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- PDB-8p1u: Structure of divisome complex FtsWIQLB -

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Basic information

Entry
Database: PDB / ID: 8p1u
TitleStructure of divisome complex FtsWIQLB
Components
  • Cell division protein FtsB
  • Cell division protein FtsL
  • Cell division protein FtsQ
  • Peptidoglycan D,D-transpeptidase FtsI
  • Probable peptidoglycan glycosyltransferase FtsW
KeywordsCELL CYCLE / FtsWIQLB / Gram-negative bacteria / membrane protein / divisome
Function / homology
Function and homology information


cell septum assembly / lipid-linked peptidoglycan transporter activity / peptidoglycan glycosyltransferase / peptidoglycan glycosyltransferase activity / cell septum / serine-type D-Ala-D-Ala carboxypeptidase / FtsZ-dependent cytokinesis / serine-type D-Ala-D-Ala carboxypeptidase activity / division septum assembly / cell division site ...cell septum assembly / lipid-linked peptidoglycan transporter activity / peptidoglycan glycosyltransferase / peptidoglycan glycosyltransferase activity / cell septum / serine-type D-Ala-D-Ala carboxypeptidase / FtsZ-dependent cytokinesis / serine-type D-Ala-D-Ala carboxypeptidase activity / division septum assembly / cell division site / penicillin binding / peptidoglycan biosynthetic process / cell wall organization / regulation of cell shape / cell division / proteolysis / plasma membrane
Similarity search - Function
Probable peptidoglycan glycosyltransferase FtsW / Cell division protein FtsL / Cell division protein FtsL / Cell cycle, FtsW / RodA / SpoVE, conserved site / Cell cycle proteins ftsW / rodA / spoVE signature. / Septum formation initiator FtsL/DivIC / Cell division protein FtsB / Septum formation initiator / Cell division protein FtsQ, C-terminal / Cell division protein FtsQ ...Probable peptidoglycan glycosyltransferase FtsW / Cell division protein FtsL / Cell division protein FtsL / Cell cycle, FtsW / RodA / SpoVE, conserved site / Cell cycle proteins ftsW / rodA / spoVE signature. / Septum formation initiator FtsL/DivIC / Cell division protein FtsB / Septum formation initiator / Cell division protein FtsQ, C-terminal / Cell division protein FtsQ / Cell division protein FtsQ/DivIB, C-terminal / POTRA domain, FtsQ-type / Cell division protein FtsQ/DivIB, C-terminal / POTRA domain, FtsQ-type / Probable peptidoglycan glycosyltransferase FtsW/RodA / Cell cycle protein / Peptidoglycan D,D-transpeptidase FtsI / POTRA domain / POTRA domain profile. / Penicillin-binding protein, dimerisation domain / Penicillin-binding Protein dimerisation domain / Penicillin-binding protein, dimerisation domain superfamily / Penicillin-binding protein, transpeptidase / Penicillin binding protein transpeptidase domain / Beta-lactamase/transpeptidase-like
Similarity search - Domain/homology
Peptidoglycan D,D-transpeptidase FtsI / Cell division protein FtsQ / Cell division protein FtsL / Probable peptidoglycan glycosyltransferase FtsW / Cell division protein FtsB
Similarity search - Component
Biological speciesEscherichia coli K-12 (bacteria)
MethodELECTRON MICROSCOPY / single particle reconstruction / cryo EM / Resolution: 3.3 Å
AuthorsYang, L. / Chang, S. / Tang, D. / Dong, H.
Funding support China, 1items
OrganizationGrant numberCountry
National Natural Science Foundation of China (NSFC)31900039,32000844,81971974 China
CitationJournal: Cell Discov / Year: 2024
Title: Structural insights into the activation of the divisome complex FtsWIQLB.
Authors: Lili Yang / Yujiao Chen / Shenghai Chang / Chongrong Shen / Xin Wang / Changbin Zhang / Zhibo Zhang / Bi-Sen Ding / Zhaoming Su / Haohao Dong / Xiaodi Tang /
History
DepositionMay 12, 2023Deposition site: PDBE / Processing site: PDBE
Revision 1.0May 22, 2024Provider: repository / Type: Initial release

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Structure visualization

Structure viewerMolecule:
MolmilJmol/JSmol

Downloads & links

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Assembly

Deposited unit
C: Cell division protein FtsL
A: Probable peptidoglycan glycosyltransferase FtsW
B: Peptidoglycan D,D-transpeptidase FtsI
D: Cell division protein FtsB
E: Cell division protein FtsQ


Theoretical massNumber of molelcules
Total (without water)161,0575
Polymers161,0575
Non-polymers00
Water0
1


  • Idetical with deposited unit
  • defined by author
  • Evidence: electron microscopy
TypeNameSymmetry operationNumber
identity operation1_5551

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Components

#1: Protein Cell division protein FtsL /


Mass: 11150.034 Da / Num. of mol.: 1
Source method: isolated from a genetically manipulated source
Source: (gene. exp.) Escherichia coli K-12 (bacteria) / Gene: ftsL, PA4419 / Production host: Escherichia coli K-12 (bacteria) / References: UniProt: Q9HVZ6
#2: Protein Probable peptidoglycan glycosyltransferase FtsW / PGT / Cell division protein FtsW / Cell wall polymerase / Peptidoglycan polymerase / PG polymerase


Mass: 43793.629 Da / Num. of mol.: 1
Source method: isolated from a genetically manipulated source
Source: (gene. exp.) Escherichia coli K-12 (bacteria) / Gene: ftsW, PA4413 / Production host: Escherichia coli K-12 (bacteria)
References: UniProt: Q9HW00, peptidoglycan glycosyltransferase
#3: Protein Peptidoglycan D,D-transpeptidase FtsI / Penicillin-binding protein 3 / PBP-3


Mass: 62933.082 Da / Num. of mol.: 1
Source method: isolated from a genetically manipulated source
Source: (gene. exp.) Escherichia coli K-12 (bacteria) / Gene: ftsI, pbpB, PA4418 / Production host: Escherichia coli K-12 (bacteria)
References: UniProt: G3XD46, serine-type D-Ala-D-Ala carboxypeptidase
#4: Protein Cell division protein FtsB /


Mass: 10890.521 Da / Num. of mol.: 1
Source method: isolated from a genetically manipulated source
Source: (gene. exp.) Escherichia coli K-12 (bacteria) / Gene: ftsB, PA3634 / Production host: Escherichia coli K-12 (bacteria) / References: UniProt: Q9HXZ6
#5: Protein Cell division protein FtsQ /


Mass: 32290.223 Da / Num. of mol.: 1
Source method: isolated from a genetically manipulated source
Source: (gene. exp.) Escherichia coli K-12 (bacteria) / Gene: ftsQ, PA4409 / Production host: Escherichia coli K-12 (bacteria) / References: UniProt: G3XDA7

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Experimental details

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Experiment

ExperimentMethod: ELECTRON MICROSCOPY
EM experimentAggregation state: PARTICLE / 3D reconstruction method: single particle reconstruction

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Sample preparation

ComponentName: divisome complex FtsWIQLB / Type: COMPLEX / Entity ID: all / Source: RECOMBINANT
Source (natural)Organism: Escherichia coli K-12 (bacteria)
Source (recombinant)Organism: Escherichia coli K-12 (bacteria)
Buffer solutionpH: 7.8
SpecimenEmbedding applied: NO / Shadowing applied: NO / Staining applied: NO / Vitrification applied: YES
VitrificationCryogen name: ETHANE

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Electron microscopy imaging

Experimental equipment
Model: Titan Krios / Image courtesy: FEI Company
MicroscopyModel: FEI TITAN KRIOS
Electron gunElectron source: FIELD EMISSION GUN / Accelerating voltage: 300 kV / Illumination mode: FLOOD BEAM
Electron lensMode: BRIGHT FIELDBright-field microscopy / Nominal defocus max: 2000 nm / Nominal defocus min: 1000 nm / Calibrated defocus min: 1000 nm / Calibrated defocus max: 2000 nm
Image recordingElectron dose: 50 e/Å2 / Film or detector model: FEI FALCON IV (4k x 4k)

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Processing

SoftwareName: PHENIX / Version: 1.20.1_4487: / Classification: refinement
CTF correctionType: PHASE FLIPPING AND AMPLITUDE CORRECTION
3D reconstructionResolution: 3.3 Å / Resolution method: FSC 0.143 CUT-OFF / Num. of particles: 340758 / Symmetry type: POINT
Refine LS restraints
Refine-IDTypeDev idealNumber
ELECTRON MICROSCOPYf_bond_d0.0049329
ELECTRON MICROSCOPYf_angle_d0.62312648
ELECTRON MICROSCOPYf_dihedral_angle_d4.3721286
ELECTRON MICROSCOPYf_chiral_restr0.0431437
ELECTRON MICROSCOPYf_plane_restr0.0061611

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