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- EMDB-71350: LPS transport bridge LptBFGCADE from Escherichia coli in complex ... -

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Basic information

Entry
Database: EMDB / ID: EMD-71350
TitleLPS transport bridge LptBFGCADE from Escherichia coli in complex with lipopolysaccharide
Map dataComposite map
Sample
  • Complex: Intermembrane lipopolysaccharide transport bridge composed of LptD, LptE, LptC-LptA fusion protein, LptF, LptG, and two molecules of LptB in complex with lipopolysaccharide
    • Complex: Inner membrane portion of lipopolysaccharide transporter
      • Protein or peptide: Lipopolysaccharide export system protein LptC,Lipopolysaccharide export system protein LptA
      • Protein or peptide: Lipopolysaccharide export system ATP-binding protein LptB
      • Protein or peptide: Lipopolysaccharide export system permease protein LptF
      • Protein or peptide: Lipopolysaccharide export system permease protein LptG
    • Complex: Outer membrane portion of lipopolysaccharide transporter with LptA
      • Protein or peptide: LPS-assembly protein LptD
      • Protein or peptide: LPS-assembly lipoprotein LptE
  • Ligand: (2~{R},4~{R},5~{R},6~{R})-6-[(1~{R})-1,2-bis(oxidanyl)ethyl]-2-[(2~{R},4~{R},5~{R},6~{R})-6-[(1~{R})-1,2-bis(oxidanyl)ethyl]-5-[(2~{S},3~{S},4~{R},5~{R},6~{R})-6-[(1~{S})-1,2-bis(oxidanyl)ethyl]-4-[(2~{R},3~{S},4~{R},5~{S},6~{R})-6-[(1~{S})-2-[(2~{S},3~{S},4~{S},5~{S},6~{R})-6-[(1~{S})-1,2-bis(oxidanyl)ethyl]-3,4,5-tris(oxidanyl)oxan-2-yl]oxy-1-oxidanyl-ethyl]-3,4-bis(oxidanyl)-5-phosphonooxy-oxan-2-yl]oxy-3-oxidanyl-5-phosphonooxy-oxan-2-yl]oxy-2-carboxy-2-[[(2~{R},3~{S},4~{R},5~{R},6~{R})-5-[[(3~{R})-3-dodecanoyloxytetradecanoyl]amino]-6-[[(2~{R},3~{S},4~{R},5~{R},6~{R})-3-oxidanyl-5-[[(3~{R})-3-oxidanyltetradecanoyl]amino]-4-[(3~{R})-3-oxidanyltetradecanoyl]oxy-6-phosphonooxy-oxan-2-yl]methoxy]-3-phosphonooxy-4-[(3~{R})-3-tetradecanoyloxytetradecanoyl]oxy-oxan-2-yl]methoxy]oxan-4-yl]oxy-4,5-bis(oxidanyl)oxane-2-carboxylic acid
KeywordsComplex / Lipopolysaccharide / ABC / ATP binding cassette / transporter / bridge / intermembrane / LIPID TRANSPORT
Function / homology
Function and homology information


lipopolysaccharide transfer activity / Translocases; Catalysing the translocation of carbohydrates and their derivatives; Linked to the hydrolysis of a nucleoside triphosphate / glycolipid transfer activity / transporter complex / lipopolysaccharide transport / Gram-negative-bacterium-type cell outer membrane assembly / ATP-binding cassette (ABC) transporter complex / cell outer membrane / lipopolysaccharide binding / transmembrane transport ...lipopolysaccharide transfer activity / Translocases; Catalysing the translocation of carbohydrates and their derivatives; Linked to the hydrolysis of a nucleoside triphosphate / glycolipid transfer activity / transporter complex / lipopolysaccharide transport / Gram-negative-bacterium-type cell outer membrane assembly / ATP-binding cassette (ABC) transporter complex / cell outer membrane / lipopolysaccharide binding / transmembrane transport / outer membrane-bounded periplasmic space / periplasmic space / ATP hydrolysis activity / ATP binding / membrane / identical protein binding / plasma membrane / cytoplasm
Similarity search - Function
: / Lipopolysaccharide export system protein LptA / Lipopolysaccharide assembly, LptC-related / Lipopolysaccharide export system protein LptC / : / Lipopolysaccharide-assembly, LptC-related / Permease LptG/LptF-related / LPS export ABC transporter permease LptF / LPS export ABC transporter permease LptG / Lipopolysaccharide export system permease LptF/LptG ...: / Lipopolysaccharide export system protein LptA / Lipopolysaccharide assembly, LptC-related / Lipopolysaccharide export system protein LptC / : / Lipopolysaccharide-assembly, LptC-related / Permease LptG/LptF-related / LPS export ABC transporter permease LptF / LPS export ABC transporter permease LptG / Lipopolysaccharide export system permease LptF/LptG / LptD, C-terminal / LPS-assembly protein LptD / : / LPS transport system D / Branched-chain amino acid ATP-binding cassette transporter, C-terminal / Branched-chain amino acid ATP-binding cassette transporter / LPS export ABC transporter, ATP-binding protein LptB / : / LPS-assembly lipoprotein LptE / Lipopolysaccharide-assembly / Organic solvent tolerance-like, N-terminal / LptA/(LptD N-terminal domain) LPS transport protein / ABC transporter-like, conserved site / ABC transporters family signature. / ABC transporter / ABC transporter-like, ATP-binding domain / ATP-binding cassette, ABC transporter-type domain profile. / Prokaryotic membrane lipoprotein lipid attachment site profile. / ATPases associated with a variety of cellular activities / AAA+ ATPase domain / P-loop containing nucleoside triphosphate hydrolase
Similarity search - Domain/homology
Lipopolysaccharide export system ATP-binding protein LptB / LPS-assembly lipoprotein LptE / Lipopolysaccharide export system permease protein LptG / Lipopolysaccharide export system protein LptA / Lipopolysaccharide export system protein LptC / Lipopolysaccharide export system permease protein LptF / LPS-assembly protein LptD
Similarity search - Component
Biological speciesEscherichia coli (E. coli)
Methodsingle particle reconstruction / cryo EM / Resolution: 3.4 Å
AuthorsTaylor RJ / Pahil KS / Walsh Jr RM / Kahne DE
Funding support United States, 3 items
OrganizationGrant numberCountry
National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)AI149778 United States
National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)AI081059 United States
National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)AI153358 United States
CitationJournal: To Be Published
Title: Structural basis for regulating lipopolysaccharide transmembrane transport
Authors: Taylor RJ / Pahil KS / Walsh Jr RM / Kahne DE
History
DepositionJun 20, 2025-
Header (metadata) releaseSep 30, 2026-
Map releaseSep 30, 2026-
UpdateSep 30, 2026-
Current statusSep 30, 2026Processing site: RCSB / Status: Released

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Structure visualization

Supplemental images

emd_71350.png

Downloads & links

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Map

FileDownload / File: emd_71350.map.gz / Format: CCP4 / Size: 824 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
AnnotationComposite map
Projections & slices

Image control

Size
Brightness
Contrast
Others
AxesZ (Sec.)Y (Row.)X (Col.)
0.83 Å/pix.
x 600 pix.
= 498. Å		0.83 Å/pix.
x 600 pix.
= 498. Å		0.83 Å/pix.
x 600 pix.
= 498. Å

Surface

Projections

Slices (1/3)

Slices (1/2)

Slices (2/3)

Images are generated by Spider.

Voxel sizeX=Y=Z: 0.83 Å
Density

Histogram

Histogram (log scale)
Contour LevelBy AUTHOR: 0.0417
Minimum - Maximum-0.03287217 - 0.5123505
Average (Standard dev.)0.0013921789 (±0.0054612146)
SymmetrySpace group: 1
Details

EMDB XML:

Map geometry
Axis orderXYZ
Origin000
Dimensions600600600
Spacing600600600
CellA=B=C: 498.0 Å
α=β=γ: 90.0 °

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Supplemental data

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Sample components

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Entire : Intermembrane lipopolysaccharide transport bridge composed of Lpt...

EntireName: Intermembrane lipopolysaccharide transport bridge composed of LptD, LptE, LptC-LptA fusion protein, LptF, LptG, and two molecules of LptB in complex with lipopolysaccharide
Components
  • Complex: Intermembrane lipopolysaccharide transport bridge composed of LptD, LptE, LptC-LptA fusion protein, LptF, LptG, and two molecules of LptB in complex with lipopolysaccharide
    • Complex: Inner membrane portion of lipopolysaccharide transporter
      • Protein or peptide: Lipopolysaccharide export system protein LptC,Lipopolysaccharide export system protein LptA
      • Protein or peptide: Lipopolysaccharide export system ATP-binding protein LptB
      • Protein or peptide: Lipopolysaccharide export system permease protein LptF
      • Protein or peptide: Lipopolysaccharide export system permease protein LptG
    • Complex: Outer membrane portion of lipopolysaccharide transporter with LptA
      • Protein or peptide: LPS-assembly protein LptD
      • Protein or peptide: LPS-assembly lipoprotein LptE
  • Ligand: (2~{R},4~{R},5~{R},6~{R})-6-[(1~{R})-1,2-bis(oxidanyl)ethyl]-2-[(2~{R},4~{R},5~{R},6~{R})-6-[(1~{R})-1,2-bis(oxidanyl)ethyl]-5-[(2~{S},3~{S},4~{R},5~{R},6~{R})-6-[(1~{S})-1,2-bis(oxidanyl)ethyl]-4-[(2~{R},3~{S},4~{R},5~{S},6~{R})-6-[(1~{S})-2-[(2~{S},3~{S},4~{S},5~{S},6~{R})-6-[(1~{S})-1,2-bis(oxidanyl)ethyl]-3,4,5-tris(oxidanyl)oxan-2-yl]oxy-1-oxidanyl-ethyl]-3,4-bis(oxidanyl)-5-phosphonooxy-oxan-2-yl]oxy-3-oxidanyl-5-phosphonooxy-oxan-2-yl]oxy-2-carboxy-2-[[(2~{R},3~{S},4~{R},5~{R},6~{R})-5-[[(3~{R})-3-dodecanoyloxytetradecanoyl]amino]-6-[[(2~{R},3~{S},4~{R},5~{R},6~{R})-3-oxidanyl-5-[[(3~{R})-3-oxidanyltetradecanoyl]amino]-4-[(3~{R})-3-oxidanyltetradecanoyl]oxy-6-phosphonooxy-oxan-2-yl]methoxy]-3-phosphonooxy-4-[(3~{R})-3-tetradecanoyloxytetradecanoyl]oxy-oxan-2-yl]methoxy]oxan-4-yl]oxy-4,5-bis(oxidanyl)oxane-2-carboxylic acid

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Supramolecule #1: Intermembrane lipopolysaccharide transport bridge composed of Lpt...

SupramoleculeName: Intermembrane lipopolysaccharide transport bridge composed of LptD, LptE, LptC-LptA fusion protein, LptF, LptG, and two molecules of LptB in complex with lipopolysaccharide
type: complex / ID: 1 / Parent: 0 / Macromolecule list: #2, #1, #3-#6

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Supramolecule #2: Inner membrane portion of lipopolysaccharide transporter

SupramoleculeName: Inner membrane portion of lipopolysaccharide transporter
type: complex / ID: 2 / Parent: 1 / Macromolecule list: #2, #1, #5-#6
Source (natural)Organism: Escherichia coli (E. coli)

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Supramolecule #3: Outer membrane portion of lipopolysaccharide transporter with LptA

SupramoleculeName: Outer membrane portion of lipopolysaccharide transporter with LptA
type: complex / ID: 3 / Parent: 1 / Macromolecule list: #2-#4
Source (natural)Organism: Escherichia coli (E. coli)

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Macromolecule #1: Lipopolysaccharide export system ATP-binding protein LptB

MacromoleculeName: Lipopolysaccharide export system ATP-binding protein LptB
type: protein_or_peptide / ID: 1 / Number of copies: 2 / Enantiomer: LEVO
EC number: Translocases; Catalysing the translocation of carbohydrates and their derivatives; Linked to the hydrolysis of a nucleoside triphosphate
Source (natural)Organism: Escherichia coli (E. coli)
Molecular weightTheoretical: 26.593312 KDa
Recombinant expressionOrganism: Escherichia coli (E. coli)
SequenceString: ATLTAKNLAK AYKGRRVVED VSLTVNSGEI VGLLGPNGAG KTTTFYMVVG IVPRDAGNII IDDDDISLLP LHARARRGIG YLPQEASIF RRLSVYDNLM AVLQIRDDLS AEQREDRANE LMEEFHIEHL RDSMGQSLSG GERRRVEIAR ALAANPKFIL L DEPFAGVD ...String:
ATLTAKNLAK AYKGRRVVED VSLTVNSGEI VGLLGPNGAG KTTTFYMVVG IVPRDAGNII IDDDDISLLP LHARARRGIG YLPQEASIF RRLSVYDNLM AVLQIRDDLS AEQREDRANE LMEEFHIEHL RDSMGQSLSG GERRRVEIAR ALAANPKFIL L DEPFAGVD PISVIDIKRI IEHLRDSGLG VLITDHNVRE TLAVCERAYI VSQGHLIAHG TPTEILQDEH VKRVYLGEDF R

UniProtKB: Lipopolysaccharide export system ATP-binding protein LptB

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Macromolecule #2: Lipopolysaccharide export system protein LptC,Lipopolysaccharide ...

MacromoleculeName: Lipopolysaccharide export system protein LptC,Lipopolysaccharide export system protein LptA
type: protein_or_peptide / ID: 2 / Details: LptC expressed as a fusion protein with LptA / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Escherichia coli (E. coli)
Molecular weightTheoretical: 42.059082 KDa
Recombinant expressionOrganism: Escherichia coli (E. coli)
SequenceString: MSKARRWVII VLSLAVLVMI GINMAEKDDT AQVVVNNNDP TYKSEHTDTL VYNPEGALSY RLIAQHVEYY SDQAVSWFTQ PVLTTFDKD KIPTWSVKAD KAKLTNDRML YLYGHVEVNA LVPDSQLRRI TTDNAQINLV TQDVTSEDLV TLYGTTFNSS G LKMRGNLR ...String:
MSKARRWVII VLSLAVLVMI GINMAEKDDT AQVVVNNNDP TYKSEHTDTL VYNPEGALSY RLIAQHVEYY SDQAVSWFTQ PVLTTFDKD KIPTWSVKAD KAKLTNDRML YLYGHVEVNA LVPDSQLRRI TTDNAQINLV TQDVTSEDLV TLYGTTFNSS G LKMRGNLR SKNAELIEKV RTSYEIQNKQ TQPLVPGGSG GGGSGGGGSG GGGSVTGDTD QPIHIESDQQ SLDMQGNVVT FT GNVIVTQ GTIKINADKV VVTRPGGEQG KEVIDGYGKP ATFYQMQDNG KPVEGHASQM HYELAKDFVV LTGNAYLQQV DSN IKGDKI TYLVKEQKMQ AFSDKGKRVT TVLVPSQLQD KNNKGQTPAQ KKGNLVPRGS HHHHHHH

UniProtKB: Lipopolysaccharide export system protein LptC, Lipopolysaccharide export system protein LptA

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Macromolecule #3: LPS-assembly protein LptD

MacromoleculeName: LPS-assembly protein LptD / type: protein_or_peptide / ID: 3 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Escherichia coli (E. coli)
Molecular weightTheoretical: 87.078438 KDa
Recombinant expressionOrganism: Escherichia coli (E. coli)
SequenceString: DLASQCMLGV PSYDRPLVQG DTNDLPVTIN ADHAKGDYPD DAVFTGSVDI MQGNSRLQAD EVQLHQKEAP GQPEPVRTVD ALGNVHYDD NQVILKGPKG WANLNTKDTN VWEGDYQMVG RQGRGKADLM KQRGENRYTI LDNGSFTSCL PGSDTWSVVG S EIIHDREE ...String:
DLASQCMLGV PSYDRPLVQG DTNDLPVTIN ADHAKGDYPD DAVFTGSVDI MQGNSRLQAD EVQLHQKEAP GQPEPVRTVD ALGNVHYDD NQVILKGPKG WANLNTKDTN VWEGDYQMVG RQGRGKADLM KQRGENRYTI LDNGSFTSCL PGSDTWSVVG S EIIHDREE QVAEIWNARF KVGPVPIFYS PYLQLPVGDK RRSGFLIPNA KYTTTNYFEF YLPYYWNIAP NMDATITPHY MH RRGNIMW ENEFRYLSQA GAGLMELDYL PSDKVYEDEH PNDDSSRRWL FYWNHSGVMD QVWRFNVDYT KVSDPSYFND FDN KYGSST DGYATQKFSV GYAVQNFNAT VSTKQFQVFS EQNTSSYSAE PQLDVNYYQN DVGPFDTRIY GQAVHFVNTR DDMP EATRV HLEPTINLPL SNNWGSINTE AKLLATHYQQ TNLDWYNSRN TTKLDESVNR VMPQFKVDGK MVFERDMEML APGYT QTLE PRAQYLYVPY RDQSDIYNYD SSLLQSDYSG LFRDRTYGGL DRIASANQVT TGVTSRIYDD AAVERFNISV GQIYYF TES RTGDDNITWE NDDKTGSLVW AGDTYWRISE RWGLRGGIQY DTRLDNVATS NSSIEYRRDE DRLVQLNYRY ASPEYIQ AT LPKYYSTAEQ YKNGISQVGA VASWPIADRW SIVGAYYYDT NANKQADSML GVQYSSCCYA IRVGYERKLN GWDNDKQH A VYDNAIGFNI ELRGLSSNYG LGTQEMLRSN ILPYQNTL

UniProtKB: LPS-assembly protein LptD

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Macromolecule #4: LPS-assembly lipoprotein LptE

MacromoleculeName: LPS-assembly lipoprotein LptE / type: protein_or_peptide / ID: 4 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Escherichia coli (E. coli)
Molecular weightTheoretical: 17.002602 KDa
Recombinant expressionOrganism: Escherichia coli (E. coli)
SequenceString:
CGWHLRDTTQ VPSTMKVMIL DSGDPNGPLS RAVRNQLRLN GVELLDKETT RKDVPSLRLG KVSIAKDTAS VFRNGQTAEY QMIMTVNAT VLIPGRDIYP ISAKVFRSFF DNPQMALAKD NEQDMIVKEM YDRAAEQLIR KLPSIRAADI RS

UniProtKB: LPS-assembly lipoprotein LptE

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Macromolecule #5: Lipopolysaccharide export system permease protein LptF

MacromoleculeName: Lipopolysaccharide export system permease protein LptF
type: protein_or_peptide / ID: 5 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Escherichia coli (E. coli)
Molecular weightTheoretical: 40.393473 KDa
Recombinant expressionOrganism: Escherichia coli (E. coli)
SequenceString: MIIIRYLVRE TLKSQLAILF ILLLIFFCQK LVRILGAAVD GDIPANLVLS LLGLGVPEMA QLILPLSLFL GLLMTLGKLY TESEITVMH ACGLSKAVLV KAAMILAVFT AIVAAVNVMW AGPWSSRHQD EVLAEAKANP GMAALAQGQF QQATNGSSVL F IESVDGSD ...String:
MIIIRYLVRE TLKSQLAILF ILLLIFFCQK LVRILGAAVD GDIPANLVLS LLGLGVPEMA QLILPLSLFL GLLMTLGKLY TESEITVMH ACGLSKAVLV KAAMILAVFT AIVAAVNVMW AGPWSSRHQD EVLAEAKANP GMAALAQGQF QQATNGSSVL F IESVDGSD FKDVFLAQIR PKGNARPSVV VADSGHLTQL RDGSQVVTLN QGTRFEGTAL LRDFRITDFQ DYQAIIGHQA VA LDPNDTD QMDMRTLWNT DTDRARAELN WRITLVFTVF MMALMVVPLS VVNPRQGRVL SMLPAMLLYL LFFLIQTSLK SNG GKGKLD PTLWMWTVNL IYLALAIVLN LWDTVPVRRL RASFSRKGAV

UniProtKB: Lipopolysaccharide export system permease protein LptF

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Macromolecule #6: Lipopolysaccharide export system permease protein LptG

MacromoleculeName: Lipopolysaccharide export system permease protein LptG
type: protein_or_peptide / ID: 6 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Escherichia coli (E. coli)
Molecular weightTheoretical: 39.39209 KDa
Recombinant expressionOrganism: Escherichia coli (E. coli)
SequenceString: PFGVLDRYIG KTIFTTIMMT LFMLVSLSGI IKFVDQLKKA GQGSYDALGA GMYTLLSVPK DVQIFFPMAA LLGALLGLGM LAQRSELVV MQASGFTRMQ VALSVMKTAI PLVLLTMAIG EWVAPQGEQM ARNYRAQAMY GGSLLSTQQG LWAKDGNNFV Y IERVKGDE ...String:
PFGVLDRYIG KTIFTTIMMT LFMLVSLSGI IKFVDQLKKA GQGSYDALGA GMYTLLSVPK DVQIFFPMAA LLGALLGLGM LAQRSELVV MQASGFTRMQ VALSVMKTAI PLVLLTMAIG EWVAPQGEQM ARNYRAQAMY GGSLLSTQQG LWAKDGNNFV Y IERVKGDE ELGGISIYAF NENRRLQSVR YAATAKFDPE HKVWRLSQVD ESDLTNPKQI TGSQTVSGTW KTNLTPDKLG VV ALDPDAL SISGLHNYVK YLKSSGQDAG RYQLNMWSKI FQPLSVAVMM LMALSFIFGP LRSVPMGVRV VTGISFGFVF YVL DQIFGP LTLVYGIPPI IGALLPSASF FLISLWLLMR KS

UniProtKB: Lipopolysaccharide export system permease protein LptG

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Macromolecule #7: (2~{R},4~{R},5~{R},6~{R})-6-[(1~{R})-1,2-bis(oxidanyl)ethyl]-2-[(...

MacromoleculeName: (2~{R},4~{R},5~{R},6~{R})-6-[(1~{R})-1,2-bis(oxidanyl)ethyl]-2-[(2~{R},4~{R},5~{R},6~{R})-6-[(1~{R})-1,2-bis(oxidanyl)ethyl]-5-[(2~{S},3~{S},4~{R},5~{R},6~{R})-6-[(1~{S})-1,2-bis(oxidanyl)ethyl] ...Name: (2~{R},4~{R},5~{R},6~{R})-6-[(1~{R})-1,2-bis(oxidanyl)ethyl]-2-[(2~{R},4~{R},5~{R},6~{R})-6-[(1~{R})-1,2-bis(oxidanyl)ethyl]-5-[(2~{S},3~{S},4~{R},5~{R},6~{R})-6-[(1~{S})-1,2-bis(oxidanyl)ethyl]-4-[(2~{R},3~{S},4~{R},5~{S},6~{R})-6-[(1~{S})-2-[(2~{S},3~{S},4~{S},5~{S},6~{R})-6-[(1~{S})-1,2-bis(oxidanyl)ethyl]-3,4,5-tris(oxidanyl)oxan-2-yl]oxy-1-oxidanyl-ethyl]-3,4-bis(oxidanyl)-5-phosphonooxy-oxan-2-yl]oxy-3-oxidanyl-5-phosphonooxy-oxan-2-yl]oxy-2-carboxy-2-[[(2~{R},3~{S},4~{R},5~{R},6~{R})-5-[[(3~{R})-3-dodecanoyloxytetradecanoyl]amino]-6-[[(2~{R},3~{S},4~{R},5~{R},6~{R})-3-oxidanyl-5-[[(3~{R})-3-oxidanyltetradecanoyl]amino]-4-[(3~{R})-3-oxidanyltetradecanoyl]oxy-6-phosphonooxy-oxan-2-yl]methoxy]-3-phosphonooxy-4-[(3~{R})-3-tetradecanoyloxytetradecanoyl]oxy-oxan-2-yl]methoxy]oxan-4-yl]oxy-4,5-bis(oxidanyl)oxane-2-carboxylic acid
type: ligand / ID: 7 / Number of copies: 1 / Formula: JSG
Molecular weightTheoretical: 2.975178 KDa
Chemical component information

ChemComp-JSG:
(2~{R},4~{R},5~{R},6~{R})-6-[(1~{R})-1,2-bis(oxidanyl)ethyl]-2-[(2~{R},4~{R},5~{R},6~{R})-6-[(1~{R})-1,2-bis(oxidanyl)ethyl]-5-[(2~{S},3~{S},4~{R},5~{R},6~{R})-6-[(1~{S})-1,2-bis(oxidanyl)ethyl]-4-[(2~{R},3~{S},4~{R},5~{S},6~{R})-6-[(1~{S})-2-[(2~{S},3~{S},4~{S},5~{S},6~{R})-6-[(1~{S})-1,2-bis(oxidanyl)ethyl]-3,4,5-tris(oxidanyl)oxan-2-yl]oxy-1-oxidanyl-ethyl]-3,4-bis(oxidanyl)-5-phosphonooxy-oxan-2-yl]oxy-3-oxidanyl-5-phosphonooxy-oxan-2-yl]oxy-2-carboxy-2-[[(2~{R},3~{S},4~{R},5~{R},6~{R})-5-[[(3~{R})-3-dodecanoyloxytetradecanoyl]amino]-6-[[(2~{R},3~{S},4~{R},5~{R},6~{R})-3-oxidanyl-5-[[(3~{R})-3-oxidanyltetradecanoyl]amino]-4-[(3~{R})-3-oxidanyltetradecanoyl]oxy-6-phosphonooxy-oxan-2-yl]methoxy]-3-phosphonooxy-4-[(3~{R})-3-tetradecanoyloxytetradecanoyl]oxy-oxan-2-yl]methoxy]oxan-4-yl]oxy-4,5-bis(oxidanyl)oxane-2-carboxylic acid

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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
Component:
ConcentrationFormulaName
20.0 mMC(CH2OH)3NH2Tris pH 8
150.0 mMNaClSodium Chloride
0.02 %C56H92O25glyco-diosgenin
1.0 %C3H8O3glycerol
1.0 %C2H6OSDMSO
1.0 %C2H6O2ethylene glycol

Details: 20mM Tris HCl, 150mM NaCl, 1% glycerol, 1% DMSO, 1% ethylene glycol, 0.02% GDN
VitrificationCryogen name: ETHANE / Chamber humidity: 100 % / Chamber temperature: 277 K / Instrument: FEI VITROBOT MARK IV
DetailsThis sample was monodisperse as determined by SEC.

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Electron microscopy

MicroscopeTFS KRIOS
Image recordingFilm or detector model: GATAN K3 BIOCONTINUUM (6k x 4k) / Average electron dose: 50.0 e/Å2
Electron beamAcceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN
Electron opticsIllumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD / Nominal defocus max: 2.2 µm / Nominal defocus min: 1.1 µm
Experimental equipment
Model: Titan Krios / Image courtesy: FEI Company

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Image processing

Particle selectionNumber selected: 666000
CTF correctionSoftware - Name: cryoSPARC / Type: PHASE FLIPPING AND AMPLITUDE CORRECTION
Startup modelType of model: OTHER
Details: Ab initio model generated based on the data using cryoSPARC
Final reconstructionResolution.type: BY AUTHOR / Resolution: 3.4 Å / Resolution method: FSC 0.143 CUT-OFF / Software - Name: cryoSPARC
Details: This is a composite map; the component maps are ~3.3-3.4A resolution.
Number images used: 157094
Initial angle assignmentType: RANDOM ASSIGNMENT / Software - Name: cryoSPARC
Final angle assignmentType: MAXIMUM LIKELIHOOD / Software - Name: cryoSPARC
Final 3D classificationSoftware - Name: cryoSPARC

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