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- EMDB-64823: PSI-LHCE supercomplex from Euglena gracilis -

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Basic information

Entry
Database: EMDB / ID: EMD-64823
TitlePSI-LHCE supercomplex from Euglena gracilis
Map data
Sample
  • Complex: PSI-eLHCI
    • Protein or peptide: x 24 types
  • Ligand: x 11 types
KeywordsPSI / Euglena gracilis. / PHOTOSYNTHESIS
Function / homology
Function and homology information


photosynthesis, light harvesting / photosystem I / photosynthetic electron transport in photosystem I / photosystem I / chlorophyll binding / chloroplast thylakoid membrane / photosynthesis / chloroplast / 4 iron, 4 sulfur cluster binding / electron transfer activity ...photosynthesis, light harvesting / photosystem I / photosynthetic electron transport in photosystem I / photosystem I / chlorophyll binding / chloroplast thylakoid membrane / photosynthesis / chloroplast / 4 iron, 4 sulfur cluster binding / electron transfer activity / oxidoreductase activity / magnesium ion binding / membrane / metal ion binding
Similarity search - Function
Photosystem I PsaM, reaction centre superfamily / Photosystem I PsaM, reaction centre / Photosystem I protein M (PsaM) / Chlorophyll A-B binding protein, plant and chromista / Chlorophyll A-B binding protein / Chlorophyll A-B binding protein / Photosystem I PsaJ, reaction centre subunit IX superfamily / Photosystem I PsaJ, reaction centre subunit IX / Photosystem I reaction centre subunit IX / PsaJ / Photosystem I PsaA ...Photosystem I PsaM, reaction centre superfamily / Photosystem I PsaM, reaction centre / Photosystem I protein M (PsaM) / Chlorophyll A-B binding protein, plant and chromista / Chlorophyll A-B binding protein / Chlorophyll A-B binding protein / Photosystem I PsaJ, reaction centre subunit IX superfamily / Photosystem I PsaJ, reaction centre subunit IX / Photosystem I reaction centre subunit IX / PsaJ / Photosystem I PsaA / Photosystem I protein PsaC / Photosystem I PsaB / Photosystem I PsaA/PsaB, conserved site / Photosystem I psaA and psaB proteins signature. / : / Photosystem I PsaA/PsaB / Photosystem I PsaA/PsaB superfamily / Photosystem I psaA/psaB protein / 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
Chloroplast light-harvesting complex I protein / Chloroplast light-harvesting complex I protein / Chloroplast light-harvesting complex I protein / Chloroplast light-harvesting complex I protein / Chloroplast light-harvesting complex I protein / Chloroplast light-harvesting complex II protein / Photosystem I P700 chlorophyll a apoprotein A1 / Photosystem I P700 chlorophyll a apoprotein A2 / Photosystem I reaction center subunit IX / Photosystem I reaction center subunit XII ...Chloroplast light-harvesting complex I protein / Chloroplast light-harvesting complex I protein / Chloroplast light-harvesting complex I protein / Chloroplast light-harvesting complex I protein / Chloroplast light-harvesting complex I protein / Chloroplast light-harvesting complex II protein / Photosystem I P700 chlorophyll a apoprotein A1 / Photosystem I P700 chlorophyll a apoprotein A2 / Photosystem I reaction center subunit IX / Photosystem I reaction center subunit XII / Photosystem I iron-sulfur center / Light harvesting chlorophyll a /b binding protein of PSII
Similarity search - Component
Biological speciesEuglena gracilis (euglena)
Methodsingle particle reconstruction / cryo EM / Resolution: 2.23 Å
AuthorsBai TY / Mao ZY / Tian LR
Funding support China, 1 items
OrganizationGrant numberCountry
National Natural Science Foundation of China (NSFC) China
CitationJournal: Sci Adv / Year: 2026
Title: Structural basis of diadinoxanthin-Chl a/b-binding proteins in the photosystem I supercomplex of .
Authors: Tianyu Bai / Zhiyuan Mao / Dapeng Sun / Yang Tang / Ziqiu Lu / Fei Ma / Bingxin Ma / Jinghua Chen / Weiwei Wang / Yuelin Li / Shufang Liu / Yi Yang / Yumei Wang / Lirong Tian /
Abstract: is a phototrophic flagellate that has evolved through secondary endosymbiotic events and belongs to green-lineage organisms. We report a unique structure of photosystem I-light harvesting complex I ... is a phototrophic flagellate that has evolved through secondary endosymbiotic events and belongs to green-lineage organisms. We report a unique structure of photosystem I-light harvesting complex I (PSI-LHCI) supercomplex from at a 2.23-angstrom resolution by cryo-electron microscopy. The supercomplex is composed of 8 core subunits and 16 LHCIs and exhibits distinctive structural features compared to its counterparts in green algae and plants. The LHCI subunits encircle the core complex, forming a two-layered arrangement that comprises six pairs of tightly packed heterodimers. Specifically, the 16 LHCIs consist of 4 diadinoxanthin-chlorophyll (Chl) a/b-binding antennae (Lhcbm) and 12 diadinoxanthin-Chl a-binding antennae (Lhca), and they exhibit characteristic pigment compositions combining features of green- and red-lineage organisms. These findings provide a robust structural foundation for elucidating the mechanisms of light harvesting and energy transfer as well as insights into the evolutionary changes of green-lineage PSI-LHCI.
History
DepositionMay 28, 2025-
Header (metadata) releaseApr 1, 2026-
Map releaseApr 1, 2026-
UpdateApr 1, 2026-
Current statusApr 1, 2026Processing site: PDBc / Status: Released

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Structure visualization

Supplemental images

emd_64823.png

Downloads & links

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Map

FileDownload / File: emd_64823.map.gz / Format: CCP4 / Size: 512 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
Projections & slices

Image control

Size
Brightness
Contrast
Others
AxesZ (Sec.)Y (Row.)X (Col.)
1.04 Å/pix.
x 512 pix.
= 532.48 Å		1.04 Å/pix.
x 512 pix.
= 532.48 Å		1.04 Å/pix.
x 512 pix.
= 532.48 Å

Surface

Projections

Slices (1/3)

Slices (1/2)

Slices (2/3)

Images are generated by Spider.

Voxel sizeX=Y=Z: 1.04 Å
Density

Histogram

Histogram (log scale)
Contour LevelBy AUTHOR: 0.5
Minimum - Maximum-0.5747814 - 1.7407485
Average (Standard dev.)-0.00026551905 (±0.03159045)
SymmetrySpace group: 1
Details

EMDB XML:

Map geometry
Axis orderXYZ
Origin000
Dimensions512512512
Spacing512512512
CellA=B=C: 532.48 Å
α=β=γ: 90.0 °

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Supplemental data

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Half map: #2

Fileemd_64823_half_map_1.map
Projections & Slices
AxesZYX

Projections

Slices (1/2)
Density Histograms

Histogram

Histogram (log scale)

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Half map: #1

Fileemd_64823_half_map_2.map
Projections & Slices
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Histogram

Histogram (log scale)

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Sample components

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Entire : PSI-eLHCI

EntireName: PSI-eLHCI
Components
  • Complex: PSI-eLHCI
    • Protein or peptide: Photosystem I P700 chlorophyll a apoprotein A1
    • Protein or peptide: Photosystem I P700 chlorophyll a apoprotein A2
    • Protein or peptide: Photosystem I iron-sulfur center
    • Protein or peptide: PsaD
    • Protein or peptide: PsaE
    • Protein or peptide: PsaF
    • Protein or peptide: Photosystem I reaction center subunit IX
    • Protein or peptide: Photosystem I reaction center subunit XII
    • Protein or peptide: Chloroplast light-harvesting complex I protein
    • Protein or peptide: Chloroplast light-harvesting complex I protein
    • Protein or peptide: LHCE 3
    • Protein or peptide: Light harvesting chlorophyll a /b binding protein of PSII
    • Protein or peptide: Chloroplast light-harvesting complex II protein
    • Protein or peptide: LHCE 8
    • Protein or peptide: LHCE 9
    • Protein or peptide: Chloroplast light-harvesting complex I protein
    • Protein or peptide: Chloroplast light-harvesting complex I protein
    • Protein or peptide: Chloroplast light-harvesting complex I protein
    • Protein or peptide: Chloroplast light-harvesting complex I protein
    • Protein or peptide: Chloroplast light-harvesting complex I protein, Lhca7_2
    • Protein or peptide: Chloroplast light-harvesting complex I protein
    • Protein or peptide: Chloroplast light-harvesting complex II protein
    • Protein or peptide: Chloroplast light-harvesting complex I protein
    • Protein or peptide: Chloroplast light-harvesting complex I protein
  • Ligand: CHLOROPHYLL A
  • Ligand: DODECYL-BETA-D-MALTOSIDE
  • Ligand: 1,2-DIPALMITOYL-PHOSPHATIDYL-GLYCEROLE
  • Ligand: PHYLLOQUINONE
  • Ligand: BETA-CAROTENE
  • Ligand: 1,2-DI-O-ACYL-3-O-[6-DEOXY-6-SULFO-ALPHA-D-GLUCOPYRANOSYL]-SN-GLYCEROL
  • Ligand: (3S,3'R,5R,6S,7cis)-7',8'-didehydro-5,6-dihydro-5,6-epoxy-beta,beta-carotene-3,3'-diol
  • Ligand: IRON/SULFUR CLUSTER
  • Ligand: 1,2-DISTEAROYL-MONOGALACTOSYL-DIGLYCERIDE
  • Ligand: DIGALACTOSYL DIACYL GLYCEROL (DGDG)
  • Ligand: CHLOROPHYLL B

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Supramolecule #1: PSI-eLHCI

SupramoleculeName: PSI-eLHCI / type: complex / ID: 1 / Parent: 0 / Macromolecule list: #1-#24
Source (natural)Organism: Euglena gracilis (euglena)

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Macromolecule #1: Photosystem I P700 chlorophyll a apoprotein A1

MacromoleculeName: Photosystem I P700 chlorophyll a apoprotein A1 / type: protein_or_peptide / ID: 1 / Number of copies: 1 / Enantiomer: LEVO / EC number: photosystem I
Source (natural)Organism: Euglena gracilis (euglena)
Molecular weightTheoretical: 84.07343 KDa
SequenceString: MTITPPEQQV KRVRVAFVSN PVETSFEKWS RPGHFSRLLS KGPNTTTWIW NLHADAHDFD NHTTDLEDIS RKVFSAHFGQ LAIIEIWLS GMFFHGARFS NYEAWLLDPI HVKPSAQIVW PIVGQEILNG DVGGNFQGIQ ITSGLFQLWR SCGITSEFQL Y ITALTGLI ...String:
MTITPPEQQV KRVRVAFVSN PVETSFEKWS RPGHFSRLLS KGPNTTTWIW NLHADAHDFD NHTTDLEDIS RKVFSAHFGQ LAIIEIWLS GMFFHGARFS NYEAWLLDPI HVKPSAQIVW PIVGQEILNG DVGGNFQGIQ ITSGLFQLWR SCGITSEFQL Y ITALTGLI FSAVLFFAGW FHYHKAAPKL EWFQNVESML NHHLSGLLGL GCLSWAGHQI HVSLPINKLL DSGVNPAELP LP HDFILDK SLISQLYPSF SKGLAPFFTF HWSEYSDFLT FRGGLNNVTG GLWLTDVAHH HLALAVLFIL AGHMYKTNWK IGH DIKGLL ESHTGPFTGQ GHKGLYEIFT NSWHAQLSLN LAMMGSLSII VAQHMYSMPP YPYIAIDYGT ELSLFTHHYW IGGF CIVGA AAHAAIFMVR DYDPALNFNN LLDRVLLHRD AIISHLNWVC IFLGLHSFGL YIHNDTLSAL GRPQDMFSDS AIQLQ PVFA QWIQNTHYLA PTLTAFNLVS PTTPVWGGDV VSISGKVAMM PIKLGTADFL VHHIHAFTIH VTVLILLKGV LFSRSS RLI PDKASLGFRF PCDGPGRGGT CQVSAWDHVF LGLFWMYNSI SVAIFHFSWK MQSDVWGTVL ANKVSHITGG NFSQGSL TI NGWLRDFLWA QSSQVIQSYG SPLSAYGLMF LGAHFVWAFT LMFLFSGRGY WQELIESIVW AHNKLKVAPN IQPRALSI T QGRAVGVAHY LLGGIATTWS FFLARIISVG

UniProtKB: Photosystem I P700 chlorophyll a apoprotein A1

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Macromolecule #2: Photosystem I P700 chlorophyll a apoprotein A2

MacromoleculeName: Photosystem I P700 chlorophyll a apoprotein A2 / type: protein_or_peptide / ID: 2 / Number of copies: 1 / Enantiomer: LEVO / EC number: photosystem I
Source (natural)Organism: Euglena gracilis (euglena)
Molecular weightTheoretical: 82.780266 KDa
SequenceString: MATKFPKFSQ GLAQDPTTRR IWFGIATSHD FESHDGMTEN NLYQKIFASH FGQLAIIFLW TSGNLFHVAW QGNFEQWIKD PLHIRPIAH AISDPHFGQP AIEAFTRSQF PGPVNIAYSG VYQWWYTIGL RTNVDLYNGS MFLLFIATLA LFAGWLHLEP K YSPKVSWF ...String:
MATKFPKFSQ GLAQDPTTRR IWFGIATSHD FESHDGMTEN NLYQKIFASH FGQLAIIFLW TSGNLFHVAW QGNFEQWIKD PLHIRPIAH AISDPHFGQP AIEAFTRSQF PGPVNIAYSG VYQWWYTIGL RTNVDLYNGS MFLLFIATLA LFAGWLHLEP K YSPKVSWF KDAESRLNHH LSALFGLSSL AWSGHLIHVA IPESRGIHVR WDNFLSQLPH PSGLEPFFKG NWSLYSENPD SL THVFGTA SGAGTAVLTF LGGFHPETKS LWLTDIAHHH LAIAVLFIVA GHMYRTNFAI GHRIDDILNA HKAPSGKLGL GHF GLYETI NNSLHFQLGL ALASLGVITS LVAQHMYSLS PYAFLIQDRT TMAALYTHHQ YIAGFIMTGA FAHGAIFFIR DFDE EKNKG NVLSRILDHK EAIISHLSWV TLFLGFHTLG LYVHNDVMQA FGTPEKQILI EPVFAQWIQS AHGKNIYELN ILLSS DSSN AFSASQAIWL PGWLNGINDK STSLFLQIGP GDFLVHHAIA LGLHTTTLIL VKGALDARGS RLMPDKKDFG YSFPCD GPG RGGTCDISAW DAFYLAVFWM LNTIGWTTFY WHWKHITLWQ GNVGQFNESS TYLMGWLRDY LWLNSSQLIN GYNPFGM NS LAVWGWMFLF GHLVWATGFM FLISWRGYWQ ELIETLVWAH ERTPITNVFK WTDKPVALSI VQARLVGLAH FSVGYVFT Y AAFLIASTSA KFG

UniProtKB: Photosystem I P700 chlorophyll a apoprotein A2

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Macromolecule #3: Photosystem I iron-sulfur center

MacromoleculeName: Photosystem I iron-sulfur center / type: protein_or_peptide / ID: 3 / Number of copies: 1 / Enantiomer: LEVO / EC number: photosystem I
Source (natural)Organism: Euglena gracilis (euglena)
Molecular weightTheoretical: 8.784116 KDa
SequenceString:
MSHSVKIYNT CIGCTQCVRA CPTDVLEMVP WDGCKAGQIA SSPRTEDCVG CKRCESACPT DFLSVRVYLG SETSRSMGLA Y

UniProtKB: Photosystem I iron-sulfur center

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Macromolecule #4: PsaD

MacromoleculeName: PsaD / type: protein_or_peptide / ID: 4 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Euglena gracilis (euglena)
Molecular weightTheoretical: 19.742277 KDa
SequenceString:
AVVPDLAAAD DDIAAVSKAI ADASQLPIFW MLRDALSCVP RSQFPTVFAT YKGSTGSLLA SATTEEFYVI TWTVPKEQIF EIPTGGAAL MNEGVNIFFF ARKEQCLALG AQLRSSFAPK ITDFQIYRVF PDGAVQYLHP KDGVFPEKVN GGRAKANFNS R DIGDNANP VNSAFSGAAA KAAAAAAA

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Macromolecule #5: PsaE

MacromoleculeName: PsaE / type: protein_or_peptide / ID: 5 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Euglena gracilis (euglena)
Molecular weightTheoretical: 6.797661 KDa
SequenceString:
AGPALGSVVK ILRPESYWYN QFGTVIAVDA SGGIRYSVVV RFAKQNYEGV TVNNFALDEL VAA

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Macromolecule #6: PsaF

MacromoleculeName: PsaF / type: protein_or_peptide / ID: 6 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Euglena gracilis (euglena)
Molecular weightTheoretical: 17.765254 KDa
SequenceString:
AEAILGLTPC SDSAMFQEVL VKEVKALNQR ENLYDAGSAP YLALKATKAK TQARFANYAV AGLLCGADGL PHLIADPGLA VKYGHAGEV DIPTIGFLYV AGYIGVAGRV YLQTISTRDN PTEKEIIINV PLATSIAFKS WDWPDEAVQE LAAGTLLESA M NVPTAKGA

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Macromolecule #7: Photosystem I reaction center subunit IX

MacromoleculeName: Photosystem I reaction center subunit IX / type: protein_or_peptide / ID: 7 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Euglena gracilis (euglena)
Molecular weightTheoretical: 4.298092 KDa
SequenceString:
MKYFTTYLST APVVAVLWFT LTASLLIEIN RFFPDIL

UniProtKB: Photosystem I reaction center subunit IX

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Macromolecule #8: Photosystem I reaction center subunit XII

MacromoleculeName: Photosystem I reaction center subunit XII / type: protein_or_peptide / ID: 8 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Euglena gracilis (euglena)
Molecular weightTheoretical: 3.445077 KDa
SequenceString:
MEITTNQVYI ALLASLIPAF FAFKLGKSLN Q

UniProtKB: Photosystem I reaction center subunit XII

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Macromolecule #9: Chloroplast light-harvesting complex I protein

MacromoleculeName: Chloroplast light-harvesting complex I protein / type: protein_or_peptide / ID: 9 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Euglena gracilis (euglena)
Molecular weightTheoretical: 18.071533 KDa
SequenceString:
RATWFPGAKA PPHLTGEFPG DRGFDPVDFA ANPESFERMR ASEVFHGRMA MLGVAGCLIP ELLGRGVWFQ AGESVDAAQL GLYFMFLAA PSEYWRGNGG FGWDQKEKKA GNRIYPGFDP LKMTSDETKT KEIKNGRLAM IAFLGLVSQA NTTGVSPFQN L AAVFGA

UniProtKB: Chloroplast light-harvesting complex I protein

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Macromolecule #10: Chloroplast light-harvesting complex I protein

MacromoleculeName: Chloroplast light-harvesting complex I protein / type: protein_or_peptide / ID: 10 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Euglena gracilis (euglena)
Molecular weightTheoretical: 18.403617 KDa
SequenceString:
WFPGATPPAY LTGEFPADRG FDPLGLAKDP ATYERMRSSE VFHSRLAMLG VVGSLIPELQ GQGAWYTLSE KQFGPGPNGE VIGFTELAL IGMLFSYPLE YWRGNGGFGW FEEKGDRTYP GFDPLQLTSE YTKTAEIKNG RLAMSALLGF AVQHATTGAS P LENWAATT G

UniProtKB: Chloroplast light-harvesting complex I protein

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Macromolecule #11: LHCE 3

MacromoleculeName: LHCE 3 / type: protein_or_peptide / ID: 11 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Euglena gracilis (euglena)
Molecular weightTheoretical: 23.742324 KDa
SequenceString: LSDWYGPNRK LFLGPLSDGA PEHLKGELPG DYGFDVLGLA TQPTRLERYR QGEIINGRWA MLGIVGCIVP ELLARNYGVP FPEPVWFKT GATVFSEEGL NYLGNPSLIH AKSIAAILVT EILFVGAAEA FRVSGGPLGP ATDLVYPGKA FDPLGLSKDA T AFAELKVK ...String:
LSDWYGPNRK LFLGPLSDGA PEHLKGELPG DYGFDVLGLA TQPTRLERYR QGEIINGRWA MLGIVGCIVP ELLARNYGVP FPEPVWFKT GATVFSEEGL NYLGNPSLIH AKSIAAILVT EILFVGAAEA FRVSGGPLGP ATDLVYPGKA FDPLGLSKDA T AFAELKVK EVKNGRLAML GMLGLFMQGF ATGKGPLQNL ADHLADPTGA NIITFHQRVL SDL

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Macromolecule #12: Light harvesting chlorophyll a /b binding protein of PSII

MacromoleculeName: Light harvesting chlorophyll a /b binding protein of PSII
type: protein_or_peptide / ID: 12 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Euglena gracilis (euglena)
Molecular weightTheoretical: 23.581885 KDa
SequenceString: GSKWYGPNRP KWLGPLSGGA VPEYLKGEYA GDYGFDTAGL AADPKLFQRY RDAELQNGRW AMLGVLGCLA PEVLSNVFGV PYPEPVWFK TGATILNGGS IDYLANPKLI HASNLLLTLV LELVFFFAAE TWREAGEGPL GKAQDKSYPG GVFDPLGLSK D PAAFAEAK ...String:
GSKWYGPNRP KWLGPLSGGA VPEYLKGEYA GDYGFDTAGL AADPKLFQRY RDAELQNGRW AMLGVLGCLA PEVLSNVFGV PYPEPVWFK TGATILNGGS IDYLANPKLI HASNLLLTLV LELVFFFAAE TWREAGEGPL GKAQDKSYPG GVFDPLGLSK D PAAFAEAK VKEVKNGRLA MLAMLGLFVQ AGVTGQSPLE NLSAHLANPG VNFWTSYAPT LA

UniProtKB: Light harvesting chlorophyll a /b binding protein of PSII

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Macromolecule #13: Chloroplast light-harvesting complex II protein

MacromoleculeName: Chloroplast light-harvesting complex II protein / type: protein_or_peptide / ID: 13 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Euglena gracilis (euglena)
Molecular weightTheoretical: 21.448238 KDa
SequenceString: RPTWFPGAEA PTWLTGEYPG DRGFDPFGLA KDPADFAKFR DSEVFHGRWA MLGLVGCLVP EVFGNLGIAQ LPAWYDAATV ANTSNLDYL GNPNLVHASN VSFIALSTLL LMGPVEAWRW NGALASEAKS AERTTYPGGP FDPLKLGASP ELKLKEIKNG R LAMVGMFG ...String:
RPTWFPGAEA PTWLTGEYPG DRGFDPFGLA KDPADFAKFR DSEVFHGRWA MLGLVGCLVP EVFGNLGIAQ LPAWYDAATV ANTSNLDYL GNPNLVHASN VSFIALSTLL LMGPVEAWRW NGALASEAKS AERTTYPGGP FDPLKLGASP ELKLKEIKNG R LAMVGMFG FWAQSYVTGE GPLANLAAHL ADPAHNNLLN T

UniProtKB: Chloroplast light-harvesting complex II protein

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Macromolecule #14: LHCE 8

MacromoleculeName: LHCE 8 / type: protein_or_peptide / ID: 14 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Euglena gracilis (euglena)
Molecular weightTheoretical: 19.140729 KDa
SequenceString:
RLLWIPNATP PAHLTGEFPG DRGFDPLGLA KDPKVYQRMR ISEVFHGRLA MLGIVGCVAP ELFFSKGAWF DYSDYDLNRL GLIALQVIA PLEYWRGNGG FSWDGNDGPD RSYPGFDPLG LTNEETKLQE IKNGRLAMTA MLGLEVQSHI TGKSPLTNLS E HLSHPLSA NLLTGG

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Macromolecule #15: LHCE 9

MacromoleculeName: LHCE 9 / type: protein_or_peptide / ID: 15 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Euglena gracilis (euglena)
Molecular weightTheoretical: 19.198812 KDa
SequenceString:
RPLWFPGGYA PSWLTGQHFG DRGFDPAGLA ADPKVFERMR VSEVYHGRLA MLAIVGAVVP DIQGKGAWYE AAQSAGIGVN EVAVFTAAY GIAEVARGLK ANSDPTKRYS GFDSLNLTTD YTKEAEIKNG RLALTAMLGL QVQRHVTGVS PLVNLVEHVK H PLNHNIAE SVMHQWPVA

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Macromolecule #16: Chloroplast light-harvesting complex I protein

MacromoleculeName: Chloroplast light-harvesting complex I protein / type: protein_or_peptide / ID: 16 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Euglena gracilis (euglena)
Molecular weightTheoretical: 20.493332 KDa
SequenceString:
EKYRGLWFPN ITPPAYLTGE FPADRGFDPA GLAADPKVYE RMRIAEVFNG RLAMLAIVGC VYPELLGNGV WFEVWNKVDF YRFALISLQ VVAPLEYWRG NGGFGWDGEE KYDRSYPGFD PCNLTTEYTK AAEIKNGRLA MIGMFGLEVQ SHVTAQGPVA N LIEHLRHP LAANIGANLA HPWPP

UniProtKB: Chloroplast light-harvesting complex I protein

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Macromolecule #17: Chloroplast light-harvesting complex I protein

MacromoleculeName: Chloroplast light-harvesting complex I protein / type: protein_or_peptide / ID: 17 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Euglena gracilis (euglena)
Molecular weightTheoretical: 18.959584 KDa
SequenceString:
RLLWIPNATP PAHLTGEFPG DRGFDPLGLS KDPKVFARMR ISEVFHGRLA MLGIVGCVGQ EWLFNKGAWF DYSDFDLPRL GLIALQVIA PLEYWRGNGG FSWNGNDGPD RSYPGFDPLG LTTEDTKLRE IKNGRLAMSA MLGLEVQSHI TGKSPLTNLG D HLSSPFTA NILT

UniProtKB: Chloroplast light-harvesting complex I protein

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Macromolecule #18: Chloroplast light-harvesting complex I protein

MacromoleculeName: Chloroplast light-harvesting complex I protein / type: protein_or_peptide / ID: 18 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Euglena gracilis (euglena)
Molecular weightTheoretical: 17.778209 KDa
SequenceString:
HKDGVWFPGA TPPAHLTGEY PADRGFDPLS LAADPTVYAR MRVSEVFHAR LSMLAIVGAI VPEVLGKGAW FEAGNSVDGI KLGFIAMAI AAPTEYWRGN GGFNWDKGAA DRSYPGFDPL KLTTDYTKAA EIKNGRLAMA GLLGLTFQYL ATGESPLANL A AHLANPV

UniProtKB: Chloroplast light-harvesting complex I protein

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Macromolecule #19: Chloroplast light-harvesting complex I protein

MacromoleculeName: Chloroplast light-harvesting complex I protein / type: protein_or_peptide / ID: 19 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Euglena gracilis (euglena)
Molecular weightTheoretical: 17.83526 KDa
SequenceString:
HKDGVWFPGA TPPAHLTGEY PADRGFDPLS LAADPTVYAR MRVSEVFHAR LSMLAIVGAI VPEVLGKGAW FEAGNSVDGI KLGFIAMAI AAPTEYWRGN GGFNWDKGAA DRSYPGFDPL KLTTDYTKAA EIKNGRLAMA GLLGLTFQYL ATGESPLANL A AHLANPVG

UniProtKB: Chloroplast light-harvesting complex I protein

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Macromolecule #20: Chloroplast light-harvesting complex I protein, Lhca7_2

MacromoleculeName: Chloroplast light-harvesting complex I protein, Lhca7_2
type: protein_or_peptide / ID: 20 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Euglena gracilis (euglena)
Molecular weightTheoretical: 18.875445 KDa
SequenceString:
RPLWFPGGYA PSWLTGQHFG DRGFDPAGLA ADPKVFERMR VSEVYHGRLA MLAIVGAVVP DIQGKGAWYE AAQSAGIGVN EVAVFTAAY GIAEVARGLK ANSDPTSRYS GFDSLNLTTD YTKEAEIKNG RLALTAMLGL QVQRHVTGVS PLLNLVEHVK H PLVHTIAE SVMHQW

UniProtKB: Chloroplast light-harvesting complex I protein

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Macromolecule #21: Chloroplast light-harvesting complex I protein

MacromoleculeName: Chloroplast light-harvesting complex I protein / type: protein_or_peptide / ID: 21 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Euglena gracilis (euglena)
Molecular weightTheoretical: 19.877633 KDa
SequenceString:
RGLWFPNITP PAYLTGEFPA DRGFDPAGLA ADPKVYERMR IAEVFNGRLA MLAIVGCVYP ELLGNGVWFE VWNKVDFYRF ALISLQVVA PLEYWRGNGG FGWDGEEKYD RSYPGFDPCN LTTEYTKAAE IKNGRLAMIG MFGLEVQSHV TAQGPVANLI E HLRHPLAA NIGANLAHPW

UniProtKB: Chloroplast light-harvesting complex I protein

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Macromolecule #22: Chloroplast light-harvesting complex II protein

MacromoleculeName: Chloroplast light-harvesting complex II protein / type: protein_or_peptide / ID: 22 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Euglena gracilis (euglena)
Molecular weightTheoretical: 19.923596 KDa
SequenceString:
TWFPGAEAPA WLTGEYPGDR GFDPLGLAKD PEDFAKNRDS EVYHGRWAML GLVGCLVPEV FGNLGIAQLP AWYEAGAVAN TGSLDYLGN PNLVHASNVP LIFFTTLLLF LPIEAWRWNG QIAPEAKSAE RTTYPGGPFD PLKLGASPEL KLKEIKNGRL A MVGMFGFW AQSYVTGEGP LANLAA

UniProtKB: Chloroplast light-harvesting complex II protein

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Macromolecule #23: Chloroplast light-harvesting complex I protein

MacromoleculeName: Chloroplast light-harvesting complex I protein / type: protein_or_peptide / ID: 23 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Euglena gracilis (euglena)
Molecular weightTheoretical: 17.41175 KDa
SequenceString:
DGVWFPGATP PAHLTGEYPA DRGFDPLSLA ADPTVYARMR VSEVFHARLS MLAIVGAIVP EVLGKGAWFE AGNSVDGIKL GFIAMAIAA PTEYWRGNGG FNWDKGAADR SYPGFDPLKL TTDYTKAAEI KNGRLAMAGL LGLTFQYLAT GESPLANLAA H LANP

UniProtKB: Chloroplast light-harvesting complex I protein

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Macromolecule #24: Chloroplast light-harvesting complex I protein

MacromoleculeName: Chloroplast light-harvesting complex I protein / type: protein_or_peptide / ID: 24 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Euglena gracilis (euglena)
Molecular weightTheoretical: 15.965201 KDa
SequenceString:
PPAHLTGEYP ADRGFDPLSL AADPTVYARM RVSEVFHARL SMLAIVGSIV PELLGKGAWF EVGNSVDGIK LGFILMAIAA PTEYWRGNG GFNWDKGTAD RSYPGFDPLK LTTDYTKAAE IKNGRLAMTG LLGLTFQYLA TGESPLANL

UniProtKB: Chloroplast light-harvesting complex I protein

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Macromolecule #25: CHLOROPHYLL A

MacromoleculeName: CHLOROPHYLL A / type: ligand / ID: 25 / Number of copies: 276 / Formula: CLA
Molecular weightTheoretical: 893.489 Da
Chemical component information

ChemComp-CLA:
CHLOROPHYLL A

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Macromolecule #26: DODECYL-BETA-D-MALTOSIDE

MacromoleculeName: DODECYL-BETA-D-MALTOSIDE / type: ligand / ID: 26 / Number of copies: 1 / Formula: LMT
Molecular weightTheoretical: 510.615 Da
Chemical component information

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

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Macromolecule #27: 1,2-DIPALMITOYL-PHOSPHATIDYL-GLYCEROLE

MacromoleculeName: 1,2-DIPALMITOYL-PHOSPHATIDYL-GLYCEROLE / type: ligand / ID: 27 / Number of copies: 12 / Formula: LHG
Molecular weightTheoretical: 722.97 Da
Chemical component information

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

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Macromolecule #28: PHYLLOQUINONE

MacromoleculeName: PHYLLOQUINONE / type: ligand / ID: 28 / Number of copies: 4 / Formula: PQN
Molecular weightTheoretical: 450.696 Da
Chemical component information

ChemComp-PQN:
PHYLLOQUINONE

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Macromolecule #29: BETA-CAROTENE

MacromoleculeName: BETA-CAROTENE / type: ligand / ID: 29 / Number of copies: 13 / Formula: BCR
Molecular weightTheoretical: 536.873 Da
Chemical component information

ChemComp-BCR:
BETA-CAROTENE

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Macromolecule #30: 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: 30 / Number of copies: 4 / 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

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Macromolecule #31: (3S,3'R,5R,6S,7cis)-7',8'-didehydro-5,6-dihydro-5,6-epoxy-beta,be...

MacromoleculeName: (3S,3'R,5R,6S,7cis)-7',8'-didehydro-5,6-dihydro-5,6-epoxy-beta,beta-carotene-3,3'-diol
type: ligand / ID: 31 / Number of copies: 41 / Formula: DD6
Molecular weightTheoretical: 582.855 Da
Chemical component information

ChemComp-DD6:
(3S,3'R,5R,6S,7cis)-7',8'-didehydro-5,6-dihydro-5,6-epoxy-beta,beta-carotene-3,3'-diol

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Macromolecule #32: IRON/SULFUR CLUSTER

MacromoleculeName: IRON/SULFUR CLUSTER / type: ligand / ID: 32 / Number of copies: 3 / Formula: SF4
Molecular weightTheoretical: 351.64 Da
Chemical component information

ChemComp-FS1:
IRON/SULFUR CLUSTER

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Macromolecule #33: 1,2-DISTEAROYL-MONOGALACTOSYL-DIGLYCERIDE

MacromoleculeName: 1,2-DISTEAROYL-MONOGALACTOSYL-DIGLYCERIDE / type: ligand / ID: 33 / Number of copies: 4 / Formula: LMG
Molecular weightTheoretical: 787.158 Da
Chemical component information

ChemComp-LMG:
1,2-DISTEAROYL-MONOGALACTOSYL-DIGLYCERIDE

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Macromolecule #34: DIGALACTOSYL DIACYL GLYCEROL (DGDG)

MacromoleculeName: DIGALACTOSYL DIACYL GLYCEROL (DGDG) / type: ligand / ID: 34 / Number of copies: 3 / Formula: DGD
Molecular weightTheoretical: 949.299 Da
Chemical component information

ChemComp-DGD:
DIGALACTOSYL DIACYL GLYCEROL (DGDG)

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Macromolecule #35: CHLOROPHYLL B

MacromoleculeName: CHLOROPHYLL B / type: ligand / ID: 35 / Number of copies: 6 / Formula: CHL
Molecular weightTheoretical: 907.472 Da
Chemical component information

ChemComp-CHL:
CHLOROPHYLL B

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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: 7.5
VitrificationCryogen name: ETHANE

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Electron microscopy

MicroscopeFEI POLARA 300
Image recordingFilm or detector model: GATAN K3 (6k x 4k) / Average electron dose: 60.0 e/Å2
Electron beamAcceleration voltage: 300 kV / Electron source: OTHER
Electron opticsIllumination mode: OTHER / Imaging mode: OTHER / Nominal defocus max: 2.0 µm / Nominal defocus min: 1.0 µm
Experimental equipment
Model: Tecnai Polara / Image courtesy: FEI Company

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Image processing

CTF correctionType: NONE
Startup modelType of model: OTHER
Final reconstructionResolution.type: BY AUTHOR / Resolution: 2.23 Å / Resolution method: FSC 0.143 CUT-OFF / Software - Name: Topaz / Number images used: 562173
Initial angle assignmentType: OTHER
Final angle assignmentType: OTHER

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