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- EMDB-72367: Teichoic acid flippase TacF from Streptococcus pneumoniae -

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Basic information

Entry
Database: EMDB / ID: EMD-72367
TitleTeichoic acid flippase TacF from Streptococcus pneumoniae
Map data
Sample
  • Complex: BRIL-TacF with bound Fab
    • Complex: BRIL-TacF
      • Protein or peptide: Soluble cytochrome b562,Teichoic acid subunit flippase
    • Complex: BAG2 Fab
KeywordsTeichoic acid / Flippase / Transporter / Lipid transport / MEMBRANE PROTEIN
Function / homology
Function and homology information


electron transport chain / periplasmic space / electron transfer activity / iron ion binding / heme binding / plasma membrane
Similarity search - Function
Polysaccharide biosynthesis protein / : / Polysaccharide biosynthesis protein / Cytochrome b562 / Cytochrome b562 / Cytochrome c/b562
Similarity search - Domain/homology
Soluble cytochrome b562 / Teichoic acid subunit flippase
Similarity search - Component
Biological speciesEscherichia coli (E. coli) / Homo sapiens (human) / Streptococcus pneumoniae (bacteria)
Methodsingle particle reconstruction / cryo EM / Resolution: 3.63 Å
AuthorsCebrero G / Chidananda HA / Denereaz JL / Cester E / Mathew AT / Bhowmik DR / Capitani M / Reymond JL / Kannan N / Veening JW ...Cebrero G / Chidananda HA / Denereaz JL / Cester E / Mathew AT / Bhowmik DR / Capitani M / Reymond JL / Kannan N / Veening JW / Mehdipour AR / Perez C
Funding support Switzerland, United States, 2 items
OrganizationGrant numberCountry
Swiss National Science Foundation310030_207974 Switzerland
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)R35GM158187 United States
CitationJournal: bioRxiv / Year: 2026
Title: Mechanistic basis of teichoic acid transport by a gatekeeper flippase.
Authors: Gonzalo Cebrero / Amrutha H Chidananda / Eric Cester / Julien Dénéréaz / Elif Sena Demir / Alen T Mathew / D Ryan Bhowmik / Mario de Capitani / Jean-Louis Reymond / Natarajan Kannan / ...Authors: Gonzalo Cebrero / Amrutha H Chidananda / Eric Cester / Julien Dénéréaz / Elif Sena Demir / Alen T Mathew / D Ryan Bhowmik / Mario de Capitani / Jean-Louis Reymond / Natarajan Kannan / Fikri Y Avci / Jan-Willem Veening / Ahmad Reza Mehdipour / Camilo Perez
Abstract: The cell wall is a complex structure that protects bacteria from environmental threats. Phosphocholine-containing teichoic acids are key cell wall biopolymers critical for host colonization, immune ...The cell wall is a complex structure that protects bacteria from environmental threats. Phosphocholine-containing teichoic acids are key cell wall biopolymers critical for host colonization, immune evasion, competence, and persistence in . The flippase TacF, a member of the multidrug/oligosaccharide-lipid/polysaccharide (MOP) superfamily, monitors the phosphocholine content of teichoic acids during transport, yet the underlying mechanism of this process remains unknown. We present a cryo-EM structure of TacF in lipid nanodiscs. complementation assays and molecular dynamics simulations reveal key residues involved in teichoic acid recognition and transport, while coevolutionary and conservation analyses delineate common mechanistic elements among MOP flippases, indicating a shared mechanism for polyprenyl-diphosphate-linked oligosaccharide lipid transport. Our findings provide mechanistic insights into an essential flippase involved in pathogenesis and a potential drug target.
History
DepositionAug 27, 2025-
Header (metadata) releaseApr 29, 2026-
Map releaseApr 29, 2026-
UpdateMay 20, 2026-
Current statusMay 20, 2026Processing site: RCSB / Status: Released

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Structure visualization

Supplemental images

emd_72367.png

Downloads & links

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Map

FileDownload / File: emd_72367.map.gz / Format: CCP4 / Size: 216 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
Projections & slices

Image control

Size
Brightness
Contrast
Others
AxesZ (Sec.)Y (Row.)X (Col.)
0.88 Å/pix.
x 384 pix.
= 337.152 Å		0.88 Å/pix.
x 384 pix.
= 337.152 Å		0.88 Å/pix.
x 384 pix.
= 337.152 Å

Surface

Projections

Slices (1/3)

Slices (1/2)

Slices (2/3)

Images are generated by Spider.

Voxel sizeX=Y=Z: 0.878 Å
Density

Histogram

Histogram (log scale)
Contour LevelBy AUTHOR: 0.195
Minimum - Maximum-2.6436718 - 2.9868934
Average (Standard dev.)-0.00014590939 (±0.03032192)
SymmetrySpace group: 1
Details

EMDB XML:

Map geometry
Axis orderXYZ
Origin000
Dimensions384384384
Spacing384384384
CellA=B=C: 337.152 Å
α=β=γ: 90.0 °

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Supplemental data

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Half map: #2

Fileemd_72367_half_map_1.map
Projections & Slices
AxesZYX

Projections

Slices (1/2)
Density Histograms

Histogram

Histogram (log scale)

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Half map: #1

Fileemd_72367_half_map_2.map
Projections & Slices
AxesZYX

Projections

Slices (1/2)
Density Histograms

Histogram

Histogram (log scale)

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Sample components

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Entire : BRIL-TacF with bound Fab

EntireName: BRIL-TacF with bound Fab
Components
  • Complex: BRIL-TacF with bound Fab
    • Complex: BRIL-TacF
      • Protein or peptide: Soluble cytochrome b562,Teichoic acid subunit flippase
    • Complex: BAG2 Fab

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Supramolecule #1: BRIL-TacF with bound Fab

SupramoleculeName: BRIL-TacF with bound Fab / type: complex / ID: 1 / Parent: 0 / Macromolecule list: all
Molecular weightTheoretical: 67.5 KDa

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Supramolecule #2: BRIL-TacF

SupramoleculeName: BRIL-TacF / type: complex / ID: 2 / Parent: 1 / Macromolecule list: all
Source (natural)Organism: Escherichia coli (E. coli)

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Supramolecule #3: BAG2 Fab

SupramoleculeName: BAG2 Fab / type: complex / ID: 3 / Parent: 1
Source (natural)Organism: Homo sapiens (human)

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Macromolecule #1: Soluble cytochrome b562,Teichoic acid subunit flippase

MacromoleculeName: Soluble cytochrome b562,Teichoic acid subunit flippase
type: protein_or_peptide / ID: 1 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Streptococcus pneumoniae (bacteria) / Strain: R6
Molecular weightTheoretical: 67.575086 KDa
Recombinant expressionOrganism: Escherichia coli (E. coli)
SequenceString: MADLEDNWET LNDNLKVIEK ADNAAQVKDA LTKMRAAALD AQKATPPKLE DKSPDSPEMK DFRHGFDILV GQIDDALKLA NEGKVKEAQ AAAEQLKTTR NAYIQKYLLS YMGIRVLNII FPILTGTYVA RVLDRTDYGY FNSVDTILSF FLPFATYGVY N YGLRAISN ...String:
MADLEDNWET LNDNLKVIEK ADNAAQVKDA LTKMRAAALD AQKATPPKLE DKSPDSPEMK DFRHGFDILV GQIDDALKLA NEGKVKEAQ AAAEQLKTTR NAYIQKYLLS YMGIRVLNII FPILTGTYVA RVLDRTDYGY FNSVDTILSF FLPFATYGVY N YGLRAISN VKDNKKDLNR TFSSLFYLCI ACTILTTAVY ILAYPLFFTD NPIVKKVYLV MGIQLIAQIF SIEWVNEALE NY SFLFYKT AFIRILMLVS IFLFVKNEHD IVVYTLVMSL STLINYLISY FWIKRDIKLV KIHLSDFKPL FLPLTAMLVF ANA NMLFTF LDRLFLVKTG IDVNVSYYTI AQRIVTVIAG VVTGAIGVSV PRLSYYLGKG DKEAYVSLVN RGSRIFNFFI IPLS FGLMV LGPNAILLYG SEKYIGGGIL TSLFAFRTII LALDTILGSQ ILFTNGYEKR ITVYTVFAGL LNLGLNSLLF FNHIV APEY YLLTTMLSET SLLVFYIIFI HRKQLIHLGH IFSYTVRYSL FSLSFVAIYF LINFVYPVDM VINLPFLINT GLIVLL SAI SYISLLVFTK DSIFYEFLNH VLALKNKFKK S

UniProtKB: Soluble cytochrome b562, Teichoic acid subunit flippase

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Experimental details

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Structure determination

Methodcryo EM
Processingsingle particle reconstruction
Aggregation stateparticle

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Sample preparation

BufferpH: 8
VitrificationCryogen name: ETHANE

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Electron microscopy

MicroscopeTFS GLACIOS
Image recordingFilm or detector model: GATAN K3 (6k x 4k) / Average electron dose: 50.0 e/Å2
Electron beamAcceleration voltage: 200 kV / Electron source: FIELD EMISSION GUN
Electron opticsIllumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD / Nominal defocus max: 5.0 µm / Nominal defocus min: 1.0 µm

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Image processing

CTF correctionType: NONE
Startup modelType of model: INSILICO MODEL
Final reconstructionResolution.type: BY AUTHOR / Resolution: 3.63 Å / Resolution method: FSC 0.143 CUT-OFF / Software - Name: cryoSPARC (ver. v4.7.1) / Number images used: 87891
Initial angle assignmentType: ANGULAR RECONSTITUTION
Final angle assignmentType: ANGULAR RECONSTITUTION
FSC plot (resolution estimation)

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