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- EMDB-33737: Cryo-EM structure of the PSI-LHCI-Lhcp supercomplex from Ostreoco... -

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Basic information

Entry
Database: EMDB / ID: EMD-33737
TitleCryo-EM structure of the PSI-LHCI-Lhcp supercomplex from Ostreococcus tauri
Map data
Sample
  • Complex: photosystem I-light-harvesting complex I-prasinophyte-specific Lhc protein (PSI-LHCI-Lhcp) supercomplex
    • Protein or peptide: x 22 types
  • Protein or peptide: x 1 types
  • Ligand: x 16 types
KeywordsComplex / Electron transport / Photosynthesis
Function / homology
Function and homology information


chloroplast photosystem I / chloroplast thylakoid lumen / photosynthesis, light harvesting / photosystem I reaction center / photosystem I / photosynthetic electron transport in photosystem I / photosystem I / photosystem II / chlorophyll binding / chloroplast thylakoid membrane ...chloroplast photosystem I / chloroplast thylakoid lumen / photosynthesis, light harvesting / photosystem I reaction center / photosystem I / photosynthetic electron transport in photosystem I / photosystem I / photosystem II / chlorophyll binding / chloroplast thylakoid membrane / photosynthesis / chloroplast / 4 iron, 4 sulfur cluster binding / oxidoreductase activity / electron transfer activity / magnesium ion binding / membrane / metal ion binding
Similarity search - Function
Photosystem I reaction centre subunit N, chloroplastic / Photosystem I reaction centre subunit N superfamily / Photosystem I reaction centre subunit N (PSAN or PSI-N) / Photosystem I PsaO / PsaO transmembrane domain / Photosystem I PsaH, reaction centre subunit VI / Photosystem I reaction centre subunit VI / Photosystem I reaction center subunit V/PsaK, plant / Photosystem I PsaG/PsaK domain, chloroplastic / Photosystem I PsaM, reaction centre superfamily ...Photosystem I reaction centre subunit N, chloroplastic / Photosystem I reaction centre subunit N superfamily / Photosystem I reaction centre subunit N (PSAN or PSI-N) / Photosystem I PsaO / PsaO transmembrane domain / Photosystem I PsaH, reaction centre subunit VI / Photosystem I reaction centre subunit VI / Photosystem I reaction center subunit V/PsaK, plant / Photosystem I PsaG/PsaK domain, chloroplastic / Photosystem I PsaM, reaction centre superfamily / Photosystem I PsaM, reaction centre / Photosystem I protein M (PsaM) / Photosystem I psaG and psaK proteins signature. / Photosystem I reaction center subunit V/PsaK / Photosystem I psaG / psaK / Photosystem I PsaL, reaction centre subunit XI / Photosystem I, reaction centre subunit XI / Photosystem I PsaL, reaction centre subunit XI superfamily / Photosystem I reaction centre subunit XI / Photosystem I reaction centre subunit VIII / Photosystem I reaction centre subunit VIII / Photosystem I reaction centre subunit VIII superfamily / Photosystem I PsaF, reaction centre subunit III / Photosystem I PsaF, reaction centre subunit III superfamily / Photosystem I reaction centre subunit III / Chlorophyll A-B binding protein, plant and chromista / Photosystem I PsaD / Chlorophyll A-B binding protein / Photosystem I, reaction centre subunit PsaD superfamily / Chlorophyll A-B binding protein / PsaD / Photosystem I PsaJ, reaction centre subunit IX / Photosystem I PsaE, reaction centre subunit IV / Photosystem I PsaJ, reaction centre subunit IX superfamily / Photosystem I reaction centre subunit IX / PsaJ / Photosystem I reaction centre subunit IV / PsaE / Photosystem I protein PsaC / Photosystem I PsaB / Photosystem I PsaA / 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 / Electron transport accessory-like domain superfamily / 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
Chlorophyll a-b binding protein, chloroplastic / Chlorophyll a-b binding protein, chloroplastic / PSI subunit V / Photosystem I PsaN, reaction centre subunit N / Photosystem I PsaG/PsaK protein / Unnamed product / Photosystem I PsaH, reaction centre subunit VI / Photosystem I reaction center subunit II, chloroplastic / Chlorophyll a-b binding protein, chloroplastic / Photosystem I PsaE, reaction centre subunit IV ...Chlorophyll a-b binding protein, chloroplastic / Chlorophyll a-b binding protein, chloroplastic / PSI subunit V / Photosystem I PsaN, reaction centre subunit N / Photosystem I PsaG/PsaK protein / Unnamed product / Photosystem I PsaH, reaction centre subunit VI / Photosystem I reaction center subunit II, chloroplastic / Chlorophyll a-b binding protein, chloroplastic / Photosystem I PsaE, reaction centre subunit IV / Chlorophyll a-b binding protein, chloroplastic / PSI-G / Photosystem I reaction center subunit III / Photosystem I reaction center subunit IX / Photosystem I reaction center subunit XII / Photosystem I reaction center subunit VIII / Photosystem I P700 chlorophyll a apoprotein A1 / Photosystem I P700 chlorophyll a apoprotein A2 / Photosystem I iron-sulfur center / Chlorophyll a-b binding protein, chloroplastic / Chlorophyll a-b binding protein, chloroplastic / Chlorophyll a-b binding protein, chloroplastic / Chlorophyll a-b binding protein, chloroplastic
Similarity search - Component
Biological speciesOstreococcus tauri (plant)
Methodsingle particle reconstruction / cryo EM / Resolution: 2.94 Å
AuthorsShan J / Sheng X / Ishii A / Watanabe A / Song C / Murata K / Minagawa J / Liu Z
Funding support Japan, China, 4 items
OrganizationGrant numberCountry
Japan Society for the Promotion of Science (JSPS)21H04778 and 21H05040 Japan
Chinese Academy of SciencesXDB37020101 and YSBR-015 China
National Natural Science Foundation of China (NSFC)31925024 China
Ministry of Science and Technology (MoST, China)2017YFA0503702 China
CitationJournal: Elife / Year: 2023
Title: The photosystem I supercomplex from a primordial green alga harbors three light-harvesting complex trimers.
Authors: Asako Ishii / Jianyu Shan / Xin Sheng / Eunchul Kim / Akimasa Watanabe / Makio Yokono / Chiyo Noda / Chihong Song / Kazuyoshi Murata / Zhenfeng Liu / Jun Minagawa /
Abstract: As a ubiquitous picophytoplankton in the ocean and an early-branching green alga, is a model prasinophyte species for studying the functional evolution of the light-harvesting systems in ...As a ubiquitous picophytoplankton in the ocean and an early-branching green alga, is a model prasinophyte species for studying the functional evolution of the light-harvesting systems in photosynthesis. Here, we report the structure and function of the photosystem I (PSI) supercomplex in low light conditions, where it expands its photon-absorbing capacity by assembling with the light-harvesting complexes I (LHCI) and a prasinophyte-specific light-harvesting complex (Lhcp). The architecture of the supercomplex exhibits hybrid features of the plant-type and the green algal-type PSI supercomplexes, consisting of a PSI core, an Lhca1-Lhca4-Lhca2-Lhca3 belt attached on one side and an Lhca5-Lhca6 heterodimer associated on the other side between PsaG and PsaH. Interestingly, nine Lhcp subunits, including one Lhcp1 monomer with a phosphorylated amino-terminal threonine and eight Lhcp2 monomers, oligomerize into three trimers and associate with PSI on the third side between Lhca6 and PsaK. The Lhcp1 phosphorylation and the light-harvesting capacity of PSI were subjected to reversible photoacclimation, suggesting that the formation of PSI-LHCI-Lhcp supercomplex is likely due to a phosphorylation-dependent mechanism induced by changes in light intensity. Notably, this supercomplex did not exhibit far-red peaks in the 77 K fluorescence spectra, which is possibly due to the weak coupling of the chlorophyll 603-609 pair in Lhca1-4.
History
DepositionJul 1, 2022-
Header (metadata) releaseApr 26, 2023-
Map releaseApr 26, 2023-
UpdateOct 23, 2024-
Current statusOct 23, 2024Processing site: PDBj / Status: Released

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Structure visualization

Supplemental images

emd_33737.png

Downloads & links

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Map

FileDownload / File: emd_33737.map.gz / Format: CCP4 / Size: 216 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 384 pix.
= 399.36 Å		1.04 Å/pix.
x 384 pix.
= 399.36 Å		1.04 Å/pix.
x 384 pix.
= 399.36 Å

Surface

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Images are generated by Spider.

Voxel sizeX=Y=Z: 1.04 Å
Density

Histogram

Histogram (log scale)
Contour LevelBy AUTHOR: 0.025
Minimum - Maximum-0.07399347 - 0.13541535
Average (Standard dev.)0.00003137092 (±0.005333337)
SymmetrySpace group: 1
Details

EMDB XML:

Map geometry
Axis orderXYZ
Origin000
Dimensions384384384
Spacing384384384
CellA=B=C: 399.36 Å
α=β=γ: 90.0 °

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Supplemental data

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Half map: #2

Fileemd_33737_half_map_1.map
Projections & Slices
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Half map: #1

Fileemd_33737_half_map_2.map
Projections & Slices
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Sample components

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Entire : photosystem I-light-harvesting complex I-prasinophyte-specific Lh...

EntireName: photosystem I-light-harvesting complex I-prasinophyte-specific Lhc protein (PSI-LHCI-Lhcp) supercomplex
Components
  • Complex: photosystem I-light-harvesting complex I-prasinophyte-specific Lhc protein (PSI-LHCI-Lhcp) supercomplex
    • Protein or peptide: Lhca1
    • Protein or peptide: Chlorophyll a-b binding protein, chloroplastic
    • Protein or peptide: Chlorophyll a-b binding protein, chloroplastic
    • Protein or peptide: Chlorophyll a-b binding protein, chloroplastic
    • Protein or peptide: Chlorophyll a-b binding protein, chloroplastic
    • Protein or peptide: Lhca6
    • 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: Photosystem I reaction center subunit II, chloroplastic
    • Protein or peptide: Photosystem I reaction centre subunit IV
    • Protein or peptide: Photosystem I reaction center subunit III
    • Protein or peptide: PsaG
    • Protein or peptide: Photosystem I PsaH, reaction centre subunit VI
    • Protein or peptide: Photosystem I reaction center subunit VIII
    • Protein or peptide: Photosystem I reaction center subunit IX
    • Protein or peptide: Photosystem I PsaG/PsaK protein
    • Protein or peptide: PSI subunit V
    • Protein or peptide: Photosystem I reaction center subunit XII
    • Protein or peptide: Photosystem I PsaN, reaction centre subunit N
    • Protein or peptide: PsaO
    • Protein or peptide: Chlorophyll a-b binding protein, chloroplastic
  • Protein or peptide: Chlorophyll a-b binding protein, chloroplastic
  • Ligand: CHLOROPHYLL B
  • Ligand: CHLOROPHYLL A
  • Ligand: (3~{E},5~{E},7~{E},9~{E},11~{E},13~{E},15~{E},17~{E})-1-[(1~{S},4~{S})-2,2-dimethyl-6-methylidene-1,4-bis(oxidanyl)cyclohexyl]-3,7,12,16-tetramethyl-18-[(1~{R},4~{R})-2,6,6-trimethyl-4-oxidanyl-cyclohex-2-en-1-yl]octadeca-3,5,7,9,11,13,15,17-octaen-2-one
  • Ligand: (3S,5R,6S,3'S,5'R,6'S)-5,6,5',6'-DIEPOXY-5,6,5',6'- TETRAHYDRO-BETA,BETA-CAROTENE-3,3'-DIOL
  • Ligand: 1,2-DIPALMITOYL-PHOSPHATIDYL-GLYCEROLE
  • Ligand: (1~{S})-3,5,5-trimethyl-4-[(3~{E},5~{E},7~{E},9~{E},11~{E},13~{E},15~{E},17~{E})-3,7,12,16-tetramethyl-18-[(1~{R},4~{R})-2,6,6-trimethyl-4-oxidanyl-cyclohex-2-en-1-yl]octadeca-3,5,7,9,11,13,15,17-octaenyl]cyclohex-3-en-1-ol
  • Ligand: BETA-CAROTENE
  • Ligand: 1,2-DISTEAROYL-MONOGALACTOSYL-DIGLYCERIDE
  • Ligand: 1,2-DI-O-ACYL-3-O-[6-DEOXY-6-SULFO-ALPHA-D-GLUCOPYRANOSYL]-SN-GLYCEROL
  • Ligand: CHLOROPHYLL A ISOMER
  • Ligand: PHYLLOQUINONE
  • Ligand: IRON/SULFUR CLUSTER
  • Ligand: DIGALACTOSYL DIACYL GLYCEROL (DGDG)
  • Ligand: (1R,3R)-6-{(3E,5E,7E,9E,11E,13E,15E,17E)-18-[(1S,4R,6R)-4-HYDROXY-2,2,6-TRIMETHYL-7-OXABICYCLO[4.1.0]HEPT-1-YL]-3,7,12,16-TETRAMETHYLOCTADECA-1,3,5,7,9,11,13,15,17-NONAENYLIDENE}-1,5,5-TRIMETHYLCYCLOHEXANE-1,3-DIOL
  • Ligand: Chlorophyll c2
  • Ligand: water

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Supramolecule #1: photosystem I-light-harvesting complex I-prasinophyte-specific Lh...

SupramoleculeName: photosystem I-light-harvesting complex I-prasinophyte-specific Lhc protein (PSI-LHCI-Lhcp) supercomplex
type: complex / ID: 1 / Parent: 0 / Macromolecule list: #1-#22
Source (natural)Organism: Ostreococcus tauri (plant) / Strain: OTH95 / Organelle: chloroplast / Location in cell: thylakoid membrane

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Macromolecule #1: Lhca1

MacromoleculeName: Lhca1 / type: protein_or_peptide / ID: 1 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Ostreococcus tauri (plant)
Molecular weightTheoretical: 24.128406 KDa
SequenceString: MFAATRSFTQ TVAPKTSVKA RARVTARASA RPMWFPGAEA PAHLRGDLPC DYGFDPLNLG EKPDNLARYR EAELMHARWA MMGVAGAVG VEIAGQGDWA SAQPTTWDAT AKYLGNETHA PLFAVIGVNG VLVAFAESQR QAATGEARLY PGGSFDPAGL S KGKDFETL ...String:
MFAATRSFTQ TVAPKTSVKA RARVTARASA RPMWFPGAEA PAHLRGDLPC DYGFDPLNLG EKPDNLARYR EAELMHARWA MMGVAGAVG VEIAGQGDWA SAQPTTWDAT AKYLGNETHA PLFAVIGVNG VLVAFAESQR QAATGEARLY PGGSFDPAGL S KGKDFETL KRKELANGRV AMMAFFGIMA QHQADPSGPG PVKQLANHLA DPWHVNVCTN PSAIPWL

UniProtKB: Chlorophyll a-b binding protein, chloroplastic

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Macromolecule #2: Chlorophyll a-b binding protein, chloroplastic

MacromoleculeName: Chlorophyll a-b binding protein, chloroplastic / type: protein_or_peptide / ID: 2 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Ostreococcus tauri (plant)
Molecular weightTheoretical: 26.40402 KDa
SequenceString: MWVDRGGDIG AHRRLKARAT TTRASRRSVV VSAEAGAERP VWYPGKAPAP HLDGSLPGDF GFDPLSLSAD PEMRKWMVQA ELQHARWAM LGVAGAVAPE LLTKIGVADL PNWVDAGTYQ YWAPAGPLFF IQMAMFNWAE VRRWQDMKNP GSMNTDPLFG Y NSNDTNTD ...String:
MWVDRGGDIG AHRRLKARAT TTRASRRSVV VSAEAGAERP VWYPGKAPAP HLDGSLPGDF GFDPLSLSAD PEMRKWMVQA ELQHARWAM LGVAGAVAPE LLTKIGVADL PNWVDAGTYQ YWAPAGPLFF IQMAMFNWAE VRRWQDMKNP GSMNTDPLFG Y NSNDTNTD VGYPGGLFDK LGYAKDPAKA KELKLKEIKN GRLAMVAFLG ICAQYVQTGQ GPVENLFSHI ASPGSVGYFG SQ GL

UniProtKB: Chlorophyll a-b binding protein, chloroplastic

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Macromolecule #3: Chlorophyll a-b binding protein, chloroplastic

MacromoleculeName: Chlorophyll a-b binding protein, chloroplastic / type: protein_or_peptide / ID: 3 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Ostreococcus tauri (plant)
Molecular weightTheoretical: 29.432744 KDa
SequenceString: MFATMNAIKI TPFAKRQARR NVSVRAEEAE AAPAPVAKKT RNTEDLAPLY VLGNSEQSLS YLDGSLPGDY GFDPLGLSDP EGAGGFVNP KWLAYSELIH GRWAMLGVAG MVAPEVLGGM GIIPQETGLV WFKAGMIPAQ GTYDYWASPF TIFWINAFLM N IAELRRAQ ...String:
MFATMNAIKI TPFAKRQARR NVSVRAEEAE AAPAPVAKKT RNTEDLAPLY VLGNSEQSLS YLDGSLPGDY GFDPLGLSDP EGAGGFVNP KWLAYSELIH GRWAMLGVAG MVAPEVLGGM GIIPQETGLV WFKAGMIPAQ GTYDYWASPF TIFWINAFLM N IAELRRAQ DYWNPGSMGK QDFAGLEKML GGSGDPAYPG GFFNFMKQGE KDMAAMKTKE IKNGRLAMMA CFGCGAQACM TG EGPVKNL VDHVIDPFGH NLLVNFSQIG GVSPF

UniProtKB: Chlorophyll a-b binding protein, chloroplastic

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Macromolecule #4: Chlorophyll a-b binding protein, chloroplastic

MacromoleculeName: Chlorophyll a-b binding protein, chloroplastic / type: protein_or_peptide / ID: 4 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Ostreococcus tauri (plant)
Molecular weightTheoretical: 25.924592 KDa
SequenceString: MSAQFASTAV VGLRAPKTTK RSQRSVSVRA STQPMWFPGM DAPQHLKGEL PGDYGFDPLN LGKEPKDLEW YVQAELQHGR WAMLGVAGA AAPEILTKMG ISDLPNWHDA PNYQGYFTDA TTLFWVQMLM MNWAEVRRWQ DMRKPGSVNE DPAFSGNKLP S GIVGYPGG ...String:
MSAQFASTAV VGLRAPKTTK RSQRSVSVRA STQPMWFPGM DAPQHLKGEL PGDYGFDPLN LGKEPKDLEW YVQAELQHGR WAMLGVAGA AAPEILTKMG ISDLPNWHDA PNYQGYFTDA TTLFWVQMLM MNWAEVRRWQ DMRKPGSVNE DPAFSGNKLP S GIVGYPGG IFDPLGYAKG DLNKLKAKEI ANGRLAMVAF AGIMVQYDHT GVGPVANLVA HMSDPAHNNV FQAKFIGF

UniProtKB: Chlorophyll a-b binding protein, chloroplastic

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Macromolecule #5: Chlorophyll a-b binding protein, chloroplastic

MacromoleculeName: Chlorophyll a-b binding protein, chloroplastic / type: protein_or_peptide / ID: 5 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Ostreococcus tauri (plant)
Molecular weightTheoretical: 23.401027 KDa
SequenceString: MIAQRSALSA RSIATPKATR RSAVVAAAAD RKMWLPAPYK APAHLDGSIA GDYGFDPLGL GTNPDRLKYY QEAELMNARW AMMAVAGIV GTEVAGIEPR WWEAGTEDYG FPPAALLAIQ FPVMGYLENK RIQGWMATGS SGVNETFPFD PMGMGSKDAN M KLKEIKNG ...String:
MIAQRSALSA RSIATPKATR RSAVVAAAAD RKMWLPAPYK APAHLDGSIA GDYGFDPLGL GTNPDRLKYY QEAELMNARW AMMAVAGIV GTEVAGIEPR WWEAGTEDYG FPPAALLAIQ FPVMGYLENK RIQGWMATGS SGVNETFPFD PMGMGSKDAN M KLKEIKNG RAAMIAFVGI VVQAIVYREG PVAALKDHIS NPFGCNMATN IMNIPVNLA

UniProtKB: Chlorophyll a-b binding protein, chloroplastic

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Macromolecule #6: Lhca6

MacromoleculeName: Lhca6 / type: protein_or_peptide / ID: 6 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Ostreococcus tauri (plant)
Molecular weightTheoretical: 26.742605 KDa
SequenceString: MFAQTAKTAI ALKTTTARST RASARSTRSV AVRAASDREL WYPGAVAPEY LNGSMAGDYG FDPLRLGANV ETLPYLQEAE LMNGRWAMA ATAGILFTDA TGLPKWWEAG AADYGYDFQT LVAFQVVVMG VLEAFRVRGL MKTGESGVLN MFPFDPAGLD A PDKRVKEV ...String:
MFAQTAKTAI ALKTTTARST RASARSTRSV AVRAASDREL WYPGAVAPEY LNGSMAGDYG FDPLRLGANV ETLPYLQEAE LMNGRWAMA ATAGILFTDA TGLPKWWEAG AADYGYDFQT LVAFQVVVMG VLEAFRVRGL MKTGESGVLN MFPFDPAGLD A PDKRVKEV KNGRLAMVAF LGMVSSYAVT GLSPLEALEA HMANPQAVNL FTSAVGGESV AFIAFLSCAP TFLLAQKTLG DG KEEFRPI PW

UniProtKB: Chlorophyll a-b binding protein, chloroplastic

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Macromolecule #7: Photosystem I P700 chlorophyll a apoprotein A1

MacromoleculeName: Photosystem I P700 chlorophyll a apoprotein A1 / type: protein_or_peptide / ID: 7 / Number of copies: 1 / Enantiomer: LEVO / EC number: photosystem I
Source (natural)Organism: Ostreococcus tauri (plant)
Molecular weightTheoretical: 83.249305 KDa
SequenceString: MTISPPEREI KTVKIVVDRD PVPTSFEKWA KPGHFSRTLA KGPATTTWVW DLHADAHDFD SHTTDLEDIS RKVFSAHFGQ LGVIFIWLS GMYFHGARFS NYEAWLSDPT HIKPSAQVVW PIVGQEILNG DVGGGFQGVQ ITSGFFQLWR GSGITSELQL Y STAIGALI ...String:
MTISPPEREI KTVKIVVDRD PVPTSFEKWA KPGHFSRTLA KGPATTTWVW DLHADAHDFD SHTTDLEDIS RKVFSAHFGQ LGVIFIWLS GMYFHGARFS NYEAWLSDPT HIKPSAQVVW PIVGQEILNG DVGGGFQGVQ ITSGFFQLWR GSGITSELQL Y STAIGALI CAGLMFFAGW WHYHKAAPKL EWFQNVESMM NHHLAGLLGL GSLAWAGHQI HIALPVNTLL DAGVDPKEIP LP HEFMLNR ALMAELYPSF AKGLTPFFTF NWTEYSDFLT FRGGLNPVTG GLWLTDMAHH HLAIAVLFLV AGHQYRTNWG IGH SMKEIL EAHKGPFTGE GHKGLYEILT TSWHAQLAIN LALMGSLSII VSHHMYSMPP YPYLATDYGT QLSLFTHHMW IGGF CICGA AAHAAIFMVR DYDPATNYNN VLDRVLRHRD AIISHLNWVC IFLGFHSFGL YIHNDTMSAL GRPQDMFSDT AIQLQ PIFA QFVQHTHALA PELTAPTAAG STSASWGGDI VAVGGKIAMM PISLGTSDFM VHHIHAFTIH VTVLILLKGV LFARSS RLI PDKANLGFRF PCDGPGRGGT CQVSAWDHVF LGLFWMYNSI SIVIFHFSWK MQSDVWGSVT GNGVSHITGG NFAQSAN TI NGWLRDFLWA QSSQVIQSYG SALSAYGLIF LGAHFIWAFS LMFLFSGRGY WQELIESIVW AHNKLKVAPA IQPRALSI T QGRAVGVAHY LLGGIATTWS FFLARIIAVG

UniProtKB: Photosystem I P700 chlorophyll a apoprotein A1

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Macromolecule #8: Photosystem I P700 chlorophyll a apoprotein A2

MacromoleculeName: Photosystem I P700 chlorophyll a apoprotein A2 / type: protein_or_peptide / ID: 8 / Number of copies: 1 / Enantiomer: LEVO / EC number: photosystem I
Source (natural)Organism: Ostreococcus tauri (plant)
Molecular weightTheoretical: 81.421508 KDa
SequenceString: MATKFPKFSQ GLASDPTTRR IWFGIATAHD FETHDGMTEE KLYQKIFASH FGQLAIIFLW TSGNLFHVAW QGNFEKWGED PLHVRPIAH TIWDPHFGQP AVEAFTRGGA SAPVNIAYSG VYQWWYTIGM RTNVDLYNGS LFLLFVAGLF LFAGWLHLQP T FAPAVSWF ...String:
MATKFPKFSQ GLASDPTTRR IWFGIATAHD FETHDGMTEE KLYQKIFASH FGQLAIIFLW TSGNLFHVAW QGNFEKWGED PLHVRPIAH TIWDPHFGQP AVEAFTRGGA SAPVNIAYSG VYQWWYTIGM RTNVDLYNGS LFLLFVAGLF LFAGWLHLQP T FAPAVSWF KNAESRLNHH LSGLFGVSSL AWTGHLVHVA IPASRGETVR WDNFLTTLPH PAGLAPFFTG QWAVYAQNPD TA GHIFGTS EGAGTAILTF LGGFHPQTQS LWLTDMAHHH LAIAVVFIIA GHQYRTNFGI GHSMKEILEA HTAPSGRLGA GHT GLFDTV NNSLHFQLGL ALASVGVLCS LTAQHMYSMP PYAFLAQDFT TQAALYSHHQ YIAGFIMCGA FAHGAIFFIR DYDP EANKG NVLARMLEHK EAIISHLSWV SLFLGFHTLG LYVHNDVMQA FGTPEKQILI EPVFAQWIQA AQGKALYGFD ILLSG DNAA TAAGNSIYLP GWLAGINSST NSLFLPIGPG DFLVHHAIAL GLHTTTLILV KGALDARGSK LMPDKKDFGY SFPCDG PGR GGTCDISAWD AFYLAVFWEL NTVSWTVFYF HWKHLALWQG NSAQFDESST YIMGWLRDYL WLNSSQLING YNPFGMN SL SVWAWMFLFG HLIYATGFMF LISWRGYWQE LIETLVWAHE RTPLANFVKW NDKPVALSIV QARLVGLTHF AVGFVLTY A AFVIASTSGK FG

UniProtKB: Photosystem I P700 chlorophyll a apoprotein A2

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Macromolecule #9: Photosystem I iron-sulfur center

MacromoleculeName: Photosystem I iron-sulfur center / type: protein_or_peptide / ID: 9 / Number of copies: 1 / Enantiomer: LEVO / EC number: photosystem I
Source (natural)Organism: Ostreococcus tauri (plant)
Molecular weightTheoretical: 8.751128 KDa
SequenceString:
MSHAVKIYDT CIGCTQCVRA CPTDVLEMVP WDGCKAGQIA SAPRTEDCVG CKRCEAACPT DFLSVRVYLG SETTRSMGLA Y

UniProtKB: Photosystem I iron-sulfur center

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Macromolecule #10: Photosystem I reaction center subunit II, chloroplastic

MacromoleculeName: Photosystem I reaction center subunit II, chloroplastic
type: protein_or_peptide / ID: 10 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Ostreococcus tauri (plant)
Molecular weightTheoretical: 20.560975 KDa
SequenceString:
MSVTHAPARA VAKPTAMRTR KSARSATIVR AEEAKAKTES AAPAVWTAPK LDPNTPSPIF GGSTGGLLRK AQVEEFYVLT WEAKKEAIF EMPTGGAAIM RKGPNLLKLA RKEQCLALLN TFRSKMKLDG CIYRVFPSGE VQYLHPKDGV YPEKVNKGRV G ANQNMRSI GKNTNPAKIK FQGKLGPFEV

UniProtKB: Photosystem I reaction center subunit II, chloroplastic

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Macromolecule #11: Photosystem I reaction centre subunit IV

MacromoleculeName: Photosystem I reaction centre subunit IV / type: protein_or_peptide / ID: 11 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Ostreococcus tauri (plant)
Molecular weightTheoretical: 11.278889 KDa
SequenceString:
MFACTKVQAN VFAVKTTKTV RRSTVTRAEG EAAKPAAKPQ VGPPRGTMVK ILRPESYWFN DYGKVISVDQ TGVRYPVVVR FEKVNYAGV STNNYALDEV EY

UniProtKB: Photosystem I PsaE, reaction centre subunit IV

+
Macromolecule #12: Photosystem I reaction center subunit III

MacromoleculeName: Photosystem I reaction center subunit III / type: protein_or_peptide / ID: 12 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Ostreococcus tauri (plant)
Molecular weightTheoretical: 24.593398 KDa
SequenceString: MHAHAQAQLT SKVTVSGLKR SARVQTRAVK TVAHCSAVDF SKKAASLAVA AAVAAAPLVA VEEAFARDVQ PYAGLTPCKT SKAFAKREK TELKALEKRL KKYDPESAPA LALQATMEKT KTRFANYGES GLLCGKDGLP HLIVDGNLEH LGEFAIPGLG F LYVAGWIG ...String:
MHAHAQAQLT SKVTVSGLKR SARVQTRAVK TVAHCSAVDF SKKAASLAVA AAVAAAPLVA VEEAFARDVQ PYAGLTPCKT SKAFAKREK TELKALEKRL KKYDPESAPA LALQATMEKT KTRFANYGES GLLCGKDGLP HLIVDGNLEH LGEFAIPGLG F LYVAGWIG YAGRSYIQEN KTASKPTEGE IIIDVPKALG LMFQAGAWPL LAGLELKNGT LTAPESEITV SPR

UniProtKB: Photosystem I reaction center subunit III

+
Macromolecule #13: PsaG

MacromoleculeName: PsaG / type: protein_or_peptide / ID: 13 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Ostreococcus tauri (plant)
Molecular weightTheoretical: 14.124991 KDa
SequenceString:
MLARTALPTK TTASFNGRVA KQTRTAKRGA KVAARAFDDV NVVMSASNAL ALYLGRFVFL PYQRAQVERV GMPTQNGQTH FAAGDTRAE EASFITSTND PAGFNLVDVF AWGSIGHAIG FLALASQSAQ QML

UniProtKB: PSI-G

+
Macromolecule #14: Photosystem I PsaH, reaction centre subunit VI

MacromoleculeName: Photosystem I PsaH, reaction centre subunit VI / type: protein_or_peptide / ID: 14 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Ostreococcus tauri (plant)
Molecular weightTheoretical: 17.797947 KDa
SequenceString:
MAHVKVHTWT QIARNTTTPP TTTTTTTRER PARQSSMVAH AKTTAFATGA ALARSTPTTR RARATVMTRA KYGDESVYFD LSDVEATTG SWDVYGVDSA SRYPEQQAAF FEAAAQGLGR REAVYSVLAV SAGLLTVAYG VKGAKDAKLP ITVGPQQPAQ V GPRDRI

UniProtKB: Photosystem I PsaH, reaction centre subunit VI

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Macromolecule #15: Photosystem I reaction center subunit VIII

MacromoleculeName: Photosystem I reaction center subunit VIII / type: protein_or_peptide / ID: 15 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Ostreococcus tauri (plant)
Molecular weightTheoretical: 3.766573 KDa
SequenceString:
MAASLLPSIF VPLVGLVFPA VAMASLFLYI EKEQV

UniProtKB: Photosystem I reaction center subunit VIII

+
Macromolecule #16: Photosystem I reaction center subunit IX

MacromoleculeName: Photosystem I reaction center subunit IX / type: protein_or_peptide / ID: 16 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Ostreococcus tauri (plant)
Molecular weightTheoretical: 4.731595 KDa
SequenceString:
MKNFQIYLST APVLAAVWFT VLAGILIELN RFFPDALSFP LT

UniProtKB: Photosystem I reaction center subunit IX

+
Macromolecule #17: Photosystem I PsaG/PsaK protein

MacromoleculeName: Photosystem I PsaG/PsaK protein / type: protein_or_peptide / ID: 17 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Ostreococcus tauri (plant)
Molecular weightTheoretical: 13.573483 KDa
SequenceString:
MHATVAARPS IVSAKTSLSS TDALKRASAV AQRTKTRDVT VRADWSIGST ENMIVCFNTT AILGAMRFGL MPSVKKNFNG ASSHTAMVE QANAKTIGSR DPSGFTAVDV LAGGSLATII SAGEILAGQV PY

UniProtKB: Photosystem I PsaG/PsaK protein

+
Macromolecule #18: PSI subunit V

MacromoleculeName: PSI subunit V / type: protein_or_peptide / ID: 18 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Ostreococcus tauri (plant)
Molecular weightTheoretical: 21.526773 KDa
SequenceString: MVLASKLTLD VRSCIGAKSL RTERPRNSAI GSNKTSRRQT KVSASSDKVQ IVKPINGDPF IGMLETPVTS SPDVANFLSN LPAYRTGVA PLLRGVEVGL AHGFFVTGPF IKLGPLRSTD AAELAGCLSG AGLVLILTAC LSIYGATAFQ REEVVGLKTL S GRTIAKDP ...String:
MVLASKLTLD VRSCIGAKSL RTERPRNSAI GSNKTSRRQT KVSASSDKVQ IVKPINGDPF IGMLETPVTS SPDVANFLSN LPAYRTGVA PLLRGVEVGL AHGFFVTGPF IKLGPLRSTD AAELAGCLSG AGLVLILTAC LSIYGATAFQ REEVVGLKTL S GRTIAKDP LQSSEGWASF TSGWLVGGLS GVAWSYVLTQ VLPYYS

UniProtKB: PSI subunit V

+
Macromolecule #19: Photosystem I reaction center subunit XII

MacromoleculeName: Photosystem I reaction center subunit XII / type: protein_or_peptide / ID: 19 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Ostreococcus tauri (plant)
Molecular weightTheoretical: 3.413078 KDa
SequenceString:
MPLSDTQVFT ALFVALITGI LSLRLGTQLY K

UniProtKB: Photosystem I reaction center subunit XII

+
Macromolecule #20: Photosystem I PsaN, reaction centre subunit N

MacromoleculeName: Photosystem I PsaN, reaction centre subunit N / type: protein_or_peptide / ID: 20 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Ostreococcus tauri (plant)
Molecular weightTheoretical: 14.405324 KDa
SequenceString:
MYTVCGANII AAKAPTAAKK QDKVKRAVSL GLAGLAAATV SVAPAHADLT ADLLARTEAN KSLNDQKRAA TSSANFERSR LVTDGFCQF PQNIFGCQNA AEKGSVKFLS DDMAIECEGT ADGKTCSSKA PGAYPSFLGL

UniProtKB: Photosystem I PsaN, reaction centre subunit N

+
Macromolecule #21: PsaO

MacromoleculeName: PsaO / type: protein_or_peptide / ID: 21 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Ostreococcus tauri (plant)
Molecular weightTheoretical: 15.020308 KDa
SequenceString:
MLALAPINVQ RRSPLGVSAR GRKTQSKARF AVKVNAANAD LKFDDDWKKS NVAVHLASLF GWVIPSASPC PAFPDNASLF KVFSDRISE NLAHFPTGPS ADDPIWLYML TWHMGLFACM MFGQIGVQAR KQGYFGN

UniProtKB: Unnamed product

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Macromolecule #22: Chlorophyll a-b binding protein, chloroplastic

MacromoleculeName: Chlorophyll a-b binding protein, chloroplastic / type: protein_or_peptide / ID: 22 / Number of copies: 8 / Enantiomer: LEVO
Source (natural)Organism: Ostreococcus tauri (plant)
Molecular weightTheoretical: 24.689807 KDa
SequenceString: MSALLASSFV SRVAAFKAQK VQNKSVSTTV KADIYPEFGT YPGGGESPII PFGSEKNAER EVIHGRWAML GVTGAWAAEN GTGIPWFTA GTLCTPDDCT AVADKFPGAV APLAPEGSGY PSFWNVLIIE IVLVGAAEAY RTGISDSPFD DGLTVGDVNP G GRFDPLGL ...String:
MSALLASSFV SRVAAFKAQK VQNKSVSTTV KADIYPEFGT YPGGGESPII PFGSEKNAER EVIHGRWAML GVTGAWAAEN GTGIPWFTA GTLCTPDDCT AVADKFPGAV APLAPEGSGY PSFWNVLIIE IVLVGAAEAY RTGISDSPFD DGLTVGDVNP G GRFDPLGL AESGDLEELK IKELKHCRLS MFAWLGCIFQ ALATQEGPIA NWQSHVADPV HSNVLTNAAK GFGFY

UniProtKB: Chlorophyll a-b binding protein, chloroplastic

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Macromolecule #23: Chlorophyll a-b binding protein, chloroplastic

MacromoleculeName: Chlorophyll a-b binding protein, chloroplastic / type: protein_or_peptide / ID: 23 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Ostreococcus tauri (plant)
Molecular weightTheoretical: 24.161299 KDa
SequenceString: (ACE)RR(TPO)KASVPA KRSAFKANKF GSLAPPDLYP EFGTYPGGGE SPVIPFGSEK NAEREIIHGR WAMLGVTGAW AA ENGTGIP WFTAGTLCTP DDCTAVADKF PGAVAPLAPA GSGYPNFWAV LAIEIFLVGS AECYRTGLFE NPFPELTQGD VTP GGRFDP ...String:
(ACE)RR(TPO)KASVPA KRSAFKANKF GSLAPPDLYP EFGTYPGGGE SPVIPFGSEK NAEREIIHGR WAMLGVTGAW AA ENGTGIP WFTAGTLCTP DDCTAVADKF PGAVAPLAPA GSGYPNFWAV LAIEIFLVGS AECYRTGLFE NPFPELTQGD VTP GGRFDP LGFAEAGDLE ELKIKELKHS RLAMFAWLGC IMQALATQEG PIANWTAHVA DPIHANVLTN AAKGFKFY

UniProtKB: Chlorophyll a-b binding protein, chloroplastic

+
Macromolecule #24: CHLOROPHYLL B

MacromoleculeName: CHLOROPHYLL B / type: ligand / ID: 24 / Number of copies: 60 / Formula: CHL
Molecular weightTheoretical: 907.472 Da
Chemical component information

ChemComp-CHL:
CHLOROPHYLL B

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Macromolecule #25: CHLOROPHYLL A

MacromoleculeName: CHLOROPHYLL A / type: ligand / ID: 25 / Number of copies: 245 / Formula: CLA
Molecular weightTheoretical: 893.489 Da
Chemical component information

ChemComp-CLA:
CHLOROPHYLL A

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Macromolecule #26: (3~{E},5~{E},7~{E},9~{E},11~{E},13~{E},15~{E},17~{E})-1-[(1~{S},4...

MacromoleculeName: (3~{E},5~{E},7~{E},9~{E},11~{E},13~{E},15~{E},17~{E})-1-[(1~{S},4~{S})-2,2-dimethyl-6-methylidene-1,4-bis(oxidanyl)cyclohexyl]-3,7,12,16-tetramethyl-18-[(1~{R},4~{R})-2,6,6-trimethyl-4-oxidanyl- ...Name: (3~{E},5~{E},7~{E},9~{E},11~{E},13~{E},15~{E},17~{E})-1-[(1~{S},4~{S})-2,2-dimethyl-6-methylidene-1,4-bis(oxidanyl)cyclohexyl]-3,7,12,16-tetramethyl-18-[(1~{R},4~{R})-2,6,6-trimethyl-4-oxidanyl-cyclohex-2-en-1-yl]octadeca-3,5,7,9,11,13,15,17-octaen-2-one
type: ligand / ID: 26 / Number of copies: 23 / Formula: IWJ
Molecular weightTheoretical: 600.87 Da
Chemical component information

ChemComp-IWJ:
(3~{E},5~{E},7~{E},9~{E},11~{E},13~{E},15~{E},17~{E})-1-[(1~{S},4~{S})-2,2-dimethyl-6-methylidene-1,4-bis(oxidanyl)cyclohexyl]-3,7,12,16-tetramethyl-18-[(1~{R},4~{R})-2,6,6-trimethyl-4-oxidanyl-cyclohex-2-en-1-yl]octadeca-3,5,7,9,11,13,15,17-octaen-2-one

+
Macromolecule #27: (3S,5R,6S,3'S,5'R,6'S)-5,6,5',6'-DIEPOXY-5,6,5',6'- TETRAHYDRO-BE...

MacromoleculeName: (3S,5R,6S,3'S,5'R,6'S)-5,6,5',6'-DIEPOXY-5,6,5',6'- TETRAHYDRO-BETA,BETA-CAROTENE-3,3'-DIOL
type: ligand / ID: 27 / Number of copies: 6 / Formula: XAT
Molecular weightTheoretical: 600.87 Da
Chemical component information

ChemComp-XAT:
(3S,5R,6S,3'S,5'R,6'S)-5,6,5',6'-DIEPOXY-5,6,5',6'- TETRAHYDRO-BETA,BETA-CAROTENE-3,3'-DIOL

+
Macromolecule #28: 1,2-DIPALMITOYL-PHOSPHATIDYL-GLYCEROLE

MacromoleculeName: 1,2-DIPALMITOYL-PHOSPHATIDYL-GLYCEROLE / type: ligand / ID: 28 / Number of copies: 10 / Formula: LHG
Molecular weightTheoretical: 722.97 Da
Chemical component information

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

+
Macromolecule #29: (1~{S})-3,5,5-trimethyl-4-[(3~{E},5~{E},7~{E},9~{E},11~{E},13~{E}...

MacromoleculeName: (1~{S})-3,5,5-trimethyl-4-[(3~{E},5~{E},7~{E},9~{E},11~{E},13~{E},15~{E},17~{E})-3,7,12,16-tetramethyl-18-[(1~{R},4~{R})-2,6,6-trimethyl-4-oxidanyl-cyclohex-2-en-1-yl]octadeca- ...Name: (1~{S})-3,5,5-trimethyl-4-[(3~{E},5~{E},7~{E},9~{E},11~{E},13~{E},15~{E},17~{E})-3,7,12,16-tetramethyl-18-[(1~{R},4~{R})-2,6,6-trimethyl-4-oxidanyl-cyclohex-2-en-1-yl]octadeca-3,5,7,9,11,13,15,17-octaenyl]cyclohex-3-en-1-ol
type: ligand / ID: 29 / Number of copies: 39 / Formula: Q6L
Molecular weightTheoretical: 570.887 Da
Chemical component information

ChemComp-Q6L:
(1~{S})-3,5,5-trimethyl-4-[(3~{E},5~{E},7~{E},9~{E},11~{E},13~{E},15~{E},17~{E})-3,7,12,16-tetramethyl-18-[(1~{R},4~{R})-2,6,6-trimethyl-4-oxidanyl-cyclohex-2-en-1-yl]octadeca-3,5,7,9,11,13,15,17-octaenyl]cyclohex-3-en-1-ol

+
Macromolecule #30: BETA-CAROTENE

MacromoleculeName: BETA-CAROTENE / type: ligand / ID: 30 / Number of copies: 30 / Formula: BCR
Molecular weightTheoretical: 536.873 Da
Chemical component information

ChemComp-BCR:
BETA-CAROTENE

+
Macromolecule #31: 1,2-DISTEAROYL-MONOGALACTOSYL-DIGLYCERIDE

MacromoleculeName: 1,2-DISTEAROYL-MONOGALACTOSYL-DIGLYCERIDE / type: ligand / ID: 31 / Number of copies: 11 / Formula: LMG
Molecular weightTheoretical: 787.158 Da
Chemical component information

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

+
Macromolecule #32: 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: 32 / 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 #33: CHLOROPHYLL A ISOMER

MacromoleculeName: CHLOROPHYLL A ISOMER / type: ligand / ID: 33 / Number of copies: 1 / Formula: CL0
Molecular weightTheoretical: 893.489 Da
Chemical component information

ChemComp-CL0:
CHLOROPHYLL A ISOMER

+
Macromolecule #34: PHYLLOQUINONE

MacromoleculeName: PHYLLOQUINONE / type: ligand / ID: 34 / Number of copies: 2 / Formula: PQN
Molecular weightTheoretical: 450.696 Da
Chemical component information

ChemComp-PQN:
PHYLLOQUINONE

+
Macromolecule #35: IRON/SULFUR CLUSTER

MacromoleculeName: IRON/SULFUR CLUSTER / type: ligand / ID: 35 / Number of copies: 3 / Formula: SF4
Molecular weightTheoretical: 351.64 Da
Chemical component information

ChemComp-FS1:
IRON/SULFUR CLUSTER

+
Macromolecule #36: DIGALACTOSYL DIACYL GLYCEROL (DGDG)

MacromoleculeName: DIGALACTOSYL DIACYL GLYCEROL (DGDG) / type: ligand / ID: 36 / Number of copies: 2 / Formula: DGD
Molecular weightTheoretical: 949.299 Da
Chemical component information

ChemComp-DGD:
DIGALACTOSYL DIACYL GLYCEROL (DGDG)

+
Macromolecule #37: (1R,3R)-6-{(3E,5E,7E,9E,11E,13E,15E,17E)-18-[(1S,4R,6R)-4-HYDROXY...

MacromoleculeName: (1R,3R)-6-{(3E,5E,7E,9E,11E,13E,15E,17E)-18-[(1S,4R,6R)-4-HYDROXY-2,2,6-TRIMETHYL-7-OXABICYCLO[4.1.0]HEPT-1-YL]-3,7,12,16-TETRAMETHYLOCTADECA-1,3,5,7,9,11,13,15,17-NONAENYLIDENE}-1,5,5-TRIMETHYLCYCLOHEXANE-1,3-DIOL
type: ligand / ID: 37 / Number of copies: 6 / Formula: NEX
Molecular weightTheoretical: 600.87 Da
Chemical component information

ChemComp-NEX:
(1R,3R)-6-{(3E,5E,7E,9E,11E,13E,15E,17E)-18-[(1S,4R,6R)-4-HYDROXY-2,2,6-TRIMETHYL-7-OXABICYCLO[4.1.0]HEPT-1-YL]-3,7,12,16-TETRAMETHYLOCTADECA-1,3,5,7,9,11,13,15,17-NONAENYLIDENE}-1,5,5-TRIMETHYLCYCLOHEXANE-1,3-DIOL

+
Macromolecule #38: Chlorophyll c2

MacromoleculeName: Chlorophyll c2 / type: ligand / ID: 38 / Number of copies: 9 / Formula: KC2
Molecular weightTheoretical: 608.926 Da
Chemical component information

ChemComp-KC2:
Chlorophyll c2

+
Macromolecule #39: water

MacromoleculeName: water / type: ligand / ID: 39 / Number of copies: 4 / Formula: HOH
Molecular weightTheoretical: 18.015 Da
Chemical component information

ChemComp-HOH:
WATER

-
Experimental details

-
Structure determination

Methodcryo EM
Processingsingle particle reconstruction
Aggregation stateparticle

-
Sample preparation

BufferpH: 6.5
GridModel: Quantifoil R1.2/1.3
VitrificationCryogen name: NITROGEN / Chamber humidity: 100 % / Chamber temperature: 277 K

-
Electron microscopy

MicroscopeFEI TITAN
Image recordingFilm or detector model: GATAN K2 BASE (4k x 4k) / Average electron dose: 60.0 e/Å2
Electron beamAcceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN
Electron opticsIllumination mode: OTHER / Imaging mode: BRIGHT FIELD / Nominal defocus max: 2.2 µm / Nominal defocus min: 1.8 µm

+
Image processing

DetailsThe selected images were normalized
Particle selectionNumber selected: 5288217
Details: Template picker was used to automatically select particle images
Startup modelType of model: EMDB MAP
EMDB ID:

6932

Final reconstructionApplied symmetry - Point group: C1 (asymmetric) / Resolution.type: BY AUTHOR / Resolution: 2.94 Å / Resolution method: FSC 0.143 CUT-OFF / Software - Name: RELION (ver. 3.1) / Number images used: 80366
Initial angle assignmentType: MAXIMUM LIKELIHOOD / Software - Name: RELION (ver. 3.1)
Final angle assignmentType: PROJECTION MATCHING / Software - Name: RELION (ver. 3.1)
Final 3D classificationNumber classes: 1 / Avg.num./class: 80573
FSC plot (resolution estimation)

-
Atomic model buiding 1

Initial model
PDB IDChain

5zji

chain_id: A, source_name: PDB, initial_model_type: experimental model

5zji

chain_id: B, source_name: PDB, initial_model_type: experimental model

5zji

chain_id: C, source_name: PDB, initial_model_type: experimental model

5zji

chain_id: D, source_name: PDB, initial_model_type: experimental model

5zji

chain_id: E, source_name: PDB, initial_model_type: experimental model

5zji

chain_id: F, source_name: PDB, initial_model_type: experimental model

5zji

chain_id: G, source_name: PDB, initial_model_type: experimental model

5zji

chain_id: H, source_name: PDB, initial_model_type: experimental model

5zji

chain_id: I, source_name: PDB, initial_model_type: experimental model

5zji

chain_id: J, source_name: PDB, initial_model_type: experimental model

5zji

chain_id: K, source_name: PDB, initial_model_type: experimental model

5zji

chain_id: L, source_name: PDB, initial_model_type: experimental model

5zji

chain_id: O, source_name: PDB, initial_model_type: experimental model

7d0j

chain_id: Q, source_name: PDB, initial_model_type: experimental model

7d0j

chain_id: P, source_name: PDB, initial_model_type: experimental model
DetailsInitial local fitting was done using Chimera and then Wincoot was usd for flexible fitting
RefinementSpace: REAL / Protocol: RIGID BODY FIT / Overall B value: 110.967 / Target criteria: Correlation coefficient
Output model

PDB-7yca:
Cryo-EM structure of the PSI-LHCI-Lhcp supercomplex from Ostreococcus tauri

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