7PIN

Stacked compact Dunaliella PSII

• PDB DOI: https://doi.org/10.2210/pdb7PIN/pdb
• EM Map EMD-13444: EMDB EMDataResource

• Classification: PHOTOSYNTHESIS
• Organism(s): Dunaliella salina
• Mutation(s): No 
• Membrane Protein: Yes  OPM


• Deposited: 2021-08-22 Released: 2022-08-17 
• Deposition Author(s): Caspy, I., Fadeeva, M., Mazor, Y., Nelson, N.
• Funding Organization(s): Israel Science Foundation

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 3.60 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Literature

Structure of Dunaliella Photosystem II reveals conformational flexibility of stacked and unstacked supercomplexes.

Caspy, I., Fadeeva, M., Mazor, Y., Nelson, N.

(2023) Elife 12

• PubMed: 36799903 
• DOI: https://doi.org/10.7554/eLife.81150
• Primary Citation of Related Structures:  
  7PI0, 7PI5, 7PIN, 7PIW, 7PNK


• PubMed Abstract: 
  

  Photosystem II (PSII) generates an oxidant whose redox potential is high enough to enable water oxidation , a substrate so abundant that it assures a practically unlimited electron source for life on earth . Our knowledge on the mechanism of water photooxidation was greatly advanced by high-resolution structures of prokaryotic PSII . Here, we show high-resolution cryogenic electron microscopy (cryo-EM) structures of eukaryotic PSII from the green alga Dunaliella salina at two distinct conformations. The conformers are also present in stacked PSII, exhibiting flexibility that may be relevant to the grana formation in chloroplasts of the green lineage. CP29, one of PSII associated light-harvesting antennae, plays a major role in distinguishing the two conformations of the supercomplex. We also show that the stacked PSII dimer, a form suggested to support the organisation of thylakoid membranes , can appear in many different orientations providing a flexible stacking mechanism for the arrangement of grana stacks in thylakoids. Our findings provide a structural basis for the heterogenous nature of the eukaryotic PSII on multiple levels.

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Organizational Affiliation: 

Department of Biochemistry and Molecular Biology, The George S. Wise Faculty of Life Sciences, Tel Aviv University, Tel Aviv, Israel.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 99-mer - A8B4C4D4E4F4G4H4I4J4K4L4M4N4O4P4Q4R4S4T4U4V4W4X3 Pseudo Symmetry: Asymmetric - C1 
Pseudo Stoichiometry: Hetero 99-mer - A22B20C8D7E4F4G4H4I4J4K4L4M4N4O1P1 

Local Symmetry: Cyclic - C2  (Explore in 3D)
Local Stoichiometry: Homo 4-mer - C4 Local Symmetry: Cyclic - C2  (Explore in 3D)
Local Stoichiometry: Homo 4-mer - I4 Local Symmetry: Cyclic - C2  (Explore in 3D)
Local Stoichiometry: Homo 4-mer - J4 Local Symmetry: Dihedral - D2  (Explore in 3D)
Local Stoichiometry: Homo 4-mer - M4 Local Symmetry: Dihedral - D2  (Explore in 3D)
Local Stoichiometry: Homo 4-mer - N4 Local Symmetry: Cyclic - C2  (Explore in 3D)
Local Stoichiometry: Homo 4-mer - O4 Local Symmetry: Cyclic - C2  (Explore in 3D)
Local Stoichiometry: Homo 4-mer - P4 Local Symmetry: Cyclic - C2  (Explore in 3D)
Local Stoichiometry: Homo 4-mer - Q4 Local Symmetry: Cyclic - C2  (Explore in 3D)
Local Stoichiometry: Homo 4-mer - R4 Local Symmetry: Cyclic - C2  (Explore in 3D)
Local Stoichiometry: Homo 4-mer - W4 Local Symmetry: Cyclic - C2  (Explore in 3D)
Local Stoichiometry: Hetero 8-mer - M4N4 Local Symmetry: Cyclic - C2  (Explore in 3D)
Local Stoichiometry: Hetero 38-mer - A2B2C2E2F2G2H2I2K2L2M2N2O2S2T2U2V2W2X2 Local Symmetry: Cyclic - C2  (Explore in 3D)
Local Stoichiometry: Hetero 30-mer - A2B2C2E2F2G2H2K2L2N2O2T2U2V2W2 

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 2,180.39 kDa 
• Atom Count: 152,240 
• Modelled Residue Count: 14,846 
• Deposited Residue Count: 14,846 
• Unique protein chains: 25

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Photosystem II protein D1	A, XB [auth a1], YA [auth A1], Z [auth a]	336	Dunaliella salina	Mutation(s): 0  EC: 1.10.3.9 Membrane Entity: Yes
UniProt
Find proteins for D0FY08 (Dunaliella salina) Explore D0FY08  Go to UniProtKB:  D0FY08

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Photosystem II CP47 reaction center protein	AA [auth b], B, YB [auth b1], ZA [auth B1]	484	Dunaliella salina	Mutation(s): 0  Membrane Entity: Yes
UniProt
Find proteins for A0A1C8XRM6 (Dunaliella salina) Explore A0A1C8XRM6  Go to UniProtKB:  A0A1C8XRM6

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
Photosystem II reaction center protein Ycf12	AB [auth V1], BA [auth v], C [auth V], ZB [auth v1]	32	Dunaliella salina	Mutation(s): 0  Membrane Entity: Yes
UniProt
Find proteins for D0FY13 (Dunaliella salina) Explore D0FY13  Go to UniProtKB:  D0FY13

Entity ID: 4
Molecule	Chains	Sequence Length	Organism	Details	Image
Photosystem II CP43 reaction center protein	AC [auth c1], BB [auth C1], CA [auth c], D [auth C]	449	Dunaliella salina	Mutation(s): 0  Membrane Entity: Yes
UniProt
Find proteins for D0FXY3 (Dunaliella salina) Explore D0FXY3  Go to UniProtKB:  D0FXY3

Entity ID: 5
Molecule	Chains	Sequence Length	Organism	Details	Image
Photosystem II D2 protein	BC [auth d1], CB [auth D1], DA [auth d], E [auth D]	348	Dunaliella salina	Mutation(s): 0  EC: 1.10.3.9 Membrane Entity: Yes
UniProt
Find proteins for A0A1C8XRK9 (Dunaliella salina) Explore A0A1C8XRK9  Go to UniProtKB:  A0A1C8XRK9

Entity ID: 6
Molecule	Chains	Sequence Length	Organism	Details	Image
Cytochrome b559 subunit alpha	CC [auth e1], DB [auth E1], EA [auth e], F [auth E]	76	Dunaliella salina	Mutation(s): 0  Membrane Entity: Yes
UniProt
Find proteins for D0FY01 (Dunaliella salina) Explore D0FY01  Go to UniProtKB:  D0FY01

Entity ID: 7
Molecule	Chains	Sequence Length	Organism	Details	Image
Cytochrome b559 subunit beta	DC [auth f1], EB [auth F1], FA [auth f], G [auth F]	31	Dunaliella salina	Mutation(s): 0  Membrane Entity: Yes
UniProt
Find proteins for A0A1C8XRP4 (Dunaliella salina) Explore A0A1C8XRP4  Go to UniProtKB:  A0A1C8XRP4

Entity ID: 8
Molecule	Chains	Sequence Length	Organism	Details	Image
Photosystem II reaction center protein H	EC [auth h1], FB [auth H1], GA [auth h], H	67	Dunaliella salina	Mutation(s): 0  Membrane Entity: Yes
UniProt
Find proteins for A0A1C8XRP3 (Dunaliella salina) Explore A0A1C8XRP3  Go to UniProtKB:  A0A1C8XRP3

Entity ID: 9
Molecule	Chains	Sequence Length	Organism	Details	Image
Photosystem II reaction center protein I	FC [auth i1], GB [auth I1], HA [auth i], I	35	Dunaliella salina	Mutation(s): 0  Membrane Entity: Yes
UniProt
Find proteins for D0FXX5 (Dunaliella salina) Explore D0FXX5  Go to UniProtKB:  D0FXX5

Entity ID: 10
Molecule	Chains	Sequence Length	Organism	Details	Image
PsbJ	GC [auth j1], HB [auth J1], IA [auth j], J	36	Dunaliella salina	Mutation(s): 0

Entity ID: 11
Molecule	Chains	Sequence Length	Organism	Details	Image
Photosystem II reaction center protein K	HC [auth k1], IB [auth K1], JA [auth k], K	37	Dunaliella salina	Mutation(s): 0  Membrane Entity: Yes
UniProt
Find proteins for D0FXX2 (Dunaliella salina) Explore D0FXX2  Go to UniProtKB:  D0FXX2

Entity ID: 12
Molecule	Chains	Sequence Length	Organism	Details	Image
Photosystem II reaction center protein L	JB [auth L1], KA [auth l], L	38	Dunaliella salina	Mutation(s): 0  Membrane Entity: Yes
UniProt
Find proteins for D0FY19 (Dunaliella salina) Explore D0FY19  Go to UniProtKB:  D0FY19

Entity ID: 13
Molecule	Chains	Sequence Length	Organism	Details	Image
PsbM	IC [auth m1], KB [auth M1], LA [auth m], M	31	Dunaliella salina	Mutation(s): 0

Entity ID: 14
Molecule	Chains	Sequence Length	Organism	Details	Image
PsbO	JC [auth o1], LB [auth O1], MA [auth o], N [auth O]	238	Dunaliella salina	Mutation(s): 0

Entity ID: 15
Molecule	Chains	Sequence Length	Organism	Details	Image
PsbP	KC [auth p1], MB [auth P1], NA [auth p], O [auth P]	187	Dunaliella salina	Mutation(s): 0

Entity ID: 16
Molecule	Chains	Sequence Length	Organism	Details	Image
Photosystem II reaction center protein T	LC [auth t1], NB [auth T1], OA [auth t], P [auth T]	30	Dunaliella salina	Mutation(s): 0  Membrane Entity: Yes
UniProt
Find proteins for D0FY04 (Dunaliella salina) Explore D0FY04  Go to UniProtKB:  D0FY04

Entity ID: 17
Molecule	Chains	Sequence Length	Organism	Details	Image
PsbW	MC [auth w1], OB [auth W1], PA [auth w], Q [auth W]	44	Dunaliella salina	Mutation(s): 0

Entity ID: 18
Molecule	Chains	Sequence Length	Organism	Details	Image
PsbX	NC [auth x1], PB [auth X1], QA [auth x], R [auth X]	30	Dunaliella salina	Mutation(s): 0

Entity ID: 19
Molecule	Chains	Sequence Length	Organism	Details	Image
Photosystem II reaction center protein Z	OC [auth z1], QB [auth Z1], RA [auth z], S [auth Z]	61	Dunaliella salina	Mutation(s): 0  Membrane Entity: Yes
UniProt
Find proteins for D0FXZ2 (Dunaliella salina) Explore D0FXZ2  Go to UniProtKB:  D0FXZ2

Entity ID: 20
Molecule	Chains	Sequence Length	Organism	Details	Image
LHCII M3	PC [auth n1], RB [auth N1], SA [auth n], T [auth N]	222	Dunaliella salina	Mutation(s): 0

Entity ID: 21
Molecule	Chains	Sequence Length	Organism	Details	Image
Chlorophyll a-b binding protein, chloroplastic	QC [auth g1], SB [auth G1], TA [auth g], U [auth G]	221	Dunaliella salina	Mutation(s): 0
UniProt
Find proteins for A1XKU7 (Dunaliella salina) Explore A1XKU7  Go to UniProtKB:  A1XKU7

Entity ID: 22
Molecule	Chains	Sequence Length	Organism	Details	Image
CP29	RC [auth r1], TB [auth R1], UA [auth r], V [auth R]	196	Dunaliella salina	Mutation(s): 0

Entity ID: 23
Molecule	Chains	Sequence Length	Organism	Details	Image
CP26	SC [auth s1], UB [auth S1], VA [auth s], W [auth S]	243	Dunaliella salina	Mutation(s): 0

Entity ID: 24
Molecule	Chains	Sequence Length	Organism	Details	Image
LHCII M1	TC [auth y1], VB [auth Y1], WA [auth y], X [auth Y]	222	Dunaliella salina	Mutation(s): 0

Entity ID: 25
Molecule	Chains	Sequence Length	Organism	Details	Image
PsbU	UC [auth u1], WB [auth U1], XA [auth u], Y [auth U]	27	Dunaliella salina	Mutation(s): 0

Small Molecules

Ligands 30 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
DGD	AF [auth C], AM [auth c], BF [auth C], BM [auth c], BZ [auth b1], CF [auth C], CS [auth B1], EL [auth b], FE [auth B], WZ [auth c1], XS [auth C1], XZ [auth c1], YS [auth C1], YZ [auth c1], ZL [auth c], ZS [auth C1]	DIGALACTOSYL DIACYL GLYCEROL (DGDG) C51 H96 O15 LDQFLSUQYHBXSX-HXXRYREZSA-N
CHL	AEA [auth y1], AH [auth G], AO [auth g], AQ [auth y], AU [auth N1], AV [auth G1], AW [auth S1], AX [auth Y1], BBA [auth n1], BH [auth G], BN [auth n], BO [auth g], BP [auth s], BQ [auth y], BV [auth G1], BX [auth Y1], CBA [auth n1], CDA [auth s1], CH [auth G], CJ [auth Y], CO [auth g], CQ [auth y], DBA [auth n1], DDA [auth s1], DG [auth N], DH [auth G], DI [auth S], DJ [auth Y], DX [auth Y1], EBA [auth n1], EDA [auth s1], EH [auth G], EJ [auth Y], EQ [auth y], EU [auth N1], FBA [auth n1], FN [auth n], FU [auth N1], FW [auth S1], GJ [auth Y], GN [auth n], GP [auth s], GU [auth N1], GW [auth S1], HG [auth N], HN [auth n], HP [auth s], HU [auth N1], HW [auth S1], IG [auth N], II [auth S], IN [auth n], IP [auth s], IU [auth N1], JG [auth N], JI [auth S], JN [auth n], KG [auth N], KI [auth S], LG [auth N], MCA [auth r1], NCA [auth r1], PV [auth R1], QBA [auth g1], QO [auth r], QV [auth R1], RO [auth r], SDA [auth y1], SH [auth R], TH [auth R], TU [auth G1], UBA [auth g1], UN [auth g], VBA [auth g1], VW [auth Y1], WBA [auth g1], WDA [auth y1], WG [auth G], WP [auth y], XAA [auth n1], XBA [auth g1], XCA [auth s1], XDA [auth y1], XU [auth G1], YBA [auth g1], YDA [auth y1], YI [auth Y], YN [auth g], YU [auth G1], ZN [auth g], ZU [auth G1], ZW [auth Y1]	CHLOROPHYLL B C55 H70 Mg N4 O6 MWVCRINOIIOUAU-UYSPMESUSA-M
CLA	ABA [auth n1], ACA [auth g1], AD [auth A], ADA [auth s1], AJ [auth Y], AK [auth a], AY [auth a1], BCA [auth g1], BD [auth A], BDA [auth s1], BEA [auth y1], BJ [auth Y], BR [auth A1], BU [auth N1], BW [auth S1], CCA [auth g1], CEA [auth y1], CN [auth n], CP [auth s], CU [auth N1], CV [auth G1], CW [auth S1], CX [auth Y1], DCA [auth g1], DEA [auth y1], DK [auth a], DN [auth n], DO [auth g], DP [auth s], DQ [auth y], DU [auth N1], DV [auth G1], DW [auth S1], ED [auth A], EEA [auth y1], EG [auth N], EI [auth S], EN [auth n], EO [auth g], EP [auth s], EV [auth G1], EW [auth S1], EX [auth Y1], FDA [auth s1], FEA [auth y1], FG [auth N], FH [auth G], FI [auth S], FJ [auth Y], FO [auth g], FP [auth s], FQ [auth y], FV [auth G1], FX [auth Y1], FZ [auth c1], GAA [auth d1], GBA [auth n1], GDA [auth s1], GG [auth N], GH [auth G], GI [auth S], GO [auth g], GQ [auth y], GS [auth C1], GV [auth G1], GX [auth Y1], GY [auth b1], GZ [auth c1], HAA [auth d1], HBA [auth n1], HDA [auth s1], HH [auth G], HI [auth S], HJ [auth Y], HO [auth g], HQ [auth y], HR [auth B1], HS [auth C1], HT [auth D1], HX [auth Y1], HY [auth b1], HZ [auth c1], IBA [auth n1], IDA [auth s1], IH [auth G], IJ [auth Y], IL [auth c], IQ [auth y], IR [auth B1], IS [auth C1], IT [auth D1], IW [auth S1], IX [auth Y1], IY [auth b1], IZ [auth c1], JBA [auth n1], JCA [auth r1], JDA [auth s1], JE [auth C], JH [auth G], JJ [auth Y], JK [auth b], JL [auth c], JM [auth d], JP [auth s], JQ [auth y], JR [auth B1], JS [auth C1], JU [auth N1], JW [auth S1], JY [auth b1], JZ [auth c1], KBA [auth n1], KCA [auth r1], KD [auth B], KDA [auth s1], KE [auth C], KF [auth D], KJ [auth Y], KK [auth b], KL [auth c], KM [auth d], KN [auth n], KP [auth s], KR [auth B1], KS [auth C1], KU [auth N1], KW [auth S1], KY [auth b1], KZ [auth c1], LCA [auth r1], LD [auth B], LDA [auth s1], LE [auth C], LF [auth D], LI [auth S], LJ [auth Y], LK [auth b], LL [auth c], LN [auth n], LP [auth s], LR [auth B1], LS [auth C1], LU [auth N1], LW [auth S1], LY [auth b1], LZ [auth c1], MD [auth B], ME [auth C], MG [auth N], MI [auth S], MK [auth b], ML [auth c], MN [auth n], MP [auth s], MR [auth B1], MS [auth C1], MU [auth N1], MV [auth R1], MW [auth S1], MY [auth b1], MZ [auth c1], ND [auth B], NE [auth C], NG [auth N], NI [auth S], NK [auth b], NL [auth c], NN [auth n], NO [auth r], NP [auth s], NR [auth B1], NS [auth C1], NU [auth N1], NV [auth R1], NW [auth S1], NY [auth b1], NZ [auth c1], OCA [auth r1], OD [auth B], OE [auth C], OG [auth N], OI [auth S], OK [auth b], OL [auth c], ON [auth n], OO [auth r], OP [auth s], OR [auth B1], OS [auth C1], OV [auth R1], OW [auth S1], OY [auth b1], OZ [auth c1], PCA [auth r1], PD [auth B], PE [auth C], PG [auth N], PH [auth R], PI [auth S], PK [auth b], PL [auth c], PO [auth r], PP [auth s], PR [auth B1], PS [auth C1], PY [auth b1], PZ [auth c1], QCA [auth r1], QD [auth B], QE [auth C], QG [auth N], QH [auth R], QI [auth S], QK [auth b], QL [auth c], QR [auth B1], QS [auth C1], QY [auth b1], QZ [auth c1], RBA [auth g1], RCA [auth r1], RD [auth B], RE [auth C], RH [auth R], RI [auth S], RK [auth b], RL [auth c], RR [auth B1], RS [auth C1], RV [auth R1], RY [auth b1], RZ [auth c1], SBA [auth g1], SD [auth B], SE [auth C], SK [auth b], SL [auth c], SO [auth r], SR [auth B1], SS [auth C1], SV [auth R1], SY [auth b1], TBA [auth g1], TD [auth B], TDA [auth y1], TE [auth C], TK [auth b], TL [auth c], TO [auth r], TR [auth B1], TV [auth R1], TY [auth b1], UD [auth B], UDA [auth y1], UE [auth C], UH [auth R], UK [auth b], UL [auth c], UO [auth r], UR [auth B1], UU [auth G1], UV [auth R1], UY [auth b1], VD [auth B], VDA [auth y1], VE [auth C], VH [auth R], VK [auth b], VN [auth g], VO [auth r], VR [auth B1], VU [auth G1], VX [auth a1], VY [auth b1], WD [auth B], WH [auth R], WK [auth b], WN [auth g], WQ [auth A1], WR [auth B1], WU [auth G1], WW [auth Y1], WX [auth a1], XD [auth B], XG [auth G], XH [auth R], XK [auth b], XN [auth g], XP [auth y], XQ [auth A1], XW [auth Y1], XX [auth a1], YAA [auth n1], YCA [auth s1], YD [auth B], YG [auth G], YJ [auth a], YK [auth b], YP [auth y], YQ [auth A1], YW [auth Y1], ZAA [auth n1], ZBA [auth g1], ZC [auth A], ZCA [auth s1], ZD [auth B], ZDA [auth y1], ZG [auth G], ZI [auth Y], ZJ [auth a], ZP [auth y]	CHLOROPHYLL A C55 H72 Mg N4 O5 ATNHDLDRLWWWCB-AENOIHSZSA-M
PHO	AR [auth A1], BK [auth a], CD [auth A], CK [auth a], DD [auth A], YX [auth a1], ZQ [auth A1], ZX [auth a1]	PHEOPHYTIN A C55 H74 N4 O5 CQIKWXUXPNUNDV-RCBXBCQGSA-N
4RF	RAA [auth i1], TAA [auth k1], TT [auth I1], UM [auth i], VT [auth K1], WF [auth I], WM [auth k], YF [auth K]	Tripalmitoylglycerol C51 H98 O6 PVNIQBQSYATKKL-UHFFFAOYSA-N
SQD	AG [auth M], AS [auth B1], CL [auth b], CY [auth a1], DAA [auth c1], DE [auth B], DR [auth A1], ET [auth C1], EZ [auth b1], FK [auth a], FS [auth B1], GD [auth A], GM [auth c], HF [auth C], HL [auth b], IE [auth B], UAA [auth m1], XT [auth M1], YM [auth m], ZY [auth b1]	1,2-DI-O-ACYL-3-O-[6-DEOXY-6-SULFO-ALPHA-D-GLUCOPYRANOSYL]-SN-GLYCEROL C41 H78 O12 S RVUUQPKXGDTQPG-JUDHQOGESA-N
LMG	AAA [auth c1], AN [auth w], AT [auth C1], AZ [auth b1], BS [auth B1], BT [auth C1], CG [auth W], CM [auth c], DF [auth C], DL [auth b], DM [auth c], DY [auth a1], EE [auth B], EF [auth C], ER [auth A1], GK [auth a], HD [auth A], NAA [auth d1], OT [auth D1], QAA [auth h1], QM [auth d], RF [auth D], RT [auth H1], TM [auth h], UF [auth H], WAA [auth w1], ZT [auth W1], ZZ [auth c1]	1,2-DISTEAROYL-MONOGALACTOSYL-DIGLYCERIDE C45 H86 O10 DCLTVZLYPPIIID-CVELTQQQSA-N
LMK	EAA [auth c1], FT [auth C1], HM [auth c], IF [auth C]	trimethyl-[(2~{R})-1-oxidanyl-1-oxidanylidene-4-[(2~{S})-2-[(1~{S})-1-oxidanyloctadecoxy]-3-[(1~{R})-1-oxidanyloctadecoxy]propoxy]butan-2-yl]azanium C46 H94 N O7 BUXLRCGOLVGJEI-LHQLQFMZSA-O
PL9	JAA [auth d1], KT [auth D1], MM [auth d], NF [auth D]	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
PTY	MEA [auth y1], NEA [auth y1], PX [auth Y1], QQ [auth y], QX [auth Y1], RQ [auth y], SJ [auth Y], TJ [auth Y]	PHOSPHATIDYLETHANOLAMINE C40 H80 N O8 P NJGIRBISCGPRPF-KXQOOQHDSA-N
LHG	CAA [auth c1], DT [auth C1], FM [auth c], GF [auth C], ICA [auth g1], KAA [auth d1], KEA [auth y1], LAA [auth d1], LT [auth D1], LV [auth G1], MAA [auth d1], MO [auth g], MT [auth D1], NM [auth d], NT [auth D1], NX [auth Y1], OF [auth D], OH [auth G], OM [auth d], OQ [auth y], PBA [auth n1], PDA [auth s1], PF [auth D], PM [auth d], QF [auth D], QJ [auth Y], SU [auth N1], SW [auth S1], TN [auth n], TP [auth s], VG [auth N], VI [auth S], WT [auth L1], XM [auth l], ZF [auth L]	1,2-DIPALMITOYL-PHOSPHATIDYL-GLYCEROLE C38 H75 O10 P BIABMEZBCHDPBV-MPQUPPDSSA-N
3PH	BG [auth T], CZ [auth b1], DS [auth B1], FL [auth b], GE [auth B], RDA [auth s1], UW [auth S1], VAA [auth t1], VP [auth s], XI [auth S], YT [auth T1], ZM [auth t]	1,2-DIACYL-GLYCEROL-3-SN-PHOSPHATE C39 H77 O8 P YFWHNAWEOZTIPI-DIPNUNPCSA-N
DGA	BAA [auth c1], CT [auth C1], DZ [auth b1], EM [auth c], ES [auth B1], FF [auth C], GL [auth b], HE [auth B], SAA [auth j1], UT [auth J1], VM [auth j], XF [auth J]	DIACYL GLYCEROL C39 H76 O5 UHUSDOQQWJGJQS-QNGWXLTQSA-N
HEM	OAA [auth f1], PT [auth F1], RM [auth f], SF [auth F]	PROTOPORPHYRIN IX CONTAINING FE C34 H32 Fe N4 O4 KABFMIBPWCXCRK-RGGAHWMASA-L
NEX	AI [auth R], HCA [auth g1], JEA [auth y1], KV [auth G1], LO [auth g], MX [auth Y1], NH [auth G], NQ [auth y], OBA [auth n1], ODA [auth s1], PJ [auth Y], RU [auth N1], RW [auth S1], SN [auth n], SP [auth s], UCA [auth r1], UG [auth N], UI [auth S], XV [auth R1], YO [auth r]	(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
XAT	GCA [auth g1], IEA [auth y1], JV [auth G1], KO [auth g], LX [auth Y1], MH [auth G], MQ [auth y], NBA [auth n1], OJ [auth Y], QU [auth N1], RN [auth n], TCA [auth r1], TG [auth N], WV [auth R1], XO [auth r], ZH [auth R]	(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
LUT	ECA [auth g1], FCA [auth g1], GEA [auth y1], HEA [auth y1], HV [auth G1], IO [auth g], IV [auth G1], JO [auth g], JX [auth Y1], KH [auth G], KQ [auth y], KX [auth Y1], LBA [auth n1], LH [auth G], LQ [auth y], MBA [auth n1], MDA [auth s1], MJ [auth Y], NDA [auth s1], NJ [auth Y], OU [auth N1], PN [auth n], PU [auth N1], PW [auth S1], QN [auth n], QP [auth s], QW [auth S1], RG [auth N], RP [auth s], SCA [auth r1], SG [auth N], SI [auth S], TI [auth S], VV [auth R1], WO [auth r], YH [auth R]	(3R,3'R,6S)-4,5-DIDEHYDRO-5,6-DIHYDRO-BETA,BETA-CAROTENE-3,3'-DIOL C40 H56 O2 KBPHJBAIARWVSC-NSIPBSJQSA-N
C7Z	BL [auth b], CE [auth B], YY [auth b1], ZR [auth B1]	(1~{S})-3,5,5-trimethyl-4-[(1~{E},3~{E},5~{E},7~{E},9~{E},11~{E},13~{E},15~{E},17~{E})-3,7,12,16-tetramethyl-18-[(4~{S})-2,6,6-trimethyl-4-oxidanyl-cyclohexen-1-yl]octadeca-1,3,5,7,9,11,13,15,17-nonaenyl]cyclohex-3-en-1-ol C40 H56 O2 JKQXZKUSFCKOGQ-ANDPMPNWSA-N
RRX	PAA [auth h1], QT [auth H1], SM [auth h], TF [auth H]	(3R)-beta,beta-caroten-3-ol C40 H56 O DMASLKHVQRHNES-FKKUPVFPSA-N
BCR	AE [auth B], AL [auth b], BE [auth B], BY [auth a1], CR [auth A1], EK [auth a], FD [auth A], IAA [auth d1], JT [auth D1], LM [auth d], MF [auth D], SZ [auth c1], TS [auth C1], TZ [auth c1], US [auth C1], UZ [auth c1], VL [auth c], VS [auth C1], VZ [auth c1], WE [auth C], WL [auth c], WS [auth C1], WY [auth b1], XE [auth C], XL [auth c], XR [auth B1], XY [auth b1], YE [auth C], YL [auth c], YR [auth B1], ZE [auth C], ZK [auth b]	BETA-CAROTENE C40 H56 OENHQHLEOONYIE-JLTXGRSLSA-N
LMT	BI [auth R], VCA [auth r1], YV [auth R1], ZO [auth r]	DODECYL-BETA-D-MALTOSIDE C24 H46 O11 NLEBIOOXCVAHBD-QKMCSOCLSA-N
LPX	QDA [auth s1], TW [auth S1], UP [auth s], WI [auth S]	(2S)-3-{[(R)-(2-aminoethoxy)(hydroxy)phosphoryl]oxy}-2-hydroxypropyl hexadecanoate C21 H44 N O7 P YVYMBNSKXOXSKW-FQEVSTJZSA-N
ERG	AP [auth r], CI [auth R], WCA [auth r1], ZV [auth R1]	ERGOSTEROL C28 H44 O DNVPQKQSNYMLRS-APGDWVJJSA-N
OEX	RX [auth a1], SQ [auth A1], UJ [auth a], VC [auth A]	CA-MN4-O5 CLUSTER Ca Mn4 O5 SEXWDHMBWJEXOJ-UHFFFAOYSA-N
SPH	EY [auth a1], FR [auth A1], HK [auth a], ID [auth A], LEA [auth y1], OX [auth Y1], PQ [auth y], RJ [auth Y]	SPHINGOSINE C18 H37 N O2 WWUZIQQURGPMPG-MSOLQXFVSA-N
GOL	ST [auth I1], VF [auth I]	GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N
BCT	FAA [auth d1], GT [auth D1], IM [auth d], JF [auth D]	BICARBONATE ION C H O3 BVKZGUZCCUSVTD-UHFFFAOYSA-M
FE2	SX [auth a1], TQ [auth A1], VJ [auth a], WC [auth A]	FE (II) ION Fe CWYNVVGOOAEACU-UHFFFAOYSA-N
CL	TX [auth a1], UQ [auth A1], UX [auth a1], VQ [auth A1], WJ [auth a], XC [auth A], XJ [auth a], YC [auth A]	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M
NA	FY [auth a1], GR [auth A1], IK [auth a], JD [auth A]	SODIUM ION Na FKNQFGJONOIPTF-UHFFFAOYSA-N

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
SEP	RC [auth r1], TB [auth R1], UA [auth r], V [auth R]	L-PEPTIDE LINKING	C3 H8 N O6 P		SER

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 3.60 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

EM Software:

Task	Software Package	Version
MODEL REFINEMENT	PHENIX
RECONSTRUCTION	RELION	3.1

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2022-08-17 
Deposition Author(s): Caspy, I., Fadeeva, M., Mazor, Y., Nelson, N.

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Funding Organization	Location	Grant Number
Israel Science Foundation	Israel	569/17
Israel Science Foundation	Israel	199/21

Revision History  

• Version 1.0: 2022-08-17
  Type: Initial release
  
• Version 1.1: 2023-03-01
  Changes: Database references, Refinement description