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 21WV | pdb_000021wv

In situ structure of the C2S2M2L4-type PSII-LHCII supercomplex from Oryza sativa


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.89 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

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This is version 1.0 of the entry. See complete history. 

Literature

In situ structures of plant photosystem supercomplexes.

Li, J., Elias, E., Zhang, K., Croce, R., Zhu, J.

(2026) Nature 657: 1094-1103

  • DOI: https://doi.org/10.1038/s41586-026-10847-3
  • Primary Citation Related Structures: 
    21WD, 21WG, 21WH, 21WI, 21WV, 27UR, 27UT, 9XJ1, 9XJ9, 9XK3, 9XK4, 9XK6, 9XK7, 9XK8, 9XK9

  • PubMed Abstract: 

    Photosynthesis sustains life on Earth by converting light to chemical energy through the coordinated action of photosystem I (PSI) and photosystem II (PSII) within thylakoid membranes 1-4 . Although structures of isolated photosystems are available, their native organization in chloroplasts remains unknown. Here, using in situ cryo-electron microscopy, we directly imaged Oryza sativa (rice) chloroplasts and determined structures of photosystem supercomplexes in their native membrane environment. We resolved a C 2 S 2 M 2 L 4 -type PSII-light harvesting complex II (LHCII) supercomplex, including four LHCII antenna trimers that were not retained in purified preparations. Excitation energy transfer calculations based on this architecture closely reproduce in vivo measurements, indicating its physiological relevance. We also resolved asymmetric PSII-LHCII dimers, including side-by-side, trans-lumenal and trans-stromal architectures, and higher-order assemblies of trimers and tetramers. On the basis of these observations, we propose that PSII forms a trans-lumenal and trans-stromal 'skeleton' that shapes thylakoid morphology and supports grana stacking. In addition, we obtained high-resolution structures of PSI-LHCI-LHCII and PSI-LHCI supercomplexes. Together, these structures reveal extensive networks of lipids, pigments and cofactors, providing the first molecular framework for understanding how the native architecture of plant photosystem supports the exceptional photon-to-electron efficiency of photosynthesis.


  • Organizational Affiliation: 
    • Department of Cardiology, The First Affiliated Hospital of USTC, MOE Key Laboratory for Cellular Dynamics, Center for Advanced Interdisciplinary Science and Biomedicine of IHM, Division of Life Sciences and Medicine, Hefei National Research Center for Interdisciplinary Sciences at the Microscale, University of Science and Technology of China, Hefei, China. jiao.li@ustc.edu.cn.

Macromolecule Content 

  • Total Structure Weight: 1,715.45 kDa 
  • Atom Count: 107,869 
  • Modeled Residue Count: 12,018 
  • Deposited Residue Count: 12,104 
  • Unique protein chains: 28

Macromolecules

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Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
Chlorophyll a-b binding protein 2, chloroplastic219Oryza sativa Japonica GroupMutation(s): 0 
UniProt
Find proteins for P12331 (Oryza sativa subsp. japonica)
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Reference Sequence
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Entity ID: 2
MoleculeChains  Sequence LengthOrganismDetailsImage
Chlorophyll a/b-binding proteinD [auth 03],
H [auth 07]
220Oryza sativa Japonica GroupMutation(s): 0 
UniProt
Find proteins for B7E6H8 (Oryza sativa subsp. japonica)
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Reference Sequence
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Entity ID: 3
MoleculeChains  Sequence LengthOrganismDetailsImage
Chlorophyll a-b binding protein, chloroplasticE [auth 04],
I [auth 08]
205Oryza sativa Japonica GroupMutation(s): 0 
UniProt
Find proteins for Q7XV11 (Oryza sativa subsp. japonica)
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Reference Sequence
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Entity ID: 4
MoleculeChains  Sequence LengthOrganismDetailsImage
Chlorophyll a-b binding protein, chloroplasticL [auth 12],
O [auth 15],
R [auth 18],
SB [auth 21]
222Oryza sativa Japonica GroupMutation(s): 0 
UniProt
Find proteins for Q10HD0 (Oryza sativa subsp. japonica)
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Reference Sequence
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Entity ID: 5
MoleculeChains  Sequence LengthOrganismDetailsImage
Chlorophyll a-b binding protein 1, chloroplasticM [auth 13],
P [auth 16],
S [auth 19],
TB [auth 22]
218Oryza sativa Japonica GroupMutation(s): 0 
UniProt
Find proteins for P12330 (Oryza sativa subsp. japonica)
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Reference Sequence
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Entity ID: 6
MoleculeChains  Sequence LengthOrganismDetailsImage
Photosystem II protein D1SA [auth 1a],
T [auth 1A]
334Oryza sativa Japonica GroupMutation(s): 0 
EC: 1.10.3.9
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Find proteins for P0C432 (Oryza sativa)
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Reference Sequence
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Entity ID: 7
MoleculeChains  Sequence LengthOrganismDetailsImage
Photosystem II CP47 reaction center proteinTA [auth 1b],
U [auth 1B]
503Oryza sativa Japonica GroupMutation(s): 0 
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Find proteins for P0C362 (Oryza sativa)
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Reference Sequence
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Entity ID: 8
MoleculeChains  Sequence LengthOrganismDetailsImage
Photosystem II CP43 reaction center proteinUA [auth 1c],
V [auth 1C]
450Oryza sativa Japonica GroupMutation(s): 0 
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Entity ID: 9
MoleculeChains  Sequence LengthOrganismDetailsImage
Photosystem II D2 proteinVA [auth 1d],
W [auth 1D]
341Oryza sativa Japonica GroupMutation(s): 0 
EC: 1.10.3.9
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Entity ID: 10
MoleculeChains  Sequence LengthOrganismDetailsImage
Cytochrome b559 subunit alphaWA [auth 1e],
X [auth 1E]
75Oryza sativa Japonica GroupMutation(s): 0 
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Entity ID: 11
MoleculeChains  Sequence LengthOrganismDetailsImage
Cytochrome b559 subunit betaXA [auth 1f],
Y [auth 1F]
35Oryza sativa Japonica GroupMutation(s): 0 
UniProt
Find proteins for P0C401 (Oryza sativa subsp. japonica)
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Reference Sequence
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Entity ID: 12
MoleculeChains  Sequence LengthOrganismDetailsImage
Photosystem II reaction center protein HAA [auth 1H],
ZA [auth 1h]
60Oryza sativa Japonica GroupMutation(s): 0 
UniProt
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Entity ID: 13
MoleculeChains  Sequence LengthOrganismDetailsImage
Photosystem II reaction center protein IAB [auth 1i],
BA [auth 1I]
34Oryza sativa Japonica GroupMutation(s): 0 
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Find proteins for P0C405 (Oryza sativa)
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Entity ID: 14
MoleculeChains  Sequence LengthOrganismDetailsImage
Photosystem II reaction center protein JBB [auth 1j],
CA [auth 1J]
35Oryza sativa Japonica GroupMutation(s): 0 
UniProt
Find proteins for P0C414 (Oryza sativa)
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Entity ID: 15
MoleculeChains  Sequence LengthOrganismDetailsImage
Photosystem II reaction center protein KCB [auth 1k],
DA [auth 1K]
37Oryza sativa Japonica GroupMutation(s): 0 
UniProt
Find proteins for P0C408 (Oryza sativa)
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Entity ID: 16
MoleculeChains  Sequence LengthOrganismDetailsImage
Photosystem II reaction center protein LDB [auth 1l],
EA [auth 1L]
36Oryza sativa Japonica GroupMutation(s): 0 
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Find proteins for P60137 (Oryza sativa subsp. japonica)
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Entity ID: 17
MoleculeChains  Sequence LengthOrganismDetailsImage
Photosystem II reaction center protein MEB [auth 1m],
FA [auth 1M]
33Oryza sativa Japonica GroupMutation(s): 0 
UniProt
Find proteins for P0C411 (Oryza sativa)
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Reference Sequence
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Entity ID: 18
MoleculeChains  Sequence LengthOrganismDetailsImage
33 kDa subunit of oxygen evolving system of photosystem IIGB [auth 1o],
HA [auth 1O]
248Oryza sativa Japonica GroupMutation(s): 0 
UniProt
Find proteins for Q943W1 (Oryza sativa subsp. japonica)
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Entity ID: 19
MoleculeChains  Sequence LengthOrganismDetailsImage
23 kDa subunit of oxygen evolving system of photosystem IIHB [auth 1p],
IA [auth 1P]
186Oryza sativa Japonica GroupMutation(s): 0 
UniProt
Find proteins for Q8GTK4 (Oryza sativa subsp. japonica)
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Entity ID: 20
MoleculeChains  Sequence LengthOrganismDetailsImage
Chlorophyll a-b binding protein, chloroplasticIB [auth 1r],
JA [auth 1R]
234Oryza sativa Japonica GroupMutation(s): 0 
UniProt
Find proteins for Q6Z411 (Oryza sativa subsp. japonica)
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Entity ID: 21
MoleculeChains  Sequence LengthOrganismDetailsImage
Chlorophyll a-b binding protein, chloroplasticJB [auth 1s],
KA [auth 1S]
218Oryza sativa Japonica GroupMutation(s): 0 
UniProt
Find proteins for Q53N83 (Oryza sativa subsp. japonica)
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Reference Sequence
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Entity ID: 22
MoleculeChains  Sequence LengthOrganismDetailsImage
Photosystem II reaction center protein TKB [auth 1t],
LA [auth 1T]
32Oryza sativa Japonica GroupMutation(s): 0 
UniProt
Find proteins for P0C427 (Oryza sativa)
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Entity ID: 23
MoleculeChains  Sequence LengthOrganismDetailsImage
Os02g0581100 proteinLB [auth 1u],
MA [auth 1U]
27Oryza sativa Japonica GroupMutation(s): 0 
UniProt
Find proteins for Q0E032 (Oryza sativa subsp. japonica)
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Entity ID: 24
MoleculeChains  Sequence LengthOrganismDetailsImage
Photosystem II 10 kDa polypeptide, chloroplasticMB [auth 1v],
NA [auth 1V]
105Oryza sativa Japonica GroupMutation(s): 0 
UniProt
Find proteins for Q8H4P7 (Oryza sativa subsp. japonica)
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Entity ID: 25
MoleculeChains  Sequence LengthOrganismDetailsImage
Photosystem II reaction center W protein, chloroplasticNB [auth 1w],
OA [auth 1W]
54Oryza sativa Japonica GroupMutation(s): 0 
UniProt
Find proteins for Q5ZBY9 (Oryza sativa subsp. japonica)
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Entity ID: 26
MoleculeChains  Sequence LengthOrganismDetailsImage
Os07g0673550 proteinOB [auth 1x],
PA [auth 1X]
39Oryza sativa Japonica GroupMutation(s): 0 
UniProt
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Entity ID: 27
MoleculeChains  Sequence LengthOrganismDetailsImage
Os08g0119800 proteinPB [auth 1y],
QA [auth 1Y]
36Oryza sativa Japonica GroupMutation(s): 0 
UniProt
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Entity ID: 28
MoleculeChains  Sequence LengthOrganismDetailsImage
Photosystem II reaction center protein ZQB [auth 1z],
RA [auth 1Z]
62Oryza sativa Japonica GroupMutation(s): 0 
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Reference Sequence

Small Molecules

Ligands 19 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
DGD
(Subject of Investigation/LOI)

Query on DGD



Download:Ideal Coordinates CCD File
AI [auth 1A]
AJ [auth 1B]
BJ [auth 1B]
DO [auth 1S]
NC [auth 00]
AI [auth 1A],
AJ [auth 1B],
BJ [auth 1B],
DO [auth 1S],
NC [auth 00],
QQ [auth 1c],
RQ [auth 1c],
SQ [auth 1c],
UJ [auth 1C],
VJ [auth 1C],
WJ [auth 1C],
XP [auth 1b],
ZI [auth 1B]
DIGALACTOSYL DIACYL GLYCEROL (DGDG)
C51 H96 O15
LDQFLSUQYHBXSX-HXXRYREZSA-N
CHL
(Subject of Investigation/LOI)

Query on CHL



Download:Ideal Coordinates CCD File
AC [auth 00]
AF [auth 05]
AG [auth 07]
AH [auth 09]
AM [auth 1N]
AC [auth 00],
AF [auth 05],
AG [auth 07],
AH [auth 09],
AM [auth 1N],
AU [auth 1s],
BC [auth 00],
BF [auth 05],
BH [auth 09],
BL [auth 1G],
BU [auth 1s],
CH [auth 09],
CL [auth 1G],
DE [auth 03],
DL [auth 1G],
EL [auth 1G],
EM [auth 1N],
EN [auth 1R],
FD [auth 02],
FG [auth 07],
FL [auth 1G],
FM [auth 1N],
FT [auth 1r],
GM [auth 1N],
GT [auth 1r],
HD [auth 02],
HE [auth 04],
HF [auth 05],
HM [auth 1N],
HT [auth 1r],
ID [auth 02],
IE [auth 04],
IM [auth 1N],
JD [auth 02],
JE [auth 04],
JF [auth 05],
JG [auth 08],
JR [auth 1g],
KD [auth 02],
KE [auth 04],
KF [auth 06],
KG [auth 08],
KS [auth 1n],
LD [auth 02],
LE [auth 04],
LG [auth 08],
MF [auth 06],
MG [auth 08],
NF [auth 06],
NG [auth 08],
NN [auth 1S],
NR [auth 1g],
NT [auth 1r],
OF [auth 06],
OR [auth 1g],
OS [auth 1n],
PF [auth 06],
PR [auth 1g],
PS [auth 1n],
QC [auth 01],
QN [auth 1S],
QR [auth 1g],
QS [auth 1n],
RC [auth 01],
RN [auth 1S],
RR [auth 1g],
RS [auth 1n],
SC [auth 01],
SN [auth 1S],
SS [auth 1n],
TC [auth 01],
UC [auth 01],
UD [auth 03],
UM [auth 1R],
VD [auth 03],
VM [auth 1R],
VT [auth 1s],
WD [auth 03],
WM [auth 1R],
XB [auth 00],
XD [auth 03],
XF [auth 07],
XK [auth 1G],
YB [auth 00],
YE [auth 05],
YF [auth 07],
YG [auth 09],
ZB [auth 00],
ZE [auth 05],
ZF [auth 07],
ZG [auth 09],
ZT [auth 1s]
CHLOROPHYLL B
C55 H70 Mg N4 O6
MWVCRINOIIOUAU-UYSPMESUSA-M
CLA
(Subject of Investigation/LOI)

Query on CLA



Download:Ideal Coordinates CCD File
AD [auth 01]
AE [auth 03]
AL [auth 1G]
AN [auth 1R]
AP [auth 1b]
AD [auth 01],
AE [auth 03],
AL [auth 1G],
AN [auth 1R],
AP [auth 1b],
AR [auth 1d],
BD [auth 01],
BE [auth 03],
BG [auth 07],
BI [auth 1B],
BM [auth 1N],
BN [auth 1R],
BP [auth 1b],
BQ [auth 1c],
BR [auth 1d],
CC [auth 00],
CE [auth 03],
CF [auth 05],
CG [auth 07],
CI [auth 1B],
CM [auth 1N],
CN [auth 1R],
CP [auth 1b],
CQ [auth 1c],
CT [auth 1r],
CU [auth 1s],
DC [auth 00],
DF [auth 05],
DG [auth 07],
DH [auth 09],
DI [auth 1B],
DM [auth 1N],
DN [auth 1R],
DP [auth 1b],
DQ [auth 1c],
DT [auth 1r],
DU [auth 1s],
EC [auth 00],
EE [auth 03],
EF [auth 05],
EG [auth 07],
EH [auth 09],
EI [auth 1B],
EP [auth 1b],
EQ [auth 1c],
ET [auth 1r],
EU [auth 1s],
FC [auth 00],
FF [auth 05],
FH [auth 09],
FI [auth 1B],
FJ [auth 1C],
FN [auth 1R],
FP [auth 1b],
FQ [auth 1c],
FU [auth 1s],
GD [auth 02],
GF [auth 05],
GG [auth 07],
GH [auth 09],
GI [auth 1B],
GJ [auth 1C],
GK [auth 1D],
GL [auth 1G],
GP [auth 1b],
GQ [auth 1c],
GU [auth 1s],
HI [auth 1B],
HJ [auth 1C],
HK [auth 1D],
HL [auth 1G],
HP [auth 1b],
HQ [auth 1c],
HU [auth 1s],
II [auth 1B],
IJ [auth 1C],
IL [auth 1G],
IP [auth 1b],
IQ [auth 1c],
IT [auth 1r],
JI [auth 1B],
JJ [auth 1C],
JK [auth 1D],
JL [auth 1G],
JM [auth 1N],
JP [auth 1b],
JQ [auth 1c],
JT [auth 1r],
KI [auth 1B],
KJ [auth 1C],
KK [auth 1D],
KL [auth 1G],
KM [auth 1N],
KP [auth 1b],
KQ [auth 1c],
KR [auth 1g],
KT [auth 1r],
LC [auth 00],
LF [auth 06],
LH [auth 09],
LI [auth 1B],
LJ [auth 1C],
LM [auth 1N],
LP [auth 1b],
LQ [auth 1c],
LR [auth 1g],
LS [auth 1n],
LT [auth 1r],
MD [auth 02],
ME [auth 04],
MI [auth 1B],
MJ [auth 1C],
MM [auth 1N],
MP [auth 1b],
MQ [auth 1c],
MR [auth 1g],
MS [auth 1n],
MT [auth 1r],
ND [auth 02],
NE [auth 04],
NI [auth 1B],
NJ [auth 1C],
NM [auth 1N],
NP [auth 1b],
NQ [auth 1c],
NS [auth 1n],
OD [auth 02],
OE [auth 04],
OG [auth 08],
OI [auth 1B],
OJ [auth 1C],
ON [auth 1S],
OO [auth 1a],
OT [auth 1r],
PC [auth 01],
PD [auth 02],
PE [auth 04],
PG [auth 08],
PI [auth 1B],
PJ [auth 1C],
PN [auth 1S],
PO [auth 1a],
QD [auth 02],
QE [auth 04],
QF [auth 06],
QG [auth 08],
QH [auth 1A],
QI [auth 1B],
QJ [auth 1C],
RD [auth 02],
RE [auth 04],
RF [auth 06],
RG [auth 08],
RJ [auth 1C],
RO [auth 1a],
SD [auth 02],
SE [auth 04],
SF [auth 06],
SG [auth 08],
SR [auth 1g],
TD [auth 03],
TF [auth 06],
TG [auth 08],
TH [auth 1A],
TM [auth 1R],
TN [auth 1S],
TR [auth 1g],
TS [auth 1n],
UB [auth 00],
UE [auth 04],
UF [auth 06],
UG [auth 08],
UN [auth 1S],
UR [auth 1g],
US [auth 1n],
VB [auth 00],
VC [auth 01],
VE [auth 05],
VF [auth 07],
VG [auth 09],
VN [auth 1S],
VR [auth 1g],
VS [auth 1n],
WB [auth 00],
WC [auth 01],
WE [auth 05],
WF [auth 07],
WG [auth 09],
WN [auth 1S],
WR [auth 1g],
WS [auth 1n],
WT [auth 1s],
XC [auth 01],
XE [auth 05],
XG [auth 09],
XM [auth 1R],
XN [auth 1S],
XQ [auth 1d],
XS [auth 1n],
XT [auth 1s],
YC [auth 01],
YD [auth 03],
YK [auth 1G],
YM [auth 1R],
YN [auth 1S],
YO [auth 1b],
YT [auth 1s],
ZC [auth 01],
ZD [auth 03],
ZK [auth 1G],
ZM [auth 1R],
ZN [auth 1S],
ZO [auth 1b]
CHLOROPHYLL A
C55 H72 Mg N4 O5
ATNHDLDRLWWWCB-AENOIHSZSA-M
PHO
(Subject of Investigation/LOI)

Query on PHO



Download:Ideal Coordinates CCD File
QO [auth 1a],
RH [auth 1A],
SH [auth 1A],
YQ [auth 1d]
PHEOPHYTIN A
C55 H74 N4 O5
CQIKWXUXPNUNDV-RCBXBCQGSA-N
SQD
(Subject of Investigation/LOI)

Query on SQD



Download:Ideal Coordinates CCD File
CJ [auth 1B]
DJ [auth 1B]
FR [auth 1d]
IS [auth 1l]
JS [auth 1m]
CJ [auth 1B],
DJ [auth 1B],
FR [auth 1d],
IS [auth 1l],
JS [auth 1m],
LN [auth 1S],
OU [auth 1w],
PQ [auth 1c],
QK [auth 1D],
RK [auth 1D],
RP [auth 1b],
SP [auth 1b],
ST [auth 1s],
TO [auth 1a],
UI [auth 1B],
UO [auth 1a],
WI [auth 1B],
XH [auth 1A],
YH [auth 1A],
YL [auth 1L],
ZH [auth 1A],
ZJ [auth 1C],
ZQ [auth 1d]
1,2-DI-O-ACYL-3-O-[6-DEOXY-6-SULFO-ALPHA-D-GLUCOPYRANOSYL]-SN-GLYCEROL
C41 H78 O12 S
RVUUQPKXGDTQPG-JUDHQOGESA-N
PL9
(Subject of Investigation/LOI)

Query on PL9



Download:Ideal Coordinates CCD File
BT [auth 1r]
ER [auth 1d]
GR [auth 1e]
MK [auth 1D]
SM [auth 1R]
BT [auth 1r],
ER [auth 1d],
GR [auth 1e],
MK [auth 1D],
SM [auth 1R],
UK [auth 1E],
VO [auth 1a],
WH [auth 1A]
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
(Subject of Investigation/LOI)

Query on LHG



Download:Ideal Coordinates CCD File
AK [auth 1C]
AS [auth 1g]
AT [auth 1n]
BK [auth 1C]
CO [auth 1S]
AK [auth 1C],
AS [auth 1g],
AT [auth 1n],
BK [auth 1C],
CO [auth 1S],
DK [auth 1C],
ED [auth 01],
EK [auth 1C],
EO [auth 1V],
FK [auth 1C],
FO [auth 1W],
FS [auth 1j],
GE [auth 03],
GO [auth 1W],
HR [auth 1e],
IG [auth 07],
IN [auth 1R],
JC [auth 00],
JN [auth 1R],
KC [auth 00],
KH [auth 09],
KN [auth 1S],
KO [auth 1a],
KU [auth 1s],
MC [auth 00],
MH [auth 09],
MN [auth 1S],
MU [auth 1t],
NK [auth 1D],
NU [auth 1v],
OC [auth 00],
OK [auth 1D],
OL [auth 1G],
PK [auth 1D],
PM [auth 1N],
PU [auth 1w],
QM [auth 1N],
QU [auth 1w],
RL [auth 1I],
RM [auth 1P],
RT [auth 1r],
RU [auth 1w],
SK [auth 1D],
TK [auth 1E],
TL [auth 1I],
TP [auth 1b],
TQ [auth 1c],
TT [auth 1s],
UP [auth 1b],
UQ [auth 1c],
UT [auth 1s],
VI [auth 1B],
VL [auth 1J],
VP [auth 1b],
VQ [auth 1d],
WK [auth 1F],
WL [auth 1K],
WO [auth 1a],
WP [auth 1b],
WQ [auth 1d],
XJ [auth 1C],
XL [auth 1L],
YJ [auth 1C],
YP [auth 1b],
ZL [auth 1N],
ZS [auth 1n]
1,2-DIPALMITOYL-PHOSPHATIDYL-GLYCEROLE
C38 H75 O10 P
BIABMEZBCHDPBV-MPQUPPDSSA-N
3PH
(Subject of Investigation/LOI)

Query on 3PH



Download:Ideal Coordinates CCD File
HO [auth 1X]1,2-DIACYL-GLYCEROL-3-SN-PHOSPHATE
C39 H77 O8 P
YFWHNAWEOZTIPI-DIPNUNPCSA-N
MGE
(Subject of Investigation/LOI)

Query on MGE



Download:Ideal Coordinates CCD File
CK [auth 1C],
GS [auth 1k],
LU [auth 1s],
XI [auth 1B],
YI [auth 1B]
(1S)-2-(ALPHA-L-ALLOPYRANOSYLOXY)-1-[(TRIDECANOYLOXY)METHYL]ETHYL PALMITATE
C38 H72 O10
FIJGNIAJTZSERN-DQQGJSMTSA-N
HEM
(Subject of Investigation/LOI)

Query on HEM



Download:Ideal Coordinates CCD File
IR [auth 1f],
VK [auth 1E]
PROTOPORPHYRIN IX CONTAINING FE
C34 H32 Fe N4 O4
KABFMIBPWCXCRK-RGGAHWMASA-L
XAT
(Subject of Investigation/LOI)

Query on XAT



Download:Ideal Coordinates CCD File
BS [auth 1g]
HN [auth 1R]
NL [auth 1G]
PL [auth 1G]
QT [auth 1r]
BS [auth 1g],
HN [auth 1R],
NL [auth 1G],
PL [auth 1G],
QT [auth 1r],
ZR [auth 1g]
(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
(Subject of Investigation/LOI)

Query on LUT



Download:Ideal Coordinates CCD File
AO [auth 1S]
BO [auth 1S]
CD [auth 01]
DD [auth 01]
FE [auth 03]
AO [auth 1S],
BO [auth 1S],
CD [auth 01],
DD [auth 01],
FE [auth 03],
GC [auth 00],
GN [auth 1R],
HC [auth 00],
HG [auth 07],
HH [auth 09],
IF [auth 05],
IH [auth 09],
IU [auth 1s],
JU [auth 1s],
LL [auth 1G],
ML [auth 1G],
OM [auth 1N],
PT [auth 1r],
XR [auth 1g],
YR [auth 1g],
YS [auth 1n]
(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)

Query on BCR



Download:Ideal Coordinates CCD File
CS [auth 1h]
DR [auth 1d]
DS [auth 1i]
EJ [auth 1B]
ES [auth 1j]
CS [auth 1h],
DR [auth 1d],
DS [auth 1i],
EJ [auth 1B],
ES [auth 1j],
HS [auth 1k],
IO [auth 1Z],
JO [auth 1Z],
LK [auth 1D],
OP [auth 1b],
OQ [auth 1c],
PP [auth 1b],
QL [auth 1H],
QP [auth 1b],
RI [auth 1B],
SI [auth 1B],
SL [auth 1I],
SO [auth 1a],
TE [auth 04],
TI [auth 1B],
UL [auth 1J],
VH [auth 1A],
XO [auth 1b]
BETA-CAROTENE
C40 H56
OENHQHLEOONYIE-JLTXGRSLSA-N
VIV
(Subject of Investigation/LOI)

Query on VIV



Download:Ideal Coordinates CCD File
IC [auth 00],
JH [auth 09]
(2R)-2,5,7,8-TETRAMETHYL-2-[(4R,8R)-4,8,12-TRIMETHYLTRIDECYL]CHROMAN-6-OL
C29 H50 O2
GVJHHUAWPYXKBD-IEOSBIPESA-N
OEX
(Subject of Investigation/LOI)

Query on OEX



Download:Ideal Coordinates CCD File
LO [auth 1a],
UH [auth 1A]
CA-MN4-O5 CLUSTER
Ca Mn4 O5
SEXWDHMBWJEXOJ-UHFFFAOYSA-N
LNL
(Subject of Investigation/LOI)

Query on LNL



Download:Ideal Coordinates CCD File
SJ [auth 1C],
TJ [auth 1C],
ZP [auth 1c]
ALPHA-LINOLENIC ACID
C18 H30 O2
DTOSIQBPPRVQHS-PDBXOOCHSA-N
BCT
(Subject of Investigation/LOI)

Query on BCT



Download:Ideal Coordinates CCD File
CR [auth 1d],
IK [auth 1D]
BICARBONATE ION
C H O3
BVKZGUZCCUSVTD-UHFFFAOYSA-M
FE2
(Subject of Investigation/LOI)

Query on FE2



Download:Ideal Coordinates CCD File
MO [auth 1a],
NH [auth 1A]
FE (II) ION
Fe
CWYNVVGOOAEACU-UHFFFAOYSA-N
CL
(Subject of Investigation/LOI)

Query on CL



Download:Ideal Coordinates CCD File
AQ [auth 1c],
NO [auth 1a],
OH [auth 1A],
PH [auth 1A]
CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M

Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.89 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
MODEL REFINEMENTPHENIX1.20.1_4487
RECONSTRUCTIONcryoSPARC

Structure Validation

View Full Validation Report



Entry History 

& Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Natural Science Foundation of China (NSFC)China32201038

Revision History  (Full details and data files)

  • Version 1.0: 2026-10-07
    Type: Initial release