7PI5 | pdb_00007pi5

Unstacked stretched Dunaliella PSII


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.78 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Starting Model: experimental
View more details

wwPDB Validation 3D Report Full Report

Validation slider image for 7PI5

This is version 1.2 of the entry. See complete history

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

  • DOI: https://doi.org/10.7554/eLife.81150
  • Primary Citation 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.


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

Macromolecule Content 

  • Total Structure Weight: 1,081.35 kDa 
  • Atom Count: 76,287 
  • Modeled Residue Count: 7,455 
  • Deposited Residue Count: 7,456 
  • Unique protein chains: 25

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
Photosystem II protein D1A,
Z [auth a]
336Dunaliella salinaMutation(s): 0 
EC: 1.10.3.9
Membrane Entity: Yes 
UniProt
Find proteins for D0FY08 (Dunaliella salina)
Explore D0FY08 
Go to UniProtKB:  D0FY08
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupD0FY08
Sequence Annotations
Expand
Reference Sequence
Find similar proteins by:|  3D Structure
Entity ID: 2
MoleculeChains  Sequence LengthOrganismDetailsImage
Photosystem II CP47 reaction center proteinAA [auth b],
B
484Dunaliella salinaMutation(s): 2 
Membrane Entity: Yes 
UniProt
Find proteins for D0FY05 (Dunaliella salina)
Explore D0FY05 
Go to UniProtKB:  D0FY05
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupD0FY05
Sequence Annotations
Expand
Reference Sequence
Find similar proteins by:|  3D Structure
Entity ID: 3
MoleculeChains  Sequence LengthOrganismDetailsImage
Photosystem II reaction center protein Ycf12BA [auth v],
C [auth V]
32Dunaliella salinaMutation(s): 0 
Membrane Entity: Yes 
UniProt
Find proteins for D0FY13 (Dunaliella salina)
Explore D0FY13 
Go to UniProtKB:  D0FY13
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupD0FY13
Sequence Annotations
Expand
Reference Sequence
Find similar proteins by:|  3D Structure
Entity ID: 4
MoleculeChains  Sequence LengthOrganismDetailsImage
Photosystem II CP43 reaction center proteinCA [auth c],
D [auth C]
449Dunaliella salinaMutation(s): 0 
Membrane Entity: Yes 
UniProt
Find proteins for D0FXY3 (Dunaliella salina)
Explore D0FXY3 
Go to UniProtKB:  D0FXY3
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupD0FXY3
Sequence Annotations
Expand
Reference Sequence
Find similar proteins by:|  3D Structure
Entity ID: 5
MoleculeChains  Sequence LengthOrganismDetailsImage
Photosystem II D2 proteinDA [auth d],
E [auth D]
348Dunaliella salinaMutation(s): 0 
EC: 1.10.3.9
Membrane Entity: Yes 
UniProt
Find proteins for A0A1C8XRK9 (Dunaliella salina)
Explore A0A1C8XRK9 
Go to UniProtKB:  A0A1C8XRK9
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A1C8XRK9
Sequence Annotations
Expand
Reference Sequence
Find similar proteins by:|  3D Structure
Entity ID: 6
MoleculeChains  Sequence LengthOrganismDetailsImage
Cytochrome b559 subunit alphaEA [auth e],
F [auth E]
76Dunaliella salinaMutation(s): 0 
Membrane Entity: Yes 
UniProt
Find proteins for D0FY01 (Dunaliella salina)
Explore D0FY01 
Go to UniProtKB:  D0FY01
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupD0FY01
Sequence Annotations
Expand
Reference Sequence
Find similar proteins by:|  3D Structure
Entity ID: 7
MoleculeChains  Sequence LengthOrganismDetailsImage
Cytochrome b559 subunit betaFA [auth f],
G [auth F]
31Dunaliella salinaMutation(s): 0 
Membrane Entity: Yes 
UniProt
Find proteins for A0A1C8XRP4 (Dunaliella salina)
Explore A0A1C8XRP4 
Go to UniProtKB:  A0A1C8XRP4
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A1C8XRP4
Sequence Annotations
Expand
Reference Sequence
Find similar proteins by:|  3D Structure
Entity ID: 8
MoleculeChains  Sequence LengthOrganismDetailsImage
Photosystem II reaction center protein HGA [auth h],
H
67Dunaliella salinaMutation(s): 0 
Membrane Entity: Yes 
UniProt
Find proteins for A0A1C8XRP3 (Dunaliella salina)
Explore A0A1C8XRP3 
Go to UniProtKB:  A0A1C8XRP3
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A1C8XRP3
Sequence Annotations
Expand
Reference Sequence
Find similar proteins by:|  3D Structure
Entity ID: 9
MoleculeChains  Sequence LengthOrganismDetailsImage
Photosystem II reaction center protein IHA [auth i],
I
35Dunaliella salinaMutation(s): 0 
Membrane Entity: Yes 
UniProt
Find proteins for D0FXX5 (Dunaliella salina)
Explore D0FXX5 
Go to UniProtKB:  D0FXX5
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupD0FXX5
Sequence Annotations
Expand
Reference Sequence
Find similar proteins by:|  3D Structure
Entity ID: 10
MoleculeChains  Sequence LengthOrganismDetailsImage
Photosystem II reaction center protein JIA [auth j],
J
36Dunaliella salinaMutation(s): 0 
Membrane Entity: Yes 
UniProt
Find proteins for A0A1C8XRM8 (Dunaliella salina)
Explore A0A1C8XRM8 
Go to UniProtKB:  A0A1C8XRM8
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A1C8XRM8
Sequence Annotations
Expand
Reference Sequence
Find similar proteins by:|  3D Structure
Entity ID: 11
MoleculeChains  Sequence LengthOrganismDetailsImage
Photosystem II reaction center protein KJA [auth k],
K
37Dunaliella salinaMutation(s): 0 
Membrane Entity: Yes 
UniProt
Find proteins for D0FXX2 (Dunaliella salina)
Explore D0FXX2 
Go to UniProtKB:  D0FXX2
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupD0FXX2
Sequence Annotations
Expand
Reference Sequence
Find similar proteins by:|  3D Structure
Entity ID: 12
MoleculeChains  Sequence LengthOrganismDetailsImage
Photosystem II reaction center protein LKA [auth l],
L
38Dunaliella salinaMutation(s): 0 
Membrane Entity: Yes 
UniProt
Find proteins for D0FY19 (Dunaliella salina)
Explore D0FY19 
Go to UniProtKB:  D0FY19
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupD0FY19
Sequence Annotations
Expand
Reference Sequence
Find similar proteins by:|  3D Structure
Entity ID: 13
MoleculeChains  Sequence LengthOrganismDetailsImage
Photosystem II reaction center protein MLA [auth m],
M
32Dunaliella salinaMutation(s): 1 
Membrane Entity: Yes 
UniProt
Find proteins for D0FXZ3 (Dunaliella salina)
Explore D0FXZ3 
Go to UniProtKB:  D0FXZ3
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupD0FXZ3
Sequence Annotations
Expand
Reference Sequence
Find similar proteins by:|  3D Structure
Entity ID: 14
MoleculeChains  Sequence LengthOrganismDetailsImage
PsbOMA [auth o],
N [auth O]
238Dunaliella salinaMutation(s): 0 
Find similar proteins by:|  3D Structure
Entity ID: 15
MoleculeChains  Sequence LengthOrganismDetailsImage
PsbPNA [auth p],
O [auth P]
187Dunaliella salinaMutation(s): 0 
Find similar proteins by:|  3D Structure
Entity ID: 16
MoleculeChains  Sequence LengthOrganismDetailsImage
Photosystem II reaction center protein TOA [auth t],
P [auth T]
30Dunaliella salinaMutation(s): 0 
Membrane Entity: Yes 
UniProt
Find proteins for D0FY04 (Dunaliella salina)
Explore D0FY04 
Go to UniProtKB:  D0FY04
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupD0FY04
Sequence Annotations
Expand
Reference Sequence
Find similar proteins by:|  3D Structure
Entity ID: 17
MoleculeChains  Sequence LengthOrganismDetailsImage
PSII 6.1 kDa proteinPA [auth w],
Q [auth W]
44Dunaliella salinaMutation(s): 0 
Membrane Entity: Yes 
UniProt
Find proteins for A0A7S3QU88 (Dunaliella tertiolecta)
Explore A0A7S3QU88 
Go to UniProtKB:  A0A7S3QU88
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A7S3QU88
Sequence Annotations
Expand
Reference Sequence
Find similar proteins by:|  3D Structure
Entity ID: 18
MoleculeChains  Sequence LengthOrganismDetailsImage
Hypothetical proteinQA [auth x],
R [auth X]
30Dunaliella salinaMutation(s): 0 
Membrane Entity: Yes 
UniProt
Find proteins for A0A7S3VKF3 (Dunaliella tertiolecta)
Explore A0A7S3VKF3 
Go to UniProtKB:  A0A7S3VKF3
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A7S3VKF3
Sequence Annotations
Expand
Reference Sequence
Find similar proteins by:|  3D Structure
Entity ID: 19
MoleculeChains  Sequence LengthOrganismDetailsImage
Photosystem II reaction center protein ZRA [auth z],
S [auth Z]
61Dunaliella salinaMutation(s): 0 
Membrane Entity: Yes 
UniProt
Find proteins for D0FXZ2 (Dunaliella salina)
Explore D0FXZ2 
Go to UniProtKB:  D0FXZ2
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupD0FXZ2
Sequence Annotations
Expand
Reference Sequence
Find similar proteins by:|  3D Structure
Entity ID: 20
MoleculeChains  Sequence LengthOrganismDetailsImage
LHCII M3SA [auth n],
T [auth N]
222Dunaliella salinaMutation(s): 0 
Find similar proteins by:|  3D Structure
Entity ID: 21
MoleculeChains  Sequence LengthOrganismDetailsImage
Chlorophyll a-b binding protein, chloroplasticTA [auth g],
U [auth G]
221Dunaliella salinaMutation(s): 0 
UniProt
Find proteins for A1XKU7 (Dunaliella salina)
Explore A1XKU7 
Go to UniProtKB:  A1XKU7
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA1XKU7
Sequence Annotations
Expand
Reference Sequence
Find similar proteins by:|  3D Structure
Entity ID: 22
MoleculeChains  Sequence LengthOrganismDetailsImage
CP29UA [auth r],
V [auth R]
202Dunaliella salinaMutation(s): 0 
Find similar proteins by:|  3D Structure
Entity ID: 23
MoleculeChains  Sequence LengthOrganismDetailsImage
CP26VA [auth s],
W [auth S]
243Dunaliella salinaMutation(s): 0 
UniProt
Find proteins for A0A7S3VRZ8 (Dunaliella tertiolecta)
Explore A0A7S3VRZ8 
Go to UniProtKB:  A0A7S3VRZ8
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A7S3VRZ8
Sequence Annotations
Expand
Reference Sequence
Find similar proteins by:|  3D Structure
Entity ID: 24
MoleculeChains  Sequence LengthOrganismDetailsImage
LHCII M1WA [auth y],
X [auth Y]
222Dunaliella salinaMutation(s): 0 
UniProt
Find proteins for A0A6S8N9J6 (Dunaliella tertiolecta)
Explore A0A6S8N9J6 
Go to UniProtKB:  A0A6S8N9J6
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A6S8N9J6
Sequence Annotations
Expand
Reference Sequence
Find similar proteins by:|  3D Structure
Entity ID: 25
MoleculeChains  Sequence LengthOrganismDetailsImage
PsbUXA [auth u],
Y [auth U]
27Dunaliella salinaMutation(s): 0 

Small Molecules

Ligands 26 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
DGD

Query on DGD



Download:Ideal Coordinates CCD File
AD [auth C]
BD [auth C]
CD [auth C]
ED [auth C]
PJ [auth c]
AD [auth C],
BD [auth C],
CD [auth C],
ED [auth C],
PJ [auth c],
QJ [auth c],
RJ [auth c],
TJ [auth c]
DIGALACTOSYL DIACYL GLYCEROL (DGDG)
C51 H96 O15
LDQFLSUQYHBXSX-HXXRYREZSA-N
CHL

Query on CHL



Download:Ideal Coordinates CCD File
AH [auth Y]
BE [auth N]
CE [auth N]
CG [auth S]
DE [auth N]
AH [auth Y],
BE [auth N],
CE [auth N],
CG [auth S],
DE [auth N],
DG [auth S],
EE [auth N],
EG [auth S],
FE [auth N],
FM [auth r],
GL [auth g],
GM [auth r],
IN [auth y],
KL [auth g],
LL [auth g],
MF [auth R],
ML [auth g],
MN [auth y],
NF [auth R],
NK [auth n],
NL [auth g],
NM [auth s],
NN [auth y],
OL [auth g],
ON [auth y],
QE [auth G],
QN [auth y],
RK [auth n],
SG [auth Y],
SK [auth n],
SM [auth s],
TK [auth n],
TM [auth s],
UE [auth G],
UK [auth n],
UM [auth s],
VE [auth G],
VK [auth n],
WE [auth G],
WG [auth Y],
XD [auth N],
XE [auth G],
XF [auth S],
XG [auth Y],
YE [auth G],
YG [auth Y]
CHLOROPHYLL B
C55 H70 Mg N4 O6
MWVCRINOIIOUAU-UYSPMESUSA-M
CLA

Query on CLA



Download:Ideal Coordinates CCD File
AC [auth B]
AE [auth N]
AF [auth G]
AG [auth S]
AI [auth b]
AC [auth B],
AE [auth N],
AF [auth G],
AG [auth S],
AI [auth b],
AJ [auth c],
AK [auth d],
AL [auth n],
AN [auth s],
BC [auth B],
BF [auth G],
BG [auth S],
BH [auth Y],
BI [auth b],
BJ [auth c],
BN [auth s],
CB [auth A],
CF [auth G],
CH [auth Y],
CI [auth b],
CJ [auth c],
CM [auth r],
DB [auth A],
DF [auth G],
DH [auth Y],
DI [auth b],
DJ [auth c],
DM [auth r],
EB [auth A],
EH [auth Y],
EI [auth b],
EJ [auth c],
EM [auth r],
FG [auth S],
FH [auth Y],
FI [auth b],
FJ [auth c],
GE [auth N],
GG [auth S],
GI [auth b],
GJ [auth c],
HB [auth A],
HE [auth N],
HG [auth S],
HI [auth b],
HJ [auth c],
HL [auth g],
HM [auth r],
IE [auth N],
IG [auth S],
II [auth b],
IJ [auth c],
IL [auth g],
IM [auth r],
JC [auth C],
JE [auth N],
JF [auth R],
JG [auth S],
JI [auth b],
JJ [auth c],
JL [auth g],
JM [auth r],
JN [auth y],
KC [auth C],
KD [auth D],
KE [auth N],
KF [auth R],
KG [auth S],
KI [auth b],
KJ [auth c],
KM [auth r],
KN [auth y],
LC [auth C],
LD [auth D],
LF [auth R],
LG [auth S],
LI [auth b],
LM [auth r],
LN [auth y],
MB [auth B],
MC [auth C],
MI [auth b],
MM [auth r],
NB [auth B],
NC [auth C],
NI [auth b],
OB [auth B],
OC [auth C],
OF [auth R],
OI [auth b],
OK [auth n],
OM [auth s],
PB [auth B],
PC [auth C],
PF [auth R],
PI [auth b],
PK [auth n],
PL [auth g],
PM [auth s],
PN [auth y],
QB [auth B],
QC [auth C],
QF [auth R],
QH [auth a],
QK [auth n],
QL [auth g],
QM [auth s],
RB [auth B],
RC [auth C],
RE [auth G],
RF [auth R],
RH [auth a],
RL [auth g],
RM [auth s],
RN [auth y],
SB [auth B],
SC [auth C],
SE [auth G],
SF [auth R],
SH [auth a],
SL [auth g],
SN [auth y],
TB [auth B],
TC [auth C],
TE [auth G],
TF [auth R],
TG [auth Y],
TL [auth g],
TN [auth y],
UB [auth B],
UC [auth C],
UG [auth Y],
UN [auth y],
VB [auth B],
VC [auth C],
VG [auth Y],
VH [auth a],
VM [auth s],
VN [auth y],
WB [auth B],
WK [auth n],
WM [auth s],
XB [auth B],
XK [auth n],
XM [auth s],
YB [auth B],
YD [auth N],
YF [auth S],
YI [auth c],
YK [auth n],
YM [auth s],
ZB [auth B],
ZD [auth N],
ZE [auth G],
ZF [auth S],
ZG [auth Y],
ZI [auth c],
ZJ [auth d],
ZK [auth n],
ZM [auth s]
CHLOROPHYLL A
C55 H72 Mg N4 O5
ATNHDLDRLWWWCB-AENOIHSZSA-M
PHO

Query on PHO



Download:Ideal Coordinates CCD File
FB [auth A],
GB [auth A],
TH [auth a],
UH [auth a]
PHEOPHYTIN A
C55 H74 N4 O5
CQIKWXUXPNUNDV-RCBXBCQGSA-N
SQD

Query on SQD



Download:Ideal Coordinates CCD File
FC [auth B]
HD [auth C]
JB [auth A]
TI [auth b]
WJ [auth c]
FC [auth B],
HD [auth C],
JB [auth A],
TI [auth b],
WJ [auth c],
XH [auth a]
1,2-DI-O-ACYL-3-O-[6-DEOXY-6-SULFO-ALPHA-D-GLUCOPYRANOSYL]-SN-GLYCEROL
C41 H78 O12 S
RVUUQPKXGDTQPG-JUDHQOGESA-N
LMG

Query on LMG



Download:Ideal Coordinates CCD File
DD [auth C]
GC [auth B]
GK [auth d]
JK [auth h]
KB [auth A]
DD [auth C],
GC [auth B],
GK [auth d],
JK [auth h],
KB [auth A],
LK [auth j],
RD [auth D],
SJ [auth c],
UD [auth H],
UI [auth b],
VD [auth J],
YH [auth a]
1,2-DISTEAROYL-MONOGALACTOSYL-DIGLYCERIDE
C45 H86 O10
DCLTVZLYPPIIID-CVELTQQQSA-N
LMK

Query on LMK



Download:Ideal Coordinates CCD File
ID [auth C],
XJ [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

Query on PL9



Download:Ideal Coordinates CCD File
CK [auth d],
ND [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
LHG

Query on LHG



Download:Ideal Coordinates CCD File
AO [auth y]
DK [auth d]
EK [auth d]
FK [auth d]
FL [auth n]
AO [auth y],
DK [auth d],
EK [auth d],
FK [auth d],
FL [auth n],
FN [auth s],
GD [auth C],
IF [auth G],
KH [auth Y],
MK [auth l],
OD [auth D],
PD [auth D],
PE [auth N],
PG [auth S],
QD [auth D],
VJ [auth c],
WD [auth L],
YL [auth g]
1,2-DIPALMITOYL-PHOSPHATIDYL-GLYCEROLE
C38 H75 O10 P
BIABMEZBCHDPBV-MPQUPPDSSA-N
3PH

Query on 3PH



Download:Ideal Coordinates CCD File
HN [auth s],
KK [auth i],
RG [auth S]
1,2-DIACYL-GLYCEROL-3-SN-PHOSPHATE
C39 H77 O8 P
YFWHNAWEOZTIPI-DIPNUNPCSA-N
DGA

Query on DGA



Download:Ideal Coordinates CCD File
FD [auth C],
HC [auth B],
UJ [auth c],
VI [auth b]
DIACYL GLYCEROL
C39 H76 O5
UHUSDOQQWJGJQS-QNGWXLTQSA-N
HEM

Query on HEM



Download:Ideal Coordinates CCD File
HK [auth f],
SD [auth F]
PROTOPORPHYRIN IX CONTAINING FE
C34 H32 Fe N4 O4
KABFMIBPWCXCRK-RGGAHWMASA-L
NEX

Query on NEX



Download:Ideal Coordinates CCD File
BM [auth r]
EL [auth n]
EN [auth s]
HF [auth G]
JH [auth Y]
BM [auth r],
EL [auth n],
EN [auth s],
HF [auth G],
JH [auth Y],
OE [auth N],
OG [auth S],
WF [auth R],
XL [auth g],
ZN [auth y]
(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

Query on XAT



Download:Ideal Coordinates CCD File
AM [auth r]
DL [auth n]
GF [auth G]
IH [auth Y]
NE [auth N]
AM [auth r],
DL [auth n],
GF [auth G],
IH [auth Y],
NE [auth N],
VF [auth R],
WL [auth g],
YN [auth y]
(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

Query on LUT



Download:Ideal Coordinates CCD File
BL [auth n]
CL [auth n]
CN [auth s]
DN [auth s]
EF [auth G]
BL [auth n],
CL [auth n],
CN [auth s],
DN [auth s],
EF [auth G],
FF [auth G],
GH [auth Y],
HH [auth Y],
LE [auth N],
ME [auth N],
MG [auth S],
NG [auth S],
UF [auth R],
UL [auth g],
VL [auth g],
WN [auth y],
XN [auth y],
ZL [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

Query on C7Z



Download:Ideal Coordinates CCD File
EC [auth B],
SI [auth b]
(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

Query on RRX



Download:Ideal Coordinates CCD File
IK [auth h],
TD [auth H]
(3R)-beta,beta-caroten-3-ol
C40 H56 O
DMASLKHVQRHNES-FKKUPVFPSA-N
BCR

Query on BCR



Download:Ideal Coordinates CCD File
BK [auth d]
CC [auth B]
DC [auth B]
IB [auth A]
LJ [auth c]
BK [auth d],
CC [auth B],
DC [auth B],
IB [auth A],
LJ [auth c],
MD [auth D],
MJ [auth c],
NJ [auth c],
OJ [auth c],
QI [auth b],
RI [auth b],
WC [auth C],
WH [auth a],
XC [auth C],
YC [auth C],
ZC [auth C]
BETA-CAROTENE
C40 H56
OENHQHLEOONYIE-JLTXGRSLSA-N
LPX

Query on LPX



Download:Ideal Coordinates CCD File
GN [auth s],
QG [auth S]
(2S)-3-{[(R)-(2-aminoethoxy)(hydroxy)phosphoryl]oxy}-2-hydroxypropyl hexadecanoate
C21 H44 N O7 P
YVYMBNSKXOXSKW-FQEVSTJZSA-N
OEX

Query on OEX



Download:Ideal Coordinates CCD File
MH [auth a],
YA [auth A]
CA-MN4-O5 CLUSTER
Ca Mn4 O5
SEXWDHMBWJEXOJ-UHFFFAOYSA-N
SPH

Query on SPH



Download:Ideal Coordinates CCD File
BO [auth y],
LH [auth Y]
SPHINGOSINE
C18 H37 N O2
WWUZIQQURGPMPG-MSOLQXFVSA-N
GOL

Query on GOL



Download:Ideal Coordinates CCD File
CO [auth y],
IC [auth B],
WI [auth b],
XI [auth b]
GLYCEROL
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
BCT

Query on BCT



Download:Ideal Coordinates CCD File
JD [auth D],
YJ [auth d]
BICARBONATE ION
C H O3
BVKZGUZCCUSVTD-UHFFFAOYSA-M
FE2

Query on FE2



Download:Ideal Coordinates CCD File
NH [auth a],
ZA [auth A]
FE (II) ION
Fe
CWYNVVGOOAEACU-UHFFFAOYSA-N
CL

Query on CL



Download:Ideal Coordinates CCD File
AB [auth A],
BB [auth A],
OH [auth a],
PH [auth a]
CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
NA

Query on NA



Download:Ideal Coordinates CCD File
LB [auth A],
ZH [auth a]
SODIUM ION
Na
FKNQFGJONOIPTF-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.78 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
MODEL REFINEMENTPHENIX
RECONSTRUCTIONRELION3.1

Structure Validation

View Full Validation Report



Entry History 

& Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Israel Science FoundationIsrael569/17
Israel Science FoundationIsrael199/21

Revision History  (Full details and data files)

  • Version 1.0: 2022-08-17
    Type: Initial release
  • Version 1.1: 2023-03-01
    Changes: Database references, Refinement description
  • Version 1.2: 2024-07-17
    Changes: Data collection, Refinement description