE
• Organism(s): Bacillus subtilis
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): Yes 


• Deposited: 2013-05-26 Released: 2014-06-11 
• Deposition Author(s): Zimmermann, S., Neumann, P., Stubbs, M.T.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.01 Å
• R-Value Free: 0.156 
• R-Value Work: 0.129 
• R-Value Observed: 0.130 

Literature

High-Resolution Structures of the D-Alanyl Carrier Protein (Dcp) Dltc from Bacillus Subtilis Reveal Equivalent Conformations of Apo- and Holo-Forms

Zimmermann, S., Pfennig, S., Neumann, P., Yonus, H., Weininger, U., Kovermann, M., Balbach, J., Stubbs, M.T.

(2015) FEBS Lett 589: 2283

• PubMed: 26193422 
• DOI: 10.1016/j.febslet.2015.07.008
• Primary Citation of Related Structures:  
  4BPF, 4BPG, 4BPH


• PubMed Abstract: 
  

D-Alanylation of lipoteichoic acids plays an important role in modulating the properties of Gram-positive bacteria cell walls. The D-alanyl carrier protein DltC from Bacillus subtilis has been solved in apo- and two cofactor-modified holo-forms, whereby the entire phosphopantetheine moiety is defined in one. The atomic resolution of the apo-structure allows delineation of alternative conformations within the hydrophobic core of the 78 residue four helix bundle. In contrast to previous reports for a peptidyl carrier protein from a non-ribosomal peptide synthetase, no obvious structural differences between apo- and holo-DltC forms are observed. Solution NMR spectroscopy confirms these findings and demonstrates in addition that the two forms exhibit similar backbone dynamics on the ps-ns and ms timescales.

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Organizational Affiliation: 

Institut für Biochemie und Biotechnologie, Martin-Luther Universität Halle-Wittenberg, Kurt-Mothes Strasse 3, D-06120 Halle/Saale, Germany. Electronic address: [e-mail].

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
D-ALANINE--POLY(PHOSPHORIBITOL) LIGASE SUBUNIT 2	A	86	Bacillus subtilis	Mutation(s): 1  EC: 6.1.1.13
UniProt
Find proteins for P39579 (Bacillus subtilis (strain 168)) Explore P39579  Go to UniProtKB:  P39579

Small Molecules

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
MSE	A	L-PEPTIDE LINKING	C5 H11 N O2 Se		MET

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.01 Å
• R-Value Free: 0.156 
• R-Value Work: 0.129 
• R-Value Observed: 0.130 
• Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 34.59	α = 90
b = 37.222	β = 114.79
c = 37.676	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
SHELX	phasing

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2013-05-26 
• Released Date: 2014-06-11 
Deposition Author(s): Zimmermann, S., Neumann, P., Stubbs, M.T.

Revision History  

• Version 1.0: 2014-06-11
  Type: Initial release
  
• Version 1.1: 2015-07-22
  Changes: Database references
• Version 1.2: 2015-07-29
  Changes: Database references
• Version 1.3: 2015-08-26
  Changes: Database references