7ZBH | pdb_00007zbh

ATP-dependent zinc metalloprotease FtsH (BB0789) from Borrelia burgdorferi


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.30 Å
  • R-Value Free: 
    0.332 (Depositor), 0.325 (DCC) 
  • R-Value Work: 
    0.279 (Depositor), 0.279 (DCC) 
  • R-Value Observed: 
    0.281 (Depositor) 

wwPDB Validation 3D Report Full Report

Validation slider image for 7ZBH

This is version 1.2 of the entry. See complete history

Literature

Structure of the Borrelia burgdorferi ATP-dependent metalloprotease FtsH in its functionally relevant hexameric form.

Brangulis, K.Drunka, L.Akopjana, I.Tars, K.

(2024) Biochim Biophys Acta Proteins Proteom 1872: 140969-140969

  • DOI: https://doi.org/10.1016/j.bbapap.2023.140969
  • Primary Citation Related Structures: 
    7ZBH

  • PubMed Abstract: 

    ATP-dependent proteases FtsH are conserved in bacteria, mitochondria, and chloroplasts, where they play an essential role in degradation of misfolded/unneeded membrane and cytosolic proteins. It has also been demonstrated that the FtsH homologous protein BB0789 is crucial for mouse and tick infectivity and in vitro growth of the Lyme disease-causing agent Borrelia burgdorferi. This is not surprising, considering B. burgdorferi complex life cycle, residing in both in mammals and ticks, which requires a wide range of membrane proteins and short-lived cytosolic regulatory proteins to invade and persist in the host organism. In the current study, we have solved the crystal structure of the cytosolic BB0789 166 - 614 , lacking both N-terminal transmembrane α-helices and the small periplasmic domain. The structure revealed the arrangement of the AAA+ ATPase and the zinc-dependent metalloprotease domains in a hexamer ring, which is essential for ATPase and proteolytic activity. The AAA+ domain was found in an ADP-bound state, while the protease domain showed coordination of a zinc ion by two histidine residues and one aspartic acid residue. The loop region that forms the central pore in the oligomer was poorly defined in the crystal structure and therefore predicted by AlphaFold to complement the missing structural details, providing a complete picture of the functionally relevant hexameric form of BB0789. We confirmed that BB0789 is functionally active, possessing both protease and ATPase activities, thus providing novel structural-functional insights into the protein, which is known to be absolutely necessary for B. burgdorferi to survive and cause Lyme disease.


  • Organizational Affiliation
    • Latvian Biomedical Research and Study Centre, Ratsupites 1 k-1, LV-1067 Riga, Latvia; Department of Human Physiology and Biochemistry, Riga Stradins University, Dzirciema 16, LV-1007 Riga, Latvia. Electronic address: kalvis@biomed.lu.lv.

Macromolecule Content 

  • Total Structure Weight: 302.48 kDa 
  • Atom Count: 16,396 
  • Modeled Residue Count: 2,210 
  • Deposited Residue Count: 2,718 
  • Unique protein chains: 1

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
ATP-dependent zinc metalloprotease FtsH453Borreliella burgdorferi B31Mutation(s): 0 
Gene Names: ftsHBB_0789
EC: 3.4.24
UniProt
Find proteins for O51729 (Borreliella burgdorferi (strain ATCC 35210 / DSM 4680 / CIP 102532 / B31))
Explore O51729 
Go to UniProtKB:  O51729
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupO51729
Sequence Annotations
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Reference Sequence

Small Molecules

Ligands 2 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
ADP

Query on ADP



Download:Ideal Coordinates CCD File
G [auth A]
I [auth B]
K [auth D]
M [auth F]
O [auth I]
G [auth A],
I [auth B],
K [auth D],
M [auth F],
O [auth I],
Q [auth K]
ADENOSINE-5'-DIPHOSPHATE
C10 H15 N5 O10 P2
XTWYTFMLZFPYCI-KQYNXXCUSA-N
ZN

Query on ZN



Download:Ideal Coordinates CCD File
H [auth A]
J [auth B]
L [auth D]
N [auth F]
P [auth I]
H [auth A],
J [auth B],
L [auth D],
N [auth F],
P [auth I],
R [auth K]
ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.30 Å
  • R-Value Free:  0.332 (Depositor), 0.325 (DCC) 
  • R-Value Work:  0.279 (Depositor), 0.279 (DCC) 
  • R-Value Observed: 0.281 (Depositor) 
Space Group: C 1 2 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 153.81α = 90
b = 192.8β = 124.31
c = 114.13γ = 90
Software Package:
Software NamePurpose
REFMACrefinement
PDB_EXTRACTdata extraction
iMOSFLMdata reduction
Aimlessdata scaling
SHELXCDphasing

Structure Validation

View Full Validation Report



Entry History 

& Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Other governmentLatvialzp-2020/2-0378

Revision History  (Full details and data files)

  • Version 1.0: 2023-04-05
    Type: Initial release
  • Version 1.1: 2024-06-19
    Changes: Data collection, Refinement description
  • Version 1.2: 2026-02-04
    Changes: Database references, Structure summary