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- EMDB-11589: Structure of high-light grown Chlorella ohadii photosystem I -

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Basic information

Entry
Database: EMDB / ID: EMD-11589
TitleStructure of high-light grown Chlorella ohadii photosystem I
Map data
Sample
  • Complex: High light grown Chlorella ohadii photosystem I
    • Protein or peptide: x 22 types
  • Ligand: x 30 types
Keywordsphotosystem I / light stress / PHOTOSYNTHESIS
Function / homology
Function and homology information


malate transport / photosynthesis, light harvesting / chloroplast thylakoid lumen / glutathione-disulfide reductase (NADPH) activity / photosynthesis, light harvesting in photosystem I / photosystem I reaction center / photosystem I / photosynthetic electron transport in photosystem I / photosystem I / photosystem II ...malate transport / photosynthesis, light harvesting / chloroplast thylakoid lumen / glutathione-disulfide reductase (NADPH) activity / photosynthesis, light harvesting in photosystem I / photosystem I reaction center / photosystem I / photosynthetic electron transport in photosystem I / photosystem I / photosystem II / chloroplast thylakoid membrane / acyltransferase activity, transferring groups other than amino-acyl groups / chlorophyll binding / oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen / response to light stimulus / photosynthesis / glutathione metabolic process / cell redox homeostasis / chloroplast / monooxygenase activity / flavin adenine dinucleotide binding / 4 iron, 4 sulfur cluster binding / cellular response to oxidative stress / electron transfer activity / cytoskeleton / protein kinase activity / oxidoreductase activity / iron ion binding / heme binding / magnesium ion binding / mitochondrion / ATP binding / membrane / metal ion binding / cytosol
Similarity search - Function
Protein of unknown function DUF3067 / Domain of unknown function (DUF3067) / Aluminum-activated malate transporter / Aluminium activated malate transporter / 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 ...Protein of unknown function DUF3067 / Domain of unknown function (DUF3067) / Aluminum-activated malate transporter / Aluminium activated malate transporter / 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 / Chlorophyll A-B binding protein, plant and chromista / Chlorophyll A-B binding protein / Chlorophyll A-B binding protein / Photosystem I PsaD / Photosystem I, reaction centre subunit PsaD superfamily / PsaD / Photosystem I PsaJ, reaction centre subunit IX / Photosystem I PsaJ, reaction centre subunit IX superfamily / Photosystem I reaction centre subunit IX / PsaJ / Photosystem I PsaE, reaction centre subunit IV / Photosystem I reaction centre subunit IV / PsaE / : / 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. / GNAT domain / 4Fe-4S dicluster domain / Acyl-CoA N-acyltransferase / 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 / 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 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 subunit V / 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 / 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)
Methodsingle particle reconstruction / cryo EM / Resolution: 3.16 Å
AuthorsCaspy I / Nelson N
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-
UpdateNov 6, 2024-
Current statusNov 6, 2024Processing site: PDBe / Status: Released

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Structure visualization

Movie
  • Surface view with section colored by density value
  • Surface level: 0.017
  • Imaged by UCSF Chimera
  • Download
  • Surface view colored by height
  • Surface level: 0.017
  • Imaged by UCSF Chimera
  • Download
  • Surface view with fitted model
  • Atomic models: PDB-6zzy
  • Surface level: 0.017
  • Imaged by UCSF Chimera
  • Download
Movie viewer
Structure viewerEM map:
SurfViewMolmilJmol/JSmol
Supplemental images

emd_11589.png

Downloads & links

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Map

FileDownload / File: emd_11589.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.)
0.81 Å/pix.
x 512 pix.
= 414.72 Å		0.81 Å/pix.
x 512 pix.
= 414.72 Å		0.81 Å/pix.
x 512 pix.
= 414.72 Å

Surface

Projections

Slices (1/3)

Slices (1/2)

Slices (2/3)

Images are generated by Spider.

Voxel sizeX=Y=Z: 0.81 Å
Density

Histogram

Histogram (log scale)
Contour LevelBy AUTHOR: 0.007 / Movie #1: 0.017
Minimum - Maximum-0.040632363 - 0.082399614
Average (Standard dev.)0.000048717975 (±0.0036871477)
SymmetrySpace group: 1
Details

EMDB XML:

Map geometry
Axis orderXYZ
Origin000
Dimensions512512512
Spacing512512512
CellA=B=C: 414.72 Å
α=β=γ: 90.0 °

CCP4 map header:

modeImage stored as Reals
Å/pix. X/Y/Z0.810.810.81
M x/y/z512512512
origin x/y/z0.0000.0000.000
length x/y/z414.720414.720414.720
α/β/γ90.00090.00090.000
MAP C/R/S123
start NC/NR/NS000
NC/NR/NS512512512
D min/max/mean-0.0410.0820.000

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Supplemental data

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Sample components

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Entire : High light grown Chlorella ohadii photosystem I

EntireName: High light grown Chlorella ohadii photosystem I
Components
  • Complex: High light grown Chlorella ohadii 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 IX
    • Protein or peptide: PSI-K
    • Protein or peptide: Photosystem I reaction center subunit XII
    • Protein or peptide: Photosystem I reaction center subunit VIII
    • Protein or peptide: Photosystem I reaction center subunit VI-chloroplastic-like
    • Protein or peptide: PSI subunit V
    • Protein or peptide: Chlorophyll a-b binding protein, chloroplastic
    • Protein or peptide: Glutathione reductase
    • 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: 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: PHYLLOQUINONE
  • Ligand: IRON/SULFUR CLUSTER
  • Ligand: BETA-CAROTENE
  • Ligand: 1,2-DIPALMITOYL-PHOSPHATIDYL-GLYCEROLE
  • Ligand: DIGALACTOSYL DIACYL GLYCEROL (DGDG)
  • Ligand: 1,2-DIACYL-GLYCEROL-3-SN-PHOSPHATE
  • Ligand: DODECYL-BETA-D-MALTOSIDE
  • Ligand: 1,2-DIOLEOYL-SN-GLYCERO-3-PHOSPHOCHOLINE
  • Ligand: PHOSPHATIDYLETHANOLAMINE
  • Ligand: [2-((1-OXODODECANOXY-(2-HYDROXY-3-PROPANYL))-PHOSPHONATE-OXY)-ETHYL]-TRIMETHYLAMMONIUM
  • Ligand: 1,2-DI-O-ACYL-3-O-[6-DEOXY-6-SULFO-ALPHA-D-GLUCOPYRANOSYL]-SN-GLYCEROL
  • Ligand: ERGOSTEROL
  • Ligand: (3R)-beta,beta-caroten-3-ol
  • Ligand: (2S)-3-{[(R)-(2-aminoethoxy)(hydroxy)phosphoryl]oxy}-2-hydroxypropyl hexadecanoate
  • Ligand: beta,beta-caroten-4-one
  • Ligand: (3R,3'R,6S)-4,5-DIDEHYDRO-5,6-DIHYDRO-BETA,BETA-CAROTENE-3,3'-DIOL
  • Ligand: CHLOROPHYLL B
  • 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: 2-(2-azanylethanoylamino)ethanoic acid
  • Ligand: PALMITIC ACID
  • Ligand: DIACYL GLYCEROL
  • Ligand: SPHINGOSINE
  • 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~{S})-3,5,5-trimethyl-4-[(1~{E},3~{E},5~{E},7~{E},9~{E},11~{E},13~{E},15~{E},17~{E})-3,7,12,16-tetramethyl-18-[(4~{S})-2,6,6-trimethyl-4-oxidanyl-cyclohexen-1-yl]octadeca-1,3,5,7,9,11,13,15,17-nonaenyl]cyclohex-3-en-1-ol
  • Ligand: Tripalmitoylglycerol
  • Ligand: O-[(R)-{[(2R)-2,3-bis(octadecanoyloxy)propyl]oxy}(hydroxy)phosphoryl]-L-serine
  • Ligand: (2Z,4E)-5-[(1S)-1-hydroxy-2,6,6-trimethyl-4-oxocyclohex-2-en-1-yl]-3-methylpenta-2,4-dienoic acid

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Supramolecule #1: High light grown Chlorella ohadii photosystem I

SupramoleculeName: High light grown Chlorella ohadii photosystem I / type: complex / ID: 1 / Parent: 0 / Macromolecule list: #1-#22
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: Chlorella ohadii (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

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: Chlorella ohadii (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

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: Chlorella ohadii (plant)
Molecular weightTheoretical: 8.723009 KDa
SequenceString:
SHTVKIYDTC IGCTQCVRAC PTDVLEMVPW DGCKANQIAS APRTEDCVGC KRCESACPTD FLSVRVYLGS ETTRSMGLAY

UniProtKB: Photosystem I iron-sulfur center

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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: Chlorella ohadii (plant)
Molecular weightTheoretical: 15.958232 KDa
SequenceString:
AFTPPTLQSD TPSPIFGGST GGLLSQAQVE EFHVITWESK KEQIFEMPTG GAAIMRQGPN LLKLARKEQC LALLTQLRTK FKIDGYIYR VFPNGEVQYL HPKDGVYPEK VNAGRSGDNT NMRRIGQNKE PVQIKFSGKI PAEF

UniProtKB: Photosystem I reaction center subunit chloroplastic

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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: Chlorella ohadii (plant)
Molecular weightTheoretical: 7.194105 KDa
SequenceString:
PDVGPKRGTQ VRILRPESYW FRETGKVVSV DQSGIRYPVV VRFEKVNYAG VSTNNYALDE VVAA

UniProtKB: Photosystem I reaction center subunit IV

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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: Chlorella ohadii (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

UniProtKB: Photosystem I reaction center subunit III

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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: Chlorella ohadii (plant)
Molecular weightTheoretical: 10.326872 KDa
SequenceString:
LADVNLVVGG CTVGALALGR FVFLPFHRAS LAKAGMPKQN GMTHLQAGDA RAEEASFILK TNDPAGFTVV DVMAWGALGH AAAFYILAT SSLGLDRNPF

UniProtKB: PSI-G

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Macromolecule #8: Photosystem I reaction center subunit IX

MacromoleculeName: Photosystem I reaction center subunit IX / type: protein_or_peptide / ID: 8 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Chlorella ohadii (plant)
Molecular weightTheoretical: 4.475292 KDa
SequenceString:
MKDFTTYLST APVLTLLSVT VVAGLLIEIN RFFPDALIAA F

UniProtKB: Photosystem I reaction center subunit IX

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Macromolecule #9: PSI-K

MacromoleculeName: PSI-K / type: protein_or_peptide / ID: 9 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Chlorella ohadii (plant)
Molecular weightTheoretical: 8.725087 KDa
SequenceString:
YLGSTTNQIM VLSTFLPLVA GRFGLAPTST RHTNQSGIKL LPAEKSAGLV SNDPAGFNAV DVLALGALGH ILGCGIVLGL KSTGNL

UniProtKB: PSI-K

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Macromolecule #10: Photosystem I reaction center subunit XII

MacromoleculeName: Photosystem I reaction center subunit XII / type: protein_or_peptide / ID: 10 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Chlorella ohadii (plant)
Molecular weightTheoretical: 3.37606 KDa
SequenceString:
MPIADYQVFT ALFLALATGI FAVRLGVALY K

UniProtKB: Photosystem I reaction center subunit XII

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Macromolecule #11: Photosystem I reaction center subunit VIII

MacromoleculeName: Photosystem I reaction center subunit VIII / type: protein_or_peptide / ID: 11 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Chlorella ohadii (plant)
Molecular weightTheoretical: 3.856674 KDa
SequenceString:
MSAQFLPSIL VPLVGLVFPA VAMASMFLYI EKEEI

UniProtKB: Photosystem I reaction center subunit VIII

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Macromolecule #12: Photosystem I reaction center subunit VI-chloroplastic-like

MacromoleculeName: Photosystem I reaction center subunit VI-chloroplastic-like
type: protein_or_peptide / ID: 12 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Chlorella ohadii (plant)
Molecular weightTheoretical: 10.319479 KDa
SequenceString:
KYGEESRYFD LKDLENTVGS WDMYGQEDKS RYNGLQSEFF ERAANGLSRR EYILGLVAIG GAGILAWGGK GAADVRLPTV GPQQPAQVG PRGRL

UniProtKB: Photosystem I reaction center subunit VI-chloroplastic-like

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Macromolecule #13: PSI subunit V

MacromoleculeName: PSI subunit V / type: protein_or_peptide / ID: 13 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Chlorella ohadii (plant)
Molecular weightTheoretical: 16.501025 KDa
SequenceString:
KVQVVQPVNG DPFIGMLETP VTSSPAIAWY LSNLPAYRTG VSPLLRGVEI GLAHGYLLVG PFIKLGPLRD VENVAEIVGC INGAATVLI LTLCLAYGAV TFQGEGPQVG VKTLSGRSIP RDPLQSADGW NKFTAGFAVG GLSGAAWGYL CTQILPYY

UniProtKB: PSI subunit V

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Macromolecule #14: Chlorophyll a-b binding protein, chloroplastic

MacromoleculeName: Chlorophyll a-b binding protein, chloroplastic / type: protein_or_peptide / ID: 14 / Number of copies: 2 / Enantiomer: LEVO
Source (natural)Organism: Chlorella ohadii (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

UniProtKB: Chlorophyll a-b binding protein, chloroplastic

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Macromolecule #15: Glutathione reductase

MacromoleculeName: Glutathione reductase / type: protein_or_peptide / ID: 15 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Chlorella ohadii (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

UniProtKB: Glutathione reductase

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Macromolecule #16: Chlorophyll a-b binding protein, chloroplastic

MacromoleculeName: Chlorophyll a-b binding protein, chloroplastic / type: protein_or_peptide / ID: 16 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Chlorella ohadii (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

UniProtKB: Chlorophyll a-b binding protein, chloroplastic

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Macromolecule #17: Chlorophyll a-b binding protein, chloroplastic

MacromoleculeName: Chlorophyll a-b binding protein, chloroplastic / type: protein_or_peptide / ID: 17 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Chlorella ohadii (plant)
Molecular weightTheoretical: 25.111686 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 PLSCLWPGQ

UniProtKB: Chlorophyll a-b binding protein, chloroplastic

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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: Chlorella ohadii (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

UniProtKB: Chlorophyll a-b binding protein, chloroplastic

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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: Chlorella ohadii (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

UniProtKB: Chlorophyll a-b binding protein, chloroplastic

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Macromolecule #20: Chlorophyll a-b binding protein, chloroplastic

MacromoleculeName: Chlorophyll a-b binding protein, chloroplastic / type: protein_or_peptide / ID: 20 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Chlorella ohadii (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

UniProtKB: Chlorophyll a-b binding protein, chloroplastic

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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: Chlorella ohadii (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

UniProtKB: Chlorophyll a-b binding protein, chloroplastic

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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: 1 / Enantiomer: LEVO
Source (natural)Organism: Chlorella ohadii (plant)
Molecular weightTheoretical: 19.779574 KDa
SequenceString:
TLWLPGIQAP KYLDGKLAGD YGFDPLGLGV DSDRLKWYAE AEKTNGRWAM AAVAGILFTE ILGKAKWFEA GAQEYWMDNG PLLAVEAVI MGFLELKRFQ GWKETGTSGF LNAFPFDPAG MNSPSMATKE VKNGRLAMTA FVGFAVQALL TRQGPIEALQ S HLSSPFTN NFVGSINNLP NVIG

UniProtKB: Chlorophyll a-b binding protein, chloroplastic

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Macromolecule #23: CHLOROPHYLL A ISOMER

MacromoleculeName: CHLOROPHYLL A ISOMER / type: ligand / ID: 23 / Number of copies: 1 / Formula: CL0
Molecular weightTheoretical: 893.489 Da
Chemical component information

ChemComp-CL0:
CHLOROPHYLL A ISOMER

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Macromolecule #24: CHLOROPHYLL A

MacromoleculeName: CHLOROPHYLL A / type: ligand / ID: 24 / Number of copies: 227 / Formula: CLA
Molecular weightTheoretical: 893.489 Da
Chemical component information

ChemComp-CLA:
CHLOROPHYLL A

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Macromolecule #25: PHYLLOQUINONE

MacromoleculeName: PHYLLOQUINONE / type: ligand / ID: 25 / Number of copies: 2 / Formula: PQN
Molecular weightTheoretical: 450.696 Da
Chemical component information

ChemComp-PQN:
PHYLLOQUINONE

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Macromolecule #26: IRON/SULFUR CLUSTER

MacromoleculeName: IRON/SULFUR CLUSTER / type: ligand / ID: 26 / Number of copies: 3 / Formula: SF4
Molecular weightTheoretical: 351.64 Da
Chemical component information

ChemComp-FS1:
IRON/SULFUR CLUSTER

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Macromolecule #27: BETA-CAROTENE

MacromoleculeName: BETA-CAROTENE / type: ligand / ID: 27 / Number of copies: 32 / Formula: BCR
Molecular weightTheoretical: 536.873 Da
Chemical component information

ChemComp-BCR:
BETA-CAROTENE

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

MacromoleculeName: 1,2-DIPALMITOYL-PHOSPHATIDYL-GLYCEROLE / type: ligand / ID: 28 / Number of copies: 24 / Formula: LHG
Molecular weightTheoretical: 722.97 Da
Chemical component information

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

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Macromolecule #29: DIGALACTOSYL DIACYL GLYCEROL (DGDG)

MacromoleculeName: DIGALACTOSYL DIACYL GLYCEROL (DGDG) / type: ligand / ID: 29 / 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 #30: 1,2-DIACYL-GLYCEROL-3-SN-PHOSPHATE

MacromoleculeName: 1,2-DIACYL-GLYCEROL-3-SN-PHOSPHATE / type: ligand / ID: 30 / Number of copies: 1 / Formula: 3PH
Molecular weightTheoretical: 704.998 Da
Chemical component information

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

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Macromolecule #31: DODECYL-BETA-D-MALTOSIDE

MacromoleculeName: DODECYL-BETA-D-MALTOSIDE / type: ligand / ID: 31 / 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 #32: 1,2-DIOLEOYL-SN-GLYCERO-3-PHOSPHOCHOLINE

MacromoleculeName: 1,2-DIOLEOYL-SN-GLYCERO-3-PHOSPHOCHOLINE / type: ligand / ID: 32 / Number of copies: 2 / Formula: PCW
Molecular weightTheoretical: 787.121 Da
Chemical component information

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

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Macromolecule #33: PHOSPHATIDYLETHANOLAMINE

MacromoleculeName: PHOSPHATIDYLETHANOLAMINE / type: ligand / ID: 33 / Number of copies: 6 / Formula: PTY
Molecular weightTheoretical: 734.039 Da
Chemical component information

ChemComp-PTY:
PHOSPHATIDYLETHANOLAMINE / phospholipid*YM

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Macromolecule #34: [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: 34 / Number of copies: 3 / Formula: LAP
Molecular weightTheoretical: 440.532 Da
Chemical component information

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

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Macromolecule #35: 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: 35 / Number of copies: 3 / 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 #36: ERGOSTEROL

MacromoleculeName: ERGOSTEROL / type: ligand / ID: 36 / Number of copies: 1 / Formula: ERG
Molecular weightTheoretical: 396.648 Da
Chemical component information

ChemComp-ERG:
ERGOSTEROL

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Macromolecule #37: (3R)-beta,beta-caroten-3-ol

MacromoleculeName: (3R)-beta,beta-caroten-3-ol / type: ligand / ID: 37 / Number of copies: 1 / Formula: RRX
Molecular weightTheoretical: 552.872 Da
Chemical component information

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

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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: 2 / Formula: LPX
Molecular weightTheoretical: 453.55 Da
Chemical component information

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

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Macromolecule #39: beta,beta-caroten-4-one

MacromoleculeName: beta,beta-caroten-4-one / type: ligand / ID: 39 / Number of copies: 1 / Formula: ECH
Molecular weightTheoretical: 550.856 Da
Chemical component information

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

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Macromolecule #40: (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: 40 / Number of copies: 22 / 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

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Macromolecule #41: CHLOROPHYLL B

MacromoleculeName: CHLOROPHYLL B / type: ligand / ID: 41 / Number of copies: 24 / Formula: CHL
Molecular weightTheoretical: 907.472 Da
Chemical component information

ChemComp-CHL:
CHLOROPHYLL B

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Macromolecule #42: OLEIC ACID

MacromoleculeName: OLEIC ACID / type: ligand / ID: 42 / Number of copies: 2 / Formula: OLA
Molecular weightTheoretical: 282.461 Da
Chemical component information

ChemComp-OLA:
OLEIC ACID

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Macromolecule #43: (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: 43 / Number of copies: 2 / 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

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Macromolecule #44: 2-(2-azanylethanoylamino)ethanoic acid

MacromoleculeName: 2-(2-azanylethanoylamino)ethanoic acid / type: ligand / ID: 44 / Number of copies: 1 / Formula: GG0
Molecular weightTheoretical: 132.118 Da
Chemical component information

ChemComp-GG0:
2-(2-azanylethanoylamino)ethanoic acid / pH buffer*YM

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Macromolecule #45: PALMITIC ACID

MacromoleculeName: PALMITIC ACID / type: ligand / ID: 45 / Number of copies: 2 / Formula: PLM
Molecular weightTheoretical: 256.424 Da
Chemical component information

ChemComp-PLM:
PALMITIC ACID

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Macromolecule #46: DIACYL GLYCEROL

MacromoleculeName: DIACYL GLYCEROL / type: ligand / ID: 46 / Number of copies: 2 / Formula: DGA
Molecular weightTheoretical: 625.018 Da
Chemical component information

ChemComp-DGA:
DIACYL GLYCEROL

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Macromolecule #47: SPHINGOSINE

MacromoleculeName: SPHINGOSINE / type: ligand / ID: 47 / Number of copies: 1 / Formula: SPH
Molecular weightTheoretical: 299.492 Da
Chemical component information

ChemComp-SPH:
SPHINGOSINE

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Macromolecule #48: (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: 48 / Number of copies: 1 / 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

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Macromolecule #49: (1~{S})-3,5,5-trimethyl-4-[(1~{E},3~{E},5~{E},7~{E},9~{E},11~{E},...

MacromoleculeName: (1~{S})-3,5,5-trimethyl-4-[(1~{E},3~{E},5~{E},7~{E},9~{E},11~{E},13~{E},15~{E},17~{E})-3,7,12,16-tetramethyl-18-[(4~{S})-2,6,6-trimethyl-4-oxidanyl-cyclohexen-1-yl]octadeca- ...Name: (1~{S})-3,5,5-trimethyl-4-[(1~{E},3~{E},5~{E},7~{E},9~{E},11~{E},13~{E},15~{E},17~{E})-3,7,12,16-tetramethyl-18-[(4~{S})-2,6,6-trimethyl-4-oxidanyl-cyclohexen-1-yl]octadeca-1,3,5,7,9,11,13,15,17-nonaenyl]cyclohex-3-en-1-ol
type: ligand / ID: 49 / Number of copies: 1 / Formula: C7Z
Molecular weightTheoretical: 568.871 Da
Chemical component information

ChemComp-C7Z:
(1~{S})-3,5,5-trimethyl-4-[(1~{E},3~{E},5~{E},7~{E},9~{E},11~{E},13~{E},15~{E},17~{E})-3,7,12,16-tetramethyl-18-[(4~{S})-2,6,6-trimethyl-4-oxidanyl-cyclohexen-1-yl]octadeca-1,3,5,7,9,11,13,15,17-nonaenyl]cyclohex-3-en-1-ol

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Macromolecule #50: Tripalmitoylglycerol

MacromoleculeName: Tripalmitoylglycerol / type: ligand / ID: 50 / Number of copies: 3 / Formula: 4RF
Molecular weightTheoretical: 807.32 Da
Chemical component information

ChemComp-4RF:
Tripalmitoylglycerol

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Macromolecule #51: 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: 51 / 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

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Macromolecule #52: (2Z,4E)-5-[(1S)-1-hydroxy-2,6,6-trimethyl-4-oxocyclohex-2-en-1-yl...

MacromoleculeName: (2Z,4E)-5-[(1S)-1-hydroxy-2,6,6-trimethyl-4-oxocyclohex-2-en-1-yl]-3-methylpenta-2,4-dienoic acid
type: ligand / ID: 52 / Number of copies: 1 / Formula: A8S
Molecular weightTheoretical: 264.317 Da
Chemical component information

ChemComp-A8S:
(2Z,4E)-5-[(1S)-1-hydroxy-2,6,6-trimethyl-4-oxocyclohex-2-en-1-yl]-3-methylpenta-2,4-dienoic acid / hormone*YM

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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

Concentration3 mg/mL
BufferpH: 8
GridModel: Quantifoil R1.2/1.3 / Material: COPPER / Mesh: 300 / Pretreatment - Type: GLOW DISCHARGE
VitrificationCryogen name: ETHANE

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Electron microscopy

MicroscopeFEI TITAN KRIOS
Image recordingFilm or detector model: GATAN K3 BIOQUANTUM (6k x 4k) / Number real images: 10280 / Average electron dose: 46.04 e/Å2
Electron beamAcceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN
Electron opticsC2 aperture diameter: 50.0 µm / Illumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD / Cs: 2.7 mm / Nominal defocus max: 2.0 µm / Nominal defocus min: 0.9 µm / Nominal magnification: 165000
Experimental equipment
Model: Titan Krios / Image courtesy: FEI Company

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Image processing

Particle selectionNumber selected: 401966
Startup modelType of model: PDB ENTRY
PDB model - PDB ID:

6ijo

Final reconstructionResolution.type: BY AUTHOR / Resolution: 3.16 Å / Resolution method: FSC 0.143 CUT-OFF / Software - Name: RELION / Number images used: 75049
Initial angle assignmentType: ANGULAR RECONSTITUTION / Software - Name: RELION
Final angle assignmentType: ANGULAR RECONSTITUTION / Software - Name: RELION
FSC plot (resolution estimation)

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Atomic model buiding 1

Initial modelPDB ID:

6ijo


Chain - Source name: PDB / Chain - Initial model type: experimental model
RefinementSpace: REAL / Protocol: RIGID BODY FIT
Output model

PDB-6zzy:
Structure of high-light grown Chlorella ohadii photosystem I

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Yorodumi

Thousand views of thousand structures

  • Yorodumi is a browser for structure data from EMDB, PDB, SASBDB, etc.
  • This page is also the successor to EM Navigator detail page, and also detail information page/front-end page for Omokage search.
  • The word "yorodu" (or yorozu) is an old Japanese word meaning "ten thousand". "mi" (miru) is to see.

Related info.:EMDB / PDB / SASBDB / Comparison of 3 databanks / Yorodumi Search / Aug 31, 2016. New EM Navigator & Yorodumi / Yorodumi Papers / Jmol/JSmol / Function and homology information / Changes in new EM Navigator and Yorodumi

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