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- EMDB-31307: Chloroplast NDH complex -

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Basic information

Entry
Database: EMDB / ID: EMD-31307
TitleChloroplast NDH complex
Map data
Sample
  • Complex: Chloroplast NDH complex of Barley
    • Protein or peptide: x 25 types
  • Ligand: x 4 types
Keywordschloroplast NAD(P)H-quinone oxidoreductase / cyclic electron transport / PHOTOSYNTHESIS
Function / homology
Function and homology information


Translocases; Catalysing the translocation of protons; Linked to oxidoreductase reactions / NADH dehydrogenase complex / oxidoreductase activity, acting on NAD(P)H, quinone or similar compound as acceptor / NADH dehydrogenase activity / chloroplast thylakoid membrane / photosynthesis, light reaction / ubiquinone binding / electron transport coupled proton transport / respiratory chain complex I / NADH dehydrogenase (ubiquinone) activity ...Translocases; Catalysing the translocation of protons; Linked to oxidoreductase reactions / NADH dehydrogenase complex / oxidoreductase activity, acting on NAD(P)H, quinone or similar compound as acceptor / NADH dehydrogenase activity / chloroplast thylakoid membrane / photosynthesis, light reaction / ubiquinone binding / electron transport coupled proton transport / respiratory chain complex I / NADH dehydrogenase (ubiquinone) activity / quinone binding / ATP synthesis coupled electron transport / aerobic respiration / mitochondrial membrane / NAD binding / 4 iron, 4 sulfur cluster binding / iron ion binding
Similarity search - Function
: / NADH-quinone oxidoreductase chain 4 / NADH-plastoquinone oxidoreductase, subunit I / NAD(P)H-quinone oxidoreductase subunit 2, N-terminal / NAD(P)H-quinone oxidoreductase subunit 2 N-terminal / NAD(P)H-quinone oxidoreductase subunit 3, bacterial/plastid / NAD(P)H-quinone oxidoreductase, subunit N/subunit 2 / Respiratory-chain NADH dehydrogenase 20 Kd subunit signature. / NADH-ubiquinone oxidoreductase, 20 Kd subunit / NADH-quinone oxidoreductase, chain I ...: / NADH-quinone oxidoreductase chain 4 / NADH-plastoquinone oxidoreductase, subunit I / NAD(P)H-quinone oxidoreductase subunit 2, N-terminal / NAD(P)H-quinone oxidoreductase subunit 2 N-terminal / NAD(P)H-quinone oxidoreductase subunit 3, bacterial/plastid / NAD(P)H-quinone oxidoreductase, subunit N/subunit 2 / Respiratory-chain NADH dehydrogenase 20 Kd subunit signature. / NADH-ubiquinone oxidoreductase, 20 Kd subunit / NADH-quinone oxidoreductase, chain I / NADH-ubiquinone/plastoquinone oxidoreductase chain 6, subunit NuoJ / NADH-ubiquinone oxidoreductase chain 4L/K / NADH-quinone oxidoreductase, chain M/4 / NADH:ubiquinone/plastoquinone oxidoreductase, chain 6 / NADH-ubiquinone/plastoquinone oxidoreductase chain 6 / NADH-ubiquinone oxidoreductase chain 4L/Mnh complex subunit C1-like / NADH-ubiquinone/plastoquinone oxidoreductase chain 4L / NAD(P)H-quinone oxidoreductase subunit D/H / NADH:ubiquinone oxidoreductase, 49kDa subunit, conserved site / Respiratory chain NADH dehydrogenase 49 Kd subunit signature. / NADH-quinone oxidoreductase, subunit D / Respiratory-chain NADH dehydrogenase, 49 Kd subunit / NADH:ubiquinone oxidoreductase / NADH:quinone oxidoreductase/Mrp antiporter, membrane subunit / NADH:quinone oxidoreductase/Mrp antiporter, TM / NADH:ubiquinone/plastoquinone oxidoreductase, chain 3 / NADH:ubiquinone oxidoreductase, subunit 3 superfamily / NADH-ubiquinone/plastoquinone oxidoreductase, chain 3 / NADH:ubiquinone oxidoreductase, subunit 1, conserved site / Respiratory-chain NADH dehydrogenase subunit 1 signature 1. / Respiratory-chain NADH dehydrogenase subunit 1 signature 2. / NADH:ubiquinone oxidoreductase, subunit 1/F420H2 oxidoreductase subunit H / NADH dehydrogenase / NADH:ubiquinone oxidoreductase-like, 20kDa subunit / NADH ubiquinone oxidoreductase, 20 Kd subunit / [NiFe]-hydrogenase, large subunit / 4Fe-4S dicluster domain / 4Fe-4S ferredoxin, iron-sulphur binding, conserved site / 4Fe-4S ferredoxin-type iron-sulfur binding region signature. / 4Fe-4S ferredoxin-type iron-sulfur binding domain profile. / 4Fe-4S ferredoxin-type, iron-sulphur binding domain
Similarity search - Domain/homology
NAD(P)H-quinone oxidoreductase subunit 4L, chloroplastic / NAD(P)H-quinone oxidoreductase subunit I, chloroplastic / NAD(P)H-quinone oxidoreductase subunit 6, chloroplastic / NAD(P)H-quinone oxidoreductase subunit 1, chloroplastic / NAD(P)H-quinone oxidoreductase subunit 3, chloroplastic / NAD(P)H-quinone oxidoreductase subunit K, chloroplastic / NAD(P)H-quinone oxidoreductase subunit 2, chloroplastic / NAD(P)H-quinone oxidoreductase subunit H, chloroplastic / NAD(P)H-quinone oxidoreductase chain 4, chloroplastic
Similarity search - Component
Biological speciesHordeum vulgare subsp. spontaneum (wild barley) / Hordeum vulgare (barley)
Methodsingle particle reconstruction / cryo EM / Resolution: 3.7 Å
AuthorsWang WD / Shen L
Funding support China, 1 items
OrganizationGrant numberCountry
Chinese Academy of SciencesQYZDY-SSW-SMC003 China
CitationJournal: Nature / Year: 2022
Title: Architecture of the chloroplast PSI-NDH supercomplex in Hordeum vulgare.
Authors: Liangliang Shen / Kailu Tang / Wenda Wang / Chen Wang / Hangjun Wu / Zhiyuan Mao / Shaoya An / Shenghai Chang / Tingyun Kuang / Jian-Ren Shen / Guangye Han / Xing Zhang /
Abstract: The chloroplast NADH dehydrogenase-like (NDH) complex is composed of at least 29 subunits and has an important role in mediating photosystem I (PSI) cyclic electron transport (CET). The NDH complex ...The chloroplast NADH dehydrogenase-like (NDH) complex is composed of at least 29 subunits and has an important role in mediating photosystem I (PSI) cyclic electron transport (CET). The NDH complex associates with PSI to form the PSI-NDH supercomplex and fulfil its function. Here, we report cryo-electron microscopy structures of a PSI-NDH supercomplex from barley (Hordeum vulgare). The structures reveal that PSI-NDH is composed of two copies of the PSI-light-harvesting complex I (LHCI) subcomplex and one NDH complex. Two monomeric LHCI proteins, Lhca5 and Lhca6, mediate the binding of two PSI complexes to NDH. Ten plant chloroplast-specific NDH subunits are presented and their exact positions as well as their interactions with other subunits in NDH are elucidated. In all, this study provides a structural basis for further investigations on the functions and regulation of PSI-NDH-dependent CET.
History
DepositionMay 15, 2021-
Header (metadata) releaseDec 29, 2021-
Map releaseDec 29, 2021-
UpdateNov 6, 2024-
Current statusNov 6, 2024Processing site: PDBj / Status: Released

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Structure visualization

Movie
  • Surface view with section colored by density value
  • Surface level: 5
  • Imaged by UCSF Chimera
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  • Surface view colored by height
  • Surface level: 5
  • Imaged by UCSF Chimera
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  • Surface view with fitted model
  • Atomic models: PDB-7eu3
  • Surface level: 5
  • Imaged by UCSF Chimera
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  • Simplified surface model + fitted atomic model
  • Atomic modelsPDB-7eu3
  • Imaged by Jmol
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Movie viewer
Structure viewerEM map:
SurfViewMolmilJmol/JSmol
Supplemental images

emd_31307.png

Downloads & links

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Map

FileDownload / File: emd_31307.map.gz / Format: CCP4 / Size: 325 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
Projections & slices

Image control

Size
Brightness
Contrast
Others
AxesX (Sec.)Y (Row.)Z (Col.)
1.31 Å/pix.
x 440 pix.
= 575.08 Å		1.31 Å/pix.
x 440 pix.
= 575.08 Å		1.31 Å/pix.
x 440 pix.
= 575.08 Å

Surface

Projections

Slices (1/3)

Slices (1/2)

Slices (2/3)

Images are generated by Spider.

Voxel sizeX=Y=Z: 1.307 Å
Density

Histogram

Histogram (log scale)
Contour LevelBy AUTHOR: 4.3 / Movie #1: 5
Minimum - Maximum-17.533674000000001 - 38.924729999999997
Average (Standard dev.)0.000000000005838 (±1.0)
SymmetrySpace group: 1
Details

EMDB XML:

Map geometry
Axis orderZYX
Origin000
Dimensions440440440
Spacing440440440
CellA=B=C: 575.08 Å
α=β=γ: 90.0 °

CCP4 map header:

modeImage stored as Reals
Å/pix. X/Y/Z1.3071.3071.307
M x/y/z440440440
origin x/y/z0.0000.0000.000
length x/y/z575.080575.080575.080
α/β/γ90.00090.00090.000
start NX/NY/NZ000
NX/NY/NZ440440440
MAP C/R/S321
start NC/NR/NS000
NC/NR/NS440440440
D min/max/mean-17.53438.9250.000

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Supplemental data

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Sample components

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Entire : Chloroplast NDH complex of Barley

EntireName: Chloroplast NDH complex of Barley
Components
  • Complex: Chloroplast NDH complex of Barley
    • Protein or peptide: NAD(P)H-quinone oxidoreductase subunit 1, chloroplastic
    • Protein or peptide: NAD(P)H-quinone oxidoreductase subunit 2, chloroplastic
    • Protein or peptide: NAD(P)H-quinone oxidoreductase subunit 3, chloroplastic
    • Protein or peptide: NAD(P)H-quinone oxidoreductase chain 4, chloroplastic
    • Protein or peptide: NAD(P)H-quinone oxidoreductase subunit 4L, chloroplastic
    • Protein or peptide: NAD(P)H-quinone oxidoreductase subunit F
    • Protein or peptide: NAD(P)H-quinone oxidoreductase subunit 6, chloroplastic
    • Protein or peptide: NAD(P)H-quinone oxidoreductase subunit H, chloroplastic
    • Protein or peptide: NAD(P)H-quinone oxidoreductase subunit I, chloroplastic
    • Protein or peptide: NAD(P)H-quinone oxidoreductase subunit J
    • Protein or peptide: NAD(P)H-quinone oxidoreductase subunit K, chloroplastic
    • Protein or peptide: NAD(P)H-quinone oxidoreductase subunit L
    • Protein or peptide: NAD(P)H-quinone oxidoreductase subunit M
    • Protein or peptide: NAD(P)H-quinone oxidoreductase subunit N
    • Protein or peptide: Unidentified stromal protein
    • Protein or peptide: Photosynthetic NDH subunit of subcomplex L1
    • Protein or peptide: Photosynthetic NDH subunit of subcomplex L2
    • Protein or peptide: Photosynthetic NDH subunit of subcomplex L3
    • Protein or peptide: Photosynthetic NDH subunit of subcomplex L4
    • Protein or peptide: Photosynthetic NDH subunit of subcomplex L5
    • Protein or peptide: Photosynthetic NDH subunit of subcomplex B1
    • Protein or peptide: Photosynthetic NDH subunit of subcomplex B2
    • Protein or peptide: Photosynthetic NDH subunit of subcomplex B3
    • Protein or peptide: Photosynthetic NDH subunit of subcomplex B4
    • Protein or peptide: Photosynthetic NDH subunit of subcomplex B5
  • Ligand: 1,2-DIPALMITOYL-PHOSPHATIDYL-GLYCEROLE
  • Ligand: BETA-CAROTENE
  • Ligand: 1,2-DI-O-ACYL-3-O-[6-DEOXY-6-SULFO-ALPHA-D-GLUCOPYRANOSYL]-SN-GLYCEROL
  • Ligand: IRON/SULFUR CLUSTER

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Supramolecule #1: Chloroplast NDH complex of Barley

SupramoleculeName: Chloroplast NDH complex of Barley / type: complex / ID: 1 / Parent: 0 / Macromolecule list: #1-#25
Source (natural)Organism: Hordeum vulgare subsp. spontaneum (wild barley)

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Macromolecule #1: NAD(P)H-quinone oxidoreductase subunit 1, chloroplastic

MacromoleculeName: NAD(P)H-quinone oxidoreductase subunit 1, chloroplastic
type: protein_or_peptide / ID: 1 / Number of copies: 1 / Enantiomer: LEVO
EC number: Translocases; Catalysing the translocation of protons; Linked to oxidoreductase reactions
Source (natural)Organism: Hordeum vulgare (barley)
Molecular weightTheoretical: 38.544336 KDa
SequenceString: SKLELLKEVY GLISILPILT LLLGITIEVL VIVWLEREIS ASIQQRIGPE YAGPLGLLQA IADGTKLLFK EDILPSRGDI SLFSIGPSI AVISVLLSFL VIPLGYHFVL ADLSIGVFLW IAISSIAPIG LLMAGYSSNN KYSFLGGLRA AAQSISYEIP L TFCVLAIS ...String:
SKLELLKEVY GLISILPILT LLLGITIEVL VIVWLEREIS ASIQQRIGPE YAGPLGLLQA IADGTKLLFK EDILPSRGDI SLFSIGPSI AVISVLLSFL VIPLGYHFVL ADLSIGVFLW IAISSIAPIG LLMAGYSSNN KYSFLGGLRA AAQSISYEIP L TFCVLAIS LLSNSLSTVD IVEAQSKYGF FGWNIWRQPI GFLVFLISSL AECERLPFDL PEAEEELVAG YQTEYSGIKY GL FYLVSYL NLLVSSLFVT VLYLGGWNFS IPYISFFDFF QMNKAVGILE MTMGIFITLT KAYLFLFISI TIRWTLPRMR MDQ LLNLGW KFLLPISLGN LLLTTSFQLV

UniProtKB: NAD(P)H-quinone oxidoreductase subunit 1, chloroplastic

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Macromolecule #2: NAD(P)H-quinone oxidoreductase subunit 2, chloroplastic

MacromoleculeName: NAD(P)H-quinone oxidoreductase subunit 2, chloroplastic
type: protein_or_peptide / ID: 2 / Number of copies: 1 / Enantiomer: LEVO
EC number: Translocases; Catalysing the translocation of protons; Linked to oxidoreductase reactions
Source (natural)Organism: Hordeum vulgare subsp. spontaneum (wild barley)
Molecular weightTheoretical: 53.45232 KDa
SequenceString: NGSFIFPECI LIFGLILLLM IDSTSDQKDR PWFYFISSTS LVISITALLF RWREEPIISF SGNFQTNNFN EIFQFLILLC STLCIPLSV EYIECTEMAI TEFLLFVLTA TLGGMFLCGA NDLITIFVAP ECFSLCSYLL SGYTKRDLRS NEATMKYLLM G GASSSILV ...String:
NGSFIFPECI LIFGLILLLM IDSTSDQKDR PWFYFISSTS LVISITALLF RWREEPIISF SGNFQTNNFN EIFQFLILLC STLCIPLSV EYIECTEMAI TEFLLFVLTA TLGGMFLCGA NDLITIFVAP ECFSLCSYLL SGYTKRDLRS NEATMKYLLM G GASSSILV HGFSWLYGSS GGEIELQEIV NGLINTQMYN SPGISIALIS ITVGLGFKLS PAPFHQWTPD VYEGSPTPVV AF LSVTSKV AASASATRIL DIPFYFSSNE WHLLLEILAI LSMILGNLLA ITQTSMKRML AYSSIGQIGY VIIGIIVGDS NDG YASMIT YMLFYISMNL GTFACIVLFG LRTGTDNIRD YAGLYMKDPF LALSLALCLL SLGGLPPLAG FFGKLYLFWC GWQA GLYFL VSIGLLTSVL SIYYYLKIIK LLMTGRNQEI TPYVRNYRRS PLRSNNSIEL SMTVCVIAST IPGISMNPIL AIAQD TLF

UniProtKB: NAD(P)H-quinone oxidoreductase subunit 2, chloroplastic

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Macromolecule #3: NAD(P)H-quinone oxidoreductase subunit 3, chloroplastic

MacromoleculeName: NAD(P)H-quinone oxidoreductase subunit 3, chloroplastic
type: protein_or_peptide / ID: 3 / Number of copies: 1 / Enantiomer: LEVO
EC number: Translocases; Catalysing the translocation of protons; Linked to oxidoreductase reactions
Source (natural)Organism: Hordeum vulgare subsp. spontaneum (wild barley)
Molecular weightTheoretical: 13.299608 KDa
SequenceString:
LHEYDIFWTF LIIASLIPIL AFSISGLLAP VSEGPEKLSS YESGIEPMGG AWVQFRIRYY MFALVFVVFD VETVFLYPWA MSFDVLGVS VFIEALIFVL ILVVGLVYAW RKGALEWS

UniProtKB: NAD(P)H-quinone oxidoreductase subunit 3, chloroplastic

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Macromolecule #4: NAD(P)H-quinone oxidoreductase chain 4, chloroplastic

MacromoleculeName: NAD(P)H-quinone oxidoreductase chain 4, chloroplastic / type: protein_or_peptide / ID: 4 / Number of copies: 1 / Enantiomer: LEVO
EC number: Translocases; Catalysing the translocation of protons; Linked to oxidoreductase reactions
Source (natural)Organism: Hordeum vulgare subsp. spontaneum (wild barley)
Molecular weightTheoretical: 56.222781 KDa
SequenceString: SYFPWLTILV VLPIFAGSLI FFLPHKGNKI VRWYTISICL LEFLLMTYAF CYHFQLEDPL IQLKEDYKWI DVFDFHWRLG IDGLSLGSI LLTGFITTLA TLAAWPITRN SRLFYFLMLA MYSGQIGLFS SRDLLLFFIM WELELIPVYL LLSMWGGKRR L YSATKFIL ...String:
SYFPWLTILV VLPIFAGSLI FFLPHKGNKI VRWYTISICL LEFLLMTYAF CYHFQLEDPL IQLKEDYKWI DVFDFHWRLG IDGLSLGSI LLTGFITTLA TLAAWPITRN SRLFYFLMLA MYSGQIGLFS SRDLLLFFIM WELELIPVYL LLSMWGGKRR L YSATKFIL YTAGGSIFFL IGVLGMGLYG SNEPGLDLER LINQSYPATL EILLYFGFLI AYAVKLPIIP LHTWLPDTHG EA HYSTCML LAGILLKMGA YGLIRINMEL LPHAHYLFSP WLVIIGAIQI IYAASTSLGQ RNFKKRIAYS SVSHMGFIII GIG SITNIG LNGAILQILS HGFIGATLFF LAGTASDRMR LVYLEELGGI SIPMPKIFTM FSSFSMASLA LPGMSGFVAE LVVF FGLIT SPKFLLMPKA LITFVMAIGM ILTPIYLLSM LRQMFYGYKL FNVPNANFVD SGPRELFILI CIFLPVIGIG IYPDF VLSL SVDRVEALLS NYYPK

UniProtKB: NAD(P)H-quinone oxidoreductase chain 4, chloroplastic

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Macromolecule #5: NAD(P)H-quinone oxidoreductase subunit 4L, chloroplastic

MacromoleculeName: NAD(P)H-quinone oxidoreductase subunit 4L, chloroplastic
type: protein_or_peptide / ID: 5 / Number of copies: 1 / Enantiomer: LEVO
EC number: Translocases; Catalysing the translocation of protons; Linked to oxidoreductase reactions
Source (natural)Organism: Hordeum vulgare (barley)
Molecular weightTheoretical: 11.19919 KDa
SequenceString:
MMFEHVLFLS VYLFSIGIYG LITSRNMVRA LICLELILNS INLNLVTFSD LFDSRQLKGD IFAIFVIALA AAEAAIGLSI LSSIHRNRK STRINQSNLL N

UniProtKB: NAD(P)H-quinone oxidoreductase subunit 4L, chloroplastic

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Macromolecule #6: NAD(P)H-quinone oxidoreductase subunit F

MacromoleculeName: NAD(P)H-quinone oxidoreductase subunit F / type: protein_or_peptide / ID: 6 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Hordeum vulgare subsp. spontaneum (wild barley)
Molecular weightTheoretical: 87.55293 KDa
SequenceString: MKNSSIFSYS FYLFFQKEIR VGLVNRKQFY RKIEVKIAIS FLMEHTYQYA WVIPLLPLPV IMSMGFGLIL IPTATKNLRR IWAFPSVLL LSIAMVFSVQ LSIQQINGSS IYQYLWSWTV NNDFSLEFGY LIDPLTSIML ILITTVGILV LIYSDGYMSH D EGYLRFFV ...String:
MKNSSIFSYS FYLFFQKEIR VGLVNRKQFY RKIEVKIAIS FLMEHTYQYA WVIPLLPLPV IMSMGFGLIL IPTATKNLRR IWAFPSVLL LSIAMVFSVQ LSIQQINGSS IYQYLWSWTV NNDFSLEFGY LIDPLTSIML ILITTVGILV LIYSDGYMSH D EGYLRFFV YISFFNTSML GLVTSSNLIQ IYFFWELVGM CSYLLIGFWF TRPIAASACQ KAFVTNRVGD FGLLLGILGF FW ITGSLEF RDLFQIANNW IPNNGINSLL TTLCAFLLFL GAVAKSAQFP LHVWLPDAME GPTPISALIH AATMVAAGIF LLA RLLPLF ISLPLIMSFI SLVGTITLFL GATLALAQRD IKRSLAYSTM SQLGYMMLAL GIGSYQAALF HLITHAYSKA LLFL GSGSV IHSMEPLVGY SPDKSQNMVL MGGLRKYIPI TRTTFLWGTL SLCGIPPLAC FWSKDEILSN SWLYSPFFGI IASFT AGLT AFYMFRIYLL TFGGYLRVHF QNYSSTKESS LYSISLWGKR IPKGVNRDFV LSTTKSGVSF FSQNIPKIQG NTRNRI GSF TTSFGAKNTF AYPHETGNTM LFPLLILLLF TLFIGFIGIS FDNGGMDNGI AELTILSKWL TPSKNFTQES SNSFVNS YE FITNAISSVT LAIFGLFIAY IFYGSAYSFF QNLDLINSFV KRNPKKEFLD QVKKNIYSWS YNRGYIDIFY TRVFTLGI R GLTELTEFFD KGVIDGITNG VGLASFCIGE EIKYVGGGRI SSYLFFFLCY VSVFLF

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Macromolecule #7: NAD(P)H-quinone oxidoreductase subunit 6, chloroplastic

MacromoleculeName: NAD(P)H-quinone oxidoreductase subunit 6, chloroplastic
type: protein_or_peptide / ID: 7 / Number of copies: 1 / Enantiomer: LEVO
EC number: Translocases; Catalysing the translocation of protons; Linked to oxidoreductase reactions
Source (natural)Organism: Hordeum vulgare subsp. spontaneum (wild barley)
Molecular weightTheoretical: 19.587109 KDa
SequenceString:
MDLPGPIHEI LMLFGEFILL LGGLGVVLLT NPIYSAFSLG LVLVCISLFY FLLNSYFVAV AQLLIYVGAI NVLIIFAVMF VNGSEWSKD KNYWTIGDGF TSLVCITFVF SLMTTIPDTS WYGILWTTRS NQIVEQGLIN NVQQIGIHLA TDFYLPFELI S IILLVSLI GAITMARQ

UniProtKB: NAD(P)H-quinone oxidoreductase subunit 6, chloroplastic

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Macromolecule #8: NAD(P)H-quinone oxidoreductase subunit H, chloroplastic

MacromoleculeName: NAD(P)H-quinone oxidoreductase subunit H, chloroplastic
type: protein_or_peptide / ID: 8 / Number of copies: 1 / Enantiomer: LEVO
EC number: Translocases; Catalysing the translocation of protons; Linked to oxidoreductase reactions
Source (natural)Organism: Hordeum vulgare subsp. spontaneum (wild barley)
Molecular weightTheoretical: 44.563441 KDa
SequenceString: MIVNMGPQHP SMHGVLRLIV TLDGEDVIDC EPILGYLHRG MEKIAENRTI IQYLPYVTRW DYLATMFTEA ITVNAPEFLE NIQIPQRAS YIRVIMLELS RIASHLLWLG PFMADLGAQT PFFYIFRERE LIYDLFEAAT GMRMMHNYFR IGGVAADLPY G WIDKCLDF ...String:
MIVNMGPQHP SMHGVLRLIV TLDGEDVIDC EPILGYLHRG MEKIAENRTI IQYLPYVTRW DYLATMFTEA ITVNAPEFLE NIQIPQRAS YIRVIMLELS RIASHLLWLG PFMADLGAQT PFFYIFRERE LIYDLFEAAT GMRMMHNYFR IGGVAADLPY G WIDKCLDF CDYFLRGVVE YQQLITQNPI FLERVEGVGF ISGEEAVNWG LSGPMLRASG IQWDLRKVDP YESYNQFDWK VQ WQKEGDS LARYLVRVGE MSESIKIIQQ AIEKIPGGPY ENLEVRRFKK EKNSEWNDFE YKFLGKKPSP NFELSRQELY VRV EAPKGE LGIYLVGDDS LFPWRWKIRP PGFINLQILP QLVKKMKLAD IMTILGSIDI IMGEVDR

UniProtKB: NAD(P)H-quinone oxidoreductase subunit H, chloroplastic

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Macromolecule #9: NAD(P)H-quinone oxidoreductase subunit I, chloroplastic

MacromoleculeName: NAD(P)H-quinone oxidoreductase subunit I, chloroplastic
type: protein_or_peptide / ID: 9 / Number of copies: 1 / Enantiomer: LEVO
EC number: Translocases; Catalysing the translocation of protons; Linked to oxidoreductase reactions
Source (natural)Organism: Hordeum vulgare (barley)
Molecular weightTheoretical: 19.271131 KDa
SequenceString:
PMVTGFMSYG QQTIRATRYI GQSFITTLSH TNRLPITIHY PYEKSITPER FRGRIHFEFD KCIACEVCVR VCPIDLPVVD WRFEKDIKR KQLLNYSIDF GVCIFCGNCV EYCPTSCLSM TEEYELSTYD RHELNYNQIA LSRLPISIMG DYTIQTIRNS S ESKIN

UniProtKB: NAD(P)H-quinone oxidoreductase subunit I, chloroplastic

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Macromolecule #10: NAD(P)H-quinone oxidoreductase subunit J

MacromoleculeName: NAD(P)H-quinone oxidoreductase subunit J / type: protein_or_peptide / ID: 10 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Hordeum vulgare subsp. spontaneum (wild barley)
Molecular weightTheoretical: 18.733178 KDa
SequenceString:
MQQGWLSNWL VKHEVVHRSL GFDHRGIETL QIKAGDWDSI AVILYVYGYN YLRSQCAYDV APGGSLASVY HLTRIQYGID NPEEVCIKV FAQKDNPRIP SVFWIWRSAD FQERESYDMV GISYDNHPRL KRILMPESWI GWPLRKDYIT PNFYEIQDAH

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Macromolecule #11: NAD(P)H-quinone oxidoreductase subunit K, chloroplastic

MacromoleculeName: NAD(P)H-quinone oxidoreductase subunit K, chloroplastic
type: protein_or_peptide / ID: 11 / Number of copies: 1 / Enantiomer: LEVO
EC number: Translocases; Catalysing the translocation of protons; Linked to oxidoreductase reactions
Source (natural)Organism: Hordeum vulgare subsp. spontaneum (wild barley)
Molecular weightTheoretical: 27.568764 KDa
SequenceString: MVLTEYLDKK KEGKDSIETV MNLIEFPLLD QTSSNSVIST TLNDLSNWSR LSSLWPLLYG TSCCFIEFAS LIGSRFDFDR YGLVPRSSP RQADLILTAG TVTMKMAPSL VRLYEQMPEP KYVIAMGACT ITGGMFSTDS YSTVRGVDKL IPVDVYLPGC P PKPEAVID ...String:
MVLTEYLDKK KEGKDSIETV MNLIEFPLLD QTSSNSVIST TLNDLSNWSR LSSLWPLLYG TSCCFIEFAS LIGSRFDFDR YGLVPRSSP RQADLILTAG TVTMKMAPSL VRLYEQMPEP KYVIAMGACT ITGGMFSTDS YSTVRGVDKL IPVDVYLPGC P PKPEAVID ALTKLRKKIS REIVEDRTLS QNKKRCFTTS HKLYVRRSTH TGTYEQELLY QSPSTLDISS ETFLKSKSPV PS YKLVN

UniProtKB: NAD(P)H-quinone oxidoreductase subunit K, chloroplastic

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Macromolecule #12: NAD(P)H-quinone oxidoreductase subunit L

MacromoleculeName: NAD(P)H-quinone oxidoreductase subunit L / type: protein_or_peptide / ID: 12 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Hordeum vulgare subsp. spontaneum (wild barley)
Molecular weightTheoretical: 22.240281 KDa
SequenceString: MEITASWRFL PVASSLPPAL LLARRQASCP WSLQQPAISK SRILCRLHDK PFPTAQSSQL QKLASVLQCG AIWAAVQAPA ALATVSGEE DIDILGILPP VAAIAFFYLF VAPPIIMNWM RLRWFKRKFI ETYLQFMFTY LFFPGLMLWA PFVNFRKFPR D KTMKYPWS ...String:
MEITASWRFL PVASSLPPAL LLARRQASCP WSLQQPAISK SRILCRLHDK PFPTAQSSQL QKLASVLQCG AIWAAVQAPA ALATVSGEE DIDILGILPP VAAIAFFYLF VAPPIIMNWM RLRWFKRKFI ETYLQFMFTY LFFPGLMLWA PFVNFRKFPR D KTMKYPWS KPKEGTPLFK DRYPQIDSFK EKYF

+
Macromolecule #13: NAD(P)H-quinone oxidoreductase subunit M

MacromoleculeName: NAD(P)H-quinone oxidoreductase subunit M / type: protein_or_peptide / ID: 13 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Hordeum vulgare subsp. spontaneum (wild barley)
Molecular weightTheoretical: 24.051049 KDa
SequenceString: MATAAASSLL SPASKFALQS RRSSPKTAPR SVRFLPVRAQ QQVKEEEPAA TVPPPQEEGQ ATTAAAAKGP AQSLPRQPRA ESKNMGREY GSQWLSCTTR HVRIYAAYID PETNAFDQTQ TDKLTLMLDP TEEFVWTDET CQMVYNEFQD LVDHYEGAPL S EYTLRLIG ...String:
MATAAASSLL SPASKFALQS RRSSPKTAPR SVRFLPVRAQ QQVKEEEPAA TVPPPQEEGQ ATTAAAAKGP AQSLPRQPRA ESKNMGREY GSQWLSCTTR HVRIYAAYID PETNAFDQTQ TDKLTLMLDP TEEFVWTDET CQMVYNEFQD LVDHYEGAPL S EYTLRLIG SDLEHYIRKL LYDGEIKYNM RSRVLNFSMG KPRVKFNSSQ IPDVK

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Macromolecule #14: NAD(P)H-quinone oxidoreductase subunit N

MacromoleculeName: NAD(P)H-quinone oxidoreductase subunit N / type: protein_or_peptide / ID: 14 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Hordeum vulgare subsp. spontaneum (wild barley)
Molecular weightTheoretical: 25.928014 KDa
SequenceString: MWSGAAAAVA ARSVSPPLHA PTSLTGRRGA GRPSTVSVRA GGGLMDFVGG DLVKPDLGRW LDDVEKHKAL AIYPPHEGGY EGRYLNRLR YQGYYFLDLS ARGLGDPEST LTKIHPVCPP SLGRQPVARW YFPPEVDYRL SLLHPDAKGL IVWVYEAKVS F RLSLAALT ...String:
MWSGAAAAVA ARSVSPPLHA PTSLTGRRGA GRPSTVSVRA GGGLMDFVGG DLVKPDLGRW LDDVEKHKAL AIYPPHEGGY EGRYLNRLR YQGYYFLDLS ARGLGDPEST LTKIHPVCPP SLGRQPVARW YFPPEVDYRL SLLHPDAKGL IVWVYEAKVS F RLSLAALT LNFLIVFPCS FRLQVLSKAE LQFLAMLPDL RPKVRVIAEC GNWRKFIWKP LKQISGLEPD PDAEE

+
Macromolecule #15: Unidentified stromal protein

MacromoleculeName: Unidentified stromal protein / type: protein_or_peptide / ID: 15 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Hordeum vulgare subsp. spontaneum (wild barley)
Molecular weightTheoretical: 5.209413 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) (UNK)(UNK)(UNK)(UNK)(UNK) ...String:
(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) (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)

+
Macromolecule #16: Photosynthetic NDH subunit of subcomplex L1

MacromoleculeName: Photosynthetic NDH subunit of subcomplex L1 / type: protein_or_peptide / ID: 16 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Hordeum vulgare subsp. spontaneum (wild barley)
Molecular weightTheoretical: 17.835777 KDa
SequenceString:
NYRSYVDAND GYSYLYPADW RDFDFLGHDS AFKDRNVQLQ SVRVAFIPTQ KTDIRDLGPM DEAIFNLVNE VYAAPNQIPT IYEMQERTV DGRNYWTFEY DLEAPGYGVS AFATIAIGNG RYYTLIVTAN ERRWSRLRNK LKVVADSFKI SDLNA

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Macromolecule #17: Photosynthetic NDH subunit of subcomplex L2

MacromoleculeName: Photosynthetic NDH subunit of subcomplex L2 / type: protein_or_peptide / ID: 17 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Hordeum vulgare subsp. spontaneum (wild barley)
Molecular weightTheoretical: 23.946465 KDa
SequenceString: MATLVKHLIL CSSTTTSSSA TPSPSNRRPP SSPDGADKRA HLTQSSTRRL AVAASTAMVA TAALSARRPA APPPAMAAEA AAVRLPVPP GTVPRWGTRS YVRERFFEPG LTTEEAAARI RQTAEGMRTL RPMLETMSWK YVLFYVRLKS KYLDLDLTTA M AGVPEPRR ...String:
MATLVKHLIL CSSTTTSSSA TPSPSNRRPP SSPDGADKRA HLTQSSTRRL AVAASTAMVA TAALSARRPA APPPAMAAEA AAVRLPVPP GTVPRWGTRS YVRERFFEPG LTTEEAAARI RQTAEGMRTL RPMLETMSWK YVLFYVRLKS KYLDLDLTTA M AGVPEPRR PEYVLVANEL VDNMTEFDRF VRTPKVYESY LYYEKTLKSL DDVAEFLG

+
Macromolecule #18: Photosynthetic NDH subunit of subcomplex L3

MacromoleculeName: Photosynthetic NDH subunit of subcomplex L3 / type: protein_or_peptide / ID: 18 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Hordeum vulgare subsp. spontaneum (wild barley)
Molecular weightTheoretical: 24.733996 KDa
SequenceString: MASTYLSSFQ AAAAATSGGA STRPRPRPRP RVVTCHTSEP SGRRSACLSL GLGLATAAVL HTTPARAIAD GDEEPEPANN GWWLTEFPL PVPKIRNKEI NNGETGTRSF VKNGIYMADI GPSFAAHAYR VRSSAFDLLA LEDLLGKEAS NYVNKYLRLK A TFIYYDFD ...String:
MASTYLSSFQ AAAAATSGGA STRPRPRPRP RVVTCHTSEP SGRRSACLSL GLGLATAAVL HTTPARAIAD GDEEPEPANN GWWLTEFPL PVPKIRNKEI NNGETGTRSF VKNGIYMADI GPSFAAHAYR VRSSAFDLLA LEDLLGKEAS NYVNKYLRLK A TFIYYDFD KLITAADPDA KPPLLDLANR LFDSFEKLQA AVTTKDDTDI GSCYADTKLI LQEVMTRMA

+
Macromolecule #19: Photosynthetic NDH subunit of subcomplex L4

MacromoleculeName: Photosynthetic NDH subunit of subcomplex L4 / type: protein_or_peptide / ID: 19 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Hordeum vulgare subsp. spontaneum (wild barley)
Molecular weightTheoretical: 13.95436 KDa
SequenceString:
ARAALELHRS LCPLLVSPRE LEFLQVRDPS FCSVSMVVTQ IHYTARFPDG TVFDSSYKRG RPLTMRIGAG KILRGLQQGI GGGGGVTPM LVGGKRKLMI PPILAYGPEP AGCFSEAVFA QAEMNFCALA A

+
Macromolecule #20: Photosynthetic NDH subunit of subcomplex L5

MacromoleculeName: Photosynthetic NDH subunit of subcomplex L5 / type: protein_or_peptide / ID: 20 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Hordeum vulgare subsp. spontaneum (wild barley)
Molecular weightTheoretical: 25.818414 KDa
SequenceString: MAAATSSFAT LAVARPAAAA QRALLAAKAP SSALSLRGVG RVASPALSVS LQTRARFVAS ASAEPYAPEL QSKVTNKVYF DINIGNPVG KNVGRIVIGL YGDDVPQTVE NFRALCTGEK GFGYKGSSFH RVIKDFMIQG GDFDKGNGTG GKSIYGRTFK D ENFQLVHT ...String:
MAAATSSFAT LAVARPAAAA QRALLAAKAP SSALSLRGVG RVASPALSVS LQTRARFVAS ASAEPYAPEL QSKVTNKVYF DINIGNPVG KNVGRIVIGL YGDDVPQTVE NFRALCTGEK GFGYKGSSFH RVIKDFMIQG GDFDKGNGTG GKSIYGRTFK D ENFQLVHT GPGVLSMANA GPNTNGSQFF ICTVKTPWLD GRHVVFGQVL EGMDIVRMIE SSETDRGDRP KKKVVISECG EL PVV

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Macromolecule #21: Photosynthetic NDH subunit of subcomplex B1

MacromoleculeName: Photosynthetic NDH subunit of subcomplex B1 / type: protein_or_peptide / ID: 21 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Hordeum vulgare subsp. spontaneum (wild barley)
Molecular weightTheoretical: 51.675945 KDa
SequenceString: MQTPTMPTPM AARPTSTMAT KLPAPSATPR QCHLLPGRRV AGLARASSKK RNPWLDPFDD GPDEEFDYTG VYSGGKQEED PRPPEDAEN PYGFLRFPMG YMPELDSLAS KVRGDVRRVC CVVSGGVYEN VLFFPVVQML KDRYPGVLVD VVASARGKQV Y EMCKNVRY ...String:
MQTPTMPTPM AARPTSTMAT KLPAPSATPR QCHLLPGRRV AGLARASSKK RNPWLDPFDD GPDEEFDYTG VYSGGKQEED PRPPEDAEN PYGFLRFPMG YMPELDSLAS KVRGDVRRVC CVVSGGVYEN VLFFPVVQML KDRYPGVLVD VVASARGKQV Y EMCKNVRY ANVYDPDDEW PEPAEYTHQL GVMKNRYYDM VLSTKLAGTG HALFLFMSSA REKVGYVYPN VNGAGAGLFL TE MFKPATT NLADGGYNMY QDMLEWLGRP AKGVPQQPIP PLRVSISKKL RAVVEDKYNR AGVEKGKYVV IHGIESDSVA NMK SRGDDD CLLPLELWAE IAKEISSGGN GLRPLFVMPH ERHREEIEEI VGEETAYLFI TTPGQLTCLI NDSAGVVATN TAAV QLANA RDKPCVALFS SKEKARLFLP YVEERKSCTV VASATGKLAG IDIEAVKKAV KDLEPAPSFA LAQT

+
Macromolecule #22: Photosynthetic NDH subunit of subcomplex B2

MacromoleculeName: Photosynthetic NDH subunit of subcomplex B2 / type: protein_or_peptide / ID: 22 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Hordeum vulgare subsp. spontaneum (wild barley)
Molecular weightTheoretical: 38.079977 KDa
SequenceString: MAAASFLPLH LPASPRPATV AARAASGVAS MVPAQASQLE EAFGRKGLRF GTDATGAPTA ELSVRNGSSL QLRLNDGLVT SYRPKVSWE GGDGCRELLH TVVGAGAGAV RGGVGLVLNE AASSSSSSSP LLGASEWSVA DVDSDSYDAV QVELGCVASK L EVSYVVTL ...String:
MAAASFLPLH LPASPRPATV AARAASGVAS MVPAQASQLE EAFGRKGLRF GTDATGAPTA ELSVRNGSSL QLRLNDGLVT SYRPKVSWE GGDGCRELLH TVVGAGAGAV RGGVGLVLNE AASSSSSSSP LLGASEWSVA DVDSDSYDAV QVELGCVASK L EVSYVVTL YPLSMATAVI VKNNGARPVE LTAAVLSHIK FDKRRGTAVE GLRGCPYCSH PPPASGFALL TPAEAMKREE SG WFGGGGG EEPRQGAWTV EENLYTILKK KVSRVYAAPP EERKKRIYNT APSKFTTIDQ SSGLGFRLVR MGFEDMYLGS PGG MYDKFG NDYFLCTGPA SILVPVVVGP GEEWRGAQVI EHDNL

+
Macromolecule #23: Photosynthetic NDH subunit of subcomplex B3

MacromoleculeName: Photosynthetic NDH subunit of subcomplex B3 / type: protein_or_peptide / ID: 23 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Hordeum vulgare subsp. spontaneum (wild barley)
Molecular weightTheoretical: 13.313331 KDa
SequenceString:
FAFVSPRLLP DGTPDVHYRT ACGGQKLRDI MLDAYIDLYG PYDKLLLNCS GGGECGTCIV EVVEGGEMLS PKNEVEKEKL KRKPKSWRL ACQATVGNPD STGQMVIQQL PEWKVHKWDK

+
Macromolecule #24: Photosynthetic NDH subunit of subcomplex B4

MacromoleculeName: Photosynthetic NDH subunit of subcomplex B4 / type: protein_or_peptide / ID: 24 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Hordeum vulgare subsp. spontaneum (wild barley)
Molecular weightTheoretical: 9.75681 KDa
SequenceString:
NQRDWVVTKS IWHLSDTAIK SFYTFYAMFT VWGVCFFASM KASMADPFYD SEHYRGQGGD GTVHWYYDRQ EDIEATARGD LLR

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Macromolecule #25: Photosynthetic NDH subunit of subcomplex B5

MacromoleculeName: Photosynthetic NDH subunit of subcomplex B5 / type: protein_or_peptide / ID: 25 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Hordeum vulgare subsp. spontaneum (wild barley)
Molecular weightTheoretical: 18.146125 KDa
SequenceString:
GPLTEIEPDL QEDPIDKWRT NGVSPEDFVY GVYDGHHTYD EGQEKKGFWE DVSEWYQEAE PPQGFQALIS WSFPPAVILG MAFDVPGEY LYIGAAIFIV VFCIIEMDKP DKPHNFEPEI YMMERSKRDK LIADYNSMDI WDFNEKYGEL WDFTVN

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Macromolecule #26: 1,2-DIPALMITOYL-PHOSPHATIDYL-GLYCEROLE

MacromoleculeName: 1,2-DIPALMITOYL-PHOSPHATIDYL-GLYCEROLE / type: ligand / ID: 26 / Number of copies: 1 / Formula: LHG
Molecular weightTheoretical: 722.97 Da
Chemical component information

ChemComp-LHG:
1,2-DIPALMITOYL-PHOSPHATIDYL-GLYCEROLE / phospholipid*YM

+
Macromolecule #27: BETA-CAROTENE

MacromoleculeName: BETA-CAROTENE / type: ligand / ID: 27 / Number of copies: 1 / Formula: BCR
Molecular weightTheoretical: 536.873 Da
Chemical component information

ChemComp-BCR:
BETA-CAROTENE

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Macromolecule #28: 1,2-DI-O-ACYL-3-O-[6-DEOXY-6-SULFO-ALPHA-D-GLUCOPYRANOSYL]-SN-GLYCEROL

MacromoleculeName: 1,2-DI-O-ACYL-3-O-[6-DEOXY-6-SULFO-ALPHA-D-GLUCOPYRANOSYL]-SN-GLYCEROL
type: ligand / ID: 28 / Number of copies: 2 / Formula: SQD
Molecular weightTheoretical: 795.116 Da
Chemical component information

ChemComp-SQD:
1,2-DI-O-ACYL-3-O-[6-DEOXY-6-SULFO-ALPHA-D-GLUCOPYRANOSYL]-SN-GLYCEROL

+
Macromolecule #29: IRON/SULFUR CLUSTER

MacromoleculeName: IRON/SULFUR CLUSTER / type: ligand / ID: 29 / Number of copies: 1 / Formula: SF4
Molecular weightTheoretical: 351.64 Da
Chemical component information

ChemComp-FS1:
IRON/SULFUR CLUSTER

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Experimental details

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Structure determination

Methodcryo EM
Processingsingle particle reconstruction
Aggregation stateparticle

-
Sample preparation

BufferpH: 7.5
VitrificationCryogen name: ETHANE / Chamber humidity: 100 %

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Electron microscopy

MicroscopeFEI TITAN KRIOS
Image recordingFilm or detector model: GATAN K2 SUMMIT (4k x 4k) / Detector mode: SUPER-RESOLUTION / Average electron dose: 50.0 e/Å2
Electron beamAcceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN
Electron opticsIllumination mode: OTHER / Imaging mode: BRIGHT FIELD
Experimental equipment
Model: Titan Krios / Image courtesy: FEI Company

-
Image processing

Startup modelType of model: OTHER
Final reconstructionResolution.type: BY AUTHOR / Resolution: 3.7 Å / Resolution method: FSC 0.143 CUT-OFF / Number images used: 103844
Initial angle assignmentType: MAXIMUM LIKELIHOOD
Final angle assignmentType: MAXIMUM LIKELIHOOD

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