6LL5

Crystal structure of KpFtsZ (residues 11-316)

• PDB DOI: https://doi.org/10.2210/pdb6LL5/pdb

• Classification: CELL CYCLE
• Organism(s): Klebsiella pneumoniae
• Expression System: Escherichia coli K-12
• Mutation(s): No 


• Deposited: 2019-12-21 Released: 2020-02-26 
• Deposition Author(s): Yoshizawa, T., Fujita, J., Terakado, H., Ozawa, M., Kuroda, N., Tanaka, S., Uehara, R., Matsumura, H.
• Funding Organization(s): Japan Society for the Promotion of Science (JSPS), Japan Agency for Medical Research and Development (AMED)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.75 Å
• R-Value Free: 0.222 
• R-Value Work: 0.179 
• R-Value Observed: 0.181 

Literature

Crystal structures of the cell-division protein FtsZ from Klebsiella pneumoniae and Escherichia coli.

Yoshizawa, T., Fujita, J., Terakado, H., Ozawa, M., Kuroda, N., Tanaka, S.I., Uehara, R., Matsumura, H.

(2020) Acta Crystallogr F Struct Biol Commun 76: 86-93

• PubMed: 32039890 
• DOI: https://doi.org/10.1107/S2053230X2000076X
• Primary Citation of Related Structures:  
  6LL5, 6LL6


• PubMed Abstract: 
  

  FtsZ, a tubulin-like GTPase, is essential for bacterial cell division. In the presence of GTP, FtsZ polymerizes into filamentous structures, which are key to generating force in cell division. However, the structural basis for the molecular mechanism underlying FtsZ function remains to be elucidated. In this study, crystal structures of the enzymatic domains of FtsZ from Klebsiella pneumoniae (KpFtsZ) and Escherichia coli (EcFtsZ) were determined at 1.75 and 2.50 Å resolution, respectively. Both FtsZs form straight protofilaments in the crystals, and the two structures adopted relaxed (R) conformations. The T3 loop, which is involved in GTP/GDP binding and FtsZ assembly/disassembly, adopted a unique open conformation in KpFtsZ, while the T3 loop of EcFtsZ was partially disordered. The crystal structure of EcFtsZ can explain the results from previous functional analyses using EcFtsZ mutants.

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Organizational Affiliation: 

Department of Biotechnology, College of Life Sciences, Ritsumeikan University, 1-1-1 Noji-higashi, Kusatsu, Shiga 525-8577, Japan.

Biological Assembly 1  

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

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

Biological Assembly Evidence: microscopy

Macromolecule Content

• Total Structure Weight: 32.35 kDa 
• Atom Count: 2,416 
• Modelled Residue Count: 306 
• Deposited Residue Count: 309 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Cell division protein FtsZ	A	309	Klebsiella pneumoniae	Mutation(s): 0  Gene Names: ftsZ
UniProt
Find proteins for A0A0H3GRR0 (Klebsiella pneumoniae subsp. pneumoniae (strain HS11286)) Explore A0A0H3GRR0  Go to UniProtKB:  A0A0H3GRR0

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
GDP (Subject of Investigation/LOI)	B [auth A]	GUANOSINE-5'-DIPHOSPHATE C10 H15 N5 O11 P2 QGWNDRXFNXRZMB-UUOKFMHZSA-N
GOL (Subject of Investigation/LOI)	C [auth A]	GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.75 Å
• R-Value Free: 0.222 
• R-Value Work: 0.179 
• R-Value Observed: 0.181 
• Space Group: P 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 37.12	α = 89.215
b = 40.93	β = 72.865
c = 44.2	γ = 73.443

Software Package:

Software Name	Purpose
PHENIX	refinement
XDS	data reduction
XDS	data scaling
PHASER	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2020-02-26 
Deposition Author(s): Yoshizawa, T., Fujita, J., Terakado, H., Ozawa, M., Kuroda, N., Tanaka, S., Uehara, R., Matsumura, H.

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Funding Organization	Location	Grant Number
Japan Society for the Promotion of Science (JSPS)	Japan	15J00589
Japan Agency for Medical Research and Development (AMED)	Japan	JP19am0101070

Revision History  

• Version 1.0: 2020-02-26
  Type: Initial release
  
• Version 1.1: 2023-11-22
  Changes: Data collection, Database references, Refinement description