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Entry
Database: EMDB / ID: EMD-75106
TitleThermosynechococcus vestitus (BP-1) Photosystem I Complexed with Platinum Nanoparticles
Map dataCryo-EM Structure of Thermophilic Cyanobaterial Photosystem I Complexed with Platinum Nanoparticles
Sample
  • Complex: Thermosynechococcus vestitus (BP-1) Photosystem I Complexed with Platinum Nanoparticles
    • Protein or peptide: x 12 types
  • Ligand: x 8 types
KeywordsNanoparticles / Biohybrid / Photosystem / PHOTOSYNTHESIS
Biological speciesThermosynechococcus vestitus BP-1 (bacteria)
Methodsingle particle reconstruction / cryo EM / Resolution: 3.4 Å
AuthorsEmerson MD / Gisriel CJ
Funding support United States, 1 items
OrganizationGrant numberCountry
Department of Energy (DOE, United States) United States
CitationJournal: Biorxiv / Year: 2026
Title: Molecular design principles for Photosystem I-based biohybrid solar fuel catalysts.
Authors: Emerson MD / Damaraju SNS / Short AH / Alvord ZB / Palmer ZA / Mehra HS / Brininger CM / Vermaas JV / Utschig LM / Gisriel CJ
History
DepositionJan 15, 2026-
Header (metadata) releaseJul 1, 2026-
Map releaseJul 1, 2026-
UpdateJul 1, 2026-
Current statusJul 1, 2026Processing site: RCSB / Status: Released

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Structure visualization

Supplemental images

emd_75106.png

Downloads & links

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Map

FileReleased
AnnotationCryo-EM Structure of Thermophilic Cyanobaterial Photosystem I Complexed with Platinum Nanoparticles
Voxel sizeX=Y=Z: 1.064 Å
Density
Contour LevelBy AUTHOR: 0.302
Minimum - Maximum-0.99407125 - 2.9682002
Average (Standard dev.)0.010376295 (±0.077144586)
SymmetrySpace group: 1
Details

EMDB XML:

Map geometry
Axis orderYXZ
Origin000
Dimensions360360360
Spacing360360360
CellA=B=C: 383.04 Å
α=β=γ: 90.0 °

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Supplemental data

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Sample components

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Entire : Thermosynechococcus vestitus (BP-1) Photosystem I Complexed with ...

EntireName: Thermosynechococcus vestitus (BP-1) Photosystem I Complexed with Platinum Nanoparticles
Components
  • Complex: Thermosynechococcus vestitus (BP-1) Photosystem I Complexed with Platinum Nanoparticles
    • 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
    • Protein or peptide: Photosystem I reaction center subunit IV
    • Protein or peptide: Photosystem I reaction center subunit III
    • 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
    • Protein or peptide: Photosystem I reaction center subunit XI
    • Protein or peptide: Photosystem I reaction center subunit XII
    • Protein or peptide: Photosystem I 4.8K protein
  • Ligand: CHLOROPHYLL A ISOMER
  • Ligand: CHLOROPHYLL A
  • Ligand: PHYLLOQUINONE
  • Ligand: BETA-CAROTENE
  • Ligand: 1,2-DIPALMITOYL-PHOSPHATIDYL-GLYCEROLE
  • Ligand: IRON/SULFUR CLUSTER
  • Ligand: 1,2-DISTEAROYL-MONOGALACTOSYL-DIGLYCERIDE
  • Ligand: CALCIUM ION

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Supramolecule #1: Thermosynechococcus vestitus (BP-1) Photosystem I Complexed with ...

SupramoleculeName: Thermosynechococcus vestitus (BP-1) Photosystem I Complexed with Platinum Nanoparticles
type: complex / ID: 1 / Parent: 0 / Macromolecule list: #1-#12
Source (natural)Organism: Thermosynechococcus vestitus BP-1 (bacteria)
Molecular weightTheoretical: 934.541 KDa

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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: 3 / Enantiomer: LEVO / EC number: photosystem I
Source (natural)Organism: Thermosynechococcus vestitus BP-1 (bacteria)
Molecular weightTheoretical: 83.267773 KDa
SequenceString: MTISPPEREP KVRVVVDNDP VPTSFEKWAK PGHFDRTLAR GPQTTTWIWN LHALAHDFDT HTSDLEDISR KIFSAHFGHL AVVFIWLSG MYFHGAKFSN YEAWLADPTG IKPSAQVVWP IVGQGILNGD VGGGFHGIQI TSGLFQLWRA SGITNEFQLY C TAIGGLVM ...String:
MTISPPEREP KVRVVVDNDP VPTSFEKWAK PGHFDRTLAR GPQTTTWIWN LHALAHDFDT HTSDLEDISR KIFSAHFGHL AVVFIWLSG MYFHGAKFSN YEAWLADPTG IKPSAQVVWP IVGQGILNGD VGGGFHGIQI TSGLFQLWRA SGITNEFQLY C TAIGGLVM AGLMLFAGWF HYHKRAPKLE WFQNVESMLN HHLAGLLGLG SLAWAGHQIH VSLPINKLLD AGVAAKDIPL PH EFILNPS LMAELYPKVD WGFFSGVIPF FTFNWAAYSD FLTFNGGLNP VTGGLWLSDT AHHHLAIAVL FIIAGHMYRT NWG IGHSLK EILEAHKGPF TGAGHKGLYE VLTTSWHAQL AINLAMMGSL SIIVAQHMYA MPPYPYLATD YPTQLSLFTH HMWI GGFLV VGGAAHGAIF MVRDYDPAMN QNNVLDRVLR HRDAIISHLN WVCIFLGFHS FGLYVHNDTM RAFGRPQDMF SDTGI QLQP VFAQWVQNLH TLAPGGTAPN AAATASVAFG GDVVAVGGKV AMMPIVLGTA DFMVHHIHAF TIHVTVLILL KGVLFA RSS RLIPDKANLG FRFPCDGPGR GGTCQVSGWD HVFLGLFWMY NCISVVIFHF SWKMQSDVWG TVAPDGTVSH ITGGNFA QS AITINGWLRD FLWAQASQVI GSYGSALSAY GLLFLGAHFI WAFSLMFLFS GRGYWQELIE SIVWAHNKLK VAPAIQPR A LSIIQGRAVG VAHYLLGGIA TTWAFFLARI ISVG

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: 3 / Enantiomer: LEVO / EC number: photosystem I
Source (natural)Organism: Thermosynechococcus vestitus BP-1 (bacteria)
Molecular weightTheoretical: 83.123648 KDa
SequenceString: MATKFPKFSQ DLAQDPTTRR IWYAIAMAHD FESHDGMTEE NLYQKIFASH FGHLAIIFLW VSGSLFHVAW QGNFEQWVQD PVNTRPIAH AIWDPQFGKA AVDAFTQAGA SNPVDIAYSG VYHWWYTIGM RTNGDLYQGA IFLLILASLA LFAGWLHLQP K FRPSLSWF ...String:
MATKFPKFSQ DLAQDPTTRR IWYAIAMAHD FESHDGMTEE NLYQKIFASH FGHLAIIFLW VSGSLFHVAW QGNFEQWVQD PVNTRPIAH AIWDPQFGKA AVDAFTQAGA SNPVDIAYSG VYHWWYTIGM RTNGDLYQGA IFLLILASLA LFAGWLHLQP K FRPSLSWF KNAESRLNHH LAGLFGVSSL AWAGHLIHVA IPESRGQHVG WDNFLSTMPH PAGLAPFFTG NWGVYAQNPD TA SHVFGTA QGAGTAILTF LGGFHPQTES LWLTDMAHHH LAIAVLFIVA GHMYRTQFGI GHSIKEMMDA KDFFGTKVEG PFN MPHQGI YETYNNSLHF QLGWHLACLG VITSLVAQHM YSLPPYAFIA QDHTTMAALY THHQYIAGFL MVGAFAHGAI FLVR DYDPA QNKGNVLDRV LQHKEAIISH LSWVSLFLGF HTLGLYVHND VVVAFGTPEK QILIEPVFAQ FIQAAHGKLL YGFDT LLSN PDSIASTAWP NYGNVWLPGW LDAINSGTNS LFLTIGPGDF LVHHAIALGL HTTTLILVKG ALDARGSKLM PDKKDF GYA FPCDGPGRGG TCDISAWDAF YLAMFWMLNT IGWVTFYWHW KHLGVWEGNV AQFNESSTYL MGWLRDYLWL NSSQLIN GY NPFGTNNLSV WAWMFLFGHL VWATGFMFLI SWRGYWQELI ETLVWAHERT PLANLVRWKD KPVALSIVQA RLVGLAHF S VGYILTYAAF LIASTAAKFG

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: 3 / Enantiomer: LEVO / EC number: photosystem I
Source (natural)Organism: Thermosynechococcus vestitus BP-1 (bacteria)
Molecular weightTheoretical: 8.809207 KDa
SequenceString:
MAHTVKIYDT CIGCTQCVRA CPTDVLEMVP WDGCKAGQIA SSPRTEDCVG CKRCETACPT DFLSIRVYLG AETTRSMGLA Y

UniProtKB: Photosystem I iron-sulfur center

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Macromolecule #4: Photosystem I reaction center subunit II

MacromoleculeName: Photosystem I reaction center subunit II / type: protein_or_peptide / ID: 4 / Number of copies: 3 / Enantiomer: LEVO
Source (natural)Organism: Thermosynechococcus vestitus BP-1 (bacteria)
Molecular weightTheoretical: 15.389494 KDa
SequenceString:
MTTLTGQPPL YGGSTGGLLS AADTEEKYAI TWTSPKEQVF EMPTAGAAVM REGENLVYFA RKEQCLALAA QQLRPRKIND YKIYRIFPD GETVLIHPKD GVFPEKVNKG REAVNSVPRS IGQNPNPSQL KFTGKKPYDP

UniProtKB: Photosystem I reaction center subunit II

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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: 3 / Enantiomer: LEVO
Source (natural)Organism: Thermosynechococcus vestitus BP-1 (bacteria)
Molecular weightTheoretical: 8.399485 KDa
SequenceString:
MVQRGSKVKI LRPESYWYNE VGTVASVDQT PGVKYPVIVR FDKVNYTGYS GSASGVNTNN FALHEVQEVA PPKKGK

UniProtKB: Photosystem I reaction center subunit IV

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Macromolecule #6: Photosystem I reaction center subunit III

MacromoleculeName: Photosystem I reaction center subunit III / type: protein_or_peptide / ID: 6 / Number of copies: 3 / Enantiomer: LEVO
Source (natural)Organism: Thermosynechococcus vestitus BP-1 (bacteria)
Molecular weightTheoretical: 17.716586 KDa
SequenceString:
MRRFLALLLV LTLWLGFTPL ASADVAGLVP CKDSPAFQKR AAAAVNTTAD PASGQKRFER YSQALCGEDG LPHLVVDGRL SRAGDFLIP SVLFLYIAGW IGWVGRAYLI AVRNSGEANE KEIIIDVPLA IKCMLTGFAW PLAALKELAS GELTAKDNEI T VSPR

UniProtKB: Photosystem I reaction center subunit III

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Macromolecule #7: Photosystem I reaction center subunit VIII

MacromoleculeName: Photosystem I reaction center subunit VIII / type: protein_or_peptide / ID: 7 / Number of copies: 3 / Enantiomer: LEVO
Source (natural)Organism: Thermosynechococcus vestitus BP-1 (bacteria)
Molecular weightTheoretical: 4.297234 KDa
SequenceString:
MMGSYAASFL PWIFIPVVCW LMPTVVMGLL FLYIEGEA

UniProtKB: Photosystem I reaction center subunit VIII

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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: 3 / Enantiomer: LEVO
Source (natural)Organism: Thermosynechococcus vestitus BP-1 (bacteria)
Molecular weightTheoretical: 4.770698 KDa
SequenceString:
MKHFLTYLST APVLAAIWMT ITAGILIEFN RFYPDLLFHP L

UniProtKB: Photosystem I reaction center subunit IX

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Macromolecule #9: Photosystem I reaction center subunit PsaK

MacromoleculeName: Photosystem I reaction center subunit PsaK / type: protein_or_peptide / ID: 9 / Number of copies: 3 / Enantiomer: LEVO
Source (natural)Organism: Thermosynechococcus vestitus BP-1 (bacteria)
Molecular weightTheoretical: 8.483983 KDa
SequenceString:
MVLATLPDTT WTPSVGLVVI LCNLFAIALG RYAIQSRGKG PGLPIALPAL FEGFGLPELL ATTSFGHLLA AGVVSGLQYA GAL

UniProtKB: Photosystem I reaction center subunit PsaK

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Macromolecule #10: Photosystem I reaction center subunit XI

MacromoleculeName: Photosystem I reaction center subunit XI / type: protein_or_peptide / ID: 10 / Number of copies: 3 / Enantiomer: LEVO
Source (natural)Organism: Thermosynechococcus vestitus BP-1 (bacteria)
Molecular weightTheoretical: 16.287765 KDa
SequenceString:
MAEELVKPYN GDPFVGHLST PISDSGLVKT FIGNLPAYRQ GLSPILRGLE VGMAHGYFLI GPWVKLGPLR DSDVANLGGL ISGIALILV ATACLAAYGL VSFQKGGSSS DPLKTSEGWS QFTAGFFVGA MGSAFVAFFL LENFLVVDGI MTGLFN

UniProtKB: Photosystem I reaction center subunit XI

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Macromolecule #11: Photosystem I reaction center subunit XII

MacromoleculeName: Photosystem I reaction center subunit XII / type: protein_or_peptide / ID: 11 / Number of copies: 3 / Enantiomer: LEVO
Source (natural)Organism: Thermosynechococcus vestitus BP-1 (bacteria)
Molecular weightTheoretical: 3.426115 KDa
SequenceString:
MALTDTQVYV ALVIALLPAV LAFRLSTELY K

UniProtKB: Photosystem I reaction center subunit XII

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Macromolecule #12: Photosystem I 4.8K protein

MacromoleculeName: Photosystem I 4.8K protein / type: protein_or_peptide / ID: 12 / Number of copies: 3 / Enantiomer: LEVO
Source (natural)Organism: Thermosynechococcus vestitus BP-1 (bacteria)
Molecular weightTheoretical: 4.424317 KDa
SequenceString:
MSTMATKSAK PTYAFRTFWA VLLLAINFLV AAYYFGILK

UniProtKB: Photosystem I 4.8K protein

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Macromolecule #13: CHLOROPHYLL A ISOMER

MacromoleculeName: CHLOROPHYLL A ISOMER / type: ligand / ID: 13 / Number of copies: 3 / Formula: CL0
Molecular weightTheoretical: 893.489 Da
Chemical component information

ChemComp-CL0:
CHLOROPHYLL A ISOMER

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Macromolecule #14: CHLOROPHYLL A

MacromoleculeName: CHLOROPHYLL A / type: ligand / ID: 14 / Number of copies: 285 / Formula: CLA
Molecular weightTheoretical: 893.489 Da
Chemical component information

ChemComp-CLA:
CHLOROPHYLL A

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Macromolecule #15: PHYLLOQUINONE

MacromoleculeName: PHYLLOQUINONE / type: ligand / ID: 15 / Number of copies: 6 / Formula: PQN
Molecular weightTheoretical: 450.696 Da
Chemical component information

ChemComp-PQN:
PHYLLOQUINONE

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Macromolecule #16: BETA-CAROTENE

MacromoleculeName: BETA-CAROTENE / type: ligand / ID: 16 / Number of copies: 66 / Formula: BCR
Molecular weightTheoretical: 536.873 Da
Chemical component information

ChemComp-BCR:
BETA-CAROTENE

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Macromolecule #17: 1,2-DIPALMITOYL-PHOSPHATIDYL-GLYCEROLE

MacromoleculeName: 1,2-DIPALMITOYL-PHOSPHATIDYL-GLYCEROLE / type: ligand / ID: 17 / Number of copies: 6 / Formula: LHG
Molecular weightTheoretical: 722.97 Da
Chemical component information

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

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Macromolecule #18: IRON/SULFUR CLUSTER

MacromoleculeName: IRON/SULFUR CLUSTER / type: ligand / ID: 18 / Number of copies: 9 / Formula: SF4
Molecular weightTheoretical: 351.64 Da
Chemical component information

ChemComp-FS1:
IRON/SULFUR CLUSTER

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Macromolecule #19: 1,2-DISTEAROYL-MONOGALACTOSYL-DIGLYCERIDE

MacromoleculeName: 1,2-DISTEAROYL-MONOGALACTOSYL-DIGLYCERIDE / type: ligand / ID: 19 / Number of copies: 3 / Formula: LMG
Molecular weightTheoretical: 787.158 Da
Chemical component information

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

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Macromolecule #20: CALCIUM ION

MacromoleculeName: CALCIUM ION / type: ligand / ID: 20 / Number of copies: 3 / Formula: CA
Molecular weightTheoretical: 40.078 Da

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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 / Component - Concentration: 20.0 mM / Component - Formula: C8H18N2O4S / Component - Name: HEPES
GridModel: Quantifoil R1.2/1.3 / Material: COPPER / Mesh: 300 / Support film - Material: CARBON / Support film - topology: HOLEY / Pretreatment - Type: GLOW DISCHARGE / Pretreatment - Time: 30 sec.
VitrificationCryogen name: ETHANE / Chamber humidity: 100 % / Chamber temperature: 277.5 K / Instrument: FEI VITROBOT MARK IV

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Electron microscopy

MicroscopeFEI TALOS ARCTICA
Image recordingFilm or detector model: GATAN K3 (6k x 4k) / Number grids imaged: 1 / Number real images: 3092 / Average exposure time: 4.13 sec. / Average electron dose: 1.0 e/Å2
Electron beamAcceleration voltage: 200 kV / Electron source: FIELD EMISSION GUN
Electron opticsC2 aperture diameter: 70.0 µm / Illumination mode: FLOOD BEAM / Imaging mode: OTHER / Nominal defocus max: 2.2 µm / Nominal defocus min: 0.8 µm
Sample stageCooling holder cryogen: NITROGEN
Experimental equipment
Model: Talos Arctica / Image courtesy: FEI Company

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Image processing

Particle selectionNumber selected: 906919
CTF correctionType: PHASE FLIPPING AND AMPLITUDE CORRECTION
Startup modelType of model: PDB ENTRY
PDB model - PDB ID:

1jb0

Final reconstructionResolution.type: BY AUTHOR / Resolution: 3.4 Å / Resolution method: FSC 0.143 CUT-OFF / Software - Name: cryoSPARC / Number images used: 19151
Initial angle assignmentType: MAXIMUM LIKELIHOOD
Final angle assignmentType: MAXIMUM LIKELIHOOD
FSC plot (resolution estimation)

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