8H1O

Cryo-EM structure of KpFtsZ-monobody double helical tube


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.67 Å
  • Aggregation State: FILAMENT 
  • Reconstruction Method: HELICAL 

wwPDB Validation   3D Report Full Report


This is version 1.0 of the entry. See complete history


Literature

Structures of a FtsZ single protofilament and a double-helical tube in complex with a monobody.

Fujita, J.Amesaka, H.Yoshizawa, T.Hibino, K.Kamimura, N.Kuroda, N.Konishi, T.Kato, Y.Hara, M.Inoue, T.Namba, K.Tanaka, S.I.Matsumura, H.

(2023) Nat Commun 14: 4073-4073

  • DOI: https://doi.org/10.1038/s41467-023-39807-5
  • Primary Citation of Related Structures:  
    8GZV, 8GZW, 8GZX, 8GZY, 8H1O

  • PubMed Abstract: 

    FtsZ polymerizes into protofilaments to form the Z-ring that acts as a scaffold for accessory proteins during cell division. Structures of FtsZ have been previously solved, but detailed mechanistic insights are lacking. Here, we determine the cryoEM structure of a single protofilament of FtsZ from Klebsiella pneumoniae (KpFtsZ) in a polymerization-preferred conformation. We also develop a monobody (Mb) that binds to KpFtsZ and FtsZ from Escherichia coli without affecting their GTPase activity. Crystal structures of the FtsZ-Mb complexes reveal the Mb binding mode, while addition of Mb in vivo inhibits cell division. A cryoEM structure of a double-helical tube of KpFtsZ-Mb at 2.7 Å resolution shows two parallel protofilaments. Our present study highlights the physiological roles of the conformational changes of FtsZ in treadmilling that regulate cell division.


  • Organizational Affiliation

    Graduate School of Frontier Biosciences, Osaka University, 1-3 Yamadaoka, Suita, Osaka, 565-0871, Japan.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Cell division protein FtsZ385Klebsiella pneumoniaeMutation(s): 0 
UniProt
Find proteins for W9BCK7 (Klebsiella pneumoniae)
Explore W9BCK7 
Go to UniProtKB:  W9BCK7
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupW9BCK7
Sequence Annotations
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  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Mb(Ec/KpFtsZ_S1)92Homo sapiensMutation(s): 0 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
Sequence Annotations
Expand
  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
GDP (Subject of Investigation/LOI)
Query on GDP

Download Ideal Coordinates CCD File 
C [auth A]GUANOSINE-5'-DIPHOSPHATE
C10 H15 N5 O11 P2
QGWNDRXFNXRZMB-UUOKFMHZSA-N
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.67 Å
  • Aggregation State: FILAMENT 
  • Reconstruction Method: HELICAL 
EM Software:
TaskSoftware PackageVersion
RECONSTRUCTIONcryoSPARC3.3.1
MODEL REFINEMENTPHENIX1.19.2

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Japan Society for the Promotion of Science (JSPS)JapanJP18K05445
Japan Society for the Promotion of Science (JSPS)JapanJP21K05386
Japan Society for the Promotion of Science (JSPS)JapanJP18K06094
Japan Society for the Promotion of Science (JSPS)JapanJP19H04735
Japan Society for the Promotion of Science (JSPS)JapanJP20K22630
the Japan Science SocietyJapan2018-3011
the Japan Science SocietyJapan2022-4052
Japan Science and TechnologyJapanJPMJOP1861
Japan Agency for Medical Research and Development (AMED)JapanJP21am0101117
Japan Agency for Medical Research and Development (AMED)JapanJP22ama121003
Japan Agency for Medical Research and Development (AMED)JapanJP17pc0101020
JEOL YOKOGUSHI Research Alliance Laboratories of Osaka UniversityJapan--
Institute for Protein Research, Osaka UniversityJapanCR-20-02
Institute for Protein Research, Osaka UniversityJapanCR-21-02
Japan Agency for Medical Research and Development (AMED)JapanJP21am0101070
G-7 Scholarship Foundation--

Revision History  (Full details and data files)

  • Version 1.0: 2023-08-02
    Type: Initial release