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- EMDB-11588: Structure of low-light grown Chlorella ohadii Photosystem I -

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Basic information

Entry
Database: EMDB / ID: EMD-11588
TitleStructure of low-light grown Chlorella ohadii Photosystem I
Map data
Sample
  • Complex: Photosystem I
    • Protein or peptide: x 23 types
  • Ligand: x 31 types
Function / homology
Function and homology information


malate transport / oxidoreductase activity, acting on a sulfur group of donors, NAD(P) as acceptor / chloroplast thylakoid lumen / photosynthesis, light harvesting / photosystem I reaction center / photosystem I / photosynthetic electron transport in photosystem I / photosystem I / photosystem II / acyltransferase activity, transferring groups other than amino-acyl groups ...malate transport / oxidoreductase activity, acting on a sulfur group of donors, NAD(P) as acceptor / chloroplast thylakoid lumen / photosynthesis, light harvesting / photosystem I reaction center / photosystem I / photosynthetic electron transport in photosystem I / photosystem I / photosystem II / acyltransferase activity, transferring groups other than amino-acyl groups / chlorophyll binding / chloroplast thylakoid membrane / oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen / photosynthesis / cell redox homeostasis / monooxygenase activity / flavin adenine dinucleotide binding / 4 iron, 4 sulfur cluster binding / electron transfer activity / membrane => GO:0016020 / protein kinase activity / iron ion binding / protein phosphorylation / heme binding / magnesium ion binding / ATP binding / membrane / metal ion binding
Similarity search - Function
Protein of unknown function DUF3067 / Domain of unknown function (DUF3067) / Aluminum-activated malate transporter / Aluminium activated malate transporter / Photosystem I PsaO / 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 ...Protein of unknown function DUF3067 / Domain of unknown function (DUF3067) / Aluminum-activated malate transporter / Aluminium activated malate transporter / Photosystem I PsaO / 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 reaction centre subunit PsaK superfamily / 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 / Photosystem I PsaJ, reaction centre subunit IX / Photosystem I PsaD / Photosystem I PsaJ, reaction centre subunit IX superfamily / Photosystem I, reaction centre subunit PsaD superfamily / Photosystem I reaction centre subunit IX / PsaJ / PsaD / Chlorophyll A-B binding protein, plant and chromista / Photosystem I PsaE, reaction centre subunit IV / Photosystem I reaction centre subunit IV / PsaE / Chlorophyll A-B binding protein / Chlorophyll A-B binding protein / Photosystem I protein PsaC / Photosystem I PsaA / 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 / Pyridine nucleotide-disulphide oxidoreductase, class I, active site / Pyridine nucleotide-disulphide oxidoreductases class-I active site. / Electron transport accessory-like domain superfamily / Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain / Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain / FAD/NAD-linked reductase, dimerisation domain superfamily / Acetyltransferase (GNAT) family / FAD/NAD(P)-binding domain / Pyridine nucleotide-disulphide oxidoreductase / Gcn5-related N-acetyltransferase (GNAT) domain profile. / 4Fe-4S dicluster domain / GNAT domain / 4Fe-4S ferredoxin, iron-sulphur binding, conserved site / 4Fe-4S ferredoxin-type iron-sulfur binding region signature. / Acyl-CoA N-acyltransferase / 4Fe-4S ferredoxin-type iron-sulfur binding domain profile. / 4Fe-4S ferredoxin-type, iron-sulphur binding domain / Cytochrome P450 / Cytochrome P450 superfamily / Cytochrome P450 / Leucine-rich repeat domain superfamily / FAD/NAD(P)-binding domain superfamily / Serine/threonine-protein kinase, active site / Serine/Threonine protein kinases active-site signature. / Serine/Threonine protein kinases, catalytic domain / Protein kinase, ATP binding site / Protein kinases ATP-binding region signature. / Protein kinase domain profile. / Protein kinase domain / Protein kinase-like domain superfamily
Similarity search - Domain/homology
PSI subunit V / Photosystem I subunit O / Photosystem I reaction center subunit chloroplastic / Chlorophyll a-b binding protein, chloroplastic / Glutathione reductase / Chlorophyll a-b binding protein, chloroplastic / Chlorophyll a-b binding protein, chloroplastic / Photosystem I reaction center subunit VI-chloroplastic-like / Photosystem I reaction center subunit III / Chlorophyll a-b binding protein, chloroplastic ...PSI subunit V / Photosystem I subunit O / Photosystem I reaction center subunit chloroplastic / Chlorophyll a-b binding protein, chloroplastic / Glutathione reductase / Chlorophyll a-b binding protein, chloroplastic / Chlorophyll a-b binding protein, chloroplastic / Photosystem I reaction center subunit VI-chloroplastic-like / Photosystem I reaction center subunit III / Chlorophyll a-b binding protein, chloroplastic / Chlorophyll a-b binding protein, chloroplastic / PSI-G / PSI-K / Chlorophyll a-b binding protein, chloroplastic / Photosystem I reaction center subunit IV / Photosystem I reaction center subunit VIII / Photosystem I iron-sulfur center / Photosystem I reaction center subunit XII / Photosystem I P700 chlorophyll a apoprotein A2 / Photosystem I reaction center subunit IX / Photosystem I P700 chlorophyll a apoprotein A1
Similarity search - Component
Biological speciesChlorella ohadii (plant) / Freshwater green alga (plant)
Methodsingle particle reconstruction / cryo EM / Resolution: 2.7 Å
AuthorsCaspy I / Nelson N / Nechushtai R / Neumann E / Shkolnisky Y
Funding support Israel, 2 items
OrganizationGrant numberCountry
Israel Science Foundation569/17 Israel
German-Israeli Foundation for Research and DevelopmentG-1483-207/2018 Israel
CitationJournal: Nat Plants / Year: 2021
Title: Cryo-EM photosystem I structure reveals adaptation mechanisms to extreme high light in Chlorella ohadii.
Authors: Ido Caspy / Ehud Neumann / Maria Fadeeva / Varda Liveanu / Anton Savitsky / Anna Frank / Yael Levi Kalisman / Yoel Shkolnisky / Omer Murik / Haim Treves / Volker Hartmann / Marc M Nowaczyk / ...Authors: Ido Caspy / Ehud Neumann / Maria Fadeeva / Varda Liveanu / Anton Savitsky / Anna Frank / Yael Levi Kalisman / Yoel Shkolnisky / Omer Murik / Haim Treves / Volker Hartmann / Marc M Nowaczyk / Wolfgang Schuhmann / Matthias Rögner / Itamar Willner / Aaron Kaplan / Gadi Schuster / Nathan Nelson / Wolfgang Lubitz / Rachel Nechushtai /
Abstract: Photosynthesis in deserts is challenging since it requires fast adaptation to rapid night-to-day changes, that is, from dawn's low light (LL) to extreme high light (HL) intensities during the daytime. ...Photosynthesis in deserts is challenging since it requires fast adaptation to rapid night-to-day changes, that is, from dawn's low light (LL) to extreme high light (HL) intensities during the daytime. To understand these adaptation mechanisms, we purified photosystem I (PSI) from Chlorella ohadii, a green alga that was isolated from a desert soil crust, and identified the essential functional and structural changes that enable the photosystem to perform photosynthesis under extreme high light conditions. The cryo-electron microscopy structures of PSI from cells grown under low light (PSI) and high light (PSI), obtained at 2.70 and 2.71 Å, respectively, show that part of light-harvesting antenna complex I (LHCI) and the core complex subunit (PsaO) are eliminated from PSI to minimize the photodamage. An additional change is in the pigment composition and their number in LHCI; about 50% of chlorophyll b is replaced by chlorophyll a. This leads to higher electron transfer rates in PSI and might enable C. ohadii PSI to act as a natural photosynthesiser in photobiocatalytic systems. PSI or PSI were attached to an electrode and their induced photocurrent was determined. To obtain photocurrents comparable with PSI, 25 times the amount of PSI was required, demonstrating the high efficiency of PSI. Hence, we suggest that C. ohadii PSI is an ideal candidate for the design of desert artificial photobiocatalytic systems.
History
DepositionAug 5, 2020-
Header (metadata) releaseJul 28, 2021-
Map releaseJul 28, 2021-
UpdateSep 29, 2021-
Current statusSep 29, 2021Processing site: PDBe / Status: Released

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Structure visualization

Movie
  • Surface view with section colored by density value
  • Surface level: 0.015
  • Imaged by UCSF Chimera
  • Download
  • Surface view colored by height
  • Surface level: 0.015
  • Imaged by UCSF Chimera
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  • Surface view with fitted model
  • Atomic models: PDB-6zzx
  • Surface level: 0.015
  • Imaged by UCSF Chimera
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Movie viewer
Structure viewerEM map:
SurfViewMolmilJmol/JSmol
Supplemental images

emd_11588.png

Downloads & links

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Map

FileDownload / File: emd_11588.map.gz / Format: CCP4 / Size: 421.9 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
Voxel sizeX=Y=Z: 0.822 Å
Density
Contour LevelBy AUTHOR: 0.0112 / Movie #1: 0.015
Minimum - Maximum-0.046150174 - 0.09148993
Average (Standard dev.)0.00014379842 (±0.0034149487)
SymmetrySpace group: 1
Details

EMDB XML:

Map geometry
Axis orderXYZ
Origin000
Dimensions480480480
Spacing480480480
CellA=B=C: 394.56 Å
α=β=γ: 90.0 °

CCP4 map header:

modeImage stored as Reals
Å/pix. X/Y/Z0.8220.8220.822
M x/y/z480480480
origin x/y/z0.0000.0000.000
length x/y/z394.560394.560394.560
α/β/γ90.00090.00090.000
MAP C/R/S123
start NC/NR/NS000
NC/NR/NS480480480
D min/max/mean-0.0460.0910.000

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Supplemental data

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Half map: #2

Fileemd_11588_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_11588_half_map_2.map
Projections & Slices
AxesZYX

Projections

Slices (1/2)
Density Histograms

Histogram

Histogram (log scale)

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Sample components

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Entire : Photosystem I

EntireName: Photosystem I
Components
  • Complex: Photosystem I
    • 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 chloroplastic
    • Protein or peptide: Photosystem I reaction center subunit IV
    • Protein or peptide: PSI-F
    • Protein or peptide: Photosystem I reaction center subunit chloroplastic
    • Protein or peptide: Photosystem I reaction center subunit VI-chloroplastic-like
    • Protein or peptide: Photosystem I reaction center subunit IX
    • Protein or peptide: Photosystem I reaction center subunit chloroplastic
    • Protein or peptide: Photosystem I reaction center subunit XI
    • Protein or peptide: Photosystem I reaction center subunit XII
    • Protein or peptide: Photosystem I reaction center subunit VIII
    • Protein or peptide: Photosystem I subunit O
    • Protein or peptide: Chlorophyll a-b binding protein, chloroplastic
    • Protein or peptide: Glutathione reductase
    • Protein or peptide: Lhca4
    • Protein or peptide: Chlorophyll a-b binding protein, chloroplastic
    • Protein or peptide: Chlorophyll a-b binding protein, chloroplastic
    • Protein or peptide: Lhca7
    • 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
  • Ligand: CHLOROPHYLL A ISOMER
  • Ligand: CHLOROPHYLL A
  • Ligand: CHLOROPHYLL B
  • Ligand: PHYLLOQUINONEPhytomenadione
  • Ligand: IRON/SULFUR CLUSTERIron–sulfur cluster
  • Ligand: BETA-CAROTENEΒ-Carotene
  • Ligand: 1,2-DIPALMITOYL-PHOSPHATIDYL-GLYCEROLE
  • Ligand: 1,2-DISTEAROYL-MONOGALACTOSYL-DIGLYCERIDE
  • Ligand: 1,2-DI-O-ACYL-3-O-[6-DEOXY-6-SULFO-ALPHA-D-GLUCOPYRANOSYL]-SN-GLYCEROL
  • Ligand: PHOSPHATIDYLETHANOLAMINE
  • Ligand: 1,2-DIACYL-GLYCEROL-3-SN-PHOSPHATE
  • Ligand: DODECYL-BETA-D-MALTOSIDE
  • Ligand: DIGALACTOSYL DIACYL GLYCEROL (DGDG)
  • Ligand: 1,2-DIOLEOYL-SN-GLYCERO-3-PHOSPHOCHOLINE
  • Ligand: (2S)-3-{[(R)-(2-aminoethoxy)(hydroxy)phosphoryl]oxy}-2-hydroxypropyl hexadecanoate
  • 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: (3R)-beta,beta-caroten-3-ol
  • Ligand: SPHINGOSINE
  • Ligand: beta,beta-caroten-4-one
  • Ligand: (3R,3'R,6S)-4,5-DIDEHYDRO-5,6-DIHYDRO-BETA,BETA-CAROTENE-3,3'-DIOL
  • Ligand: ASTAXANTHIN
  • Ligand: OLEIC ACID
  • Ligand: (3~{E},5~{E},7~{E})-6-methyl-8-[(6~{R})-2,2,6-trimethylcyclohexyl]octa-3,5,7-trien-2-one
  • Ligand: PALMITIC ACID
  • Ligand: DIACYL GLYCEROLDiglyceride
  • Ligand: benzene-1,3,5-triol
  • 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: Tripalmitoylglycerol
  • Ligand: O-[(R)-{[(2R)-2,3-bis(octadecanoyloxy)propyl]oxy}(hydroxy)phosphoryl]-L-serine
  • Ligand: [2-((1-OXODODECANOXY-(2-HYDROXY-3-PROPANYL))-PHOSPHONATE-OXY)-ETHYL]-TRIMETHYLAMMONIUM
  • Ligand: water

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Supramolecule #1: Photosystem I

SupramoleculeName: Photosystem I / type: complex / ID: 1 / Parent: 0 / Macromolecule list: #1-#23
Source (natural)Organism: Chlorella ohadii (plant)
Molecular weightTheoretical: 1 MDa

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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: Freshwater green alga (plant)
Molecular weightTheoretical: 82.125898 KDa
SequenceString: KKVKIVVDRN PVATNFEKWA KPGHFSRTLS KGPTTTTWIW NLHADAHDFD TQTSDLEEIS RKVFSAHFGQ LGIIFIWLSG MYFHGARFS NYEAWLTDPT HIKPSAQVVW PIVGQEILNA DVGGGFQGLQ ITSGFFQLWR AAGITSELQL YTTAIGALVM A AAMFFAGW ...String:
KKVKIVVDRN PVATNFEKWA KPGHFSRTLS KGPTTTTWIW NLHADAHDFD TQTSDLEEIS RKVFSAHFGQ LGIIFIWLSG MYFHGARFS NYEAWLTDPT HIKPSAQVVW PIVGQEILNA DVGGGFQGLQ ITSGFFQLWR AAGITSELQL YTTAIGALVM A AAMFFAGW FHYHKAAPKL EWFQNVESML NHHLGGLLGL GSLAWAGHQI HVSLPINKLL DAGVDPKEIP LPHEFTLNPE LM AQLYPSF SKGLAPFFTL DWAQYSDFLT FQGGLNPVTG GLWLTDTVHH HLAIAVLFLI AGHQYRTNWG IGSSLKEILE AHK GPFTGE GHKGLYEILT TSWHAQLAIN LALFGSLSII VAHHMYAMPP YPYLATDYGT QLSLFTHHMW IGGFCIVGAG AHAA IFMVR DYDPTNNYNN LLDRVLRHRD AIISHLNWVC IFLGFHSFGL YIHNDTMSAL GRPQDMFSDT AIQLQPVFAQ WVQNT HFLA PGFTAPNALA STSPSWGGDV VAVGGKVAMM PISLGTADFL VHHIHAFTIH VTVLILLKGV LYARSSRLIP DKANLG FRF PCDGPGRGGT CQVSAWDHVF LGLFWMYNSI SIVIFHFSWK MQSDVWGTVS ANGVSHITGG NFAQSANTIN GWLRDFL WA QSSQVIQSYG SALSAYGLIF LGAHFVWAFS LMFLFSGRGY WQELIESIVW AHNKLKVAPA IQPRALSITQ GRAVGVAH Y LLGGIATTWS FFLARILAVG

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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: Freshwater green alga (plant)
Molecular weightTheoretical: 81.544633 KDa
SequenceString: KLFPKFSQAL AQDPTTRRIW FGIATAHDFE SHDGMTEERL YQKIFASHFG QLAIIFLWTS GNLFHVAWQG NFEQWVQDPL HIRPIAHAI WDPHFGQPAV EAFTRGGASG PVNISTSGVY QWWYTIGLRT NQELYTGSIF LLVLAALFLF AGWLHLQPAF Q PALSWFKN ...String:
KLFPKFSQAL AQDPTTRRIW FGIATAHDFE SHDGMTEERL YQKIFASHFG QLAIIFLWTS GNLFHVAWQG NFEQWVQDPL HIRPIAHAI WDPHFGQPAV EAFTRGGASG PVNISTSGVY QWWYTIGLRT NQELYTGSIF LLVLAALFLF AGWLHLQPAF Q PALSWFKN AESRLNHHLA GLFGVSSLAW TGHLVHVAIP ESRGQHVGWD NFLTVLPHPA GLTPFFTGNW AAYAENPDSA SH VFNTAQG SGTAILTFLG GFHPQTQSLW LTDMAHHHLA IAVIFILAGH MYRTIFGIGH SMREILEAQT PPSGSLGAGH KGL YDTVNN SLHFQLGLAL ASVGTISSLV AQHMYSLPPY AFLAQDFTTQ AALYTHHQYI AGFIMCGAFA HGAIFFVRDY DPAQ NRGNV LARILDHKEA LISHLSWASL FLGFHTLGLY VHNDVVQAFG TPEKQILIEP VFAQWIQAAH GKTAYGFDFL LSSAT SAPS LAGQALWLPG WLQGINSDAN SLFLTIGPGD FLVHHAIALG LHTTTLILVK GALDARGSKL MPDKKDFGYS FPCDGP GRG GTCDISAWDA FYLAVFWMLN TIGWVTFYWH WKHLGIWQGN VNQFNESSTY LMGWLRDYLW LNSSQLINGY NPFGMNS LS VWAWMFLFGH LIYATGFMFL ISWRGYWQEL IETLAWAHER TPLANLVRWR DKPVALSIVQ ARLVGLTHFS VGYVLTYA A FLIASTSGKF

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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: Freshwater green alga (plant)
Molecular weightTheoretical: 8.723009 KDa
SequenceString:
SHTVKIYDTC IGCTQCVRAC PTDVLEMVPW DGCKANQIAS APRTEDCVGC KRCESACPTD FLSVRVYLGS ETTRSMGLAY

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Macromolecule #4: Photosystem I reaction center subunit chloroplastic

MacromoleculeName: Photosystem I reaction center subunit chloroplastic / type: protein_or_peptide / ID: 4 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Freshwater green alga (plant)
Molecular weightTheoretical: 15.958232 KDa
SequenceString:
AFTPPTLQSD TPSPIFGGST GGLLSQAQVE EFHVITWESK KEQIFEMPTG GAAIMRQGPN LLKLARKEQC LALLTQLRTK FKIDGYIYR VFPNGEVQYL HPKDGVYPEK VNAGRSGDNT NMRRIGQNKE PVQIKFSGKI PAEF

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Macromolecule #5: Photosystem I reaction center subunit IV

MacromoleculeName: Photosystem I reaction center subunit IV / type: protein_or_peptide / ID: 5 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Freshwater green alga (plant)
Molecular weightTheoretical: 7.194105 KDa
SequenceString:
PDVGPKRGTQ VRILRPESYW FRETGKVVSV DQSGIRYPVV VRFEKVNYAG VSTNNYALDE VVAA

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Macromolecule #6: PSI-F

MacromoleculeName: PSI-F / type: protein_or_peptide / ID: 6 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Freshwater green alga (plant)
Molecular weightTheoretical: 18.069887 KDa
SequenceString:
DVAGLTPCSE SKAFAKRKKN EVKALNKRLK NYEADSAPAL ALKATIARTE ARFDKYAKQG LLCGTDGLPH LIADPGLALR YGHAGDVFI PTIGFIYFAG WLGYAGSKYL QAVAATAKPI EKEIIIDVPL AWKLLWEGFG WPLRAFAEYK NGSLMEDDAK I TVSPR

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Macromolecule #7: Photosystem I reaction center subunit chloroplastic

MacromoleculeName: Photosystem I reaction center subunit chloroplastic / type: protein_or_peptide / ID: 7 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Freshwater green alga (plant)
Molecular weightTheoretical: 10.326872 KDa
SequenceString:
LADVNLVVGG CTVGALALGR FVFLPFHRAS LAKAGMPKQN GMTHLQAGDA RAEEASFILK TNDPAGFTVV DVMAWGALGH AAAFYILAT SSLGLDRNPF

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Macromolecule #8: Photosystem I reaction center subunit VI-chloroplastic-like

MacromoleculeName: Photosystem I reaction center subunit VI-chloroplastic-like
type: protein_or_peptide / ID: 8 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Freshwater green alga (plant)
Molecular weightTheoretical: 10.319479 KDa
SequenceString:
KYGEESRYFD LKDLENTVGS WDMYGQEDKS RYNGLQSEFF ERAANGLSRR EYILGLVAIG GAGILAWGGK GAADVRLPTV GPQQPAQVG PRGRL

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Macromolecule #9: Photosystem I reaction center subunit IX

MacromoleculeName: Photosystem I reaction center subunit IX / type: protein_or_peptide / ID: 9 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Freshwater green alga (plant)
Molecular weightTheoretical: 4.475292 KDa
SequenceString:
MKDFTTYLST APVLTLLSVT VVAGLLIEIN RFFPDALIAA F

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Macromolecule #10: Photosystem I reaction center subunit chloroplastic

MacromoleculeName: Photosystem I reaction center subunit chloroplastic / type: protein_or_peptide / ID: 10 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Freshwater green alga (plant)
Molecular weightTheoretical: 8.725087 KDa
SequenceString:
YLGSTTNQIM VLSTFLPLVA GRFGLAPTST RHTNQSGIKL LPAEKSAGLV SNDPAGFNAV DVLALGALGH ILGCGIVLGL KSTGNL

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Macromolecule #11: Photosystem I reaction center subunit XI

MacromoleculeName: Photosystem I reaction center subunit XI / type: protein_or_peptide / ID: 11 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Freshwater green alga (plant)
Molecular weightTheoretical: 16.501025 KDa
SequenceString:
KVQVVQPVNG DPFIGMLETP VTSSPAIAWY LSNLPAYRTG VSPLLRGVEI GLAHGYLLVG PFIKLGPLRD VENVAEIVGC INGAATVLI LTLCLAYGAV TFQGEGPQVG VKTLSGRSIP RDPLQSADGW NKFTAGFAVG GLSGAAWGYL CTQILPYY

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Macromolecule #12: Photosystem I reaction center subunit XII

MacromoleculeName: Photosystem I reaction center subunit XII / type: protein_or_peptide / ID: 12 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Freshwater green alga (plant)
Molecular weightTheoretical: 3.37606 KDa
SequenceString:
MPIADYQVFT ALFLALATGI FAVRLGVALY K

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Macromolecule #13: Photosystem I reaction center subunit VIII

MacromoleculeName: Photosystem I reaction center subunit VIII / type: protein_or_peptide / ID: 13 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Freshwater green alga (plant)
Molecular weightTheoretical: 3.856674 KDa
SequenceString:
MSAQFLPSIL VPLVGLVFPA VAMASMFLYI EKEEI

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Macromolecule #14: Photosystem I subunit O

MacromoleculeName: Photosystem I subunit O / type: protein_or_peptide / ID: 14 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Freshwater green alga (plant)
Molecular weightTheoretical: 9.547967 KDa
SequenceString:
WGAYEEPLSL VAGFLGWFAP SNIKVPAFGN ESLFGAFHAS MLENLANFPQ GPALTDKFWI LMITWHLGLF LALTLGNIGQ AARKQGY

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Macromolecule #15: Chlorophyll a-b binding protein, chloroplastic

MacromoleculeName: Chlorophyll a-b binding protein, chloroplastic / type: protein_or_peptide / ID: 15 / Number of copies: 2 / Enantiomer: LEVO
Source (natural)Organism: Freshwater green alga (plant)
Molecular weightTheoretical: 19.933604 KDa
SequenceString: KAGNWLPGSE TPAYLENLPA SYGFDPLGLA AEPASLARFR ESEVFHGRWA MLGAAGVLGV EVLGYGNWYD APLPLVQGGQ ATYFGASVP FDLGTLAAIE FAAMAGAESF RGAAEPEKRV YPGGAFDPMG MSKGNSKELK TKEIKNGRLA MLACLGFAAQ H AATGASPL ...String:
KAGNWLPGSE TPAYLENLPA SYGFDPLGLA AEPASLARFR ESEVFHGRWA MLGAAGVLGV EVLGYGNWYD APLPLVQGGQ ATYFGASVP FDLGTLAAIE FAAMAGAESF RGAAEPEKRV YPGGAFDPMG MSKGNSKELK TKEIKNGRLA MLACLGFAAQ H AATGASPL EALASHLANP MAVNFATNGV SLPL

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Macromolecule #16: Glutathione reductase

MacromoleculeName: Glutathione reductase / type: protein_or_peptide / ID: 16 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Freshwater green alga (plant)
Molecular weightTheoretical: 26.163904 KDa
SequenceString: EGADLAKVER VAKVGGLYKN FTSGQALSYL DGTLPGDFGF DPLGLCDPEG AGGFITPEWL SYSEVIHCRW AMLGAAGFLA PEILATAGL IPATPEEAVW FRSGVIPPAG QYGKYWMDPY SLFWIEAILM NFAELKRWQD FKEPGSQSKQ YFLGLEAVFG G SGNPAYPG ...String:
EGADLAKVER VAKVGGLYKN FTSGQALSYL DGTLPGDFGF DPLGLCDPEG AGGFITPEWL SYSEVIHCRW AMLGAAGFLA PEILATAGL IPATPEEAVW FRSGVIPPAG QYGKYWMDPY SLFWIEAILM NFAELKRWQD FKEPGSQSKQ YFLGLEAVFG G SGNPAYPG GQWFNMLNLG KTPEEMKKLQ TNEIRNGRLA MIACLGCAAQ GVMTQKGPFA NLLEHLADPV SNNLLGNLAT IL K

+
Macromolecule #17: Lhca4

MacromoleculeName: Lhca4 / type: protein_or_peptide / ID: 17 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Freshwater green alga (plant)
Molecular weightTheoretical: 23.010994 KDa
SequenceString: AGWDLSAEVP AHLAGRKDLA GNYGFDPLNL GKNPEALKWY QQAELQNGRW AMLGVAGILV QELLHSTGLG GKAADVYWFD AGNNTFWAP KETLIAISFL MFNWAELNRM QDYIKPGSNV TDPFGNKIKY VELGYPGFDP LSFSKNNFDE WKLKEIKNAR L AMLAFLGI ...String:
AGWDLSAEVP AHLAGRKDLA GNYGFDPLNL GKNPEALKWY QQAELQNGRW AMLGVAGILV QELLHSTGLG GKAADVYWFD AGNNTFWAP KETLIAISFL MFNWAELNRM QDYIKPGSNV TDPFGNKIKY VELGYPGFDP LSFSKNNFDE WKLKEIKNAR L AMLAFLGI VAQHNAQPGS PLEQLGAHLA NPWKNHFINN GVSPFLTDN

+
Macromolecule #18: Chlorophyll a-b binding protein, chloroplastic

MacromoleculeName: Chlorophyll a-b binding protein, chloroplastic / type: protein_or_peptide / ID: 18 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Freshwater green alga (plant)
Molecular weightTheoretical: 25.371012 KDa
SequenceString: QRKLWFPGVA APGYLDGSMA GDRGFDPMGL GANPKMMTWY RQAELQNGRW AMLGVAGILG QEIINPAQWW YTAGMPENLP RFDSQPVNM GGILAWEFIL MHFVEVRRWQ DIRKKDSVNA DPFNPNLKVP NPELGYPGGP FDPLGFSKGN FKEAQTKEIK N GRLAMVAF ...String:
QRKLWFPGVA APGYLDGSMA GDRGFDPMGL GANPKMMTWY RQAELQNGRW AMLGVAGILG QEIINPAQWW YTAGMPENLP RFDSQPVNM GGILAWEFIL MHFVEVRRWQ DIRKKDSVNA DPFNPNLKVP NPELGYPGGP FDPLGFSKGN FKEAQTKEIK N GRLAMVAF AAFTIQAQAT GKGPLQNLTD HLSAPFSNNW TTNIGHCMVP TSVDVQGLTI PLSCLWPGQQ M

+
Macromolecule #19: Chlorophyll a-b binding protein, chloroplastic

MacromoleculeName: Chlorophyll a-b binding protein, chloroplastic / type: protein_or_peptide / ID: 19 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Freshwater green alga (plant)
Molecular weightTheoretical: 25.31624 KDa
SequenceString: ARANWLPGSD FPAHLENCKL PGCYGFDPLG LGANEERLAW FAESERVHCR WAMLGVAGIL VQEIVKPDVF WYTSGATVEL PFDITGLLA FELFVMHWVE SRRGYDIKKP GSMDQDPIFS NFKLPAHEPG YPGGIFAPFV PGSLEELKVK EIKNGRLAML A FIGFTMAA ...String:
ARANWLPGSD FPAHLENCKL PGCYGFDPLG LGANEERLAW FAESERVHCR WAMLGVAGIL VQEIVKPDVF WYTSGATVEL PFDITGLLA FELFVMHWVE SRRGYDIKKP GSMDQDPIFS NFKLPAHEPG YPGGIFAPFV PGSLEELKVK EIKNGRLAML A FIGFTMAA QVTGKNPLAA LREHLDNPLG TTIFSKAVVV PGQAVVPPCA IPDTIEFQGI TIPAGCFLHS LWP

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Macromolecule #20: Lhca7

MacromoleculeName: Lhca7 / type: protein_or_peptide / ID: 20 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Freshwater green alga (plant)
Molecular weightTheoretical: 24.016156 KDa
SequenceString: VRELWFPGNK EVVPDYLDGS LVGDHGFDPL GLGSSPEQLS WNVHAEIFHG RLAMTGVAGI LLTSLLHKGG ADVPEWFEAG RVYLDRNPN VDFGALLFST IVMSGFVEFK RLNDIRNPGS QGSGILPEDF KGVGGPQGRT VGGPYVGGRY FDPMGLCRGS P EQTLKYKW ...String:
VRELWFPGNK EVVPDYLDGS LVGDHGFDPL GLGSSPEQLS WNVHAEIFHG RLAMTGVAGI LLTSLLHKGG ADVPEWFEAG RVYLDRNPN VDFGALLFST IVMSGFVEFK RLNDIRNPGS QGSGILPEDF KGVGGPQGRT VGGPYVGGRY FDPMGLCRGS P EQTLKYKW NEIRNGRLAM MAFLGFAAQY AATGKGPIDN LVDHVADPFH TTFVHNGVSV PFI

+
Macromolecule #21: Chlorophyll a-b binding protein, chloroplastic

MacromoleculeName: Chlorophyll a-b binding protein, chloroplastic / type: protein_or_peptide / ID: 21 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Freshwater green alga (plant)
Molecular weightTheoretical: 23.612713 KDa
SequenceString: ATRPLWQPGV EAPKHLDGTM PGDFGFDPLN LGVNKEALNW YRNAELQNGR WAMLGVAGIV IPAELTRVGV LNVPEWAEAG KVYAESENA IPFASLLMVQ LFLFNFVEIK RWEDIKKPGS QAEPGSFLGF ESGFKGTGIS GYPGGAFNPF GLGNSSKEAM D DLKWREIR ...String:
ATRPLWQPGV EAPKHLDGTM PGDFGFDPLN LGVNKEALNW YRNAELQNGR WAMLGVAGIV IPAELTRVGV LNVPEWAEAG KVYAESENA IPFASLLMVQ LFLFNFVEIK RWEDIKKPGS QAEPGSFLGF ESGFKGTGIS GYPGGAFNPF GLGNSSKEAM D DLKWREIR NGRLAMVAFL GFLSQHAATG KGPLDNLADH LADPWGANFC SNGVSIPSAL G

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

MacromoleculeName: Chlorophyll a-b binding protein, chloroplastic / type: protein_or_peptide / ID: 22 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Freshwater green alga (plant)
Molecular weightTheoretical: 23.618 KDa
SequenceString: RPTWYPGATP PKYLDGTMLG DYGFDPLRLG SKDKDVLKYY REGELTNGRW AMAAVAGILF TDLVGLGPWW EAGAKVESSF DLKTLIIIE VVTFAILEGF RVKAYEKTGE TGLGPFAPFD PLNMRSDETR LKELKNGRLA MLAFLGFSSQ AAVQGKGPIE C LQAHLADP ...String:
RPTWYPGATP PKYLDGTMLG DYGFDPLRLG SKDKDVLKYY REGELTNGRW AMAAVAGILF TDLVGLGPWW EAGAKVESSF DLKTLIIIE VVTFAILEGF RVKAYEKTGE TGLGPFAPFD PLNMRSDETR LKELKNGRLA MLAFLGFSSQ AAVQGKGPIE C LQAHLADP GHNNIFTSSV GNEALAAVLV LSITPCLIEA KNRLQGTDEE EFRPLPW

+
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: Freshwater green alga (plant)
Molecular weightTheoretical: 19.911742 KDa
SequenceString:
RTLWLPGIQA PKHLDGKLAG DYGFDPLGLG VDSDRLKWYA EAEKTNGRWA MAAVAGILFT EILGKAKWFE AGAQEYWMDN GPLLAVEAV IMGFLELKRF QGWKETGTSG FLNAFPFDPA GMNSPSMATK EVKNGRLAMT AFVGFAVQAL LTRQGPIEAL Q SHLSSPFT NNFVGSINNL PNVIG

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Macromolecule #24: CHLOROPHYLL A ISOMER

MacromoleculeName: CHLOROPHYLL A ISOMER / type: ligand / ID: 24 / Number of copies: 1 / Formula: CL0
Molecular weightTheoretical: 893.489 Da
Chemical component information

ChemComp-CL0:
CHLOROPHYLL A ISOMER / Chlorophyll a

+
Macromolecule #25: CHLOROPHYLL A

MacromoleculeName: CHLOROPHYLL A / type: ligand / ID: 25 / Number of copies: 208 / Formula: CLA
Molecular weightTheoretical: 893.489 Da
Chemical component information

ChemComp-CLA:
CHLOROPHYLL A / Chlorophyll a

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Macromolecule #26: CHLOROPHYLL B

MacromoleculeName: CHLOROPHYLL B / type: ligand / ID: 26 / Number of copies: 47 / Formula: CHL
Molecular weightTheoretical: 907.472 Da
Chemical component information

ChemComp-CHL:
CHLOROPHYLL B / Chlorophyll b

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Macromolecule #27: PHYLLOQUINONE

MacromoleculeName: PHYLLOQUINONE / type: ligand / ID: 27 / Number of copies: 2 / Formula: PQN
Molecular weightTheoretical: 450.696 Da
Chemical component information

ChemComp-PQN:
PHYLLOQUINONE / Phytomenadione

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Macromolecule #28: IRON/SULFUR CLUSTER

MacromoleculeName: IRON/SULFUR CLUSTER / type: ligand / ID: 28 / Number of copies: 3 / Formula: SF4
Molecular weightTheoretical: 351.64 Da
Chemical component information

ChemComp-FS1:
IRON/SULFUR CLUSTER / Iron–sulfur cluster

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Macromolecule #29: BETA-CAROTENE

MacromoleculeName: BETA-CAROTENE / type: ligand / ID: 29 / Number of copies: 32 / Formula: BCR
Molecular weightTheoretical: 536.873 Da
Chemical component information

ChemComp-BCR:
BETA-CAROTENE / Β-Carotene

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Macromolecule #30: 1,2-DIPALMITOYL-PHOSPHATIDYL-GLYCEROLE

MacromoleculeName: 1,2-DIPALMITOYL-PHOSPHATIDYL-GLYCEROLE / type: ligand / ID: 30 / Number of copies: 24 / Formula: LHG
Molecular weightTheoretical: 722.97 Da
Chemical component information

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

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

MacromoleculeName: 1,2-DISTEAROYL-MONOGALACTOSYL-DIGLYCERIDE / type: ligand / ID: 31 / Number of copies: 1 / 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: 5 / 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 #33: PHOSPHATIDYLETHANOLAMINE

MacromoleculeName: PHOSPHATIDYLETHANOLAMINE / type: ligand / ID: 33 / Number of copies: 11 / Formula: PTY
Molecular weightTheoretical: 734.039 Da
Chemical component information

ChemComp-PTY:
PHOSPHATIDYLETHANOLAMINE / phospholipid*YM / Phosphatidylethanolamine

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Macromolecule #34: 1,2-DIACYL-GLYCEROL-3-SN-PHOSPHATE

MacromoleculeName: 1,2-DIACYL-GLYCEROL-3-SN-PHOSPHATE / type: ligand / ID: 34 / Number of copies: 1 / Formula: 3PH
Molecular weightTheoretical: 704.998 Da
Chemical component information

ChemComp-3PH:
1,2-DIACYL-GLYCEROL-3-SN-PHOSPHATE / Phosphatidic acid

+
Macromolecule #35: DODECYL-BETA-D-MALTOSIDE

MacromoleculeName: DODECYL-BETA-D-MALTOSIDE / type: ligand / ID: 35 / Number of copies: 4 / Formula: LMT
Molecular weightTheoretical: 510.615 Da
Chemical component information

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

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Macromolecule #36: DIGALACTOSYL DIACYL GLYCEROL (DGDG)

MacromoleculeName: DIGALACTOSYL DIACYL GLYCEROL (DGDG) / type: ligand / ID: 36 / Number of copies: 4 / Formula: DGD
Molecular weightTheoretical: 949.299 Da
Chemical component information

ChemComp-DGD:
DIGALACTOSYL DIACYL GLYCEROL (DGDG)

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Macromolecule #37: 1,2-DIOLEOYL-SN-GLYCERO-3-PHOSPHOCHOLINE

MacromoleculeName: 1,2-DIOLEOYL-SN-GLYCERO-3-PHOSPHOCHOLINE / type: ligand / ID: 37 / Number of copies: 4 / Formula: PCW
Molecular weightTheoretical: 787.121 Da
Chemical component information

ChemComp-PCW:
1,2-DIOLEOYL-SN-GLYCERO-3-PHOSPHOCHOLINE / DOPC, phospholipid*YM

+
Macromolecule #38: (2S)-3-{[(R)-(2-aminoethoxy)(hydroxy)phosphoryl]oxy}-2-hydroxypro...

MacromoleculeName: (2S)-3-{[(R)-(2-aminoethoxy)(hydroxy)phosphoryl]oxy}-2-hydroxypropyl hexadecanoate
type: ligand / ID: 38 / Number of copies: 1 / Formula: LPX
Molecular weightTheoretical: 453.55 Da
Chemical component information

ChemComp-LPX:
(2S)-3-{[(R)-(2-aminoethoxy)(hydroxy)phosphoryl]oxy}-2-hydroxypropyl hexadecanoate

+
Macromolecule #39: (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: 39 / Number of copies: 1 / 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 #40: (3R)-beta,beta-caroten-3-ol

MacromoleculeName: (3R)-beta,beta-caroten-3-ol / type: ligand / ID: 40 / Number of copies: 2 / Formula: RRX
Molecular weightTheoretical: 552.872 Da
Chemical component information

ChemComp-RRX:
(3R)-beta,beta-caroten-3-ol / Β-Cryptoxanthin

+
Macromolecule #41: SPHINGOSINE

MacromoleculeName: SPHINGOSINE / type: ligand / ID: 41 / Number of copies: 4 / Formula: SPH
Molecular weightTheoretical: 299.492 Da
Chemical component information

ChemComp-SPH:
SPHINGOSINE / Sphingosine

+
Macromolecule #42: beta,beta-caroten-4-one

MacromoleculeName: beta,beta-caroten-4-one / type: ligand / ID: 42 / Number of copies: 1 / Formula: ECH
Molecular weightTheoretical: 550.856 Da
Chemical component information

ChemComp-ECH:
beta,beta-caroten-4-one / Echinenone

+
Macromolecule #43: (3R,3'R,6S)-4,5-DIDEHYDRO-5,6-DIHYDRO-BETA,BETA-CAROTENE-3,3'-DIOL

MacromoleculeName: (3R,3'R,6S)-4,5-DIDEHYDRO-5,6-DIHYDRO-BETA,BETA-CAROTENE-3,3'-DIOL
type: ligand / ID: 43 / Number of copies: 21 / Formula: LUT
Molecular weightTheoretical: 568.871 Da
Chemical component information

ChemComp-LUT:
(3R,3'R,6S)-4,5-DIDEHYDRO-5,6-DIHYDRO-BETA,BETA-CAROTENE-3,3'-DIOL / Lutein

+
Macromolecule #44: ASTAXANTHIN

MacromoleculeName: ASTAXANTHIN / type: ligand / ID: 44 / Number of copies: 2 / Formula: AXT
Molecular weightTheoretical: 596.838 Da
Chemical component information

ChemComp-AXT:
ASTAXANTHIN / Astaxanthin

+
Macromolecule #45: OLEIC ACID

MacromoleculeName: OLEIC ACID / type: ligand / ID: 45 / Number of copies: 4 / Formula: OLA
Molecular weightTheoretical: 282.461 Da
Chemical component information

ChemComp-OLA:
OLEIC ACID / Oleic acid

+
Macromolecule #46: (3~{E},5~{E},7~{E})-6-methyl-8-[(6~{R})-2,2,6-trimethylcyclohexyl...

MacromoleculeName: (3~{E},5~{E},7~{E})-6-methyl-8-[(6~{R})-2,2,6-trimethylcyclohexyl]octa-3,5,7-trien-2-one
type: ligand / ID: 46 / Number of copies: 1 / Formula: QTB
Molecular weightTheoretical: 260.414 Da
Chemical component information

ChemComp-QTB:
(3~{E},5~{E},7~{E})-6-methyl-8-[(6~{R})-2,2,6-trimethylcyclohexyl]octa-3,5,7-trien-2-one

+
Macromolecule #47: PALMITIC ACID

MacromoleculeName: PALMITIC ACID / type: ligand / ID: 47 / Number of copies: 7 / Formula: PLM
Molecular weightTheoretical: 256.424 Da
Chemical component information

ChemComp-PLM:
PALMITIC ACID / Palmitic acid

+
Macromolecule #48: DIACYL GLYCEROL

MacromoleculeName: DIACYL GLYCEROL / type: ligand / ID: 48 / Number of copies: 4 / Formula: DGA
Molecular weightTheoretical: 625.018 Da
Chemical component information

ChemComp-DGA:
DIACYL GLYCEROL / Diglyceride

+
Macromolecule #49: benzene-1,3,5-triol

MacromoleculeName: benzene-1,3,5-triol / type: ligand / ID: 49 / Number of copies: 1 / Formula: 13X
Molecular weightTheoretical: 126.11 Da
Chemical component information

ChemComp-13X:
benzene-1,3,5-triol / Phloroglucinol

+
Macromolecule #50: (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: 50 / Number of copies: 4 / 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 / Violaxanthin

+
Macromolecule #51: Tripalmitoylglycerol

MacromoleculeName: Tripalmitoylglycerol / type: ligand / ID: 51 / Number of copies: 1 / Formula: 4RF
Molecular weightTheoretical: 807.32 Da
Chemical component information

ChemComp-4RF:
Tripalmitoylglycerol / Tripalmitin

+
Macromolecule #52: O-[(R)-{[(2R)-2,3-bis(octadecanoyloxy)propyl]oxy}(hydroxy)phospho...

MacromoleculeName: O-[(R)-{[(2R)-2,3-bis(octadecanoyloxy)propyl]oxy}(hydroxy)phosphoryl]-L-serine
type: ligand / ID: 52 / Number of copies: 1 / Formula: P5S
Molecular weightTheoretical: 792.075 Da
Chemical component information

ChemComp-P5S:
O-[(R)-{[(2R)-2,3-bis(octadecanoyloxy)propyl]oxy}(hydroxy)phosphoryl]-L-serine / Phosphatidylserine

+
Macromolecule #53: [2-((1-OXODODECANOXY-(2-HYDROXY-3-PROPANYL))-PHOSPHONATE-OXY)-ETH...

MacromoleculeName: [2-((1-OXODODECANOXY-(2-HYDROXY-3-PROPANYL))-PHOSPHONATE-OXY)-ETHYL]-TRIMETHYLAMMONIUM
type: ligand / ID: 53 / Number of copies: 1 / Formula: LAP
Molecular weightTheoretical: 440.532 Da
Chemical component information

ChemComp-LAP:
[2-((1-OXODODECANOXY-(2-HYDROXY-3-PROPANYL))-PHOSPHONATE-OXY)-ETHYL]-TRIMETHYLAMMONIUM

+
Macromolecule #54: water

MacromoleculeName: water / type: ligand / ID: 54 / Number of copies: 99 / Formula: HOH
Molecular weightTheoretical: 18.015 Da
Chemical component information

ChemComp-HOH:
WATER / Water

-
Experimental details

-
Structure determination

Methodcryo EM
Processingsingle particle reconstruction
Aggregation stateparticle

-
Sample preparation

BufferpH: 8
GridModel: Quantifoil R1.2/1.3 / Material: COPPER / Mesh: 300
VitrificationCryogen name: ETHANE

-
Electron microscopy

MicroscopeFEI TITAN KRIOS
Electron beamAcceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN
Electron opticsC2 aperture diameter: 50.0 µm / Illumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELDBright-field microscopy / Cs: 2.7 mm / Nominal defocus max: 2.0 µm / Nominal defocus min: 0.8 µm / Nominal magnification: 105000
Image recordingFilm or detector model: GATAN K3 BIOQUANTUM (6k x 4k) / Number grids imaged: 4 / Number real images: 4926 / Average exposure time: 1.4 sec. / Average electron dose: 49.05 e/Å2
Experimental equipment
Model: Titan Krios / Image courtesy: FEI Company

-
Image processing

Particle selectionNumber selected: 553691
CTF correctionSoftware - Name: CTFFIND (ver. 4.1.13)
Startup modelType of model: PDB ENTRY
PDB model - PDB ID:

6ijo

Initial angle assignmentType: ANGULAR RECONSTITUTION / Software - Name: RELION (ver. 3.0.7)
Final 3D classificationNumber classes: 3 / Software - Name: RELION (ver. 3.0.7)
Final angle assignmentType: ANGULAR RECONSTITUTION / Software - Name: RELION (ver. 3.0.7)
Final reconstructionNumber classes used: 1 / Applied symmetry - Point group: C1 (asymmetric) / Resolution.type: BY AUTHOR / Resolution: 2.7 Å / Resolution method: FSC 0.143 CUT-OFF / Software - Name: RELION (ver. 3.0.7) / Number images used: 185138
FSC plot (resolution estimation)

-
Atomic model buiding 1

Initial modelPDB ID:

6ijo

RefinementSpace: REAL / Protocol: RIGID BODY FIT / Overall B value: 74.16
Output model

PDB-6zzx:
Structure of low-light grown Chlorella ohadii Photosystem I

+
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