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- EMDB-26829: Citrus V-ATPase State 2, H in contact with subunits AB -

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Basic information

Entry
Database: EMDB / ID: EMD-26829
TitleCitrus V-ATPase State 2, H in contact with subunits AB
Map dataCitrus V-ATPase State 2, H in contact with subunits AB
Sample
  • Complex: Citrus V-ATPase
    • Protein or peptide: x 15 types
KeywordsV-ATPase / rotary ATPase / complex / MEMBRANE PROTEIN
Function / homology
Function and homology information


proton-transporting V-type ATPase, V1 domain / proton-transporting V-type ATPase, V0 domain / proton-transporting two-sector ATPase complex, catalytic domain / vacuolar proton-transporting V-type ATPase, V0 domain / vacuolar proton-transporting V-type ATPase, V1 domain / proton-transporting V-type ATPase complex / vacuolar acidification / vacuole / vacuolar membrane / H+-transporting two-sector ATPase ...proton-transporting V-type ATPase, V1 domain / proton-transporting V-type ATPase, V0 domain / proton-transporting two-sector ATPase complex, catalytic domain / vacuolar proton-transporting V-type ATPase, V0 domain / vacuolar proton-transporting V-type ATPase, V1 domain / proton-transporting V-type ATPase complex / vacuolar acidification / vacuole / vacuolar membrane / H+-transporting two-sector ATPase / ATP metabolic process / proton-transporting ATPase activity, rotational mechanism / proton-transporting ATP synthase activity, rotational mechanism / transmembrane transport / ATP hydrolysis activity / ATP binding
Similarity search - Function
ATPase, V1 complex, subunit A / ATPase, V1 complex, subunit C / Vacuolar ATP synthase subunit C superfamily / V-ATPase subunit C / Vacuolar (H+)-ATPase G subunit / Vacuolar (H+)-ATPase G subunit / ATPase, V1 complex, subunit B / ATPase, V1 complex, subunit F, eukaryotic / ATPase, V0 complex, subunit e1/e2 / ATP synthase subunit H ...ATPase, V1 complex, subunit A / ATPase, V1 complex, subunit C / Vacuolar ATP synthase subunit C superfamily / V-ATPase subunit C / Vacuolar (H+)-ATPase G subunit / Vacuolar (H+)-ATPase G subunit / ATPase, V1 complex, subunit B / ATPase, V1 complex, subunit F, eukaryotic / ATPase, V0 complex, subunit e1/e2 / ATP synthase subunit H / ATPase, V0 complex, subunit d / V-ATPase proteolipid subunit C, eukaryotic / ATPase, V0 complex, subunit 116kDa, eukaryotic / ATPase, V0 complex, c/d subunit / V-type ATPase subunit C/d / V-type ATP synthase subunit c/d subunit superfamily / V-type ATP synthase c/d subunit, domain 3 superfamily / ATP synthase (C/AC39) subunit / V-ATPase proteolipid subunit / V-type ATPase, V0 complex, 116kDa subunit family / V-type ATPase 116kDa subunit family / V-type ATPase subunit E / V-type ATPase subunit E, C-terminal domain superfamily / ATP synthase (E/31 kDa) subunit / ATPase, V1 complex, subunit D / ATPase, V1 complex, subunit F / ATPase, V1 complex, subunit F superfamily / ATP synthase subunit D / ATP synthase (F/14-kDa) subunit / V-type ATP synthase regulatory subunit B/beta / V-type ATP synthase catalytic alpha chain / ATPsynthase alpha/beta subunit, N-terminal extension / ATPsynthase alpha/beta subunit N-term extension / V-ATPase proteolipid subunit C-like domain / F/V-ATP synthase subunit C superfamily / ATP synthase subunit C / ATPase, F1/V1 complex, beta/alpha subunit, C-terminal / C-terminal domain of V and A type ATP synthase / ATP synthase subunit alpha, N-terminal domain-like superfamily / ATPase, F1/V1/A1 complex, alpha/beta subunit, N-terminal domain superfamily / ATPase, F1/V1/A1 complex, alpha/beta subunit, N-terminal domain / ATP synthase alpha/beta family, beta-barrel domain / ATPase, alpha/beta subunit, nucleotide-binding domain, active site / ATP synthase alpha and beta subunits signature. / ATPase, F1/V1/A1 complex, alpha/beta subunit, nucleotide-binding domain / ATP synthase alpha/beta family, nucleotide-binding domain / P-loop containing nucleoside triphosphate hydrolase
Similarity search - Domain/homology
V-type proton ATPase subunit G / V-type proton ATPase subunit e1 / V-type proton ATPase subunit D / Vacuolar proton pump subunit B / V-type proton ATPase subunit / V-type proton ATPase subunit C / V-type proton ATPase subunit c1 / Vacuolar membrane ATPase subunit c / V-type proton ATPase subunit E / V-type proton ATPase catalytic subunit A ...V-type proton ATPase subunit G / V-type proton ATPase subunit e1 / V-type proton ATPase subunit D / Vacuolar proton pump subunit B / V-type proton ATPase subunit / V-type proton ATPase subunit C / V-type proton ATPase subunit c1 / Vacuolar membrane ATPase subunit c / V-type proton ATPase subunit E / V-type proton ATPase catalytic subunit A / V-type proton ATPase subunit F / V-type proton ATPase subunit a
Similarity search - Component
Biological speciesCitrus limon (lemon)
Methodsingle particle reconstruction / cryo EM / Resolution: 4.1 Å
AuthorsTan YZ / Rubinstein JL
Funding support Canada, 1 items
OrganizationGrant numberCountry
Natural Sciences and Engineering Research Council (NSERC, Canada) Canada
CitationJournal: Structure / Year: 2022
Title: Structure of V-ATPase from citrus fruit.
Authors: Yong Zi Tan / Kristine A Keon / Rana Abdelaziz / Peter Imming / Waltraud Schulze / Karin Schumacher / John L Rubinstein /
Abstract: We used the Legionella pneumophila effector SidK to affinity purify the endogenous vacuolar-type ATPases (V-ATPases) from lemon fruit. The preparation was sufficient for cryoelectron microscopy, ...We used the Legionella pneumophila effector SidK to affinity purify the endogenous vacuolar-type ATPases (V-ATPases) from lemon fruit. The preparation was sufficient for cryoelectron microscopy, allowing structure determination of the enzyme in two rotational states. The structure defines the ATP:H ratio of the enzyme, demonstrating that it can establish a maximum ΔpH of ∼3, which is insufficient to maintain the low pH observed in the vacuoles of juice sac cells in lemons and other citrus fruit. Compared with yeast and mammalian enzymes, the membrane region of the plant V-ATPase lacks subunit f and possesses an unusual configuration of transmembrane α helices. Subunit H, which inhibits ATP hydrolysis in the isolated catalytic region of V-ATPase, adopts two different conformations in the intact complex, hinting at a role in modulating activity in the intact enzyme.
History
DepositionMay 3, 2022-
Header (metadata) releaseJul 6, 2022-
Map releaseJul 6, 2022-
UpdateJan 17, 2024-
Current statusJan 17, 2024Processing site: RCSB / Status: Released

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Structure visualization

Supplemental images

emd_26829.png

Downloads & links

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Map

FileDownload / File: emd_26829.map.gz / Format: CCP4 / Size: 103 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
AnnotationCitrus V-ATPase State 2, H in contact with subunits AB
Projections & slices

Image control

Size
Brightness
Contrast
Others
AxesZ (Sec.)Y (Row.)X (Col.)
1.62 Å/pix.
x 300 pix.
= 485.1 Å		1.62 Å/pix.
x 300 pix.
= 485.1 Å		1.62 Å/pix.
x 300 pix.
= 485.1 Å

Surface

Projections

Slices (1/3)

Slices (1/2)

Slices (2/3)

Images are generated by Spider.

Voxel sizeX=Y=Z: 1.617 Å
Density

Histogram

Histogram (log scale)
Contour LevelBy AUTHOR: 0.6
Minimum - Maximum-0.3807978 - 4.6976433
Average (Standard dev.)0.027863264 (±0.11551007)
SymmetrySpace group: 1
Details

EMDB XML:

Map geometry
Axis orderXYZ
Origin000
Dimensions300300300
Spacing300300300
CellA=B=C: 485.1 Å
α=β=γ: 90.0 °

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Supplemental data

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Additional map: Citrus V-ATPase State 2, H in contact with subunits AB

Fileemd_26829_additional_1.map
AnnotationCitrus V-ATPase State 2, H in contact with subunits AB
Projections & Slices
AxesZYX

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Slices (1/2)
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Histogram

Histogram (log scale)

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Half map: Citrus V-ATPase State 2, H in contact with subunits AB

Fileemd_26829_half_map_1.map
AnnotationCitrus V-ATPase State 2, H in contact with subunits AB
Projections & Slices
AxesZYX

Projections

Slices (1/2)
Density Histograms

Histogram

Histogram (log scale)

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Half map: Citrus V-ATPase State 2, H in contact with subunits AB

Fileemd_26829_half_map_2.map
AnnotationCitrus V-ATPase State 2, H in contact with subunits AB
Projections & Slices
AxesZYX

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Slices (1/2)
Density Histograms

Histogram

Histogram (log scale)

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Sample components

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Entire : Citrus V-ATPase

EntireName: Citrus V-ATPase
Components
  • Complex: Citrus V-ATPase
    • Protein or peptide: V-type proton ATPase subunit H
    • Protein or peptide: V-type proton ATPase catalytic subunit A
    • Protein or peptide: Vacuolar proton pump subunit B
    • Protein or peptide: V-type proton ATPase subunit E
    • Protein or peptide: V-type proton ATPase subunit G
    • Protein or peptide: V-type proton ATPase subunit D
    • Protein or peptide: V-type proton ATPase subunit F
    • Protein or peptide: V-type proton ATPase subunit C
    • Protein or peptide: V-type proton ATPase subunit a
    • Protein or peptide: V-type proton ATPase subunit AP1 fragment
    • Protein or peptide: Vacuolar membrane ATPase subunit c
    • Protein or peptide: V-type proton ATPase subunit
    • Protein or peptide: V-type proton ATPase subunit e1
    • Protein or peptide: V-type proton ATPase subunit c1
    • Protein or peptide: V-type proton ATPase subunit AP2 fragment

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Supramolecule #1: Citrus V-ATPase

SupramoleculeName: Citrus V-ATPase / type: complex / ID: 1 / Parent: 0 / Macromolecule list: all
Source (natural)Organism: Citrus limon (lemon)

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Macromolecule #1: V-type proton ATPase subunit H

MacromoleculeName: V-type proton ATPase subunit H / type: protein_or_peptide / ID: 1 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Citrus limon (lemon)
Molecular weightTheoretical: 51.609539 KDa
SequenceString: MDHAELTTEQ VLKRDIPWET YMTTKLISGT GLQLLRRYDN RSESHRAQLL DDDGPSYVRV FVSILRDIYK EETVEYVLAL IDEMLTANP KRARLFHDKS LASEDTYEPF LRLLWKGNWF IQEKSCKILA SIVSARPKPQ DRFFANGEAS NSKSKSTTID D VLKLLVEW ...String:
MDHAELTTEQ VLKRDIPWET YMTTKLISGT GLQLLRRYDN RSESHRAQLL DDDGPSYVRV FVSILRDIYK EETVEYVLAL IDEMLTANP KRARLFHDKS LASEDTYEPF LRLLWKGNWF IQEKSCKILA SIVSARPKPQ DRFFANGEAS NSKSKSTTID D VLKLLVEW LCAQLKKPSH PSRGVPVAIN CLAALLKEPM VRSSFVQADG VKLLTPLISP ASTQQSIQLL YETCLCVWLL SY YEPAVEY LATTRTLPRL IDVVKSSTKE KVVRVVVLIL RNLLPKGNFA AQMIDLGLPQ VVQSLKAQAW SDEDLLEGLN QLE EGLKDN IKRLSSFDKY KQEVLLGHLD WSPMHKDPLF WRDNITNFEE NDFQILRVLL TILDTSSDPR ALAVACFDLS QFIQ YHPAG RVIVTDLKAK ERVMKLMNHE NTEVTKSALL CIQRLFLGAK YASFLQA

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Macromolecule #2: V-type proton ATPase catalytic subunit A

MacromoleculeName: V-type proton ATPase catalytic subunit A / type: protein_or_peptide / ID: 2 / Number of copies: 3 / Enantiomer: LEVO / EC number: H+-transporting two-sector ATPase
Source (natural)Organism: Citrus limon (lemon)
Molecular weightTheoretical: 68.755219 KDa
SequenceString: MPSVYGARLT TFEDEEKESE YGYVRKVSGP VVIADGMNGA AMYELVRVGH DNLIGEIIRL EGDSATIQVY EETAGLMVND PVLRTHKPL SVELGPGILG NIFDGIQRPL KTIAIRSGDV YIPRGVSVPA LDKDTLWEFQ PKKIGEGDLL TGGDLYATVF E NSLMQHHV ...String:
MPSVYGARLT TFEDEEKESE YGYVRKVSGP VVIADGMNGA AMYELVRVGH DNLIGEIIRL EGDSATIQVY EETAGLMVND PVLRTHKPL SVELGPGILG NIFDGIQRPL KTIAIRSGDV YIPRGVSVPA LDKDTLWEFQ PKKIGEGDLL TGGDLYATVF E NSLMQHHV ALPPDAMGKV TYVAPAGQYS LKDTVLELEF QGVKKSFTML QAWPVRTPRP VSSKLAADTP LLTGQRVLDA LF PSVLGGT CAIPGAFGCG KTVISQALSK YSNSDTVVYV GCGERGNEMA EVLMDFPQLT MTLPDGREES VMKRTTLVAN TSN MPVAAR EASIYTGITI AEYFRDMGYN VSMMADSTSR WAEALREISG RLAEMPADSG YPAYLAARLA SFYERAGKVK CLGG PERTG SVTIVGAVSP PGGDFSDPVT SATLSIVQVF WGLDKKLAQR KHFPSVNWLI SYSKYSTALE SFYEQFDPDF INIRT KARE VLQREDDLNE IVQLVGKDAL AEGDKITLET AKLLREDYLA QNAFTPYDKF CPFYKSVWMM RNIIHFYNLA NQAVEK GAG MDGQKITYTL IKHRLGDLFY RLVSQKFEDP AEGEPALVAK FKKLHEDLTA GFRALEDETR

UniProtKB: V-type proton ATPase catalytic subunit A

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Macromolecule #3: Vacuolar proton pump subunit B

MacromoleculeName: Vacuolar proton pump subunit B / type: protein_or_peptide / ID: 3 / Number of copies: 3 / Enantiomer: LEVO
Source (natural)Organism: Citrus limon (lemon)
Molecular weightTheoretical: 54.417594 KDa
SequenceString: MGVAQNNVDM EEGTLEVAME YRTVTGVAGP LVILDKVKGP KYYEIVNIRL GDGTMRRGQV LEVDGEKAVV QVFEGTSGID NKFTTVQFT GEVLKTPVSL DMLGRIFNGS GKPIDNGPPI LPEAYLDISG SSINPSERTY PEEMIQTGIS TIDVMNSIAR G QKIPLFSA ...String:
MGVAQNNVDM EEGTLEVAME YRTVTGVAGP LVILDKVKGP KYYEIVNIRL GDGTMRRGQV LEVDGEKAVV QVFEGTSGID NKFTTVQFT GEVLKTPVSL DMLGRIFNGS GKPIDNGPPI LPEAYLDISG SSINPSERTY PEEMIQTGIS TIDVMNSIAR G QKIPLFSA AGLPHNEIAA QICRQAGLVK RLEKTDNLLE DGEEDNFAIV FAAMGVNMET AQFFKRDFEE NGSMERVTLF LN LANDPTI ERIITPRIAL TTAEYLAYEC GKHVLVILTD MSSYADALRE VSAAREEVPG RRGYPGYMYT DLAQIYERAG RIE GRKGSI TQIPILTMPN DDITHPTPDL TGYITEGQIY IDRQLQNRQI YPPINVLPSL SRLMKSAIGE GMTRRDHSDV SNQL YANYA IGKDVQAMKA VVGEEALSSE DLLYLEFLDK FERKFVAQGA YDSRNIFQSL DLAWTLLRIF PRELLHRIPG KTLDQ YYSR DAAN

UniProtKB: Vacuolar proton pump subunit B

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Macromolecule #4: V-type proton ATPase subunit E

MacromoleculeName: V-type proton ATPase subunit E / type: protein_or_peptide / ID: 4 / Number of copies: 3 / Enantiomer: LEVO
Source (natural)Organism: Citrus limon (lemon)
Molecular weightTheoretical: 26.331332 KDa
SequenceString: MNDADVSKQI QQMVRFIRQE AEEKANEISV SAEEEFNIEK LQLVEAEKKK IRQEYERKEK QVEIRKKIEY SMQLNASRIK VLQAQDDLV SNMMEAASKE VLNVSRDHNS YKKLLKGLIV QSLLRLKEPA VLLRCRKDDH HLVESVLESA KEEYAQKLQV H PPEIIVDH ...String:
MNDADVSKQI QQMVRFIRQE AEEKANEISV SAEEEFNIEK LQLVEAEKKK IRQEYERKEK QVEIRKKIEY SMQLNASRIK VLQAQDDLV SNMMEAASKE VLNVSRDHNS YKKLLKGLIV QSLLRLKEPA VLLRCRKDDH HLVESVLESA KEEYAQKLQV H PPEIIVDH HIYLPPGPGH HNAHGPSCSG GVVVASRDGK IVCENTLDAR LDVVFRKKLP EIRKQLVSQV AA

UniProtKB: V-type proton ATPase subunit E

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Macromolecule #5: V-type proton ATPase subunit G

MacromoleculeName: V-type proton ATPase subunit G / type: protein_or_peptide / ID: 5 / Number of copies: 3 / Enantiomer: LEVO
Source (natural)Organism: Citrus limon (lemon)
Molecular weightTheoretical: 12.354938 KDa
SequenceString:
MASNRGHGGI QQLLAAEQEA QHIVAAARNA KMARLRQAKE EAEREIAEHR AQVEREFQRK LAESSGDSGA NVKRLEQETE VKIHHLNAG AEKIQYDVVQ MLLKHVTTVK N

UniProtKB: V-type proton ATPase subunit G

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Macromolecule #6: V-type proton ATPase subunit D

MacromoleculeName: V-type proton ATPase subunit D / type: protein_or_peptide / ID: 6 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Citrus limon (lemon)
Molecular weightTheoretical: 29.235746 KDa
SequenceString: MAQNQRLTVV PTVTMLGVMK SRLVGATRGH ALLKKKSDAL TVQFRQILKN IVTTKESMGE VMKDSSFALI EAKYVAGENI KHIVLENVQ NASIKVRSRQ ENIAGVKIPK FEYFTDGETK NDLTGLARGG QQVQQCRAAY VKAIELLVEL ASLQTSFLTL D EAIKTTNR ...String:
MAQNQRLTVV PTVTMLGVMK SRLVGATRGH ALLKKKSDAL TVQFRQILKN IVTTKESMGE VMKDSSFALI EAKYVAGENI KHIVLENVQ NASIKVRSRQ ENIAGVKIPK FEYFTDGETK NDLTGLARGG QQVQQCRAAY VKAIELLVEL ASLQTSFLTL D EAIKTTNR RVNALENVVK PRLENTITYI KGELDELERE DFFRLKKIQG YKKREIERQL ASSKQFVEEQ FAEKVSLQKG IS IKSAQNL LSAGEKDEDI IF

UniProtKB: V-type proton ATPase subunit D

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Macromolecule #7: V-type proton ATPase subunit F

MacromoleculeName: V-type proton ATPase subunit F / type: protein_or_peptide / ID: 7 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Citrus limon (lemon)
Molecular weightTheoretical: 14.301398 KDa
SequenceString:
MAGRAQIPTK SSALIAMIAD EDTVTGFLLA GVGNVDLRRK TNYLIVDSKT TVKAIEDAFK EFTTKEDIAI VLISQYVANM IRFLVDSYN KPIPAILEIP SKDHPYDPAH DSVLSRVKNL FSAESVASGR R

UniProtKB: V-type proton ATPase subunit F

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Macromolecule #8: V-type proton ATPase subunit C

MacromoleculeName: V-type proton ATPase subunit C / type: protein_or_peptide / ID: 8 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Citrus limon (lemon)
Molecular weightTheoretical: 42.498875 KDa
SequenceString: MASRYWVVSL PVQNSAASVW NRLQEQISKH SFDTPLYRFN IPNLRVGTLD SLLALSDDLV KSNSFVESVS HKIRRQIEEL ERVSGIESS SLSVDGVPVD TYLTRFVWDE AKYPTMSPLR EIVDGIHTLV AKIEDDLKVR VAEYNNVRSQ LNAINRKQSG S LAVRDLSN ...String:
MASRYWVVSL PVQNSAASVW NRLQEQISKH SFDTPLYRFN IPNLRVGTLD SLLALSDDLV KSNSFVESVS HKIRRQIEEL ERVSGIESS SLSVDGVPVD TYLTRFVWDE AKYPTMSPLR EIVDGIHTLV AKIEDDLKVR VAEYNNVRSQ LNAINRKQSG S LAVRDLSN LVKPEDIITS EHLVTLLAVV PKYSQKDWLA SYETLTSYVV PRSSKLLYED NEYALYTVTL FGRVADNFRI AA REKGFQI RDFEYSSEAQ ESRNQELEKL VHDQESLRSS LLQWCYTSYG EVFSSWMHFC AVRVFAESIL RYGLPPSFLA CVL APSVKG EKKVRSILEE LCGNANSTFW KSEDDGGMMA GLGGDADSHP YVSFTINLV

UniProtKB: V-type proton ATPase subunit C

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Macromolecule #9: V-type proton ATPase subunit a

MacromoleculeName: V-type proton ATPase subunit a / type: protein_or_peptide / ID: 9 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Citrus limon (lemon)
Molecular weightTheoretical: 92.939797 KDa
SequenceString: MAELQSGGGG GCCPPMDLFR SEPMQLVQII IPIESAHLTV SYLGELGLLQ FKDLNSEKSP FQRTYAAQIK KCAEMARKLR FFKEQMLKA GILSSVKSTT RADNNTDDLE VKLGDLEAEL VEINANGDKL QRAHSELVEY KLVLQKAGEF FSSALTSAAA Q QREMESQQ ...String:
MAELQSGGGG GCCPPMDLFR SEPMQLVQII IPIESAHLTV SYLGELGLLQ FKDLNSEKSP FQRTYAAQIK KCAEMARKLR FFKEQMLKA GILSSVKSTT RADNNTDDLE VKLGDLEAEL VEINANGDKL QRAHSELVEY KLVLQKAGEF FSSALTSAAA Q QREMESQQ TGEMTIETPL LTDKEMSADP SKQIKLGFIA GLVPREKSMS FERMLFRATR GNVFLRQAVV DEPVVDPVSG EK MEKNVFV VFYSGERAKN KILKICDAFG ANRYPFNEEF DKQAQAISEV SGRLSELKTT LDAGLLHRGN LLQTIGDQFE QWN LLVKRE KSIYHTLNML SLDVTKKCLV GEGWSPVFAT KQIQDALERA AFDSNSQVGA IFQVLHTKES PPTYFRTNKF TSAF QEIVD AYGVAKYREA NPGVFTIVTF PFLFAVMFGD WGHGICLLLG TLVLIVREKK LASQKLDDIT DMTFGGRYVI LMMAL FSIY TGLIYNEFFS VPFEIFSHSA YACRDLSCSE ATTVGLIKVR DTYPFGVDPV WHGSRSELPF LNSLKMKMSI LLGVAQ MNL GIILSYFNAT FFRIGVNIWC QFIPQIIFLN SLFGYLSLLI ILKWITGSQA DLYHVMIYMF LSPTDELGDN QLFPGQK TA QLVLLLLAFV SVPWMLLPKP FILKMQHQDR HQGQSYEALQ STDESLQPDT NHDSHGHEEF EFSEVFVHQM IHTIEFVL G AVSNTASYLR LWALSLAHSE LSSVFYEKVL LLAWGYNNIL ILIVGIIVFI FATVGVLLVM ETLSAFLHAL RLHWVEFQN KFYEGDGYKF SPFSFALLDD EDE

UniProtKB: V-type proton ATPase subunit a

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Macromolecule #10: V-type proton ATPase subunit AP1 fragment

MacromoleculeName: V-type proton ATPase subunit AP1 fragment / type: protein_or_peptide / ID: 10 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Citrus limon (lemon)
Molecular weightTheoretical: 2.74137 KDa
SequenceString:
(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK) (UNK)(UNK)(UNK)(UNK)(UNK)(UNK) (UNK)(UNK)(UNK) (UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK) (UNK)(UNK)(UNK)

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Macromolecule #11: Vacuolar membrane ATPase subunit c

MacromoleculeName: Vacuolar membrane ATPase subunit c / type: protein_or_peptide / ID: 11 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Citrus limon (lemon)
Molecular weightTheoretical: 18.581932 KDa
SequenceString:
MSGSVMLGES SSWSRALVKI SPYTFSAIGI AVAIGVSVLG AAWGIYITGS SLIGAAIKAP RITSKNLISV IFCEAVAIYG VIVAIILQT KLESVPASQI YAPESLRAGY AIFASGIIVG FANLVCGLCV GIIGSSCALS DAQNSSLFVK ILVIEIFGSA L GLFGVIVG IIMSAQASWP AKPV

UniProtKB: Vacuolar membrane ATPase subunit c

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Macromolecule #12: V-type proton ATPase subunit

MacromoleculeName: V-type proton ATPase subunit / type: protein_or_peptide / ID: 12 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Citrus limon (lemon)
Molecular weightTheoretical: 40.69341 KDa
SequenceString: MYGFEAMTFN IHGGYLEAIV RGYRAGLLTA ADYNNLCQCE TLDDIKMHLS ATEYGPYLQN EPSPLHTTTI VEKCTLKLVD EYKHMLCQA TEPLSTFLEY ITYGHMIDNV VLIVTGTLHE RDVQELLEKC HPLGMFDSIA TLAVAQNMRE LYRLVLVDTP L APYFSECI ...String:
MYGFEAMTFN IHGGYLEAIV RGYRAGLLTA ADYNNLCQCE TLDDIKMHLS ATEYGPYLQN EPSPLHTTTI VEKCTLKLVD EYKHMLCQA TEPLSTFLEY ITYGHMIDNV VLIVTGTLHE RDVQELLEKC HPLGMFDSIA TLAVAQNMRE LYRLVLVDTP L APYFSECI TSEDLDDMNI EIMRNTLYKA YLEDFYKFCQ KLGGATAEIM SDLLAFEADR RAVNITINSI GTELTRDDRR KL YSNFGLL YPYGHEELAV CEDIDQVRGV MEKYPPYQSI FSKLSYGESQ MLDKAFYEEE VKRLCLAFEQ QFHYGVFFAY MRL REQEIR NLMWISECVA QNQKSRVHDS VVFIF

UniProtKB: V-type proton ATPase subunit

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Macromolecule #13: V-type proton ATPase subunit e1

MacromoleculeName: V-type proton ATPase subunit e1 / type: protein_or_peptide / ID: 13 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Citrus limon (lemon)
Molecular weightTheoretical: 7.75746 KDa
SequenceString:
MGFLVTTLVF LVIGIIASLC TRICCNRGPS TNLLHLTLVI TATVSCWMMW AIVYLAQMKP LIVPILSEEE

UniProtKB: V-type proton ATPase subunit e1

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Macromolecule #14: V-type proton ATPase subunit c1

MacromoleculeName: V-type proton ATPase subunit c1 / type: protein_or_peptide / ID: 14 / Number of copies: 9 / Enantiomer: LEVO
Source (natural)Organism: Citrus limon (lemon)
Molecular weightTheoretical: 16.581588 KDa
SequenceString:
MSTFSGDETA PFFGFLGAAA ALVFSCMGAA YGTAKSGVGV ASMGVMRPEL VMKSIVPVVM AGVLGIYGLI IAVIISTGIN PKAKSYYLF DGYAHLSSGL ACGLAGLSAG MAIGIVGDAG VRANAQQPKL FVGMILILIF AEALALYGLI VGIILSSRAG Q SRAE

UniProtKB: V-type proton ATPase subunit c1

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Macromolecule #15: V-type proton ATPase subunit AP2 fragment

MacromoleculeName: V-type proton ATPase subunit AP2 fragment / type: protein_or_peptide / ID: 15 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Citrus limon (lemon)
Molecular weightTheoretical: 2.060531 KDa
SequenceString:
(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK) (UNK)(UNK)(UNK)(UNK)(UNK)(UNK) (UNK)(UNK)(UNK) (UNK)(UNK)(UNK)(UNK)(UNK)

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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: 7.4
VitrificationCryogen name: ETHANE

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Electron microscopy

MicroscopeTFS KRIOS
Image recordingFilm or detector model: FEI FALCON IV (4k x 4k) / Average electron dose: 31.0 e/Å2
Electron beamAcceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN
Electron opticsIllumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD / Nominal defocus max: 3.414211 µm / Nominal defocus min: 0.677558 µm
Experimental equipment
Model: Titan Krios / Image courtesy: FEI Company

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Image processing

Startup modelType of model: NONE
Final reconstructionResolution.type: BY AUTHOR / Resolution: 4.1 Å / Resolution method: FSC 0.143 CUT-OFF / Number images used: 51571
Initial angle assignmentType: OTHER
Final angle assignmentType: OTHER
FSC plot (resolution estimation)

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