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- EMDB-10520: Cryo-EM structure of Toxoplasma gondii mitochondrial ATP synthase... -

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Basic information

Entry
Database: EMDB / ID: EMD-10520
TitleCryo-EM structure of Toxoplasma gondii mitochondrial ATP synthase dimer, membrane region map
Map dataToxoplasma ATP synthase dimer, membrane region
Sample
  • Complex: Mitochondrial ATP synthase dimer, membrane region
    • Protein or peptide: x 24 types
  • Ligand: x 4 types
Function / homology
Function and homology information


: / proton motive force-driven ATP synthesis / proton transmembrane transporter activity / mitochondrial inner membrane / electron transfer activity / heme binding / membrane / metal ion binding
Similarity search - Function
: / ATPTG10-like / Cytochrome c1, transmembrane anchor, C-terminal / ATP synthase, F0 complex, subunit D superfamily, mitochondrial / Cytochrome c1 / Cytochrome C1 family / Thioredoxin / Cytochrome c family profile. / Cytochrome c-like domain / Cytochrome c-like domain superfamily ...: / ATPTG10-like / Cytochrome c1, transmembrane anchor, C-terminal / ATP synthase, F0 complex, subunit D superfamily, mitochondrial / Cytochrome c1 / Cytochrome C1 family / Thioredoxin / Cytochrome c family profile. / Cytochrome c-like domain / Cytochrome c-like domain superfamily / Thioredoxin domain / Thioredoxin-like superfamily
Similarity search - Domain/homology
Uncharacterized protein / NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 7 / Uncharacterized protein / Putative membrane protein / Transmembrane protein / ATPTG10-like domain-containing protein / Transmembrane protein / Uncharacterized protein / Transmembrane protein / Transmembrane protein ...Uncharacterized protein / NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 7 / Uncharacterized protein / Putative membrane protein / Transmembrane protein / ATPTG10-like domain-containing protein / Transmembrane protein / Uncharacterized protein / Transmembrane protein / Transmembrane protein / Uncharacterized protein / CHCH domain-containing protein / Uncharacterized protein / Transmembrane protein / Transmembrane protein / Thioredoxin domain-containing protein / Uncharacterized protein / Uncharacterized protein / Transmembrane protein / Uncharacterized protein / Transmembrane protein / Putative myosin heavy chain / Cytochrome c1, heme protein / Uncharacterized protein
Similarity search - Component
Biological speciesToxoplasma gondii GT1 (eukaryote) / Toxoplasma gondii (strain ATCC 50853 / GT1) (eukaryote)
Methodsingle particle reconstruction / cryo EM / Resolution: 2.8 Å
AuthorsMuhleip A / Kock Flygaard R / Amunts A
Funding support Sweden, 4 items
OrganizationGrant numberCountry
Swedish Research CouncilNT_2015-04107 Sweden
Knut and Alice Wallenberg Foundation2018.0080 Sweden
European Research CouncilERC-2018-StG-805230 Sweden
European Molecular Biology OrganizationALTF 260-2017 Sweden
CitationJournal: Nat Commun / Year: 2021
Title: ATP synthase hexamer assemblies shape cristae of Toxoplasma mitochondria.
Authors: Alexander Mühleip / Rasmus Kock Flygaard / Jana Ovciarikova / Alice Lacombe / Paula Fernandes / Lilach Sheiner / Alexey Amunts /
Abstract: Mitochondrial ATP synthase plays a key role in inducing membrane curvature to establish cristae. In Apicomplexa causing diseases such as malaria and toxoplasmosis, an unusual cristae morphology has ...Mitochondrial ATP synthase plays a key role in inducing membrane curvature to establish cristae. In Apicomplexa causing diseases such as malaria and toxoplasmosis, an unusual cristae morphology has been observed, but its structural basis is unknown. Here, we report that the apicomplexan ATP synthase assembles into cyclic hexamers, essential to shape their distinct cristae. Cryo-EM was used to determine the structure of the hexamer, which is held together by interactions between parasite-specific subunits in the lumenal region. Overall, we identified 17 apicomplexan-specific subunits, and a minimal and nuclear-encoded subunit-a. The hexamer consists of three dimers with an extensive dimer interface that includes bound cardiolipins and the inhibitor IF. Cryo-ET and subtomogram averaging revealed that hexamers arrange into ~20-megadalton pentagonal pyramids in the curved apical membrane regions. Knockout of the linker protein ATPTG11 resulted in the loss of pentagonal pyramids with concomitant aberrantly shaped cristae. Together, this demonstrates that the unique macromolecular arrangement is critical for the maintenance of cristae morphology in Apicomplexa.
History
DepositionDec 4, 2019-
Header (metadata) releaseDec 18, 2019-
Map releaseDec 16, 2020-
UpdateJan 27, 2021-
Current statusJan 27, 2021Processing site: PDBe / Status: Released

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Structure visualization

Movie
  • Surface view with section colored by density value
  • Surface level: 0.04
  • Imaged by UCSF Chimera
  • Download
  • Surface view colored by cylindrical radius
  • Surface level: 0.04
  • Imaged by UCSF Chimera
  • Download
  • Surface view with fitted model
  • Atomic models: PDB-6tmg
  • Surface level: 0.04
  • Imaged by UCSF Chimera
  • Download
  • Simplified surface model + fitted atomic model
  • Atomic modelsPDB-6tmg
  • Imaged by Jmol
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Movie viewer
Structure viewerEM map:
SurfViewMolmilJmol/JSmol
Supplemental images

emd_10520.png

Downloads & links

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Map

FileDownload / File: emd_10520.map.gz / Format: CCP4 / Size: 669.9 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
AnnotationToxoplasma ATP synthase dimer, membrane region
Projections & slices

Image control

Size
Brightness
Contrast
Others
AxesZ (Sec.)Y (Row.)X (Col.)
0.83 Å/pix.
x 560 pix.
= 464.8 Å		0.83 Å/pix.
x 560 pix.
= 464.8 Å		0.83 Å/pix.
x 560 pix.
= 464.8 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: 0.04 / Movie #1: 0.04
Minimum - Maximum-0.15744849 - 0.3461155
Average (Standard dev.)0.0010905412 (±0.006588872)
SymmetrySpace group: 1
Details

EMDB XML:

Map geometry
Axis orderXYZ
Origin000
Dimensions560560560
Spacing560560560
CellA=B=C: 464.8 Å
α=β=γ: 90.0 °

CCP4 map header:

modeImage stored as Reals
Å/pix. X/Y/Z0.830.830.83
M x/y/z560560560
origin x/y/z0.0000.0000.000
length x/y/z464.800464.800464.800
α/β/γ90.00090.00090.000
MAP C/R/S123
start NC/NR/NS000
NC/NR/NS560560560
D min/max/mean-0.1570.3460.001

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Supplemental data

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Mask #1

Fileemd_10520_msk_1.map
Projections & Slices
AxesZYX

Projections

Slices (1/2)
Density Histograms

Histogram

Histogram (log scale)

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Half map: Halfmap 1

Fileemd_10520_half_map_1.map
AnnotationHalfmap 1
Projections & Slices
AxesZYX

Projections

Slices (1/2)
Density Histograms

Histogram

Histogram (log scale)

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Half map: Halfmap 2

Fileemd_10520_half_map_2.map
AnnotationHalfmap 2
Projections & Slices
AxesZYX

Projections

Slices (1/2)
Density Histograms

Histogram

Histogram (log scale)

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Sample components

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Entire : Mitochondrial ATP synthase dimer, membrane region

EntireName: Mitochondrial ATP synthase dimer, membrane region
Components
  • Complex: Mitochondrial ATP synthase dimer, membrane region
    • Protein or peptide: ATPTG11
    • Protein or peptide: ATPTG7
    • Protein or peptide: ATPTG14
    • Protein or peptide: ATPTG5
    • Protein or peptide: subunit k
    • Protein or peptide: subunit a
    • Protein or peptide: subunit i/j
    • Protein or peptide: ATPTG13
    • Protein or peptide: ATPTG15
    • Protein or peptide: ATPTG6
    • Protein or peptide: ATPTG3
    • Protein or peptide: ATPTG17
    • Protein or peptide: subunit b
    • Protein or peptide: ATPTG12
    • Protein or peptide: ATPTG10
    • Protein or peptide: subunit f
    • Protein or peptide: ATPTG8
    • Protein or peptide: ATPTG1
    • Protein or peptide: ATPTG2
    • Protein or peptide: subunit 8
    • Protein or peptide: ATPTG9
    • Protein or peptide: ATPTG4
    • Protein or peptide: ATPTG16
    • Protein or peptide: subunit d
  • Ligand: 1,2-DIACYL-SN-GLYCERO-3-PHOSPHOCHOLINE
  • Ligand: DODECYL-BETA-D-MALTOSIDE
  • Ligand: CARDIOLIPIN
  • Ligand: 1,2-Dioleoyl-sn-glycero-3-phosphoethanolamine

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Supramolecule #1: Mitochondrial ATP synthase dimer, membrane region

SupramoleculeName: Mitochondrial ATP synthase dimer, membrane region / type: complex / ID: 1 / Parent: 0 / Macromolecule list: #1-#24
Source (natural)Organism: Toxoplasma gondii GT1 (eukaryote)
Molecular weightTheoretical: 900 KDa

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Macromolecule #1: ATPTG11

MacromoleculeName: ATPTG11 / type: protein_or_peptide / ID: 1 / Number of copies: 2 / Enantiomer: LEVO
Source (natural)Organism: Toxoplasma gondii (strain ATCC 50853 / GT1) (eukaryote)
Strain: ATCC 50853 / GT1
Molecular weightTheoretical: 15.425367 KDa
SequenceString:
MVRNQRYPAS PVQEIFLPEP VPFVQFDQTA PSPNSPPAPL PSPSLSQCEE QKDRYRDISS MFHRGVAGAE QVREAYNSMA KCFRRVSVA EVLESDPAFR QARNFTMDLK QAEDDQRYKQ LQYGRVPSIL TKYHL

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Macromolecule #2: ATPTG7

MacromoleculeName: ATPTG7 / type: protein_or_peptide / ID: 2 / Number of copies: 2 / Enantiomer: LEVO
Source (natural)Organism: Toxoplasma gondii (strain ATCC 50853 / GT1) (eukaryote)
Strain: ATCC 50853 / GT1
Molecular weightTheoretical: 26.866773 KDa
SequenceString: MPSSSSEDAQ GGNRFECVSN STSPRRKNAT KDEAACLQPR RSAVSGPRED VLCIRTTPQP HVRRGKSGPG RRKRMRFGRE RERRDKKRG EGERKRTRFP FLRLHIEGGN ANSRRPLCFP SRHSLLRNHY GSLSMAFRKV SPPKAPMSVF EARSSFLDLE Q CARAAGPQ ...String:
MPSSSSEDAQ GGNRFECVSN STSPRRKNAT KDEAACLQPR RSAVSGPRED VLCIRTTPQP HVRRGKSGPG RRKRMRFGRE RERRDKKRG EGERKRTRFP FLRLHIEGGN ANSRRPLCFP SRHSLLRNHY GSLSMAFRKV SPPKAPMSVF EARSSFLDLE Q CARAAGPQ RWEAECQGVR QRALQAAADV MSRECGAYGD SFFQCYRHGF RLEACQGEKA TMQLLRCQRM VADRLVPL

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Macromolecule #3: ATPTG14

MacromoleculeName: ATPTG14 / type: protein_or_peptide / ID: 3 / Number of copies: 2 / Enantiomer: LEVO
Source (natural)Organism: Toxoplasma gondii (strain ATCC 50853 / GT1) (eukaryote)
Strain: ATCC 50853 / GT1
Molecular weightTheoretical: 14.424515 KDa
SequenceString:
MPAPAASGAA AVLSKDIARS FRWMQAFAAV KGKPTAGSCA AGTAVVNPED PTKVTLKGRY TNFSLQHIWE KYDYLQTHLL LRECMLSQV AKNPRLLDPE INAGLTPTVF MRVPPETQDP ETQAKAAPQK GQAN

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Macromolecule #4: ATPTG5

MacromoleculeName: ATPTG5 / type: protein_or_peptide / ID: 4 / Number of copies: 2 / Enantiomer: LEVO
Source (natural)Organism: Toxoplasma gondii (strain ATCC 50853 / GT1) (eukaryote)
Strain: ATCC 50853 / GT1
Molecular weightTheoretical: 28.162615 KDa
SequenceString: MQNGVFTREN ADFLVKSGAD SPSSQSLLLR TSPSPLSLPR RRFIFLRSAS VDLSERSSLA CLAPFFCLAS GVCLRSAFSL PFFARRGRP CLFFIFIFFF RVSFTANFRG KRVKMAASTI PISQWPSLLY APPSSPANPA VEALPEMQFD DLHYPRQMLL C RGAGYSLE ...String:
MQNGVFTREN ADFLVKSGAD SPSSQSLLLR TSPSPLSLPR RRFIFLRSAS VDLSERSSLA CLAPFFCLAS GVCLRSAFSL PFFARRGRP CLFFIFIFFF RVSFTANFRG KRVKMAASTI PISQWPSLLY APPSSPANPA VEALPEMQFD DLHYPRQMLL C RGAGYSLE QCNRMAQPDA RVTPENPAEK LLKEEAVAAI ACLSQREGGK DEQCRYYIER MYKLANKEKQ PEPGTLSKAS TL ACKLLGI HRPEA

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Macromolecule #5: subunit k

MacromoleculeName: subunit k / type: protein_or_peptide / ID: 5 / Number of copies: 2 / Enantiomer: LEVO
Source (natural)Organism: Toxoplasma gondii (strain ATCC 50853 / GT1) (eukaryote)
Strain: ATCC 50853 / GT1
Molecular weightTheoretical: 17.963504 KDa
SequenceString:
MAFAGAAAPL GVKGRSVFAG MRSFIGQRLG RLYDSFYYSQ SSTKYVMVFL FPAGIFYTRF RADTKLGYHV FINEEKLYPD YSQNYFDTK WTNGRKVYLD DETTVEQLKA QIYGGKAAPE NVKVACRGRV FEDADNVAMA VRAFCKRDPR LLLFQDNL

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Macromolecule #6: subunit a

MacromoleculeName: subunit a / type: protein_or_peptide / ID: 6 / Number of copies: 2 / Enantiomer: LEVO
Source (natural)Organism: Toxoplasma gondii (strain ATCC 50853 / GT1) (eukaryote)
Strain: ATCC 50853 / GT1
Molecular weightTheoretical: 24.56257 KDa
SequenceString: MAAGSRFPFC TAARLSSRGT LPRLGEATFF AGAESQRSAG AFAKTLQRPF LRAPSTQLFP VGNRLGVSSA RALVANAMEP RRFFAAAAS AKATHALQPT GTGSVAFTRP GQGSNAQFQT SLADKTRGLL GVGFLRPTKM ASFAATFLLN FRFYFMYMAR T TFQAVRPL ...String:
MAAGSRFPFC TAARLSSRGT LPRLGEATFF AGAESQRSAG AFAKTLQRPF LRAPSTQLFP VGNRLGVSSA RALVANAMEP RRFFAAAAS AKATHALQPT GTGSVAFTRP GQGSNAQFQT SLADKTRGLL GVGFLRPTKM ASFAATFLLN FRFYFMYMAR T TFQAVRPL LAFSVFGEVM KLVLATMSSG LFSFLFSFVL AFEVFYFFLQ CYISYTFLTM FFTVLF

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Macromolecule #7: subunit i/j

MacromoleculeName: subunit i/j / type: protein_or_peptide / ID: 7 / Number of copies: 2 / Enantiomer: LEVO
Source (natural)Organism: Toxoplasma gondii (strain ATCC 50853 / GT1) (eukaryote)
Strain: ATCC 50853 / GT1
Molecular weightTheoretical: 26.600543 KDa
SequenceString: MGLSPAFAAT AGCRLASPVA NSSRFLSLLR LSRPRLNAAA PAAEAAKTLE RNVPMKEILQ PLWVVEPPNF LRQPVWKQFW EAQFANRSF FFFGNAWTSA AAFAFFIWWS RVFDPPPKER LDRYWLNSPK FRILSAFHNP GKRPGLKISL MTYEARYCYR G LDHPFTLN ...String:
MGLSPAFAAT AGCRLASPVA NSSRFLSLLR LSRPRLNAAA PAAEAAKTLE RNVPMKEILQ PLWVVEPPNF LRQPVWKQFW EAQFANRSF FFFGNAWTSA AAFAFFIWWS RVFDPPPKER LDRYWLNSPK FRILSAFHNP GKRPGLKISL MTYEARYCYR G LDHPFTLN EMKDFLFKLR EQYLVNKYEG IQFPFVFRQF NRVSTPGTLE VHTSPALQQQ PHFHEEAAGH H

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Macromolecule #8: ATPTG13

MacromoleculeName: ATPTG13 / type: protein_or_peptide / ID: 8 / Number of copies: 2 / Enantiomer: LEVO
Source (natural)Organism: Toxoplasma gondii (strain ATCC 50853 / GT1) (eukaryote)
Strain: ATCC 50853 / GT1
Molecular weightTheoretical: 14.923235 KDa
SequenceString:
MSWATRLLRM SSPRLGLLPL GRSVKLGGAK ERVSFSQFFD SEYFWTKANV GPFFLFLFTS PFWYQGIKTV YASCRYRKLN EREIISDRY TWLHERMLED EVERVLLEQV PAGGFDKTRP GLLLGPSTL

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Macromolecule #9: ATPTG15

MacromoleculeName: ATPTG15 / type: protein_or_peptide / ID: 9 / Number of copies: 2 / Enantiomer: LEVO
Source (natural)Organism: Toxoplasma gondii (strain ATCC 50853 / GT1) (eukaryote)
Strain: ATCC 50853 / GT1
Molecular weightTheoretical: 13.871887 KDa
SequenceString:
MATPPLQDGA PTNGGAATKP SCGARLQNFA RMAIKGPSVP HSILFGVGAG CCAYAGYYLY RAMRLTFFDT ESVALQSRLR YAEKQKLFH QELDRELAAG HIASLVAEYD PVATRLPFQP MQDRYRV

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Macromolecule #10: ATPTG6

MacromoleculeName: ATPTG6 / type: protein_or_peptide / ID: 10 / Number of copies: 2 / Enantiomer: LEVO
Source (natural)Organism: Toxoplasma gondii (strain ATCC 50853 / GT1) (eukaryote)
Strain: ATCC 50853 / GT1
Molecular weightTheoretical: 27.477523 KDa
SequenceString: MAETREGGQS GAASILGAEA FPELLSKVPL NPQMDEDKHF NKYKWGNEPI PVNRRTGSRM NSSIYDNRNH EAVRHPWSTD ARTFHPNDN PEADRINTQY SNMVSDSFPE GGFSDAPRFS SNWERLLAYH HGLYSPEKFN STTKTADEIR LAVNDFAAKV H ADDPKNAC ...String:
MAETREGGQS GAASILGAEA FPELLSKVPL NPQMDEDKHF NKYKWGNEPI PVNRRTGSRM NSSIYDNRNH EAVRHPWSTD ARTFHPNDN PEADRINTQY SNMVSDSFPE GGFSDAPRFS SNWERLLAYH HGLYSPEKFN STTKTADEIR LAVNDFAAKV H ADDPKNAC KYLMIEEFKC LQSAQARIDP QGAATKCVKW FNEWRQCAWD QEKMVKGYNY IEDRRARKHK PYIGAPDLQY S

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Macromolecule #11: ATPTG3

MacromoleculeName: ATPTG3 / type: protein_or_peptide / ID: 11 / Number of copies: 2 / Enantiomer: LEVO
Source (natural)Organism: Toxoplasma gondii (strain ATCC 50853 / GT1) (eukaryote)
Strain: ATCC 50853 / GT1
Molecular weightTheoretical: 35.159238 KDa
SequenceString: MGEKQEEEGE EEKEGKGEGG GEGGREEEDE DGSAPVVSWL RIVEERECHE ETDEAPETKI ALPFSAQRSS RGFEARQVEV LVSANSAFL LSVLLASLFL SSSLPSFCPP RFLLSVLLAL FKDKMAGDAP AAAAAPQQAG RTASASGVRT PGYLDLVGHS L KATSMDHG ...String:
MGEKQEEEGE EEKEGKGEGG GEGGREEEDE DGSAPVVSWL RIVEERECHE ETDEAPETKI ALPFSAQRSS RGFEARQVEV LVSANSAFL LSVLLASLFL SSSLPSFCPP RFLLSVLLAL FKDKMAGDAP AAAAAPQQAG RTASASGVRT PGYLDLVGHS L KATSMDHG MQYSSIYWET SHRTYLPFWA SLTQKFSWKI MDDQIRSFLR LPKPVTTEPF VFSSGSPYIR RYFGDADISV PV PLHAPAH FAFVPTGTVS PWEETGMETG PQGAAARGAA ATAFRAVLES AWKCDIDEQI KEKLHSRAGA GAFHASGSTG GCP IPTDF

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Macromolecule #12: ATPTG17

MacromoleculeName: ATPTG17 / type: protein_or_peptide / ID: 12 / Number of copies: 2 / Enantiomer: LEVO
Source (natural)Organism: Toxoplasma gondii (strain ATCC 50853 / GT1) (eukaryote)
Strain: ATCC 50853 / GT1
Molecular weightTheoretical: 9.486748 KDa
SequenceString:
MSTSPGLAFA NLTLLLDVPQ LPAIWAVNAW RELNGLFTEM KTLAGTSDLL YPSNRYNPQN EKTNRMGRPR KYNHGEWMFG NSY

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Macromolecule #13: subunit b

MacromoleculeName: subunit b / type: protein_or_peptide / ID: 13 / Number of copies: 2 / Enantiomer: LEVO
Source (natural)Organism: Toxoplasma gondii (strain ATCC 50853 / GT1) (eukaryote)
Strain: ATCC 50853 / GT1
Molecular weightTheoretical: 64.811602 KDa
SequenceString: MNFSSSARWL AVRQSQTLGH TTRATVAAGR RVLAHSPAAT EFTSFQSLHI GGDVCKLPLA VALGAAPSAL GYGSAKHNQQ RQYATLGSG WSFSKVQYTK YRITKPWTTD TTFDDIILSQ PSKEDFAKFT KEAPLFLRFL KLVTDVEGRQ EAFIQFAKRC E NGLTVEKD ...String:
MNFSSSARWL AVRQSQTLGH TTRATVAAGR RVLAHSPAAT EFTSFQSLHI GGDVCKLPLA VALGAAPSAL GYGSAKHNQQ RQYATLGSG WSFSKVQYTK YRITKPWTTD TTFDDIILSQ PSKEDFAKFT KEAPLFLRFL KLVTDVEGRQ EAFIQFAKRC E NGLTVEKD VYVTKKELVD CLWKNGYTDT EINAFEIAFP ADYKFHYPEL AVLFDLTEED CYKYCIRQRA ATPEELVELK YT KPKNLVS SYGLCFLGVW FGLSNTVLSN AWFYSKTFPF GAVFYMLGSY FYRDIREKLW KEEKSLIHTA QENKNMGEES VYK QMKKYA TDTKCLDYLS TFRTEVEDQI ANYKVALVSQ MRRQLTERLV EKLNGIQQAE KLIQGSLQDV MIREIVSSFK DLYK SRPEL HDAAMQSAIQ GLSGSDGAMD PVGAHFKASL QELAKVNLST ATADPMGTVV QRVAAVFQKR EKEFLDTFTV KATEA QEIK TIVDKCHKGN TFDFHALSDE ELRRLEQLYS TVNNRVGFET IHENSIKPVA PLSENSKGFV EFVNTQLEIT KAKLRN ARL TAFAHAFV

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Macromolecule #14: ATPTG12

MacromoleculeName: ATPTG12 / type: protein_or_peptide / ID: 14 / Number of copies: 2 / Enantiomer: LEVO
Source (natural)Organism: Toxoplasma gondii (strain ATCC 50853 / GT1) (eukaryote)
Strain: ATCC 50853 / GT1
Molecular weightTheoretical: 15.400639 KDa
SequenceString:
MLNFIPKRCP SVSLLFGKRP VQRIEVGQAR HQLEIPVETI EKIYEGVDSR LEYHNKDYNA MKWKDFMKLK LDAYHLLEAS QSETAAKSA LSDLNWFSDL ADIYSGQQTM AEMDVALKAQ GEQKLSYPIQ GKNIK

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Macromolecule #15: ATPTG10

MacromoleculeName: ATPTG10 / type: protein_or_peptide / ID: 15 / Number of copies: 2 / Enantiomer: LEVO
Source (natural)Organism: Toxoplasma gondii (strain ATCC 50853 / GT1) (eukaryote)
Strain: ATCC 50853 / GT1
Molecular weightTheoretical: 15.165213 KDa
SequenceString:
MSPPTASASV ASSGSSPHMD RLLGDLKLLA AYDSAAGWQE PKAMESAFQS LSWDDADVLK ALPQYLNCRG EQKRRVDFAY AALCPRPVD EKDPKQTLMS LWMKARLFSY DQKHPFVLSP FAATDKSTSA GAMTAEKPF

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Macromolecule #16: subunit f

MacromoleculeName: subunit f / type: protein_or_peptide / ID: 16 / Number of copies: 2 / Enantiomer: LEVO
Source (natural)Organism: Toxoplasma gondii (strain ATCC 50853 / GT1) (eukaryote)
Strain: ATCC 50853 / GT1
Molecular weightTheoretical: 13.029997 KDa
SequenceString:
MGFHFQQYIA MAGRAINPVQ WTRAWRRMEG KSATEVYRDA LAWTNNQFAQ ISRASQYRAW WWQNPLGMGL VLYGTYKAWH MIYMVRKQK KTAQLVAAAY GQGGQWLNPV PR

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Macromolecule #17: ATPTG8

MacromoleculeName: ATPTG8 / type: protein_or_peptide / ID: 17 / Number of copies: 2 / Enantiomer: LEVO
Source (natural)Organism: Toxoplasma gondii (strain ATCC 50853 / GT1) (eukaryote)
Strain: ATCC 50853 / GT1
Molecular weightTheoretical: 23.365865 KDa
SequenceString: MTALPPPPSA NVAVSFTAAP AEPLSRGEVK AASLKLELQN IERELKDWWM SRKILRDRNI GLFNLLQHHN FAGLSVNNAK LSDSQRVMW TDLVQGKPDV EDKLSVDARE MKVDMYEKLF KQAADLENPC RMPGVAYLRC LRDTLTETQS ARRSSCLNAF S SFDACRTG ...String:
MTALPPPPSA NVAVSFTAAP AEPLSRGEVK AASLKLELQN IERELKDWWM SRKILRDRNI GLFNLLQHHN FAGLSVNNAK LSDSQRVMW TDLVQGKPDV EDKLSVDARE MKVDMYEKLF KQAADLENPC RMPGVAYLRC LRDTLTETQS ARRSSCLNAF S SFDACRTG LLKQQSAAVE NSLVRQNMAD VRAKALFERR AVLLDLVEGK

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Macromolecule #18: ATPTG1

MacromoleculeName: ATPTG1 / type: protein_or_peptide / ID: 18 / Number of copies: 2 / Enantiomer: LEVO
Source (natural)Organism: Toxoplasma gondii (strain ATCC 50853 / GT1) (eukaryote)
Strain: ATCC 50853 / GT1
Molecular weightTheoretical: 46.025355 KDa
SequenceString: MGGGGGGALN KLFPGYKDKI WMKVPVQWRQ QMIQHWNKSY EKQVYSESVA LNRTFQARNQ LVLDRLKPSG AYRLPAVDYK RQLSRGTLV EGADFYLPTA QEQQRLARHF EPYSEQEQEE RRKFRFQSIS VYLAVALGAS FVHDYFYQRR PVAWCLEKEP P HPPSYPFW ...String:
MGGGGGGALN KLFPGYKDKI WMKVPVQWRQ QMIQHWNKSY EKQVYSESVA LNRTFQARNQ LVLDRLKPSG AYRLPAVDYK RQLSRGTLV EGADFYLPTA QEQQRLARHF EPYSEQEQEE RRKFRFQSIS VYLAVALGAS FVHDYFYQRR PVAWCLEKEP P HPPSYPFW FKSLFHSHDI PSVRRGYEVY RKVCATCHSM EQLHFRHLVG EVLPEKRVKQ IAAEYDVTDG PNDQGEMYTR PG ILGDAFP SPYPNEEAAR YANGGAYPPD LSLITAARHF GPDYLMALLG GYRDPPEGVE LRPGLYWNVW FPGNAIAMPP PLM DEMIDY EDGTPCNISQ MSKDVVNFLT WATEPTADER KLYGLKCVSA IAIGTVLMTL WWRFYWAMYA TRRIDFGKLK YL

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Macromolecule #19: ATPTG2

MacromoleculeName: ATPTG2 / type: protein_or_peptide / ID: 19 / Number of copies: 2 / Enantiomer: LEVO
Source (natural)Organism: Toxoplasma gondii (strain ATCC 50853 / GT1) (eukaryote)
Strain: ATCC 50853 / GT1
Molecular weightTheoretical: 35.23852 KDa
SequenceString: MSPVGRLFLG SKLPAQTWQS FRLQPALPQF AQKRFFSGGA AKPSWHVARE HRFGPTLPDH AYYGEHATYN YFVLFIRGMR PYLEKIFGD CASTIKNAAV AVYRPVNAFV VKHNPDLRLQ FVAFASFIAT HMAITKEFND MYQRLVDITS LLELQAAQLH A SEGFWDSE ...String:
MSPVGRLFLG SKLPAQTWQS FRLQPALPQF AQKRFFSGGA AKPSWHVARE HRFGPTLPDH AYYGEHATYN YFVLFIRGMR PYLEKIFGD CASTIKNAAV AVYRPVNAFV VKHNPDLRLQ FVAFASFIAT HMAITKEFND MYQRLVDITS LLELQAAQLH A SEGFWDSE SEQQEARLQR HAEHRNDLET TWEEALREAT LARNFDVLVS YLNHGTSDGC GEHGACGHSG QNGIPPSVTW NF NAMPYGK ENPDTKTFPI PDHEQPYRAF SLGFTANNLS GNWGDYIDRQ DNKNALMRPA RMMFTDVFIP TTK

+
Macromolecule #20: subunit 8

MacromoleculeName: subunit 8 / type: protein_or_peptide / ID: 20 / Number of copies: 2 / Enantiomer: LEVO
Source (natural)Organism: Toxoplasma gondii (strain ATCC 50853 / GT1) (eukaryote)
Strain: ATCC 50853 / GT1
Molecular weightTheoretical: 22.344648 KDa
SequenceString: MNTFFLTPAA AAARRVAVSF FARSSASGFP QHRVALRPFP SQRPAERAHN LAKSQTLRSV KAHGRQSGKK EQSTESGGRR GFRAAVGAG TGCMLAASPM LFTDYDNTAS PKSELIFMAG NALGYCTERF FENEYGQSIF MFALGLAYLA MLGHEGKIHG A VWRMKHLF ...String:
MNTFFLTPAA AAARRVAVSF FARSSASGFP QHRVALRPFP SQRPAERAHN LAKSQTLRSV KAHGRQSGKK EQSTESGGRR GFRAAVGAG TGCMLAASPM LFTDYDNTAS PKSELIFMAG NALGYCTERF FENEYGQSIF MFALGLAYLA MLGHEGKIHG A VWRMKHLF ATNFKMVGHP RYAYALPKNP LLQDAAPTKT GSTSAKK

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Macromolecule #21: ATPTG9

MacromoleculeName: ATPTG9 / type: protein_or_peptide / ID: 21 / Number of copies: 2 / Enantiomer: LEVO
Source (natural)Organism: Toxoplasma gondii (strain ATCC 50853 / GT1) (eukaryote)
Strain: ATCC 50853 / GT1
Molecular weightTheoretical: 18.426826 KDa
SequenceString:
MSGDSVAPHQ RAACEQLHSE YKQCLAKNGR THFSACTDFH SKLRACENML GTSYCIDEGI NLMKCTKNPD PSFCAKEFVA MRECNRPQG PHLVLSSSPS SPPHYELRPE VKHLYNVDST DLGSAVAPVR SKEQLDRVAD SLKADLNLPG YGHIPYKWES L RPNPGA

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Macromolecule #22: ATPTG4

MacromoleculeName: ATPTG4 / type: protein_or_peptide / ID: 22 / Number of copies: 2 / Enantiomer: LEVO
Source (natural)Organism: Toxoplasma gondii (strain ATCC 50853 / GT1) (eukaryote)
Strain: ATCC 50853 / GT1
Molecular weightTheoretical: 28.557363 KDa
SequenceString: MALNRVPSRV LPFAVSGVYV HPRNACRLPA AAAVSSVPSS VSAFSSRTNF LSRSSSAVMS HPCAATARHF SFAIPPANAA ALADPLPAT PTPPPVFEAV SSASSGIASG TNALKNVEEV STMERYEAAV YEESFKKPIV CLFFARFSLQ SKVLLQPFLD F AASASNNA ...String:
MALNRVPSRV LPFAVSGVYV HPRNACRLPA AAAVSSVPSS VSAFSSRTNF LSRSSSAVMS HPCAATARHF SFAIPPANAA ALADPLPAT PTPPPVFEAV SSASSGIASG TNALKNVEEV STMERYEAAV YEESFKKPIV CLFFARFSLQ SKVLLQPFLD F AASASNNA TFFLIDCDRV PRAAYHARVE NVPSLVVMKG DDAFRQTITD SVGVKTAGDL IQEARSALDQ VLRLDQQEGG TK LQPGVSS YTHHIGVDNL NVYRKGWPVA

+
Macromolecule #23: ATPTG16

MacromoleculeName: ATPTG16 / type: protein_or_peptide / ID: 23 / Number of copies: 2 / Enantiomer: LEVO
Source (natural)Organism: Toxoplasma gondii (strain ATCC 50853 / GT1) (eukaryote)
Strain: ATCC 50853 / GT1
Molecular weightTheoretical: 11.587373 KDa
SequenceString:
MPFMWRQRAY CAPVPSAFAS QQPNGLGGEA GVRKPLLRSN SESLSVFSQI PDGLLGHTTS VTMGNSDIFF LPKPSNLLKI ALPAFVFMP NLTIFTRAFP FYAHTSA

+
Macromolecule #24: subunit d

MacromoleculeName: subunit d / type: protein_or_peptide / ID: 24 / Number of copies: 2 / Enantiomer: LEVO
Source (natural)Organism: Toxoplasma gondii (strain ATCC 50853 / GT1) (eukaryote)
Strain: ATCC 50853 / GT1
Molecular weightTheoretical: 61.36225 KDa
SequenceString: MQALRRGAAI PSRLLPRRDS WMSLAPFVAP NNAAAWRKLR DGAQEVQTVI ERQSTPGKPQ QIDWAKWESQ IAHKDILNCL KTFYTNQVQ ILDRALGALE TAKTPAPCEG AEKGWALFDA ALSACAKSVE KSEELLSNGA RALWVSCSNP PVWKVNTNEW L DSDQYWQA ...String:
MQALRRGAAI PSRLLPRRDS WMSLAPFVAP NNAAAWRKLR DGAQEVQTVI ERQSTPGKPQ QIDWAKWESQ IAHKDILNCL KTFYTNQVQ ILDRALGALE TAKTPAPCEG AEKGWALFDA ALSACAKSVE KSEELLSNGA RALWVSCSNP PVWKVNTNEW L DSDQYWQA FVEKHHFYSQ YQPGVVDPEA PQEVEAFKQA WHSRMGKFND RSDTPMLYAY MNELPSWEYY DLHRSAFLEH MT YFLVRTG GDFRFFPEMP PWQWLAHMEN LRFKLLSVAQ SRRSQLQLAN LERERALDFL PVDVEHHGEE YTQKFLQYET ELF QACAAR LMGHFMFLCD PFIPVQSAEA LSAVTRVDNG KGKLFSLGDD VNALFYLPEQ QRRDVERPTQ AVQTLLGHLE ATGR PFNPC YSELLHVHAE VLEERGEHWL TAPGECVSQA FLRRLRTDDP AYEVYCSYFK EMYERFAGAK EVSMEDGRKR LATIE KNAQ EEAAAYGLAL KTMGSAELAH KAREGAAKLE QLRKAQEKAA GKSAQTVQEN KM

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Macromolecule #25: 1,2-DIACYL-SN-GLYCERO-3-PHOSPHOCHOLINE

MacromoleculeName: 1,2-DIACYL-SN-GLYCERO-3-PHOSPHOCHOLINE / type: ligand / ID: 25 / Number of copies: 6 / Formula: PC1
Molecular weightTheoretical: 790.145 Da
Chemical component information

ChemComp-PC1:
1,2-DIACYL-SN-GLYCERO-3-PHOSPHOCHOLINE / phospholipid*YM

+
Macromolecule #26: DODECYL-BETA-D-MALTOSIDE

MacromoleculeName: DODECYL-BETA-D-MALTOSIDE / type: ligand / ID: 26 / Number of copies: 14 / Formula: LMT
Molecular weightTheoretical: 510.615 Da
Chemical component information

ChemComp-LMT:
DODECYL-BETA-D-MALTOSIDE / detergent*YM

+
Macromolecule #27: CARDIOLIPIN

MacromoleculeName: CARDIOLIPIN / type: ligand / ID: 27 / Number of copies: 18 / Formula: CDL
Molecular weightTheoretical: 1.464043 KDa
Chemical component information

ChemComp-CDL:
CARDIOLIPIN / phospholipid*YM

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Macromolecule #28: 1,2-Dioleoyl-sn-glycero-3-phosphoethanolamine

MacromoleculeName: 1,2-Dioleoyl-sn-glycero-3-phosphoethanolamine / type: ligand / ID: 28 / Number of copies: 6 / Formula: PEE
Molecular weightTheoretical: 749.073 Da
Chemical component information

ChemComp-PEE:
1,2-dioleoyl-sn-glycero-3-phosphoethanolamine / DOPE, phospholipid*YM

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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

Concentration5 mg/mL
BufferpH: 7.5
VitrificationCryogen name: ETHANE / Chamber humidity: 100 % / Instrument: FEI VITROBOT MARK IV / Details: 3 seconds blot..

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Electron microscopy

MicroscopeFEI TITAN KRIOS
Specialist opticsEnergy filter - Name: GIF Quantum LS / Energy filter - Slit width: 20 eV
Image recordingFilm or detector model: GATAN K2 QUANTUM (4k x 4k) / Detector mode: COUNTING / Number real images: 4860 / Average electron dose: 30.0 e/Å2
Electron beamAcceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN
Electron opticsIllumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD / Cs: 2.7 mm / Nominal magnification: 165000
Sample stageSpecimen holder model: FEI TITAN KRIOS AUTOGRID HOLDER / Cooling holder cryogen: NITROGEN
Experimental equipment
Model: Titan Krios / Image courtesy: FEI Company

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Image processing

CTF correctionSoftware - Name: Gctf
Final reconstructionApplied symmetry - Point group: C2 (2 fold cyclic) / Resolution.type: BY AUTHOR / Resolution: 2.8 Å / Resolution method: FSC 0.143 CUT-OFF / Software - Name: RELION (ver. 3.0) / Number images used: 101505
Initial angle assignmentType: MAXIMUM LIKELIHOOD / Software - Name: RELION (ver. 3.0)
Final angle assignmentType: MAXIMUM LIKELIHOOD / Software - Name: RELION (ver. 3.0)
FSC plot (resolution estimation)

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Atomic model buiding 1

RefinementSpace: REAL
Output model

PDB-6tmg:
Cryo-EM structure of Toxoplasma gondii mitochondrial ATP synthase dimer, membrane region model

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