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- EMDB-36037: Coordinates of Cryo-EM structure of the Arabidopsis thaliana PSI ... -

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Basic information

Entry
Database: EMDB / ID: EMD-36037
TitleCoordinates of Cryo-EM structure of the Arabidopsis thaliana PSI in state 2 (PSI-ST2)
Map data
Sample
  • Complex: Cryo-EM structure of the Arabidopsis thaliana photosystem I(PSI-LHCII-ST2)
  • Protein or peptide: x 16 types
  • Ligand: x 11 types
Keywordsphotosystem / PLANT PROTEIN / PHOTOSYNTHESIS
Function / homology
Function and homology information


photosynthetic NADP+ reduction / photosystem I stabilization / chloroplast photosystem I / chloroplast stromal thylakoid / response to low light intensity stimulus / plastoglobule / chloroplast membrane / response to high light intensity / chloroplast thylakoid / photosynthesis, light harvesting in photosystem I ...photosynthetic NADP+ reduction / photosystem I stabilization / chloroplast photosystem I / chloroplast stromal thylakoid / response to low light intensity stimulus / plastoglobule / chloroplast membrane / response to high light intensity / chloroplast thylakoid / photosynthesis, light harvesting in photosystem I / chloroplast envelope / photosystem I reaction center / photosystem I / photosynthetic electron transport in photosystem I / thylakoid / photosystem I / plastid / chlorophyll binding / chloroplast thylakoid membrane / photosynthesis / response to cold / chloroplast / 4 iron, 4 sulfur cluster binding / electron transfer activity / protein stabilization / protein domain specific binding / mRNA binding / magnesium ion binding / extracellular region / metal ion binding / nucleus / plasma membrane / cytosol
Similarity search - Function
4Fe-4S dicluster domain / Photosystem I PsaH, reaction centre subunit VI / Photosystem I reaction centre subunit VI / Photosystem I reaction center subunit V / Photosystem I reaction center subunit psaK, plant / Photosystem I reaction center subunit V/PsaK, plant / Photosystem I PsaG/PsaK domain, chloroplastic / Photosystem I reaction centre subunit PsaK superfamily / Photosystem I psaG and psaK proteins signature. / Photosystem I reaction center subunit V/PsaK ...4Fe-4S dicluster domain / Photosystem I PsaH, reaction centre subunit VI / Photosystem I reaction centre subunit VI / Photosystem I reaction center subunit V / Photosystem I reaction center subunit psaK, plant / Photosystem I reaction center subunit V/PsaK, plant / Photosystem I PsaG/PsaK domain, chloroplastic / Photosystem I reaction centre subunit PsaK superfamily / Photosystem I psaG and psaK proteins signature. / Photosystem I reaction center subunit V/PsaK / Photosystem I psaG / psaK / Photosystem I PsaL, reaction centre subunit XI / Photosystem I, reaction centre subunit XI / Photosystem I PsaL, reaction centre subunit XI superfamily / Photosystem I reaction centre subunit XI / Photosystem I reaction centre subunit VIII / Photosystem I reaction centre subunit VIII / Photosystem I reaction centre subunit VIII superfamily / Photosystem I PsaF, reaction centre subunit III / Photosystem I PsaF, reaction centre subunit III superfamily / Photosystem I reaction centre subunit III / 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 / Electron transport accessory-like domain superfamily / 4Fe-4S ferredoxin, iron-sulphur binding, conserved site / 4Fe-4S ferredoxin-type iron-sulfur binding region signature. / 4Fe-4S ferredoxin-type iron-sulfur binding domain profile. / 4Fe-4S ferredoxin-type, iron-sulphur binding domain
Similarity search - Domain/homology
Chlorophyll a-b binding protein 4, chloroplastic / Photosystem I P700 chlorophyll a apoprotein A1 / Photosystem I P700 chlorophyll a apoprotein A2 / Photosystem I reaction center subunit VIII / Photosystem I reaction center subunit IX / Photosystem I iron-sulfur center / Chlorophyll a-b binding protein 6, chloroplastic / Photosystem I reaction center subunit V, chloroplastic / Photosystem I reaction center subunit IV A, chloroplastic / Photosystem I reaction center subunit II-2, chloroplastic ...Chlorophyll a-b binding protein 4, chloroplastic / Photosystem I P700 chlorophyll a apoprotein A1 / Photosystem I P700 chlorophyll a apoprotein A2 / Photosystem I reaction center subunit VIII / Photosystem I reaction center subunit IX / Photosystem I iron-sulfur center / Chlorophyll a-b binding protein 6, chloroplastic / Photosystem I reaction center subunit V, chloroplastic / Photosystem I reaction center subunit IV A, chloroplastic / Photosystem I reaction center subunit II-2, chloroplastic / Photosystem I reaction center subunit III, chloroplastic / Photosystem I reaction center subunit XI, chloroplastic / Photosystem I reaction center subunit psaK, chloroplastic / Photosystem I reaction center subunit VI-2, chloroplastic / Photosystem I chlorophyll a/b-binding protein 3-1, chloroplastic / Photosystem I chlorophyll a/b-binding protein 2, chloroplastic
Similarity search - Component
Biological speciesArabidopsis thaliana (thale cress)
Methodsingle particle reconstruction / cryo EM / Resolution: 3.22 Å
AuthorsChen SJB / Wu JH / Sui SF / Zhang LX
Funding support China, 1 items
OrganizationGrant numberCountry
National Natural Science Foundation of China (NSFC) China
CitationJournal: To Be Published
Title: Cryo-EM structure of the Arabidopsis thaliana photosystem I(PSI-LHCII-ST2)
Authors: Chen SJB / Wu JH / Sui SF / Zhang LX
History
DepositionApr 27, 2023-
Header (metadata) releaseNov 15, 2023-
Map releaseNov 15, 2023-
UpdateNov 15, 2023-
Current statusNov 15, 2023Processing site: PDBj / Status: Released

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Structure visualization

Supplemental images

emd_36037.png

Downloads & links

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Map

FileDownload / File: emd_36037.map.gz / Format: CCP4 / Size: 144.7 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
Voxel sizeX=Y=Z: 1.087 Å
Density
Contour LevelBy AUTHOR: 3.21
Minimum - Maximum-22.642061000000002 - 35.713546999999998
Average (Standard dev.)0.012229965 (±1.0698707)
SymmetrySpace group: 1
Details

EMDB XML:

Map geometry
Axis orderZYX
Origin000
Dimensions336336336
Spacing336336336
CellA=B=C: 365.232 Å
α=β=γ: 90.0 °

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Supplemental data

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Sample components

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Entire : Cryo-EM structure of the Arabidopsis thaliana photosystem I(PSI-L...

EntireName: Cryo-EM structure of the Arabidopsis thaliana photosystem I(PSI-LHCII-ST2)
Components
  • Complex: Cryo-EM structure of the Arabidopsis thaliana photosystem I(PSI-LHCII-ST2)
  • Protein or peptide: Chlorophyll a-b binding protein 6, chloroplastic
  • Protein or peptide: Photosystem I chlorophyll a/b-binding protein 2, chloroplastic
  • Protein or peptide: Photosystem I chlorophyll a/b-binding protein 3-1, chloroplastic
  • Protein or peptide: Chlorophyll a-b binding protein 4, chloroplastic
  • Protein or peptide: Photosystem I P700 chlorophyll a apoprotein A1
  • Protein or peptide: Photosystem I P700 chlorophyll a apoprotein A2
  • Protein or peptide: Photosystem I iron-sulfur center
  • Protein or peptide: Photosystem I reaction center subunit II-2, chloroplastic
  • Protein or peptide: Photosystem I reaction center subunit IV A, chloroplastic
  • Protein or peptide: Photosystem I reaction center subunit III, chloroplastic
  • Protein or peptide: Photosystem I reaction center subunit V, chloroplastic
  • Protein or peptide: Photosystem I reaction center subunit VI-2, chloroplastic
  • Protein or peptide: Photosystem I reaction center subunit VIII
  • Protein or peptide: Photosystem I reaction center subunit IX
  • Protein or peptide: Photosystem I reaction center subunit psaK, chloroplastic
  • Protein or peptide: Photosystem I reaction center subunit XI, chloroplastic
  • Ligand: CHLOROPHYLL B
  • Ligand: CHLOROPHYLL A
  • Ligand: (3S,5R,6S,3'S,5'R,6'S)-5,6,5',6'-DIEPOXY-5,6,5',6'- TETRAHYDRO-BETA,BETA-CAROTENE-3,3'-DIOL
  • Ligand: 1,2-DIPALMITOYL-PHOSPHATIDYL-GLYCEROLE
  • Ligand: (3R,3'R,6S)-4,5-DIDEHYDRO-5,6-DIHYDRO-BETA,BETA-CAROTENE-3,3'-DIOL
  • Ligand: BETA-CAROTENEΒ-Carotene
  • Ligand: 1,2-DISTEAROYL-MONOGALACTOSYL-DIGLYCERIDE
  • Ligand: CHLOROPHYLL A ISOMER
  • Ligand: PHYLLOQUINONEPhytomenadione
  • Ligand: IRON/SULFUR CLUSTERIron–sulfur cluster
  • Ligand: DIGALACTOSYL DIACYL GLYCEROL (DGDG)

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Supramolecule #1: Cryo-EM structure of the Arabidopsis thaliana photosystem I(PSI-L...

SupramoleculeName: Cryo-EM structure of the Arabidopsis thaliana photosystem I(PSI-LHCII-ST2)
type: complex / ID: 1 / Parent: 0
Source (natural)Organism: Arabidopsis thaliana (thale cress)

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Macromolecule #1: Chlorophyll a-b binding protein 6, chloroplastic

MacromoleculeName: Chlorophyll a-b binding protein 6, chloroplastic / type: protein_or_peptide / ID: 1 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Arabidopsis thaliana (thale cress)
Molecular weightTheoretical: 26.021895 KDa
Recombinant expressionOrganism: Arabidopsis thaliana (thale cress)
SequenceString: MASNSLMSCG IAAVYPSLLS SSKSKFVSAG VPLPNAGNVG RIRMAAHWMP GEPRPAYLDG SAPGDFGFDP LGLGEVPANL ERYKESELI HCRWAMLAVP GILVPEALGY GNWVKAQEWA ALPGGQATYL GNPVPWGTLP TILAIEFLAI AFVEHQRSME K DPEKKKYP ...String:
MASNSLMSCG IAAVYPSLLS SSKSKFVSAG VPLPNAGNVG RIRMAAHWMP GEPRPAYLDG SAPGDFGFDP LGLGEVPANL ERYKESELI HCRWAMLAVP GILVPEALGY GNWVKAQEWA ALPGGQATYL GNPVPWGTLP TILAIEFLAI AFVEHQRSME K DPEKKKYP GGAFDPLGYS KDPKKLEELK VKEIKNGRLA LLAFVGFCVQ QSAYPGTGPL ENLATHLADP WHNNIGDIVI PF N

UniProtKB: Chlorophyll a-b binding protein 6, chloroplastic

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Macromolecule #2: Photosystem I chlorophyll a/b-binding protein 2, chloroplastic

MacromoleculeName: Photosystem I chlorophyll a/b-binding protein 2, chloroplastic
type: protein_or_peptide / ID: 2 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Arabidopsis thaliana (thale cress)
Molecular weightTheoretical: 27.782814 KDa
Recombinant expressionOrganism: Arabidopsis thaliana (thale cress)
SequenceString: MASSLCASSA IAAISSPSFL GGKKLRLKKK LTVPAVSRPD ASVRAVAADP DRPIWFPGST PPEWLDGSLP GDFGFDPLGL SSDPDSLKW NVQAEIVHCR WAMLGAAGIF IPEFLTKIGI LNTPSWYTAG EQEYFTDKTT LFVVELILIG WAEGRRWADI I KPGSVNTD ...String:
MASSLCASSA IAAISSPSFL GGKKLRLKKK LTVPAVSRPD ASVRAVAADP DRPIWFPGST PPEWLDGSLP GDFGFDPLGL SSDPDSLKW NVQAEIVHCR WAMLGAAGIF IPEFLTKIGI LNTPSWYTAG EQEYFTDKTT LFVVELILIG WAEGRRWADI I KPGSVNTD PVFPNNKLTG TDVGYPGGLW FDPLGWGSGS PAKLKELRTK EIKNGRLAML AVMGAWFQHI YTGTGPIDNL FA HLADPGH ATIFAAFTPK

UniProtKB: Photosystem I chlorophyll a/b-binding protein 2, chloroplastic

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Macromolecule #3: Photosystem I chlorophyll a/b-binding protein 3-1, chloroplastic

MacromoleculeName: Photosystem I chlorophyll a/b-binding protein 3-1, chloroplastic
type: protein_or_peptide / ID: 3 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Arabidopsis thaliana (thale cress)
Molecular weightTheoretical: 29.206311 KDa
Recombinant expressionOrganism: Arabidopsis thaliana (thale cress)
SequenceString: MAAQALVSSS LTSSVQTARQ IFGSKPVASA SQKKSSFVVK AAATPPVKQG ANRPLWFASS QSLSYLDGSL PGDYGFDPLG LSDPEGTGG FIEPRWLAYG EIINGRFAML GAAGAIAPEI LGKAGLIPAE TALPWFQTGV IPPAGTYTYW ADNYTLFVLE M ALMGFAEH ...String:
MAAQALVSSS LTSSVQTARQ IFGSKPVASA SQKKSSFVVK AAATPPVKQG ANRPLWFASS QSLSYLDGSL PGDYGFDPLG LSDPEGTGG FIEPRWLAYG EIINGRFAML GAAGAIAPEI LGKAGLIPAE TALPWFQTGV IPPAGTYTYW ADNYTLFVLE M ALMGFAEH RRLQDWYNPG SMGKQYFLGL EKGLAGSGNP AYPGGPFFNP LGFGKDEKSL KELKLKEVKN GRLAMLAILG YF IQGLVTG VGPYQNLLDH LADPVNNNVL TSLKFH

UniProtKB: Photosystem I chlorophyll a/b-binding protein 3-1, chloroplastic

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

MacromoleculeName: Chlorophyll a-b binding protein 4, chloroplastic / type: protein_or_peptide / ID: 4 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Arabidopsis thaliana (thale cress)
Molecular weightTheoretical: 27.760461 KDa
Recombinant expressionOrganism: Arabidopsis thaliana (thale cress)
SequenceString: MATVTTHASA SIFRPCTSKP RFLTGSSGRL NRDLSFTSIG SSAKTSSFKV EAKKGEWLPG LASPDYLTGS LAGDNGFDPL GLAEDPENL KWFVQAELVN GRWAMLGVAG MLLPEVFTKI GIINVPEWYD AGKEQYFASS STLFVIEFIL FHYVEIRRWQ D IKNPGSVN ...String:
MATVTTHASA SIFRPCTSKP RFLTGSSGRL NRDLSFTSIG SSAKTSSFKV EAKKGEWLPG LASPDYLTGS LAGDNGFDPL GLAEDPENL KWFVQAELVN GRWAMLGVAG MLLPEVFTKI GIINVPEWYD AGKEQYFASS STLFVIEFIL FHYVEIRRWQ D IKNPGSVN QDPIFKQYSL PKGEVGYPGG IFNPLNFAPT QEAKEKELAN GRLAMLAFLG FVVQHNVTGK GPFENLLQHL SD PWHNTIV QTFN

UniProtKB: Chlorophyll a-b binding protein 4, chloroplastic

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Macromolecule #5: Photosystem I P700 chlorophyll a apoprotein A1

MacromoleculeName: Photosystem I P700 chlorophyll a apoprotein A1 / type: protein_or_peptide / ID: 5 / Number of copies: 1 / Enantiomer: LEVO / EC number: photosystem I
Source (natural)Organism: Arabidopsis thaliana (thale cress)
Molecular weightTheoretical: 83.315367 KDa
Recombinant expressionOrganism: Arabidopsis thaliana (thale cress)
SequenceString: MIIRSPEPEV KILVDRDPIK TSFEEWAKPG HFSRTIAKGP DTTTWIWNLH ADAHDFDSHT SDLEEISRKV FSAHFGQLSI IFLWLSGMY FHGARFSNYE AWLSDPTHIG PSAQVVWPIV GQEILNGDVG GGFRGIQITS GFFQIWRASG ITSELQLYCT A IGALVFAA ...String:
MIIRSPEPEV KILVDRDPIK TSFEEWAKPG HFSRTIAKGP DTTTWIWNLH ADAHDFDSHT SDLEEISRKV FSAHFGQLSI IFLWLSGMY FHGARFSNYE AWLSDPTHIG PSAQVVWPIV GQEILNGDVG GGFRGIQITS GFFQIWRASG ITSELQLYCT A IGALVFAA LMLFAGWFHY HKAAPKLAWF QDVESMLNHH LAGLLGLGSL SWAGHQVHVS LPINQFLNAG VDPKEIPLPH EF ILNRDLL AQLYPSFAEG ATPFFTLNWS KYSEFLTFRG GLDPVTGGLW LTDIAHHHLA IAILFLIAGH MYRTNWGIGH GIK DILEAH KGPFTGQGHK GLYEILTTSW HAQLSLNLAM LGSLTIIVAH HMYSMPPYPY LATDYATQLS LFTHHMWIGG FLIV GAAAH AAIFMVRDYD PTNRYNDLLD RVLRHRDAII SHLNWVCIFL GFHSFGLYIH NDTMSALGRP QDMFSDTAIQ LQPVF AQWI QNTHALAPGV TAPGETASTS LTWGGGELVA VGGKVALLPI PLGTADFLVH HIHAFTIHVT VLILLKGVLF ARSSRL IPD KANLGFRFPC DGPGRGGTCQ VSAWDHVFLG LFWMYNAISV VIFHFSWKMQ SDVWGSISDQ GVVTHITGGN FAQSSIT IN GWLRDFLWAQ ASQVIQSYGS SLSAYGLFFL GAHFVWAFSL MFLFSGRGYW QELIESIVWA HNKLKVAPAT QPRALSII Q GRAVGVTHYL LGGIATTWAF FLARIIAVG

UniProtKB: Photosystem I P700 chlorophyll a apoprotein A1

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Macromolecule #6: Photosystem I P700 chlorophyll a apoprotein A2

MacromoleculeName: Photosystem I P700 chlorophyll a apoprotein A2 / type: protein_or_peptide / ID: 6 / Number of copies: 1 / Enantiomer: LEVO / EC number: photosystem I
Source (natural)Organism: Arabidopsis thaliana (thale cress)
Molecular weightTheoretical: 82.555883 KDa
Recombinant expressionOrganism: Arabidopsis thaliana (thale cress)
SequenceString: MALRFPRFSQ GLAQDPTTRR IWFGIATAHD FESHDDITEE RLYQNIFASH FGQLAIIFLW TSGNLFHVAW QGNFETWVQD PLHVRPIAH AIWDPHFGQP AVEAFTRGGA LGPVNIAYSG VYQWWYTIGL RTNEDLYTGA LFLLFLSALS LIGGWLHLQP K WKPRVSWF ...String:
MALRFPRFSQ GLAQDPTTRR IWFGIATAHD FESHDDITEE RLYQNIFASH FGQLAIIFLW TSGNLFHVAW QGNFETWVQD PLHVRPIAH AIWDPHFGQP AVEAFTRGGA LGPVNIAYSG VYQWWYTIGL RTNEDLYTGA LFLLFLSALS LIGGWLHLQP K WKPRVSWF KNAESRLNHH LSGLFGVSSL AWTGHLVHVA IPASRGEYVR WNNFLNVLPH PQGLGPLFTG QWNLYAQNPD SS SHLFGTS QGSGTAILTL LGGFHPQTQS LWLTDMAHHH LAIAILFLIA GHMYRTNFGI GHSIKDLLEA HIPPGGRLGR GHK GLYDTI NNSIHFQLGL ALASLGVITS LVAQHMYSLP AYAFIAQDFT TQAALYTHHQ YIAGFIMTGA FAHGAIFFIR DYNP EQNED NVLARMLDHK EAIISHLSWA SLFLGFHTLG LYVHNDVMLA FGTPEKQILI EPIFAQWIQS AHGKTSYGFD VLLSS TSGP AFNAGRSIWL PGWLNAINEN SNSLFLTIGP GDFLVHHAIA LGLHTTTLIL VKGALDARGS KLMPDKKDFG YSFPCD GPG RGGTCDISAW DAFYLAVFWM LNTIGWVTFY WHWKHITLWQ GNVSQFNESS TYLMGWLRDY LWLNSSQLIN GYNPFGM NS LSVWAWMFLF GHLVWATGFM FLISWRGYWQ ELIETLAWAH ERTPLANLIR WKDKPVALSI VQARLVGLAH FSVGYIFT Y AAFLIASTSG KFG

UniProtKB: Photosystem I P700 chlorophyll a apoprotein A2

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Macromolecule #7: Photosystem I iron-sulfur center

MacromoleculeName: Photosystem I iron-sulfur center / type: protein_or_peptide / ID: 7 / Number of copies: 1 / Enantiomer: LEVO / EC number: photosystem I
Source (natural)Organism: Arabidopsis thaliana (thale cress)
Molecular weightTheoretical: 9.049509 KDa
Recombinant expressionOrganism: Arabidopsis thaliana (thale cress)
SequenceString:
MSHSVKIYDT CIGCTQCVRA CPTDVLEMIP WDGCKAKQIA SAPRTEDCVG CKRCESACPT DFLSVRVYLW HETTRSMGLA Y

UniProtKB: Photosystem I iron-sulfur center

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Macromolecule #8: Photosystem I reaction center subunit II-2, chloroplastic

MacromoleculeName: Photosystem I reaction center subunit II-2, chloroplastic
type: protein_or_peptide / ID: 8 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Arabidopsis thaliana (thale cress)
Molecular weightTheoretical: 22.336598 KDa
Recombinant expressionOrganism: Arabidopsis thaliana (thale cress)
SequenceString: MATQAAGIFS PAITTTTSAV KKLHLFSSSH RPKSLSFTKT AIRAEKTESS SAAPAVKEAP VGFTPPQLDP NTPSPIFAGS TGGLLRKAQ VEEFYVITWN SPKEQIFEMP TGGAAIMREG PNLLKLARKE QCLALGTRLR SKYKITYQFY RVFPNGEVQY L HPKDGVYP ...String:
MATQAAGIFS PAITTTTSAV KKLHLFSSSH RPKSLSFTKT AIRAEKTESS SAAPAVKEAP VGFTPPQLDP NTPSPIFAGS TGGLLRKAQ VEEFYVITWN SPKEQIFEMP TGGAAIMREG PNLLKLARKE QCLALGTRLR SKYKITYQFY RVFPNGEVQY L HPKDGVYP EKANPGREGV GLNMRSIGKN VSPIEVKFTG KQSYDL

UniProtKB: Photosystem I reaction center subunit II-2, chloroplastic

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Macromolecule #9: Photosystem I reaction center subunit IV A, chloroplastic

MacromoleculeName: Photosystem I reaction center subunit IV A, chloroplastic
type: protein_or_peptide / ID: 9 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Arabidopsis thaliana (thale cress)
Molecular weightTheoretical: 14.984955 KDa
Recombinant expressionOrganism: Arabidopsis thaliana (thale cress)
SequenceString:
MAMTTASTVF VLPANVTSVA GASSSRSSVS FLPMRNAGSR LVVRAAEDPA PASSSSKDSP AAAAAPDGAT ATKPKPPPIG PKRGSKVKI LRRESYWFKN VGSVVAVDQD PKTRYPVVVR FAKVNYANIS TNNYALDEVE EVAA

UniProtKB: Photosystem I reaction center subunit IV A, chloroplastic

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

MacromoleculeName: Photosystem I reaction center subunit III, chloroplastic
type: protein_or_peptide / ID: 10 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Arabidopsis thaliana (thale cress)
Molecular weightTheoretical: 24.203125 KDa
Recombinant expressionOrganism: Arabidopsis thaliana (thale cress)
SequenceString: MSLTIPANLV LNPRSNKSLT QSVPKSSARF VCSDDKSSSS TPQSMKAFSA AVALSSILLS APMPAVADIS GLTPCKDSKQ FAKREKQQI KKLESSLKLY APESAPALAL NAQIEKTKRR FDNYGKYGLL CGSDGLPHLI VNGDQRHWGE FITPGILFLY I AGWIGWVG ...String:
MSLTIPANLV LNPRSNKSLT QSVPKSSARF VCSDDKSSSS TPQSMKAFSA AVALSSILLS APMPAVADIS GLTPCKDSKQ FAKREKQQI KKLESSLKLY APESAPALAL NAQIEKTKRR FDNYGKYGLL CGSDGLPHLI VNGDQRHWGE FITPGILFLY I AGWIGWVG RSYLIAISGE KKPAMKEIII DVPLASRIIF RGFIWPVAAY REFLNGDLIA KDV

UniProtKB: Photosystem I reaction center subunit III, chloroplastic

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Macromolecule #11: Photosystem I reaction center subunit V, chloroplastic

MacromoleculeName: Photosystem I reaction center subunit V, chloroplastic
type: protein_or_peptide / ID: 11 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Arabidopsis thaliana (thale cress)
Molecular weightTheoretical: 17.103271 KDa
Recombinant expressionOrganism: Arabidopsis thaliana (thale cress)
SequenceString:
MATSASALLS PTTFSTAISH KNPNSISFHG LRPLRLGGSS SALPKLSTTG RKSSSAVVRA ELSPSIVISL STGLSLFLGR FVFFNFQRE NVAKQGLPEQ NGKTHFEAGD DRAKEYVSLL KSNDPIGFNI VDVLAWGSIG HIVAYYILAT SSNGYDPSFF G

UniProtKB: Photosystem I reaction center subunit V, chloroplastic

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Macromolecule #12: Photosystem I reaction center subunit VI-2, chloroplastic

MacromoleculeName: Photosystem I reaction center subunit VI-2, chloroplastic
type: protein_or_peptide / ID: 12 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Arabidopsis thaliana (thale cress)
Molecular weightTheoretical: 15.291522 KDa
Recombinant expressionOrganism: Arabidopsis thaliana (thale cress)
SequenceString:
MASFATIAAV QPSAAVKGLG GSSLAGAKLF IKPSRQSFKT KSTRAGAVVA KYGDKSVYFD LEDLGNTTGQ WDVYGSDAPS PYNPLQSKF FETFAAPFTK RGLLLKFLIL GGGSLLTYVS ANSTGDVLPI KRGPQEPPKL GPRGKL

UniProtKB: Photosystem I reaction center subunit VI-2, chloroplastic

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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: Arabidopsis thaliana (thale cress)
Molecular weightTheoretical: 4.137024 KDa
Recombinant expressionOrganism: Arabidopsis thaliana (thale cress)
SequenceString:
MTTFNNLPSI FVPLVGLVFP AIAMASLFLH IQKNKIF

UniProtKB: Photosystem I reaction center subunit VIII

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Macromolecule #14: Photosystem I reaction center subunit IX

MacromoleculeName: Photosystem I reaction center subunit IX / type: protein_or_peptide / ID: 14 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Arabidopsis thaliana (thale cress)
Molecular weightTheoretical: 5.011897 KDa
Recombinant expressionOrganism: Arabidopsis thaliana (thale cress)
SequenceString:
MRDLKTYLSV APVLSTLWFG SLAGLLIEIN RLFPDALTFP FFSF

UniProtKB: Photosystem I reaction center subunit IX

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Macromolecule #15: Photosystem I reaction center subunit psaK, chloroplastic

MacromoleculeName: Photosystem I reaction center subunit psaK, chloroplastic
type: protein_or_peptide / ID: 15 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Arabidopsis thaliana (thale cress)
Molecular weightTheoretical: 13.219431 KDa
Recombinant expressionOrganism: Arabidopsis thaliana (thale cress)
SequenceString:
MASTMMTTLP QFNGLRATKI SAAPVQGLAS VQPMRRKGNG ALGAKCDFIG SSTNLIMVTS TTLMLFAGRF GLAPSANRKA TAGLRLEAR DSGLQTGDPA GFTLADTLAC GTVGHIIGVG VVLGLKNIGA I

UniProtKB: Photosystem I reaction center subunit psaK, chloroplastic

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Macromolecule #16: Photosystem I reaction center subunit XI, chloroplastic

MacromoleculeName: Photosystem I reaction center subunit XI, chloroplastic
type: protein_or_peptide / ID: 16 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Arabidopsis thaliana (thale cress)
Molecular weightTheoretical: 23.070557 KDa
Recombinant expressionOrganism: Arabidopsis thaliana (thale cress)
SequenceString: MAASASPMAS QLRSSFSSAS LSQRLAVPKG ISGAPFGVSP TKRVSSFTVR AVKSDKTTFQ VVQPINGDPF IGSLETPVTS SPLIAWYLS NLPGYRTAVN PLLRGVEVGL AHGFFLVGPF VKAGPLRNTA YAGSAGSLAA AGLVVILSMC LTIYGISSFK E GEPSIAPS ...String:
MAASASPMAS QLRSSFSSAS LSQRLAVPKG ISGAPFGVSP TKRVSSFTVR AVKSDKTTFQ VVQPINGDPF IGSLETPVTS SPLIAWYLS NLPGYRTAVN PLLRGVEVGL AHGFFLVGPF VKAGPLRNTA YAGSAGSLAA AGLVVILSMC LTIYGISSFK E GEPSIAPS LTLTGRKKQP DQLQTADGWA KFTGGFFFGG ISGVTWAYFL LYVLDLPYFV K

UniProtKB: Photosystem I reaction center subunit XI, chloroplastic

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Macromolecule #17: CHLOROPHYLL B

MacromoleculeName: CHLOROPHYLL B / type: ligand / ID: 17 / Number of copies: 12 / Formula: CHL
Molecular weightTheoretical: 907.472 Da
Chemical component information

ChemComp-CHL:
CHLOROPHYLL B / Chlorophyll b

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Macromolecule #18: CHLOROPHYLL A

MacromoleculeName: CHLOROPHYLL A / type: ligand / ID: 18 / Number of copies: 141 / Formula: CLA
Molecular weightTheoretical: 893.489 Da
Chemical component information

ChemComp-CLA:
CHLOROPHYLL A / Chlorophyll a

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Macromolecule #19: (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: 19 / Number of copies: 3 / 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

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Macromolecule #20: 1,2-DIPALMITOYL-PHOSPHATIDYL-GLYCEROLE

MacromoleculeName: 1,2-DIPALMITOYL-PHOSPHATIDYL-GLYCEROLE / type: ligand / ID: 20 / Number of copies: 6 / Formula: LHG
Molecular weightTheoretical: 722.97 Da
Chemical component information

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

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Macromolecule #21: (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: 21 / Number of copies: 5 / 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

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Macromolecule #22: BETA-CAROTENE

MacromoleculeName: BETA-CAROTENE / type: ligand / ID: 22 / Number of copies: 25 / Formula: BCR
Molecular weightTheoretical: 536.873 Da
Chemical component information

ChemComp-BCR:
BETA-CAROTENE / Β-Carotene

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Macromolecule #23: 1,2-DISTEAROYL-MONOGALACTOSYL-DIGLYCERIDE

MacromoleculeName: 1,2-DISTEAROYL-MONOGALACTOSYL-DIGLYCERIDE / type: ligand / ID: 23 / Number of copies: 2 / Formula: LMG
Molecular weightTheoretical: 787.158 Da
Chemical component information

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

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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

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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 / Phytomenadione

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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 / Iron–sulfur cluster

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Macromolecule #27: DIGALACTOSYL DIACYL GLYCEROL (DGDG)

MacromoleculeName: DIGALACTOSYL DIACYL GLYCEROL (DGDG) / type: ligand / ID: 27 / Number of copies: 1 / Formula: DGD
Molecular weightTheoretical: 949.299 Da
Chemical component information

ChemComp-DGD:
DIGALACTOSYL DIACYL GLYCEROL (DGDG)

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Experimental details

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Structure determination

Methodcryo EM
Processingsingle particle reconstruction
Aggregation stateparticle

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Sample preparation

BufferpH: 7.4
VitrificationCryogen name: ETHANE

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Electron microscopy

MicroscopeFEI TITAN
Electron beamAcceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN
Electron opticsIllumination mode: OTHER / Imaging mode: OTHER / Nominal defocus max: 2.2 µm / Nominal defocus min: 1.2 µm
Image recordingFilm or detector model: GATAN K3 (6k x 4k) / Average electron dose: 50.5 e/Å2

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Image processing

Startup modelType of model: NONE
Initial angle assignmentType: MAXIMUM LIKELIHOOD
Final angle assignmentType: MAXIMUM LIKELIHOOD
Final reconstructionResolution.type: BY AUTHOR / Resolution: 3.22 Å / Resolution method: FSC 0.143 CUT-OFF / Number images used: 137602

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