9HD7 | pdb_00009hd7

Cryo-EM structure of photosystem II C2S2M2L2 supercomplex from the green alga Chlorella ohadii

• PDB DOI: https://doi.org/10.2210/pdb9HD7/pdb
• EM Map EMD-52056: EMDB EMDataResource

• Classification: MEMBRANE PROTEIN
• Organism(s): Chlorella ohadii
• Mutation(s): No 


• Deposited: 2024-11-11 Released: 2025-11-12 
• Deposition Author(s): Kopecny, D., Kouril, R., Ardhad, R., Skalidis, I., Kastritis, P.
• Funding Organization(s): Ministry of Education, Youth and Sports of the Czech Republic, Czech Science Foundation, Other government, German Research Foundation (DFG), German Federal Ministry for Education and Research, European Regional Development Fund

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 2.95 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Starting Models: experimental

Literature

Cryo-EM structure of photosystem II supercomplex from a green microalga with extreme phototolerance.

Arshad, R., Skalidis, I., Kopecny, D., Brabencova, S., Opatikova, M., Ilik, P., Pospisil, P., Hamdi, F., Cavar Zeljkovic, S., Kopecna, M., Roudnicky, P., Lazar, D., Elias, E., Croce, R., Kastritis, P.L., Kouril, R.

(2026) Nat Commun 17: 341-341

• PubMed: 41513636 
• DOI: https://doi.org/10.1038/s41467-025-65861-2
• Primary Citation of Related Structures:  
  9HD7


• PubMed Abstract: 
  

  Photosystem II (PSII) is essential for energy conversion during oxygenic photosynthesis in plants and algae. Chlorella ohadii, one of the fastest multiplying green algae, thrives under the harsh desert sun but lacks the standard PSII photoprotective mechanisms involving LhcSR/PsbS proteins or protein phosphorylation. Here, we present the cryo-EM structure of the PSII supercomplex from C. ohadii at 2.9 Å resolution, which is used to determine whether the exceptional resistance to desert conditions has a structural basis in PSII. The structure reveals a distinct PsbO isoform and additional subunits, PsbR and PsbY, which enhance core complex stability through extensive interactions. Furthermore, the trimeric light-harvesting complexes (LHCII) are bound to the PSII core by specific light-harvesting proteins whose down-regulation in response to high-light conditions implies a reduction in the number of bound LHCII trimers. These structural modifications, together with the high accumulation of specific polyamines in the thylakoid membrane, play a key role in maintaining PSII stability and photoprotection, allowing C. ohadii to survive in extreme conditions.

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Organizational Affiliation: 
• Department of Biophysics, Faculty of Science, Palacký University, Šlechtitelů 27, Olomouc, Czech Republic.
Department of Integrative Structural Biochemistry, Faculty of Natural Sciences 1 & Biocenter - Biosciences Martin-Luther University, Weinbergweg 22, Halle, Germany.
Department of Experimental Biology, Faculty of Science, Palacký University Olomouc, Šlechtitelů 27, Olomouc, Czech Republic.
Central European Institute of Technology, Masaryk University, Kamenice 735/5, Brno, Czech Republic.
Interdisciplinary Research Center HALOmem, Charles Tanford Protein Center, Martin Luther University Halle-Wittenberg, Kurt-Mothes-Straße 3a, Halle, Germany.
Czech Agrifood Research Center, Šlechtitelů 29, Olomouc, Czech Republic.
Czech Advanced Technology and Research Institute (CATRIN), Palacký University Olomouc, Šlechtitelů 27, Olomouc, Czech Republic.
Department of Physics and Astronomy and LaserLab Amsterdam, Faculty of Science, Vrije Universiteit Amsterdam, De Boelelaan, HV, Amsterdam, the Netherlands.
Institute of Chemical Biology, National Hallenic Research Foundation, Leof. Vasileos Konstantinou 48, Athina 116 35, Athens, Greece.
Department of Biophysics, Faculty of Science, Palacký University, Šlechtitelů 27, Olomouc, Czech Republic. [e-mail].

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Hetero 66-mer - A8B6C2D2E2F2G2H2I2J2K2L2M2N2O2P2Q2R2S2T2U2V2W2X2Y2Z2a2b2 Pseudo Symmetry: Asymmetric - C1 
Pseudo Stoichiometry: Hetero 66-mer - A20B9C6D4E3F2G2H2I2J2K2L2M2N2O2P2Q2 

Biological assembly 1 assigned by authors and generated by (software)

Biological Assembly Evidence: electron microscopy

Macromolecule Content 

• Total Structure Weight: 2,098.24 kDa 
• Atom Count: 112,944 
• Modeled Residue Count: 10,626 
• Deposited Residue Count: 15,046 
• Unique protein chains: 29

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Chlorophyll a-b binding protein Lhcbm-I	A [auth 1], D [auth 4], I [auth 11], L [auth 14], U [auth G], UA [auth g]	249	Chlorella ohadii	Mutation(s): 0

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Chlorophyll a-b binding protein, chloroplastic	B [auth 2], BA [auth N], BB [auth n], E [auth 5], J [auth 12], M [auth 15]	247	Chlorella ohadii	Mutation(s): 0
UniProt
Find proteins for A0AAD5DLH1 (Chlorella ohadii) Explore A0AAD5DLH1  Go to UniProtKB:  A0AAD5DLH1

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
Chlorophyll a-b binding protein, chloroplastic	C [auth 3], F [auth 6]	259	Chlorella ohadii	Mutation(s): 0
UniProt
Find proteins for A0AAD5DXI2 (Chlorella ohadii) Explore A0AAD5DXI2  Go to UniProtKB:  A0AAD5DXI2

Entity ID: 4
Molecule	Chains	Sequence Length	Organism	Details	Image
Chloroplast photosystem II 10 kDa protein	G [auth 7], H [auth 8]	140	Chlorella ohadii	Mutation(s): 0
UniProt
Find proteins for A0A5P4NAS4 (Chlorella ohadii) Explore A0A5P4NAS4  Go to UniProtKB:  A0A5P4NAS4

Entity ID: 5
Molecule	Chains	Sequence Length	Organism	Details	Image
Chlorophyll a-b binding protein, chloroplastic	K [auth 13], N [auth 16]	243	Chlorella ohadii	Mutation(s): 0
UniProt
Find proteins for A0AAD5H446 (Chlorella ohadii) Explore A0AAD5H446  Go to UniProtKB:  A0AAD5H446

Entity ID: 6
Molecule	Chains	Sequence Length	Organism	Details	Image
Photosystem II protein D1	O [auth A], OA [auth a]	353	Chlorella ohadii	Mutation(s): 0  EC: 1.10.3.9
UniProt
Find proteins for W8SIR2 (Chlorella sorokiniana) Explore W8SIR2  Go to UniProtKB:  W8SIR2

Entity ID: 7
Molecule	Chains	Sequence Length	Organism	Details	Image
Photosystem II CP47 reaction center protein	P [auth B], PA [auth b]	508	Chlorella ohadii	Mutation(s): 0
UniProt
Find proteins for W8TIK4 (Chlorella sorokiniana) Explore W8TIK4  Go to UniProtKB:  W8TIK4

Entity ID: 8
Molecule	Chains	Sequence Length	Organism	Details	Image
Photosystem II CP43 reaction center protein	Q [auth C], QA [auth c]	473	Chlorella ohadii	Mutation(s): 0
UniProt
Find proteins for A0A076EAP1 (Chlorella sorokiniana) Explore A0A076EAP1  Go to UniProtKB:  A0A076EAP1

Entity ID: 9
Molecule	Chains	Sequence Length	Organism	Details	Image
Photosystem II D2 protein	R [auth D], RA [auth d]	352	Chlorella ohadii	Mutation(s): 0  EC: 1.10.3.9
UniProt
Find proteins for W8SYD4 (Chlorella sorokiniana) Explore W8SYD4  Go to UniProtKB:  W8SYD4

Entity ID: 10
Molecule	Chains	Sequence Length	Organism	Details	Image
Cytochrome b559 subunit alpha	S [auth E], SA [auth e]	83	Chlorella ohadii	Mutation(s): 0
UniProt
Find proteins for W8SU91 (Chlorella sorokiniana) Explore W8SU91  Go to UniProtKB:  W8SU91

Entity ID: 11
Molecule	Chains	Sequence Length	Organism	Details	Image
Cytochrome b559 subunit beta	T [auth F], TA [auth f]	41	Chlorella ohadii	Mutation(s): 0
UniProt
Find proteins for W8SIQ3 (Chlorella sorokiniana) Explore W8SIQ3  Go to UniProtKB:  W8SIQ3

Entity ID: 12
Molecule	Chains	Sequence Length	Organism	Details	Image
Photosystem II reaction center protein H	V [auth H], VA [auth h]	80	Chlorella ohadii	Mutation(s): 0
UniProt
Find proteins for W8SIT0 (Chlorella sorokiniana) Explore W8SIT0  Go to UniProtKB:  W8SIT0

Entity ID: 13
Molecule	Chains	Sequence Length	Organism	Details	Image
Photosystem II reaction center protein I	W [auth I], WA [auth i]	38	Chlorella ohadii	Mutation(s): 0
UniProt
Find proteins for A0A5P4ND48 (Chlorella ohadii) Explore A0A5P4ND48  Go to UniProtKB:  A0A5P4ND48

Entity ID: 14
Molecule	Chains	Sequence Length	Organism	Details	Image
Photosystem II reaction center protein J	X [auth J], XA [auth j]	42	Chlorella ohadii	Mutation(s): 0
UniProt
Find proteins for W8TIH6 (Chlorella sorokiniana) Explore W8TIH6  Go to UniProtKB:  W8TIH6

Entity ID: 15
Molecule	Chains	Sequence Length	Organism	Details	Image
Photosystem II reaction center protein K	Y [auth K], YA [auth k]	42	Chlorella ohadii	Mutation(s): 0
UniProt
Find proteins for P56348 (Chlorella vulgaris) Explore P56348  Go to UniProtKB:  P56348

Entity ID: 16
Molecule	Chains	Sequence Length	Organism	Details	Image
Photosystem II reaction center protein L	Z [auth L], ZA [auth l]	38	Chlorella ohadii	Mutation(s): 0
UniProt
Find proteins for P56339 (Chlorella vulgaris) Explore P56339  Go to UniProtKB:  P56339

Entity ID: 17
Molecule	Chains	Sequence Length	Organism	Details	Image
Photosystem II reaction center protein M	AA [auth M], AB [auth m]	34	Chlorella ohadii	Mutation(s): 0
UniProt
Find proteins for A0A5P4NAV9 (Chlorella ohadii) Explore A0A5P4NAV9  Go to UniProtKB:  A0A5P4NAV9

Entity ID: 18
Molecule	Chains	Sequence Length	Organism	Details	Image
Chloroplast oxygen-evolving enhancer protein 1b (PsbO)	CA [auth O], CB [auth o]	305	Chlorella ohadii	Mutation(s): 0

Entity ID: 19
Molecule	Chains	Sequence Length	Organism	Details	Image
PWWP domain-containing protein	DA [auth P], DB [auth p]	915	Chlorella ohadii	Mutation(s): 0
UniProt
Find proteins for A0AAD5H4X0 (Chlorella ohadii) Explore A0AAD5H4X0  Go to UniProtKB:  A0AAD5H4X0

Entity ID: 20
Molecule	Chains	Sequence Length	Organism	Details	Image
Chloroplast oxygen-evolving enhancer protein 3	EA [auth Q], EB [auth q]	203	Chlorella ohadii	Mutation(s): 0
UniProt
Find proteins for A0A5P4NB29 (Chlorella ohadii) Explore A0A5P4NB29  Go to UniProtKB:  A0A5P4NB29

Entity ID: 21
Molecule	Chains	Sequence Length	Organism	Details	Image
Chlorophyll a-b binding protein, chloroplastic	FA [auth R], FB [auth r]	297	Chlorella ohadii	Mutation(s): 0
UniProt
Find proteins for A0AAD5E2W2 (Chlorella ohadii) Explore A0AAD5E2W2  Go to UniProtKB:  A0AAD5E2W2

Entity ID: 22
Molecule	Chains	Sequence Length	Organism	Details	Image
Chlorophyll a-b binding protein, chloroplastic	GA [auth S], GB [auth s]	293	Chlorella ohadii	Mutation(s): 0

Entity ID: 23
Molecule	Chains	Sequence Length	Organism	Details	Image
Photosystem II reaction center protein T	HA [auth T], HB [auth t]	31	Chlorella ohadii	Mutation(s): 0
UniProt
Find proteins for P56327 (Chlorella vulgaris) Explore P56327  Go to UniProtKB:  P56327

Entity ID: 24
Molecule	Chains	Sequence Length	Organism	Details	Image
Chloroplast PsbY	IA [auth U], IB [auth u]	367	Chlorella ohadii	Mutation(s): 0
UniProt
Find proteins for A0A5P4NEE0 (Chlorella ohadii) Explore A0A5P4NEE0  Go to UniProtKB:  A0A5P4NEE0

Entity ID: 25
Molecule	Chains	Sequence Length	Organism	Details	Image
Photosystem II reaction center protein Psb30	JA [auth V], JB [auth v]	33	Chlorella ohadii	Mutation(s): 0
UniProt
Find proteins for A0A076EAR3 (Chlorella sorokiniana) Explore A0A076EAR3  Go to UniProtKB:  A0A076EAR3

Entity ID: 26
Molecule	Chains	Sequence Length	Organism	Details	Image
PSII 6.1 kDa protein	KA [auth W], KB [auth w]	447	Chlorella ohadii	Mutation(s): 0
UniProt
Find proteins for A0AAD5DZE4 (Chlorella ohadii) Explore A0AAD5DZE4  Go to UniProtKB:  A0AAD5DZE4

Entity ID: 27
Molecule	Chains	Sequence Length	Organism	Details	Image
Photosystem II reaction center protein X (PsbX)	LA [auth X], LB [auth x]	100	Chlorella ohadii	Mutation(s): 0
UniProt
Find proteins for A0AAD5H2N2 (Chlorella ohadii) Explore A0AAD5H2N2  Go to UniProtKB:  A0AAD5H2N2

Entity ID: 28
Molecule	Chains	Sequence Length	Organism	Details	Image
Chlorophyll a-b binding protein, chloroplastic	MA [auth Y], MB [auth y]	256	Chlorella ohadii	Mutation(s): 0
UniProt
Find proteins for A0AAD5DNU0 (Chlorella ohadii) Explore A0AAD5DNU0  Go to UniProtKB:  A0AAD5DNU0

Entity ID: 29
Molecule	Chains	Sequence Length	Organism	Details	Image
Photosystem II reaction center protein Z	NA [auth Z], NB [auth z]	62	Chlorella ohadii	Mutation(s): 0
UniProt
Find proteins for W8SKL0 (Chlorella sorokiniana) Explore W8SKL0  Go to UniProtKB:  W8SKL0

Small Molecules

Ligands 21 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
DGD	BY [auth w], DM [auth C], EM [auth C], FM [auth C], OQ [auth W], QT [auth c], RT [auth c], ST [auth c]	DIGALACTOSYL DIACYL GLYCEROL (DGDG) C51 H96 O15 LDQFLSUQYHBXSX-HXXRYREZSA-N
CHL (Subject of Investigation/LOI)	AF [auth 6], AG [auth 11], AQ [auth S], AR [auth Y], BD [auth 3], BG [auth 11], BN [auth G], BR [auth Y], CD [auth 3], CG [auth 11], CI [auth 14], CP [auth R], CR [auth Y], DD [auth 3], DG [auth 11], DI [auth 14], DO [auth N], DP [auth R], ED [auth 3], EF [auth 6], EG [auth 11], EI [auth 14], EP [auth R], EY [auth y], FD [auth 3], FF [auth 6], FH [auth 13], FI [auth 14], FN [auth G], FX [auth s], GC [auth 2], GF [auth 6], GI [auth 14], GN [auth G], GY [auth y], HF [auth 6], HJ [auth 16], HN [auth G], HO [auth N], HV [auth g], IF [auth 6], IN [auth G], IO [auth N], IW [auth n], JE [auth 5], JH [auth 13], JO [auth N], KC [auth 2], KH [auth 13], KO [auth N], KX [auth s], KY [auth y], LC [auth 2], LH [auth 13], LJ [auth 16], LX [auth s], LY [auth y], MC [auth 2], MH [auth 13], MJ [auth 16], MX [auth s], MY [auth y], NC [auth 2], NE [auth 5], NH [auth 13], NJ [auth 16], NY [auth y], OB [auth 1], OE [auth 5], OJ [auth 16], PE [auth 5], PG [auth 12], PJ [auth 16], PU [auth g], PV [auth n], PW [auth r], QE [auth 5], QW [auth r], RD [auth 4], RI [auth 15], RW [auth r], SB [auth 1], SQ [auth Y], TB [auth 1], TG [auth 12], TN [auth G], TP [auth S], TU [auth g], TV [auth n], UB [auth 1], UG [auth 12], UU [auth g], UV [auth n], VB [auth 1], VC [auth 2], VD [auth 4], VG [auth 12], VI [auth 15], VQ [auth Y], VU [auth g], VV [auth n], WB [auth 1], WD [auth 4], WF [auth 11], WG [auth 12], WI [auth 15], WO [auth N], WU [auth g], WV [auth n], XC [auth 3], XD [auth 4], XI [auth 15], YD [auth 4], YE [auth 5], YH [auth 14], YI [auth 15], YP [auth S], ZD [auth 4], ZP [auth S], ZQ [auth Y]	CHLOROPHYLL B C55 H70 Mg N4 O6 MWVCRINOIIOUAU-UYSPMESUSA-M
CLA (Subject of Investigation/LOI)	AC [auth 1], AD [auth 3], AE [auth 4], AH [auth 12], AI [auth 14], AJ [auth 15], AL [auth B], AM [auth C], AP [auth R], AU [auth d], AV [auth g], AW [auth n], BC [auth 1], BE [auth 4], BF [auth 6], BH [auth 12], BI [auth 14], BJ [auth 15], BK [auth A], BL [auth B], BP [auth R], BQ [auth S], BT [auth c], BV [auth g], BW [auth n], CE [auth 4], CF [auth 6], CJ [auth 15], CK [auth A], CL [auth B], CN [auth G], CQ [auth S], CT [auth c], CU [auth d], CW [auth n], DE [auth 4], DF [auth 6], DJ [auth 15], DK [auth A], DL [auth B], DN [auth G], DQ [auth S], DR [auth Y], DS [auth b], DT [auth c], DU [auth d], EE [auth 4], EL [auth B], EN [auth G], EO [auth N], EQ [auth S], ER [auth Y], ES [auth b], ET [auth c], FG [auth 11], FK [auth A], FO [auth N], FP [auth R], FQ [auth S], FR [auth Y], FS [auth b], FT [auth c], GD [auth 3], GG [auth 11], GH [auth 13], GO [auth N], GP [auth R], GQ [auth S], GR [auth Y], GS [auth b], GT [auth c], GX [auth s], HC [auth 2], HD [auth 3], HG [auth 11], HH [auth 13], HI [auth 14], HP [auth R], HQ [auth S], HR [auth Y], HS [auth b], HT [auth c], HX [auth s], HY [auth y], IC [auth 2], ID [auth 3], IG [auth 11], IH [auth 13], II [auth 14], IJ [auth 16], IP [auth R], IS [auth b], IT [auth c], IX [auth s], IY [auth y], JC [auth 2], JD [auth 3], JF [auth 6], JG [auth 11], JI [auth 14], JJ [auth 16], JN [auth G], JP [auth R], JS [auth b], JT [auth c], JX [auth s], JY [auth y], KD [auth 3], KE [auth 5], KF [auth 6], KI [auth 14], KJ [auth 16], KN [auth G], KP [auth R], KS [auth b], KT [auth c], LD [auth 3], LE [auth 5], LF [auth 6], LI [auth 14], LN [auth G], LO [auth N], LP [auth R], LS [auth b], LT [auth c], LW [auth r], ME [auth 5], MF [auth 6], MN [auth G], MO [auth N], MS [auth b], MT [auth c], MW [auth r], NF [auth 6], NN [auth G], NO [auth N], NS [auth b], NT [auth c], NW [auth r], NX [auth s], OC [auth 2], OF [auth 6], OH [auth 13], OL [auth C], OO [auth N], OS [auth b], OW [auth r], OX [auth s], OY [auth y], PB [auth 1], PC [auth 2], PH [auth 13], PK [auth B], PL [auth C], PM [auth D], PO [auth N], PS [auth b], PX [auth s], PY [auth y], QB [auth 1], QC [auth 2], QG [auth 12], QH [auth 13], QJ [auth 16], QK [auth B], QL [auth C], QM [auth D], QO [auth N], QS [auth b], QU [auth g], QV [auth n], QX [auth s], QY [auth y], RB [auth 1], RC [auth 2], RE [auth 5], RG [auth 12], RH [auth 13], RJ [auth 16], RK [auth B], RL [auth C], RR [auth a], RS [auth b], RU [auth g], RV [auth n], RX [auth s], RY [auth y], SD [auth 4], SE [auth 5], SG [auth 12], SH [auth 13], SI [auth 15], SJ [auth 16], SK [auth B], SL [auth C], SR [auth a], SS [auth b], SU [auth g], SV [auth n], SW [auth r], SX [auth s], SY [auth y], TD [auth 4], TE [auth 5], TH [auth 13], TI [auth 15], TJ [auth 16], TK [auth B], TL [auth C], TQ [auth Y], TW [auth r], TX [auth s], TY [auth y], UD [auth 4], UE [auth 5], UI [auth 15], UJ [auth 16], UK [auth B], UL [auth C], UP [auth S], UW [auth r], VJ [auth 16], VK [auth B], VL [auth C], VP [auth S], VR [auth a], VW [auth r], WK [auth B], WL [auth C], WP [auth S], WQ [auth Y], WW [auth r], XB [auth 1], XF [auth 11], XG [auth 12], XK [auth B], XL [auth C], XP [auth S], XQ [auth Y], XU [auth g], XV [auth n], XW [auth r], YB [auth 1], YC [auth 3], YF [auth 11], YG [auth 12], YK [auth B], YL [auth C], YO [auth R], YQ [auth Y], YU [auth g], YV [auth n], YW [auth r], ZB [auth 1], ZC [auth 3], ZF [auth 11], ZG [auth 12], ZH [auth 14], ZI [auth 15], ZK [auth B], ZL [auth C], ZO [auth R], ZU [auth g], ZV [auth n]	CHLOROPHYLL A C55 H72 Mg N4 O5 ATNHDLDRLWWWCB-AENOIHSZSA-M
PHO (Subject of Investigation/LOI)	EK [auth A], NM [auth D], TR [auth a], UR [auth a]	PHEOPHYTIN A C55 H74 N4 O5 CQIKWXUXPNUNDV-RCBXBCQGSA-N
SQD	BO [auth L], HK [auth A], KU [auth d], MU [auth d], NV [auth l], WM [auth D], XR [auth a], YM [auth D]	1,2-DI-O-ACYL-3-O-[6-DEOXY-6-SULFO-ALPHA-D-GLUCOPYRANOSYL]-SN-GLYCEROL C41 H78 O12 S RVUUQPKXGDTQPG-JUDHQOGESA-N
LMG	AO [auth K], AY [auth w], GM [auth C], IK [auth A], IM [auth C], IQ [auth S], IU [auth d], JL [auth B], JU [auth d], KL [auth B], MV [auth j], NU [auth d], TT [auth c], UX [auth s], VM [auth D], VN [auth H], VT [auth c], WS [auth b], XS [auth b], ZM [auth D], ZN [auth J], ZX [auth v]	1,2-DISTEAROYL-MONOGALACTOSYL-DIGLYCERIDE C45 H86 O10 DCLTVZLYPPIIID-CVELTQQQSA-N
PL9 (Subject of Investigation/LOI)	FU [auth d], JK [auth A], SM [auth D], YR [auth a]	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 C53 H80 O2 FKUYMLZIRPABFK-UHFFFAOYSA-N
LHG	BS [auth a], BX [auth r], CC [auth 1], CO [auth L], CS [auth a], CV [auth g], CX [auth r], DW [auth n], EX [auth s], FE [auth 4], FY [auth y], GU [auth d], HM [auth C], HU [auth d], IR [auth Y], JQ [auth S], JR [auth Y], KG [auth 11], KK [auth A], KW [auth r], LU [auth d], MD [auth 3], MI [auth 14], MK [auth A], ND [auth 3], NK [auth A], OK [auth A], ON [auth G], OP [auth R], OV [auth l], PF [auth 6], PP [auth R], PR [auth a], QF [auth 6], RO [auth N], SP [auth S], TM [auth D], UH [auth 13], UM [auth D], UQ [auth Y], UT [auth c], UY [auth y], VX [auth s], VY [auth y], WJ [auth 16], XM [auth D], XO [auth R], ZR [auth a]	1,2-DIPALMITOYL-PHOSPHATIDYL-GLYCEROLE C38 H75 O10 P BIABMEZBCHDPBV-MPQUPPDSSA-N
3PH	IL [auth B], ML [auth B], NQ [auth T], UF [auth 7], VF [auth 8], ZS [auth b]	1,2-DIACYL-GLYCEROL-3-SN-PHOSPHATE C39 H77 O8 P YFWHNAWEOZTIPI-DIPNUNPCSA-N
HEM (Subject of Investigation/LOI)	AN [auth F], OU [auth f]	PROTOPORPHYRIN IX CONTAINING FE C34 H32 Fe N4 O4 KABFMIBPWCXCRK-RGGAHWMASA-L
XAT (Subject of Investigation/LOI)	AX [auth r], GV [auth g], NP [auth R], OG [auth 11], QI [auth 14], SN [auth G], WC [auth 3], ZE [auth 6]	(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 C40 H56 O4 SZCBXWMUOPQSOX-WVJDLNGLSA-N
NEX	AZ [auth y], EH [auth 12], FC [auth 1], FV [auth g], GJ [auth 15], GW [auth n], IE [auth 4], JW [auth r], MQ [auth S], NG [auth 11], OR [auth Y], PI [auth 14], QD [auth 3], RN [auth G], RP [auth R], TF [auth 6], UC [auth 2], UO [auth N], XE [auth 5], XH [auth 13], YX [auth s], ZJ [auth 16]	(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 C40 H56 O4 PGYAYSRVSAJXTE-OQASCVKESA-N
LUT (Subject of Investigation/LOI)	CH [auth 12], DC [auth 1], DH [auth 12], DV [auth g], EC [auth 1], EJ [auth 15], EV [auth g], EW [auth n], FJ [auth 15], FW [auth n], GE [auth 4], HE [auth 4], KQ [auth S], LG [auth 11], LQ [auth S], MG [auth 11], MP [auth R], MR [auth Y], NI [auth 14], NR [auth Y], OD [auth 3], OI [auth 14], PD [auth 3], PN [auth G], QN [auth G], RF [auth 6], SC [auth 2], SF [auth 6], SO [auth N], TC [auth 2], TO [auth N], VE [auth 5], VH [auth 13], WE [auth 5], WH [auth 13], WX [auth s], XJ [auth 16], XX [auth s], YJ [auth 16], YY [auth y], ZW [auth r], ZY [auth y]	(3R,3'R,6S)-4,5-DIDEHYDRO-5,6-DIHYDRO-BETA,BETA-CAROTENE-3,3'-DIOL C40 H56 O2 KBPHJBAIARWVSC-NSIPBSJQSA-N
BCR (Subject of Investigation/LOI)	BM [auth C], CM [auth C], EU [auth d], FL [auth B], GK [auth A], GL [auth B], HL [auth B], JV [auth h], LM [auth C], LV [auth j], OT [auth c], PT [auth c], RM [auth D], TS [auth b], US [auth b], VS [auth b], WN [auth H], WR [auth a], YN [auth J], YT [auth c]	BETA-CAROTENE C40 H56 OENHQHLEOONYIE-JLTXGRSLSA-N
OEX	AK [auth A], QR [auth a]	CA-MN4-O5 CLUSTER Ca Mn4 O5 SEXWDHMBWJEXOJ-UHFFFAOYSA-N
STE	LL [auth B], YS [auth b]	STEARIC ACID C18 H36 O2 QIQXTHQIDYTFRH-UHFFFAOYSA-N
LNL	AS [auth a], BZ [auth y], CY [auth w], DX [auth r], DY [auth x], IV [auth h], JM [auth C], KM [auth C], KR [auth Y], KV [auth i], LK [auth A], LR [auth Y], PQ [auth W], QP [auth R], QQ [auth W], RQ [auth X], UN [auth H], WT [auth c], WY [auth y], XN [auth I], XT [auth c], XY [auth y]	ALPHA-LINOLENIC ACID C18 H30 O2 DTOSIQBPPRVQHS-PDBXOOCHSA-N
PAM	HW [auth n], VO [auth N]	PALMITOLEIC ACID C16 H30 O2 SECPZKHBENQXJG-FPLPWBNLSA-N
BCT	BU [auth d], OM [auth D]	BICARBONATE ION C H O3 BVKZGUZCCUSVTD-UHFFFAOYSA-M
FE2 (Subject of Investigation/LOI)	MM [auth D], ZT [auth d]	FE (II) ION Fe CWYNVVGOOAEACU-UHFFFAOYSA-N
CL	AT [auth c], NL [auth C]	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 2.95 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

EM Software:

Task	Software Package	Version
MODEL REFINEMENT	PHENIX	1.21.2_5419
RECONSTRUCTION	cryoSPARC	4.3.1.

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2025-11-12 
Deposition Author(s): Kopecny, D., Kouril, R., Ardhad, R., Skalidis, I., Kastritis, P.

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Funding Organization	Location	Grant Number
Ministry of Education, Youth and Sports of the Czech Republic	Czech Republic	CZ.02.01.01/00/22_008/0004624
Czech Science Foundation	Czech Republic	23-07744S
Other government		MZE-RO0423
German Research Foundation (DFG)	Germany	391498659 (RTG 2467); SFB 1664 (TP D1)
German Federal Ministry for Education and Research	Germany	03Z22HN23; 03Z22HI2; 03COV04
European Regional Development Fund	European Union	ZS/2016/04/78115

Revision History  

• Version 1.0: 2025-11-12
  Type: Initial release
  
• Version 1.1: 2026-01-21
  Changes: Data collection, Database references