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- EMDB-52620: Photosystem II from Arabidopsis thaliana -

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Basic information

Entry
Database: EMDB / ID: EMD-52620
TitlePhotosystem II from Arabidopsis thaliana
Map data
Sample
  • Complex: C2S2-type Photosystem II complex from Arabidopsis thaliana
    • Protein or peptide: x 24 types
  • Ligand: x 19 types
KeywordsMembrane bound / Photosystem II / Arabidopsis / Manganese cluster / oxidoreductase / PHOTOSYNTHESIS
Function / homology
Function and homology information


response to desiccation / cellular response to water deprivation / photosystem I assembly / nonphotochemical quenching / chloroplast photosystem II / photoinhibition / photosynthesis, light harvesting in photosystem II / photosystem II antenna complex / response to red light / cellular response to abscisic acid stimulus ...response to desiccation / cellular response to water deprivation / photosystem I assembly / nonphotochemical quenching / chloroplast photosystem II / photoinhibition / photosynthesis, light harvesting in photosystem II / photosystem II antenna complex / response to red light / cellular response to abscisic acid stimulus / PSII associated light-harvesting complex II / chloroplast stromal thylakoid / response to low light intensity stimulus / thylakoid lumen / plastid thylakoid membrane / plastoglobule / salicylic acid binding / regulation of stomatal closure / response to far red light / thylakoid membrane / response to high light intensity / chloroplast thylakoid / photosynthesis, light harvesting in photosystem I / photosystem II oxygen evolving complex / photosystem II assembly / chloroplast thylakoid lumen / apoplast / thylakoid / oxygen evolving activity / photosystem II stabilization / protein phosphatase regulator activity / photosystem II reaction center / photosystem II / chloroplast envelope / photosynthetic electron transport chain / oxidoreductase activity, acting on diphenols and related substances as donors, oxygen as acceptor / photosystem I / photosystem II / response to herbicide / extrinsic component of membrane / poly(U) RNA binding / chloroplast stroma / plastid / photosynthetic electron transport in photosystem II / positive regulation of reactive oxygen species biosynthetic process / chlorophyll binding / photosynthesis, light reaction / phosphate ion binding / chloroplast thylakoid membrane / response to light stimulus / response to cold / photosynthesis / chloroplast / electron transfer activity / protein stabilization / iron ion binding / protein domain specific binding / mRNA binding / heme binding / calcium ion binding / mitochondrion / extracellular region / metal ion binding / nucleus / plasma membrane / cytosol
Similarity search - Function
Photosystem II 5kDa protein, chloroplastic / PsbP, C-terminal / : / PsbP / Mog1/PsbP, alpha/beta/alpha sandwich / Photosystem II PsbW, class 2 / Photosystem II reaction centre W protein (PsbW) / Oxygen-evolving enhancer protein 3 / Oxygen evolving enhancer protein 3 / PsbQ-like domain superfamily ...Photosystem II 5kDa protein, chloroplastic / PsbP, C-terminal / : / PsbP / Mog1/PsbP, alpha/beta/alpha sandwich / Photosystem II PsbW, class 2 / Photosystem II reaction centre W protein (PsbW) / Oxygen-evolving enhancer protein 3 / Oxygen evolving enhancer protein 3 / PsbQ-like domain superfamily / Photosystem II PsbJ / Photosystem II PsbJ superfamily / PsbJ / Photosystem II PsbO, manganese-stabilising / Manganese-stabilising protein / photosystem II polypeptide / Photosystem II reaction centre M protein (PsbM) / Photosystem II PsbM superfamily / Photosystem II PsbM / Photosystem II PsbZ, reaction centre / Photosystem II PsbZ superfamily / YCF9 / Photosystem II PsbX / Photosystem II reaction centre X protein (PsbX) / Photosystem II PsbT / Photosystem II PsbL / Photosystem II CP43 reaction centre protein / Photosystem II PsbL superfamily / Photosystem II PsbT superfamily / Photosystem II CP43 reaction centre protein superfamily / Photosystem II reaction centre T protein / PsbL protein / Photosystem II PsbK / Photosystem II PsbK superfamily / Photosystem II 4 kDa reaction centre component / Photosystem II PsbI / Photosystem II CP47 reaction centre protein / Photosystem II PsbI superfamily / Photosystem II reaction centre I protein (PSII 4.8 kDa protein) / Photosystem II protein D1 / Photosystem II reaction centre protein H / Photosystem II D2 protein / Photosystem II cytochrome b559, conserved site / Photosystem II cytochrome b559, alpha subunit / Photosystem II cytochrome b559, beta subunit / Photosystem II cytochrome b559, N-terminal / Photosystem II cytochrome b559, alpha subunit, lumenal region / Photosystem II reaction centre protein H superfamily / Photosystem II cytochrome b559, alpha subunit superfamily / Cytochrome b559, alpha (gene psbE) and beta (gene psbF)subunits / Lumenal portion of Cytochrome b559, alpha (gene psbE) subunit / Photosystem II 10 kDa phosphoprotein / Cytochrome b559 subunits heme-binding site signature. / : / Photosystem antenna protein-like / Photosystem antenna protein-like superfamily / Photosystem II protein / Chlorophyll A-B binding protein, plant and chromista / Chlorophyll A-B binding protein / Chlorophyll A-B binding protein / Outer membrane protein/outer membrane enzyme PagP, beta-barrel / : / Photosynthetic reaction centre, L/M / Photosystem II protein D1/D2 superfamily / Photosynthetic reaction centre protein / Photosynthetic reaction center proteins signature.
Similarity search - Domain/homology
Chlorophyll a-b binding protein 1, chloroplastic / Oxygen-evolving enhancer protein 1-1, chloroplastic / Photosystem II D2 protein / Photosystem II CP47 reaction center protein / Photosystem II CP43 reaction center protein / Cytochrome b559 subunit alpha / Photosystem II reaction center protein H / Photosystem II reaction center protein J / Photosystem II reaction center protein K / Photosystem II reaction center protein Z ...Chlorophyll a-b binding protein 1, chloroplastic / Oxygen-evolving enhancer protein 1-1, chloroplastic / Photosystem II D2 protein / Photosystem II CP47 reaction center protein / Photosystem II CP43 reaction center protein / Cytochrome b559 subunit alpha / Photosystem II reaction center protein H / Photosystem II reaction center protein J / Photosystem II reaction center protein K / Photosystem II reaction center protein Z / Photosystem II reaction center protein L / Photosystem II reaction center protein T / Cytochrome b559 subunit beta / Photosystem II reaction center protein I / Photosystem II reaction center protein M / Photosystem II protein D1 / Chlorophyll a-b binding protein CP29.1, chloroplastic / Photosystem II reaction center W protein, chloroplastic / Photosystem II 5 kDa protein, chloroplastic / Oxygen-evolving enhancer protein 2-1, chloroplastic / Chlorophyll a-b binding protein 2.1, chloroplastic / Expressed protein / Chlorophyll a-b binding protein CP26, chloroplastic / Oxygen-evolving enhancer protein 3-1, chloroplastic
Similarity search - Component
Biological speciesArabidopsis thaliana (thale cress)
Methodsingle particle reconstruction / cryo EM / Resolution: 2.44 Å
AuthorsForsman JA / Graca AT / Hussein R / Hall M / Messinger J / Schroder WP / Aydin AO
Funding support Sweden, Germany, 5 items
OrganizationGrant numberCountry
Sven och Lilly Lawskis fond for naturvetenskaplig forskning Sweden
Swedish Research Council2020-03809 Sweden
Carl Trygger FoundationCTS 19.324 Sweden
Kempe FoundationJCK-2030 Sweden
German Research Foundation (DFG)TP A5 Germany
CitationJournal: New Phytol / Year: 2026
Title: The structure of intact and active Photosystem II from Arabidopsis thaliana at 2.44 Å resolution.
Authors: Jack Forsman / André T Graça / Abuzer Orkun Aydin / Michael Hall / Rana Hussein / Wolfgang P Schröder / Johannes Messinger /
Abstract: Photosystem II (PS II) is a large membrane-bound protein complex that catalyses light-driven water oxidation in plants and cyanobacteria. The structure of PS II is well studied in cyanobacteria; ...Photosystem II (PS II) is a large membrane-bound protein complex that catalyses light-driven water oxidation in plants and cyanobacteria. The structure of PS II is well studied in cyanobacteria; however, there are very few PS II structures from plants. The currently available plant PS II structures are comparatively low resolution and are frequently incomplete, that is, missing subunits or cofactors. We optimized the procedure for isolating PS II from Arabidopsis thaliana and employed cryo-electron microscopy to generate a high-resolution structure of an intact and oxygen-evolving PS II from Arabidopsis thaliana at 2.44 Å resolution, which to date represents the highest resolution structure of PS II from higher plants. At this resolution, many water molecules within the PS II structure can be detected, including waters around the water-splitting manganese cluster, the nonheme iron, and within the water/proton channels connecting these active sites to the protein exterior, allowing for the first detailed description of the water networks in Arabidopsis thaliana and comparison with the highly resolved cyanobacterial PS II. Our findings further the understanding of design principles of protein-water-cofactor interactions in photosynthetic water splitting, quinone reduction/exchange, and about the role of lipids at the interface between PS II and the light-harvesting proteins.
History
DepositionJan 26, 2025-
Header (metadata) releaseMar 25, 2026-
Map releaseMar 25, 2026-
UpdateJul 8, 2026-
Current statusJul 8, 2026Processing site: PDBe / Status: Released

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Structure visualization

Supplemental images

emd_52620.png

Downloads & links

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Map

FileDownload / File: emd_52620.map.gz / Format: CCP4 / Size: 1.8 GB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
Projections & slices

Image control

Size
Brightness
Contrast
Others
AxesZ (Sec.)Y (Row.)X (Col.)
0.72 Å/pix.
x 784 pix.
= 560.952 Å		0.72 Å/pix.
x 784 pix.
= 560.952 Å		0.72 Å/pix.
x 784 pix.
= 560.952 Å

Surface

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Images are generated by Spider.

Voxel sizeX=Y=Z: 0.7155 Å
Density

Histogram

Histogram (log scale)
Contour LevelBy AUTHOR: 0.149
Minimum - Maximum-0.6462616 - 1.6411988
Average (Standard dev.)0.0003597447 (±0.035194494)
SymmetrySpace group: 1
Details

EMDB XML:

Map geometry
Axis orderXYZ
Origin000
Dimensions784784784
Spacing784784784
CellA=B=C: 560.952 Å
α=β=γ: 90.0 °

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Supplemental data

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Additional map: #2

Fileemd_52620_additional_1.map
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Additional map: #1

Fileemd_52620_additional_2.map
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Half map: #2

Fileemd_52620_half_map_1.map
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Half map: #1

Fileemd_52620_half_map_2.map
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Sample components

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Entire : C2S2-type Photosystem II complex from Arabidopsis thaliana

EntireName: C2S2-type Photosystem II complex from Arabidopsis thaliana
Components
  • Complex: C2S2-type Photosystem II complex from Arabidopsis thaliana
    • Protein or peptide: Photosystem II protein D1
    • Protein or peptide: Photosystem II CP47 reaction center protein
    • Protein or peptide: Photosystem II CP43 reaction center protein
    • Protein or peptide: Photosystem II D2 protein
    • Protein or peptide: Cytochrome b559 subunit alpha
    • Protein or peptide: Cytochrome b559 subunit beta
    • Protein or peptide: Chlorophyll a-b binding protein 1, chloroplastic
    • Protein or peptide: Photosystem II reaction center protein H
    • Protein or peptide: Photosystem II reaction center protein I
    • Protein or peptide: Photosystem II reaction center protein J
    • Protein or peptide: Photosystem II reaction center protein K
    • Protein or peptide: Photosystem II reaction center protein L
    • Protein or peptide: Photosystem II reaction center protein M
    • Protein or peptide: Oxygen-evolving enhancer protein 1-1, chloroplastic
    • Protein or peptide: Oxygen-evolving enhancer protein 2-1, chloroplastic
    • Protein or peptide: Oxygen-evolving enhancer protein 3-1, chloroplastic
    • Protein or peptide: Chlorophyll a-b binding protein CP29.1, chloroplastic
    • Protein or peptide: Chlorophyll a-b binding protein CP26, chloroplastic
    • Protein or peptide: Photosystem II reaction center protein T
    • Protein or peptide: Photosystem II 5 kDa protein, chloroplastic
    • Protein or peptide: Photosystem II reaction center W protein, chloroplastic
    • Protein or peptide: Expressed protein
    • Protein or peptide: Chlorophyll a-b binding protein 2.1, chloroplastic
    • Protein or peptide: Photosystem II reaction center protein Z
  • Ligand: CHLORIDE ION
  • Ligand: CHLOROPHYLL A
  • Ligand: PHEOPHYTIN A
  • Ligand: BETA-CAROTENE
  • Ligand: 1,2-DI-O-ACYL-3-O-[6-DEOXY-6-SULFO-ALPHA-D-GLUCOPYRANOSYL]-SN-GLYCEROL
  • Ligand: 2,3-DIMETHYL-5-(3,7,11,15,19,23,27,31,35-NONAMETHYL-2,6,10,14,18,22,26,30,34-HEXATRIACONTANONAENYL-2,5-CYCLOHEXADIENE-1,4-DIONE-2,3-DIMETHYL-5-SOLANESYL-1,4-BENZOQUINONE
  • Ligand: FE (II) ION
  • Ligand: BICARBONATE ION
  • Ligand: DIGALACTOSYL DIACYL GLYCEROL (DGDG)
  • Ligand: 1,2-DISTEAROYL-MONOGALACTOSYL-DIGLYCERIDE
  • Ligand: CA-MN4-O5 CLUSTER
  • Ligand: DODECYL-BETA-D-MALTOSIDE
  • Ligand: 1,2-DIPALMITOYL-PHOSPHATIDYL-GLYCEROLE
  • Ligand: PROTOPORPHYRIN IX CONTAINING FE
  • Ligand: CHLOROPHYLL B
  • Ligand: (3R,3'R,6S)-4,5-DIDEHYDRO-5,6-DIHYDRO-BETA,BETA-CAROTENE-3,3'-DIOL
  • 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: (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: water

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Supramolecule #1: C2S2-type Photosystem II complex from Arabidopsis thaliana

SupramoleculeName: C2S2-type Photosystem II complex from Arabidopsis thaliana
type: complex / ID: 1 / Parent: 0 / Macromolecule list: #1-#24
Source (natural)Organism: Arabidopsis thaliana (thale cress) / Strain: Columbia-0 / Tissue: Leaves / Organelle: Thylakoid membranes
Molecular weightTheoretical: 1.118 MDa

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Macromolecule #1: Photosystem II protein D1

MacromoleculeName: Photosystem II protein D1 / type: protein_or_peptide / ID: 1 / Number of copies: 2 / Enantiomer: LEVO / EC number: photosystem II
Source (natural)Organism: Arabidopsis thaliana (thale cress) / Strain: Columbia-0 / Tissue: Leaves
Molecular weightTheoretical: 38.961277 KDa
SequenceString: MTAILERRES ESLWGRFCNW ITSTENRLYI GWFGVLMIPT LLTATSVFII AFIAAPPVDI DGIREPVSGS LLYGNNIISG AIIPTSAAI GLHFYPIWEA ASVDEWLYNG GPYELIVLHF LLGVACYMGR EWELSFRLGM RPWIAVAYSA PVAAATAVFL I YPIGQGSF ...String:
MTAILERRES ESLWGRFCNW ITSTENRLYI GWFGVLMIPT LLTATSVFII AFIAAPPVDI DGIREPVSGS LLYGNNIISG AIIPTSAAI GLHFYPIWEA ASVDEWLYNG GPYELIVLHF LLGVACYMGR EWELSFRLGM RPWIAVAYSA PVAAATAVFL I YPIGQGSF SDGMPLGISG TFNFMIVFQA EHNILMHPFH MLGVAGVFGG SLFSAMHGSL VTSSLIRETT ENESANEGYR FG QEEETYN IVAAHGYFGR LIFQYASFNN SRSLHFFLAA WPVVGIWFTA LGISTMAFNL NGFNFNQSVV DSQGRVINTW ADI INRANL GMEVMHERNA HNFPLDLAAV EAPSTNG

UniProtKB: Photosystem II protein D1

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Macromolecule #2: Photosystem II CP47 reaction center protein

MacromoleculeName: Photosystem II CP47 reaction center protein / type: protein_or_peptide / ID: 2 / Number of copies: 2 / Enantiomer: LEVO
Source (natural)Organism: Arabidopsis thaliana (thale cress) / Strain: Columbia-0 / Tissue: Leaves
Molecular weightTheoretical: 56.091824 KDa
SequenceString: MGLPWYRVHT VVLNDPGRLL AVHIMHTALV AGWAGSMALY ELAVFDPSDP VLDPMWRQGM FVIPFMTRLG ITNSWGGWNI TGGTITNPG LWSYEGVAGA HIVFSGLCFL AAIWHWVYWD LEIFCDERTG KPSLDLPKIF GIHLFLSGVA CFGFGAFHVT G LYGPGIWV ...String:
MGLPWYRVHT VVLNDPGRLL AVHIMHTALV AGWAGSMALY ELAVFDPSDP VLDPMWRQGM FVIPFMTRLG ITNSWGGWNI TGGTITNPG LWSYEGVAGA HIVFSGLCFL AAIWHWVYWD LEIFCDERTG KPSLDLPKIF GIHLFLSGVA CFGFGAFHVT G LYGPGIWV SDPYGLTGKV QPVNPAWGVE GFDPFVPGGI ASHHIAAGTL GILAGLFHLS VRPPQRLYKG LRMGNIETVL SS SIAAVFF AAFVVAGTMW YGSATTPIEL FGPTRYQWDQ GYFQQEIYRR VSAGLAENQS LSEAWAKIPE KLAFYDYIGN NPA KGGLFR AGSMDNGDGI AVGWLGHPVF RNKEGRELFV RRMPTFFETF PVVLVDGDGI VRADVPFRRA ESKYSVEQVG VTVE FYGGE LNGVSYSDPA TVKKYARRAQ LGEIFELDRA TLKSDGVFRS SPRGWFTFGH ASFALLFFFG HIWHGARTLF RDVFA GIDP DLDAQVEFGA FQKLGDPTTK RQAV

UniProtKB: Photosystem II CP47 reaction center protein

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Macromolecule #3: Photosystem II CP43 reaction center protein

MacromoleculeName: Photosystem II CP43 reaction center protein / type: protein_or_peptide / ID: 3 / Number of copies: 2 / Enantiomer: LEVO
Source (natural)Organism: Arabidopsis thaliana (thale cress) / Strain: Columbia-0 / Tissue: Leaves
Molecular weightTheoretical: 51.9155 KDa
SequenceString: MKTLYSLRRF YHVETLFNGT LALAGRDQET TGFAWWAGNA RLINLSGKLL GAHVAHAGLI VFWAGAMNLF EVAHFVPEKP MYEQGLILL PHLATLGWGV GPGGEVIDTF PYFVSGVLHL ISSAVLGFGG IYHALLGPET LEESFPFFGY VWKDRNKMTT I LGIHLILL ...String:
MKTLYSLRRF YHVETLFNGT LALAGRDQET TGFAWWAGNA RLINLSGKLL GAHVAHAGLI VFWAGAMNLF EVAHFVPEKP MYEQGLILL PHLATLGWGV GPGGEVIDTF PYFVSGVLHL ISSAVLGFGG IYHALLGPET LEESFPFFGY VWKDRNKMTT I LGIHLILL GVGAFLLVFK ALYFGGVYDT WAPGGGDVRK ITNLTLSPSV IFGYLLKSPF GGEGWIVSVD DLEDIIGGHV WL GSICIFG GIWHILTKPF AWARRALVWS GEAYLSYSLA ALSVCGFIAC CFVWFNNTAY PSEFYGPTGP EASQAQAFTF LVR DQRLGA NVGSAQGPTG LGKYLMRSPT GEVIFGGETM RFWDLRAPWL EPLRGPNGLD LSRLKKDIQP WQERRSAEYM THAP LGSLN SVGGVATEIN AVNYVSPRSW LSTSHFVLGF FLFVGHLWHA GRARAAAAGF EKGIDRDFEP VLSMTPLN

UniProtKB: Photosystem II CP43 reaction center protein

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Macromolecule #4: Photosystem II D2 protein

MacromoleculeName: Photosystem II D2 protein / type: protein_or_peptide / ID: 4 / Number of copies: 2 / Enantiomer: LEVO / EC number: photosystem II
Source (natural)Organism: Arabidopsis thaliana (thale cress) / Strain: Columbia-0 / Tissue: Leaves
Molecular weightTheoretical: 39.575281 KDa
SequenceString: MTIALGKFTK DEKDLFDIMD DWLRRDRFVF VGWSGLLLFP CAYFALGGWF TGTTFVTSWY THGLASSYLE GCNFLTAAVS TPANSLAHS LLLLWGPEAQ GDFTRWCQLG GLWAFVALHG AFALIGFMLR QFELARSVQL RPYNAIAFSG PIAVFVSVFL I YPLGQSGW ...String:
MTIALGKFTK DEKDLFDIMD DWLRRDRFVF VGWSGLLLFP CAYFALGGWF TGTTFVTSWY THGLASSYLE GCNFLTAAVS TPANSLAHS LLLLWGPEAQ GDFTRWCQLG GLWAFVALHG AFALIGFMLR QFELARSVQL RPYNAIAFSG PIAVFVSVFL I YPLGQSGW FFAPSFGVAA IFRFILFFQG FHNWTLNPFH MMGVAGVLGA ALLCAIHGAT VENTLFEDGD GANTFRAFNP TQ AEETYSM VTANRFWSQI FGVAFSNKRW LHFFMLFVPV TGLWMSALGV VGLALNLRAY DFVSQEIRAA EDPEFETFYT KNI LLNEGI RAWMAAQDQP HENLIFPEEV LPRGNAL

UniProtKB: Photosystem II D2 protein

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Macromolecule #5: Cytochrome b559 subunit alpha

MacromoleculeName: Cytochrome b559 subunit alpha / type: protein_or_peptide / ID: 5 / Number of copies: 2 / Enantiomer: LEVO
Source (natural)Organism: Arabidopsis thaliana (thale cress) / Strain: Columbia-0 / Tissue: Leaves
Molecular weightTheoretical: 9.393501 KDa
SequenceString:
MSGSTGERSF ADIITSIRYW VIHSITIPSL FIAGWLFVST GLAYDVFGSP RPNEYFTESR QGIPLITGRF DSLEQLDEFS RSF

UniProtKB: Cytochrome b559 subunit alpha

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Macromolecule #6: Cytochrome b559 subunit beta

MacromoleculeName: Cytochrome b559 subunit beta / type: protein_or_peptide / ID: 6 / Number of copies: 2 / Enantiomer: LEVO
Source (natural)Organism: Arabidopsis thaliana (thale cress) / Strain: Columbia-0 / Tissue: Leaves
Molecular weightTheoretical: 4.488324 KDa
SequenceString:
MTIDRTYPIF TVRWLAVHGL AVPTVFFLGS ISAMQFIQR

UniProtKB: Cytochrome b559 subunit beta

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Macromolecule #7: Chlorophyll a-b binding protein 1, chloroplastic

MacromoleculeName: Chlorophyll a-b binding protein 1, chloroplastic / type: protein_or_peptide / ID: 7 / Number of copies: 4 / Enantiomer: LEVO
Source (natural)Organism: Arabidopsis thaliana (thale cress) / Strain: Columbia-0 / Tissue: Leaves
Molecular weightTheoretical: 28.266062 KDa
SequenceString: MAASTMALSS PAFAGKAVKL SPAASEVLGS GRVTMRKTVA KPKGPSGSPW YGSDRVKYLG PFSGESPSYL TGEFPGDYGW DTAGLSADP ETFARNRELE VIHSRWAMLG ALGCVFPELL ARNGVKFGEA VWFKAGSQIF SDGGLDYLGN PSLVHAQSIL A IWATQVIL ...String:
MAASTMALSS PAFAGKAVKL SPAASEVLGS GRVTMRKTVA KPKGPSGSPW YGSDRVKYLG PFSGESPSYL TGEFPGDYGW DTAGLSADP ETFARNRELE VIHSRWAMLG ALGCVFPELL ARNGVKFGEA VWFKAGSQIF SDGGLDYLGN PSLVHAQSIL A IWATQVIL MGAVEGYRVA GNGPLGEAED LLYPGGSFDP LGLATDPEAF AELKVKELKN GRLAMFSMFG FFVQAIVTGK GP IENLADH LADPVNNNAW AFATNFVPGK

UniProtKB: Chlorophyll a-b binding protein 1, chloroplastic

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Macromolecule #8: Photosystem II reaction center protein H

MacromoleculeName: Photosystem II reaction center protein H / type: protein_or_peptide / ID: 8 / Number of copies: 2 / Enantiomer: LEVO
Source (natural)Organism: Arabidopsis thaliana (thale cress) / Strain: Columbia-0 / Tissue: Leaves
Molecular weightTheoretical: 7.706887 KDa
SequenceString:
MATQTVEDSS RSGPRSTTVG KLLKPLNSEY GKVAPGWGTT PLMGVAMALF AVFLSIILEI YNSSVLLDGI SVN

UniProtKB: Photosystem II reaction center protein H

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Macromolecule #9: Photosystem II reaction center protein I

MacromoleculeName: Photosystem II reaction center protein I / type: protein_or_peptide / ID: 9 / Number of copies: 2 / Enantiomer: LEVO
Source (natural)Organism: Arabidopsis thaliana (thale cress) / Strain: Columbia-0 / Tissue: Leaves
Molecular weightTheoretical: 4.170891 KDa
SequenceString:
MLTLKLFVYT VVIFFVSLFI FGFLSNDPGR NPGREE

UniProtKB: Photosystem II reaction center protein I

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Macromolecule #10: Photosystem II reaction center protein J

MacromoleculeName: Photosystem II reaction center protein J / type: protein_or_peptide / ID: 10 / Number of copies: 2 / Enantiomer: LEVO
Source (natural)Organism: Arabidopsis thaliana (thale cress) / Strain: Columbia-0 / Tissue: Leaves
Molecular weightTheoretical: 4.117832 KDa
SequenceString:
MADTTGRIPL WVIGTVAGIL VIGLIGIFFY GSYSGLGSSL

UniProtKB: Photosystem II reaction center protein J

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Macromolecule #11: Photosystem II reaction center protein K

MacromoleculeName: Photosystem II reaction center protein K / type: protein_or_peptide / ID: 11 / Number of copies: 2 / Enantiomer: LEVO
Source (natural)Organism: Arabidopsis thaliana (thale cress) / Strain: Columbia-0 / Tissue: Leaves
Molecular weightTheoretical: 6.977381 KDa
SequenceString:
MLNIFNLICI FFNSTLFSST FLVAKLPEAY AFLNPIVDVM PVIPLFFLLL AFVWQAAVSF R

UniProtKB: Photosystem II reaction center protein K

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Macromolecule #12: Photosystem II reaction center protein L

MacromoleculeName: Photosystem II reaction center protein L / type: protein_or_peptide / ID: 12 / Number of copies: 2 / Enantiomer: LEVO
Source (natural)Organism: Arabidopsis thaliana (thale cress) / Strain: Columbia-0 / Tissue: Leaves
Molecular weightTheoretical: 4.471075 KDa
SequenceString:
MTQSNPNEQS VELNRTSLYW GLLLIFVLAV LFSNYFFN

UniProtKB: Photosystem II reaction center protein L

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Macromolecule #13: Photosystem II reaction center protein M

MacromoleculeName: Photosystem II reaction center protein M / type: protein_or_peptide / ID: 13 / Number of copies: 2 / Enantiomer: LEVO
Source (natural)Organism: Arabidopsis thaliana (thale cress) / Strain: Columbia-0 / Tissue: Leaves
Molecular weightTheoretical: 3.783538 KDa
SequenceString:
MEVNILAFIA TALFILVPTA FLLIIYVKTV SQND

UniProtKB: Photosystem II reaction center protein M

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Macromolecule #14: Oxygen-evolving enhancer protein 1-1, chloroplastic

MacromoleculeName: Oxygen-evolving enhancer protein 1-1, chloroplastic / type: protein_or_peptide / ID: 14 / Number of copies: 2 / Enantiomer: LEVO
Source (natural)Organism: Arabidopsis thaliana (thale cress) / Strain: Columbia-0 / Tissue: Leaves
Molecular weightTheoretical: 35.180262 KDa
SequenceString: MAASLQSTAT FLQSAKIATA PSRGSSHLRS TQAVGKSFGL ETSSARLTCS FQSDFKDFTG KCSDAVKIAG FALATSALVV SGASAEGAP KRLTYDEIQS KTYMEVKGTG TANQCPTIDG GSETFSFKPG KYAGKKFCFE PTSFTVKADS VSKNAPPEFQ N TKLMTRLT ...String:
MAASLQSTAT FLQSAKIATA PSRGSSHLRS TQAVGKSFGL ETSSARLTCS FQSDFKDFTG KCSDAVKIAG FALATSALVV SGASAEGAP KRLTYDEIQS KTYMEVKGTG TANQCPTIDG GSETFSFKPG KYAGKKFCFE PTSFTVKADS VSKNAPPEFQ N TKLMTRLT YTLDEIEGPF EVASDGSVNF KEEDGIDYAA VTVQLPGGER VPFLFTVKQL DASGKPDSFT GKFLVPSYRG SS FLDPKGR GGSTGYDNAV ALPAGGRGDE EELVKENVKN TAASVGEITL KVTKSKPETG EVIGVFESLQ PSDTDLGAKV PKD VKIQGV WYGQLE

UniProtKB: Oxygen-evolving enhancer protein 1-1, chloroplastic

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Macromolecule #15: Oxygen-evolving enhancer protein 2-1, chloroplastic

MacromoleculeName: Oxygen-evolving enhancer protein 2-1, chloroplastic / type: protein_or_peptide / ID: 15 / Number of copies: 2 / Enantiomer: LEVO
Source (natural)Organism: Arabidopsis thaliana (thale cress) / Strain: Columbia-0 / Tissue: Leaves
Molecular weightTheoretical: 28.125189 KDa
SequenceString: MAYSACFLHQ SALASSAARS SSSSSSQRHV SLSKPVQIIC KAQQSHEDDN SAVSRRLALT LLVGAAAVGS KVSPADAAYG EAANVFGKP KTNTDFLPYN GDGFKVQVPA KWNPSKEIEY PGQVLRFEDN FDATSNLNVM VTPTDKKSIT DYGSPEEFLS Q VNYLLGKQ ...String:
MAYSACFLHQ SALASSAARS SSSSSSQRHV SLSKPVQIIC KAQQSHEDDN SAVSRRLALT LLVGAAAVGS KVSPADAAYG EAANVFGKP KTNTDFLPYN GDGFKVQVPA KWNPSKEIEY PGQVLRFEDN FDATSNLNVM VTPTDKKSIT DYGSPEEFLS Q VNYLLGKQ AYFGETASEG GFDNNAVATA NILESSSQEV GGKPYYYLSV LTRTADGDEG GKHQLITATV NGGKLYICKA QA GDKRWFK GARKFVESAA TSFSVA

UniProtKB: Oxygen-evolving enhancer protein 2-1, chloroplastic

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Macromolecule #16: Oxygen-evolving enhancer protein 3-1, chloroplastic

MacromoleculeName: Oxygen-evolving enhancer protein 3-1, chloroplastic / type: protein_or_peptide / ID: 16 / Number of copies: 2 / Enantiomer: LEVO
Source (natural)Organism: Arabidopsis thaliana (thale cress) / Strain: Columbia-0 / Tissue: Leaves
Molecular weightTheoretical: 23.899219 KDa
SequenceString: MASMGGLHGA SPAVLEGSLK INGSSRLNGS GRVAVAQRSR LVVRAQQSEE TSRRSVIGLV AAGLAGGSFV QAVLADAISI KVGPPPAPS GGLPAGTDNS DQARDFALAL KDRFYLQPLP PTEAAARAKE SAKDIINVKP LIDRKAWPYV QNDLRSKASY L RYDLNTII ...String:
MASMGGLHGA SPAVLEGSLK INGSSRLNGS GRVAVAQRSR LVVRAQQSEE TSRRSVIGLV AAGLAGGSFV QAVLADAISI KVGPPPAPS GGLPAGTDNS DQARDFALAL KDRFYLQPLP PTEAAARAKE SAKDIINVKP LIDRKAWPYV QNDLRSKASY L RYDLNTII SSKPKDEKKS LKDLTTKLFD TIDNLDYAAK KKSPSQAEKY YAETVSALNE VLAKLG

UniProtKB: Oxygen-evolving enhancer protein 3-1, chloroplastic

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Macromolecule #17: Chlorophyll a-b binding protein CP29.1, chloroplastic

MacromoleculeName: Chlorophyll a-b binding protein CP29.1, chloroplastic / type: protein_or_peptide / ID: 17 / Number of copies: 2 / Enantiomer: LEVO
Source (natural)Organism: Arabidopsis thaliana (thale cress) / Strain: Columbia-0 / Tissue: Leaves
Molecular weightTheoretical: 31.170338 KDa
SequenceString: MAATSAAAAA ASSIMGTRVA PGIHPGSGRF TAVFGFGKKK AAPKKSAKKT VTTDRPLWYP GAISPDWLDG SLVGDYGFDP FGLGKPAEY LQFDIDSLDQ NLAKNLAGDV IGTRTEAADA KSTPFQPYSE VFGIQRFREC ELIHGRWAML ATLGALSVEW L TGVTWQDA ...String:
MAATSAAAAA ASSIMGTRVA PGIHPGSGRF TAVFGFGKKK AAPKKSAKKT VTTDRPLWYP GAISPDWLDG SLVGDYGFDP FGLGKPAEY LQFDIDSLDQ NLAKNLAGDV IGTRTEAADA KSTPFQPYSE VFGIQRFREC ELIHGRWAML ATLGALSVEW L TGVTWQDA GKVELVDGSS YLGQPLPFSI STLIWIEVLV IGYIEFQRNA ELDSEKRLYP GGKFFDPLGL AADPEKTAQL QL AEIKHAR LAMVAFLGFA VQAAATGKGP LNNWATHLSD PLHTTIIDTF SSS

UniProtKB: Chlorophyll a-b binding protein CP29.1, chloroplastic

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Macromolecule #18: Chlorophyll a-b binding protein CP26, chloroplastic

MacromoleculeName: Chlorophyll a-b binding protein CP26, chloroplastic / type: protein_or_peptide / ID: 18 / Number of copies: 2 / Enantiomer: LEVO
Source (natural)Organism: Arabidopsis thaliana (thale cress) / Strain: Columbia-0 / Tissue: Leaves
Molecular weightTheoretical: 30.187576 KDa
SequenceString: MASLGVSEML GTPLNFRAVS RSSAPLASSP STFKTVALFS KKKPAPAKSK AVSETSDELA KWYGPDRRIF LPDGLLDRSE IPEYLNGEV AGDYGYDPFG LGKKPENFAK YQAFELIHAR WAMLGAAGFI IPEALNKYGA NCGPEAVWFK TGALLLDGNT L NYFGKNIP ...String:
MASLGVSEML GTPLNFRAVS RSSAPLASSP STFKTVALFS KKKPAPAKSK AVSETSDELA KWYGPDRRIF LPDGLLDRSE IPEYLNGEV AGDYGYDPFG LGKKPENFAK YQAFELIHAR WAMLGAAGFI IPEALNKYGA NCGPEAVWFK TGALLLDGNT L NYFGKNIP INLVLAVVAE VVLLGGAEYY RITNGLDFED KLHPGGPFDP LGLAKDPEQG ALLKVKEIKN GRLAMFAMLG FF IQAYVTG EGPVENLAKH LSDPFGNNLL TVIAGTAERA PTL

UniProtKB: Chlorophyll a-b binding protein CP26, chloroplastic

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Macromolecule #19: Photosystem II reaction center protein T

MacromoleculeName: Photosystem II reaction center protein T / type: protein_or_peptide / ID: 19 / Number of copies: 2 / Enantiomer: LEVO
Source (natural)Organism: Arabidopsis thaliana (thale cress) / Strain: Columbia-0 / Tissue: Leaves
Molecular weightTheoretical: 3.825642 KDa
SequenceString:
MEALVYTFLL VSTLGIIFFA IFFREPPKIS TKK

UniProtKB: Photosystem II reaction center protein T

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Macromolecule #20: Photosystem II 5 kDa protein, chloroplastic

MacromoleculeName: Photosystem II 5 kDa protein, chloroplastic / type: protein_or_peptide / ID: 20 / Number of copies: 2 / Enantiomer: LEVO
Source (natural)Organism: Arabidopsis thaliana (thale cress) / Strain: Columbia-0 / Tissue: Leaves
Molecular weightTheoretical: 11.042852 KDa
SequenceString:
MASMTMTATF FPAVAKVPSA TGGRRLSVVR ASTSDNTPSL EVKEQSSTTM RRDLMFTAAA AAVCSLAKVA MAEEEEPKRG TEAAKKKYA QVCVTMPTAK ICRY

UniProtKB: Photosystem II 5 kDa protein, chloroplastic

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Macromolecule #21: Photosystem II reaction center W protein, chloroplastic

MacromoleculeName: Photosystem II reaction center W protein, chloroplastic
type: protein_or_peptide / ID: 21 / Number of copies: 2 / Enantiomer: LEVO
Source (natural)Organism: Arabidopsis thaliana (thale cress) / Strain: Columbia-0 / Tissue: Leaves
Molecular weightTheoretical: 13.685823 KDa
SequenceString:
MASFTASAST VSAARPALLL KPTVAISAPV LGLPPMGKKK GGVRCSMETK QGNVSVMGAG VSAAATAALT AVMSNPAMAL VDERMSTEG TGLPFGLSNN LLGWILFGVF GLIWTFFFVY TSSLEEDEES GLSL

UniProtKB: Photosystem II reaction center W protein, chloroplastic

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Macromolecule #22: Expressed protein

MacromoleculeName: Expressed protein / type: protein_or_peptide / ID: 22 / Number of copies: 2 / Enantiomer: LEVO
Source (natural)Organism: Arabidopsis thaliana (thale cress) / Strain: Columbia-0 / Tissue: Leaves
Molecular weightTheoretical: 11.826013 KDa
SequenceString:
MASTSAMSLV TPLNQTRSSP FLKPLPLKPS KALVATGGRA QRLQVKALKM DKALTGISAA ALTASMVIPE IAEAAGSGIS PSLKNFLLS IASGGLVLTV IIGVVVGVSN FDPVKRT

UniProtKB: Expressed protein

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Macromolecule #23: Chlorophyll a-b binding protein 2.1, chloroplastic

MacromoleculeName: Chlorophyll a-b binding protein 2.1, chloroplastic / type: protein_or_peptide / ID: 23 / Number of copies: 2 / Enantiomer: LEVO
Source (natural)Organism: Arabidopsis thaliana (thale cress) / Strain: Columbia-0 / Tissue: Leaves
Molecular weightTheoretical: 28.673389 KDa
SequenceString: MATSAIQQSS FAGQTALKPS NELLRKVGVS GGGRVTMRRT VKSTPQSIWY GPDRPKYLGP FSENTPSYLT GEYPGDYGWD TAGLSADPE TFAKNRELEV IHSRWAMLGA LGCTFPEILS KNGVKFGEAV WFKAGSQIFS EGGLDYLGNP NLIHAQSILA I WAVQVVLM ...String:
MATSAIQQSS FAGQTALKPS NELLRKVGVS GGGRVTMRRT VKSTPQSIWY GPDRPKYLGP FSENTPSYLT GEYPGDYGWD TAGLSADPE TFAKNRELEV IHSRWAMLGA LGCTFPEILS KNGVKFGEAV WFKAGSQIFS EGGLDYLGNP NLIHAQSILA I WAVQVVLM GFIEGYRIGG GPLGEGLDPL YPGGAFDPLN LAEDPEAFSE LKVKELKNGR LAMFSMFGFF VQAIVTGKGP IE NLFDHLA DPVANNAWSY ATNFVPGN

UniProtKB: Chlorophyll a-b binding protein 2.1, chloroplastic

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Macromolecule #24: Photosystem II reaction center protein Z

MacromoleculeName: Photosystem II reaction center protein Z / type: protein_or_peptide / ID: 24 / Number of copies: 2 / Enantiomer: LEVO
Source (natural)Organism: Arabidopsis thaliana (thale cress) / Strain: Columbia-0 / Tissue: Leaves
Molecular weightTheoretical: 6.569768 KDa
SequenceString:
MTIAFQLAVF ALIITSSILL ISVPVVFASP DGWSSNKNVV FSGTSLWIGL VFLVGILNSL IS

UniProtKB: Photosystem II reaction center protein Z

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Macromolecule #25: CHLORIDE ION

MacromoleculeName: CHLORIDE ION / type: ligand / ID: 25 / Number of copies: 4 / Formula: CL
Molecular weightTheoretical: 35.453 Da

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Macromolecule #26: CHLOROPHYLL A

MacromoleculeName: CHLOROPHYLL A / type: ligand / ID: 26 / Number of copies: 156 / Formula: CLA
Molecular weightTheoretical: 893.489 Da
Chemical component information

ChemComp-CLA:
CHLOROPHYLL A

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Macromolecule #27: PHEOPHYTIN A

MacromoleculeName: PHEOPHYTIN A / type: ligand / ID: 27 / Number of copies: 4 / Formula: PHO
Molecular weightTheoretical: 871.2 Da
Chemical component information

ChemComp-PHO:
PHEOPHYTIN A

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Macromolecule #28: BETA-CAROTENE

MacromoleculeName: BETA-CAROTENE / type: ligand / ID: 28 / Number of copies: 22 / Formula: BCR
Molecular weightTheoretical: 536.873 Da
Chemical component information

ChemComp-BCR:
BETA-CAROTENE

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Macromolecule #29: 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: 29 / Number of copies: 8 / 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 #30: 2,3-DIMETHYL-5-(3,7,11,15,19,23,27,31,35-NONAMETHYL-2,6,10,14,18,...

MacromoleculeName: 2,3-DIMETHYL-5-(3,7,11,15,19,23,27,31,35-NONAMETHYL-2,6,10,14,18,22,26,30,34-HEXATRIACONTANONAENYL-2,5-CYCLOHEXADIENE-1,4-DIONE-2,3-DIMETHYL-5-SOLANESYL-1,4-BENZOQUINONE
type: ligand / ID: 30 / Number of copies: 4 / Formula: PL9
Molecular weightTheoretical: 749.201 Da
Chemical component information

ChemComp-PL9:
2,3-DIMETHYL-5-(3,7,11,15,19,23,27,31,35-NONAMETHYL-2,6,10,14,18,22,26,30,34-HEXATRIACONTANONAENYL-2,5-CYCLOHEXADIENE-1,4-DIONE-2,3-DIMETHYL-5-SOLANESYL-1,4-BENZOQUINONE

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Macromolecule #31: FE (II) ION

MacromoleculeName: FE (II) ION / type: ligand / ID: 31 / Number of copies: 2 / Formula: FE2
Molecular weightTheoretical: 55.845 Da

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Macromolecule #32: BICARBONATE ION

MacromoleculeName: BICARBONATE ION / type: ligand / ID: 32 / Number of copies: 2 / Formula: BCT
Molecular weightTheoretical: 61.017 Da
Chemical component information

ChemComp-BCT:
BICARBONATE ION

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Macromolecule #33: DIGALACTOSYL DIACYL GLYCEROL (DGDG)

MacromoleculeName: DIGALACTOSYL DIACYL GLYCEROL (DGDG) / type: ligand / ID: 33 / Number of copies: 10 / Formula: DGD
Molecular weightTheoretical: 949.299 Da
Chemical component information

ChemComp-DGD:
DIGALACTOSYL DIACYL GLYCEROL (DGDG)

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Macromolecule #34: 1,2-DISTEAROYL-MONOGALACTOSYL-DIGLYCERIDE

MacromoleculeName: 1,2-DISTEAROYL-MONOGALACTOSYL-DIGLYCERIDE / type: ligand / ID: 34 / Number of copies: 10 / Formula: LMG
Molecular weightTheoretical: 787.158 Da
Chemical component information

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

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Macromolecule #35: CA-MN4-O5 CLUSTER

MacromoleculeName: CA-MN4-O5 CLUSTER / type: ligand / ID: 35 / Number of copies: 2 / Formula: OEX
Molecular weightTheoretical: 339.827 Da
Chemical component information

ChemComp-OEX:
CA-MN4-O5 CLUSTER

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Macromolecule #36: DODECYL-BETA-D-MALTOSIDE

MacromoleculeName: DODECYL-BETA-D-MALTOSIDE / type: ligand / ID: 36 / Number of copies: 2 / Formula: LMT
Molecular weightTheoretical: 510.615 Da
Chemical component information

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

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Macromolecule #37: 1,2-DIPALMITOYL-PHOSPHATIDYL-GLYCEROLE

MacromoleculeName: 1,2-DIPALMITOYL-PHOSPHATIDYL-GLYCEROLE / type: ligand / ID: 37 / Number of copies: 18 / Formula: LHG
Molecular weightTheoretical: 722.97 Da
Chemical component information

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

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Macromolecule #38: PROTOPORPHYRIN IX CONTAINING FE

MacromoleculeName: PROTOPORPHYRIN IX CONTAINING FE / type: ligand / ID: 38 / Number of copies: 2 / Formula: HEM
Molecular weightTheoretical: 616.487 Da
Chemical component information

ChemComp-HEM:
PROTOPORPHYRIN IX CONTAINING FE

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Macromolecule #39: CHLOROPHYLL B

MacromoleculeName: CHLOROPHYLL B / type: ligand / ID: 39 / Number of copies: 50 / Formula: CHL
Molecular weightTheoretical: 907.472 Da
Chemical component information

ChemComp-CHL:
CHLOROPHYLL B

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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: 18 / 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: (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: 41 / Number of copies: 8 / 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 #42: (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: 42 / Number of copies: 10 / 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

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Macromolecule #43: water

MacromoleculeName: water / type: ligand / ID: 43 / Number of copies: 1206 / Formula: HOH
Molecular weightTheoretical: 18.015 Da
Chemical component information

ChemComp-HOH:
WATER

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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

Concentration9.7 mg/mL
BufferpH: 6
Component:
ConcentrationFormulaName
50.0 mMC6H13NO4S2-(N-morpholino)ethanesulfonic acid
20.0 mMCaCl2Calcium Chloride
5.0 mMMgCl2Magnesium Chloride
0.6 MC5H11NO2Betaine
0.03 % w/vC24H46O11n-Dodecyl-b-D-maltoside
GridModel: Quantifoil R1.2/1.3 / Material: COPPER / Mesh: 200 / Pretreatment - Type: GLOW DISCHARGE / Pretreatment - Time: 30 sec. / Details: 50 mA
VitrificationCryogen name: ETHANE / Chamber humidity: 100 % / Chamber temperature: 277 K / Instrument: FEI VITROBOT MARK IV
DetailsThylakoid membranes were solubilised using b-dodecylmaltoside. The C2S2-type Photosystem II complexes were isolated using sucrose gradients.

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Electron microscopy

MicroscopeTFS KRIOS
Specialist opticsEnergy filter - Name: TFS Selectris / Energy filter - Slit width: 10 eV
Image recordingFilm or detector model: FEI FALCON IV (4k x 4k) / Number grids imaged: 1 / Number real images: 16450 / Average exposure time: 2.17 sec. / Average electron dose: 40.0 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: 2.4 µm / Nominal defocus min: 1.0 µm / Nominal magnification: 165000
Sample stageSpecimen holder model: FEI TITAN KRIOS AUTOGRID HOLDER / Cooling holder cryogen: NITROGEN
Experimental equipment
Model: Titan Krios / Image courtesy: FEI Company

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Image processing

Particle selectionNumber selected: 3054062
CTF correctionSoftware - Name: cryoSPARC / Type: PHASE FLIPPING AND AMPLITUDE CORRECTION
Startup modelType of model: OTHER
Final reconstructionApplied symmetry - Point group: C2 (2 fold cyclic) / Resolution.type: BY AUTHOR / Resolution: 2.44 Å / Resolution method: FSC 0.143 CUT-OFF / Software - Name: cryoSPARC / Number images used: 72301
Initial angle assignmentType: MAXIMUM LIKELIHOOD / Software - Name: cryoSPARC
Final angle assignmentType: MAXIMUM LIKELIHOOD / Software - Name: cryoSPARC
FSC plot (resolution estimation)

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Atomic model buiding 1

Initial modelPDB ID:

3jcu


Chain - Source name: PDB / Chain - Initial model type: experimental model
Output model

PDB-9i4t:
Photosystem II from Arabidopsis thaliana

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