8XLP | pdb_00008xlp

Structure of inactive Photosystem II associated with CAC antenna from Rhodomonas Salina

Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.57 Å
  • Aggregation State: 3D ARRAY 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history. 


Literature

Structural basis for the distinct core-antenna assembly of cryptophyte photosystem II.

Si, L., Zhang, S., Su, X., Li, M.

(2024) Nat Commun 15: 6812-6812

  • DOI: https://doi.org/10.1038/s41467-024-51206-y
  • Primary Citation of Related Structures:  
    8XLP

  • PubMed Abstract: 

    Photosystem II (PSII) catalyzes the light-driven charge separation and water oxidation reactions of photosynthesis. Eukaryotic PSII core is usually associated with membrane-embedded light-harvesting antennae, which greatly increase the absorbance cross-section of the core. The peripheral antennae in different phototrophs vary considerably in protein composition and arrangement. Photosynthetic cryptophytes possess chlorophyll a/c binding proteins (CACs) that serve as their antennae. How these CACs assemble with the PSII core remains unclear. Here, we report the 2.57-Å resolution structure of cryptophyte PSII-CAC purified from cells at nitrogen-limited stationary growth phase. We show that each monomer of the PSII homodimer contains a core complex, six chlorophyll a/c binding proteins (CACs) and a previously unseen chlorophyll-binding protein (termed CAL-II). Six CACs are arranged as a double-layered arc-shaped non-parallel belt, and two such belts attach to the dimeric core from opposite sides. The CAL-II simultaneously interacts with a number of core subunits and five CACs. The distinct organization of CACs and the presence of CAL-II may play a critical role in stabilizing the dimeric PSII-CAC complex under stress conditions. Our study provides mechanistic insights into the assembly and function of the PSII-CAC complex as well as the possible adaptation of cryptophytes in response to environmental stresses.

    • Organizational Affiliation: 
    • Key Laboratory of Biomacromolecules (CAS), National Laboratory of Biomacromolecules, CAS Center for Excellence in Biomacromolecules, Institute of Biophysics, Chinese Academy of Sciences, Beijing, China.

Macromolecules
Find similar proteins by: 
(by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Photosystem II protein D1A [auth a],
R [auth A]		328Rhodomonas salinaMutation(s): 0 
EC: 1.10.3.9
Membrane Entity: Yes 
UniProt
Find proteins for A6MVT2 (Rhodomonas salina)
Explore A6MVT2 
Go to UniProtKB:  A6MVT2
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA6MVT2
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by: 
(by identity cutoff)  |  3D Structure
Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Photosystem II CP47 reaction center proteinB [auth b],
S [auth B]		509Rhodomonas salinaMutation(s): 0 
Membrane Entity: Yes 
UniProt
Find proteins for A6MW31 (Rhodomonas salina)
Explore A6MW31 
Go to UniProtKB:  A6MW31
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA6MW31
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by: 
(by identity cutoff)  |  3D Structure
Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
Photosystem II CP43 reaction center proteinC [auth c],
T [auth C]		487Rhodomonas salinaMutation(s): 0 
Membrane Entity: Yes 
UniProt
Find proteins for A6MVR2 (Rhodomonas salina)
Explore A6MVR2 
Go to UniProtKB:  A6MVR2
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA6MVR2
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by: 
(by identity cutoff)  |  3D Structure
Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
Photosystem II D2 proteinD [auth d],
U [auth D]		351Rhodomonas salinaMutation(s): 0 
EC: 1.10.3.9
Membrane Entity: Yes 
UniProt
Find proteins for A6MVR3 (Rhodomonas salina)
Explore A6MVR3 
Go to UniProtKB:  A6MVR3
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA6MVR3
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by: 
(by identity cutoff)  |  3D Structure
Entity ID: 5
MoleculeChains Sequence LengthOrganismDetailsImage
Cytochrome b559 subunit alphaE [auth e],
V [auth E]		84Rhodomonas salinaMutation(s): 0 
Membrane Entity: Yes 
UniProt
Find proteins for A6MVV5 (Rhodomonas salina)
Explore A6MVV5 
Go to UniProtKB:  A6MVV5
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA6MVV5
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by: 
(by identity cutoff)  |  3D Structure
Entity ID: 6
MoleculeChains Sequence LengthOrganismDetailsImage
Cytochrome b559 subunit betaF [auth f],
W [auth F]		42Rhodomonas salinaMutation(s): 0 
Membrane Entity: Yes 
UniProt
Find proteins for A6MVV4 (Rhodomonas salina)
Explore A6MVV4 
Go to UniProtKB:  A6MVV4
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA6MVV4
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by: 
(by identity cutoff)  |  3D Structure
Entity ID: 7
MoleculeChains Sequence LengthOrganismDetailsImage
Photosystem II reaction center protein HG [auth h],
X [auth H]		67Rhodomonas salinaMutation(s): 0 
Membrane Entity: Yes 
UniProt
Find proteins for A6MW35 (Rhodomonas salina)
Explore A6MW35 
Go to UniProtKB:  A6MW35
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA6MW35
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by: 
(by identity cutoff)  |  3D Structure
Entity ID: 8
MoleculeChains Sequence LengthOrganismDetailsImage
Photosystem II reaction center protein IH [auth i],
Y [auth I]		38Rhodomonas salinaMutation(s): 0 
Membrane Entity: Yes 
UniProt
Find proteins for A6MVW0 (Rhodomonas salina)
Explore A6MVW0 
Go to UniProtKB:  A6MVW0
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA6MVW0
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by: 
(by identity cutoff)  |  3D Structure
Entity ID: 9
MoleculeChains Sequence LengthOrganismDetailsImage
Photosystem II reaction center protein KI [auth k],
Z [auth K]		45Rhodomonas salinaMutation(s): 0 
Membrane Entity: Yes 
UniProt
Find proteins for A6MVZ3 (Rhodomonas salina)
Explore A6MVZ3 
Go to UniProtKB:  A6MVZ3
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA6MVZ3
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by: 
(by identity cutoff)  |  3D Structure
Entity ID: 10
MoleculeChains Sequence LengthOrganismDetailsImage
Photosystem II reaction center protein LAA [auth L],
J [auth l]		38Rhodomonas salinaMutation(s): 0 
Membrane Entity: Yes 
UniProt
Find proteins for A6MVV3 (Rhodomonas salina)
Explore A6MVV3 
Go to UniProtKB:  A6MVV3
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA6MVV3
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by: 
(by identity cutoff)  |  3D Structure
Entity ID: 11
MoleculeChains Sequence LengthOrganismDetailsImage
Photosystem II protein MBA [auth M],
K [auth m]		40Rhodomonas salinaMutation(s): 0 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by: 
(by identity cutoff)  |  3D Structure
Entity ID: 12
MoleculeChains Sequence LengthOrganismDetailsImage
Photosystem II reaction center protein TCA [auth T],
L [auth t]		32Rhodomonas salinaMutation(s): 0 
Membrane Entity: Yes 
UniProt
Find proteins for A6MW32 (Rhodomonas salina)
Explore A6MW32 
Go to UniProtKB:  A6MW32
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA6MW32
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by: 
(by identity cutoff)  |  3D Structure
Entity ID: 13
MoleculeChains Sequence LengthOrganismDetailsImage
Photosystem II protein WDA [auth W],
M [auth w]		74Rhodomonas salinaMutation(s): 0 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by: 
(by identity cutoff)  |  3D Structure
Entity ID: 14
MoleculeChains Sequence LengthOrganismDetailsImage
Photosystem II reaction center X proteinEA [auth X],
N [auth x]		39Rhodomonas salinaMutation(s): 0 
Membrane Entity: Yes 
UniProt
Find proteins for A6MVU5 (Rhodomonas salina)
Explore A6MVU5 
Go to UniProtKB:  A6MVU5
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA6MVU5
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by: 
(by identity cutoff)  |  3D Structure
Entity ID: 15
MoleculeChains Sequence LengthOrganismDetailsImage
Photosystem II reaction center protein Psb30FA [auth Y],
O [auth y]		34Rhodomonas salinaMutation(s): 0 
Membrane Entity: Yes 
UniProt
Find proteins for A6MVU9 (Rhodomonas salina)
Explore A6MVU9 
Go to UniProtKB:  A6MVU9
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA6MVU9
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by: 
(by identity cutoff)  |  3D Structure
Entity ID: 16
MoleculeChains Sequence LengthOrganismDetailsImage
Photosystem II reaction center protein ZGA [auth Z],
P [auth z]		62Rhodomonas salinaMutation(s): 0 
Membrane Entity: Yes 
UniProt
Find proteins for A6MVZ2 (Rhodomonas salina)
Explore A6MVZ2 
Go to UniProtKB:  A6MVZ2
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA6MVZ2
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by: 
(by identity cutoff)  |  3D Structure
Entity ID: 17
MoleculeChains Sequence LengthOrganismDetailsImage
NCPMA [auth G],
Q [auth g]		284Rhodomonas salinaMutation(s): 0 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by: 
(by identity cutoff)  |  3D Structure
Entity ID: 18
MoleculeChains Sequence LengthOrganismDetailsImage
CAC2HA [auth 2],
OA [auth O]		217Rhodomonas salinaMutation(s): 0 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by: 
(by identity cutoff)  |  3D Structure
Entity ID: 19
MoleculeChains Sequence LengthOrganismDetailsImage
CAC3IA [auth 3],
PA [auth P]		221Rhodomonas salinaMutation(s): 0 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by: 
(by identity cutoff)  |  3D Structure
Entity ID: 20
MoleculeChains Sequence LengthOrganismDetailsImage
CAC4JA [auth 4],
QA [auth Q]		216Rhodomonas salinaMutation(s): 0 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by: 
(by identity cutoff)  |  3D Structure
Entity ID: 21
MoleculeChains Sequence LengthOrganismDetailsImage
CAC5KA [auth 5],
RA [auth R]		229Rhodomonas salinaMutation(s): 0 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by: 
(by identity cutoff)  |  3D Structure
Entity ID: 22
MoleculeChains Sequence LengthOrganismDetailsImage
CAC6LA [auth 6],
SA [auth S]		227Rhodomonas salinaMutation(s): 0 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by: 
(by identity cutoff)  |  3D Structure
Entity ID: 23
MoleculeChains Sequence LengthOrganismDetailsImage
CAC1NA [auth 1],
TA [auth N]		233Rhodomonas salinaMutation(s): 0 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
Sequence Annotations
Expand
  • Reference Sequence
Small Molecules
Ligands 16 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
DGD
Query on DGD
Download Ideal Coordinates CCD File 
IG [auth H],
JD [auth h],
TF [auth C],
UC [auth c]		DIGALACTOSYL DIACYL GLYCEROL (DGDG)
C51 H96 O15
LDQFLSUQYHBXSX-HXXRYREZSA-N
CLA
Query on CLA
Download Ideal Coordinates CCD File 
AD [auth d]
AG [auth D]
AH [auth 2]
AI [auth 4]
AK [auth G]
AD [auth d],
AG [auth D],
AH [auth 2],
AI [auth 4],
AK [auth G],
AL [auth O],
AN [auth R],
AO [auth S],
BD [auth d],
BI [auth 4],
BJ [auth 5],
BK [auth G],
BL [auth O],
BN [auth R],
CJ [auth 5],
CL [auth O],
CN [auth R],
DF [auth C],
DI [auth 4],
DK [auth 1],
DL [auth O],
DN [auth R],
EC [auth c],
EF [auth C],
EI [auth 4],
EK [auth 1],
EL [auth O],
EN [auth R],
FC [auth c],
FF [auth C],
FI [auth 4],
FK [auth 1],
FN [auth R],
GC [auth c],
GF [auth C],
GI [auth 4],
GK [auth 1],
GL [auth O],
GM [auth Q],
GN [auth R],
HC [auth c],
HE [auth B],
HF [auth C],
HL [auth O],
HM [auth Q],
HO [auth N],
IB [auth b],
IC [auth c],
IE [auth B],
IF [auth C],
IH [auth 3],
IK [auth 1],
IM [auth Q],
IN [auth R],
IO [auth N],
JB [auth b],
JC [auth c],
JE [auth B],
JF [auth C],
JH [auth 3],
JI [auth 4],
JJ [auth 6],
JK [auth 1],
JN [auth R],
JO [auth N],
KB [auth b],
KC [auth c],
KE [auth B],
KF [auth C],
KH [auth 3],
KI [auth 4],
KJ [auth 6],
KK [auth 1],
KM [auth Q],
KO [auth N],
LB [auth b],
LC [auth c],
LE [auth B],
LF [auth C],
LH [auth 3],
LJ [auth 6],
LK [auth 1],
LM [auth Q],
MB [auth b],
MC [auth c],
ME [auth B],
MF [auth C],
MJ [auth 6],
MM [auth Q],
MO [auth N],
NB [auth b],
NC [auth c],
NE [auth B],
NF [auth C],
NH [auth 3],
NM [auth Q],
NO [auth N],
OB [auth b],
OC [auth c],
OE [auth B],
OF [auth C],
OH [auth 3],
OJ [auth 6],
OO [auth N],
PB [auth b],
PC [auth c],
PE [auth B],
PF [auth C],
PG [auth 2],
PH [auth 3],
PJ [auth 6],
PK [auth 1],
PL [auth P],
PO [auth N],
QB [auth b],
QC [auth c],
QD [auth g],
QE [auth B],
QG [auth 2],
QH [auth 3],
QJ [auth 6],
QK [auth 1],
QL [auth P],
QM [auth Q],
QN [auth S],
RB [auth b],
RD [auth g],
RE [auth B],
RG [auth 2],
RH [auth 3],
RI [auth 5],
RL [auth P],
RM [auth Q],
RN [auth S],
SB [auth b],
SE [auth B],
SG [auth 2],
SH [auth 3],
SI [auth 5],
SJ [auth 6],
SL [auth P],
SN [auth S],
TB [auth b],
TE [auth B],
TG [auth 2],
TI [auth 5],
TJ [auth 6],
TN [auth S],
TO [auth N],
UB [auth b],
UD [auth A],
UE [auth B],
UG [auth 2],
UI [auth 5],
UL [auth P],
UO [auth N],
VA [auth a],
VB [auth b],
VD [auth A],
VE [auth B],
VG [auth 2],
VI [auth 5],
VL [auth P],
VN [auth S],
WA [auth a],
WB [auth b],
WE [auth B],
WF [auth D],
WG [auth 2],
WI [auth 5],
WK [auth O],
WL [auth P],
WN [auth S],
XB [auth b],
XC [auth d],
XD [auth A],
XG [auth 2],
XI [auth 5],
XK [auth O],
XL [auth P],
XN [auth S],
YA [auth a],
YI [auth 5],
YK [auth O],
YL [auth P],
YM [auth R],
ZF [auth D],
ZG [auth 2],
ZH [auth 4],
ZI [auth 5],
ZK [auth O],
ZL [auth P],
ZM [auth R],
ZN [auth S]
CHLOROPHYLL A
C55 H72 Mg N4 O5
ATNHDLDRLWWWCB-AENOIHSZSA-M
PHO
Query on PHO
Download Ideal Coordinates CCD File 
WD [auth A],
XA [auth a],
XF [auth D],
YC [auth d]		PHEOPHYTIN A
C55 H74 N4 O5
CQIKWXUXPNUNDV-RCBXBCQGSA-N
SQD
Query on SQD
Download Ideal Coordinates CCD File 
AB [auth a],
BE [auth A],
CB [auth a],
ZD [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 
AF [auth B]
BC [auth b]
CK [auth G]
DG [auth D]
ED [auth d]
AF [auth B],
BC [auth b],
CK [auth G],
DG [auth D],
ED [auth d],
GG [auth F],
HD [auth f],
HH [auth 2],
KG [auth M],
LD [auth m],
LG [auth W],
MD [auth w],
NG [auth Z],
OD [auth z],
OL [auth O],
QI [auth 4],
SD [auth g],
VF [auth C],
WC [auth c],
XM [auth Q],
YF [auth D],
ZC [auth d]
1,2-DISTEAROYL-MONOGALACTOSYL-DIGLYCERIDE
C45 H86 O10
DCLTVZLYPPIIID-CVELTQQQSA-N
PL9
Query on PL9
Download Ideal Coordinates CCD File 
AE [auth A],
BB [auth a],
BG [auth D],
CD [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 
BF [auth B]
CC [auth b]
CG [auth D]
DD [auth d]
DE [auth A]
BF [auth B],
CC [auth b],
CG [auth D],
DD [auth d],
DE [auth A],
EB [auth a],
FM [auth P],
GH [auth 2],
GO [auth S],
IJ [auth 5],
JG [auth L],
KD [auth l],
NL [auth O],
OG [auth Z],
PD [auth z],
PN [auth R],
UF [auth C],
VC [auth c],
YH [auth 3],
ZJ [auth 6]
1,2-DIPALMITOYL-PHOSPHATIDYL-GLYCEROLE
C38 H75 O10 P
BIABMEZBCHDPBV-MPQUPPDSSA-N
HEM
Query on HEM
Download Ideal Coordinates CCD File 
FG [auth E],
GD [auth e]		PROTOPORPHYRIN IX CONTAINING FE
C34 H32 Fe N4 O4
KABFMIBPWCXCRK-RGGAHWMASA-L
KC2
Query on KC2
Download Ideal Coordinates CCD File 
AJ [auth 5]
CI [auth 4]
FL [auth O]
HI [auth 4]
HK [auth 1]
AJ [auth 5],
CI [auth 4],
FL [auth O],
HI [auth 4],
HK [auth 1],
HN [auth R],
II [auth 4],
JM [auth Q],
LO [auth N],
MH [auth 3],
MK [auth 1],
NJ [auth 6],
NK [auth 1],
OK [auth 1],
OM [auth Q],
PM [auth Q],
QO [auth N],
RJ [auth 6],
RO [auth N],
SO [auth N],
TL [auth P],
UN [auth S],
YG [auth 2],
YN [auth S]
Chlorophyll c2
C35 H28 Mg N4 O5
QDRBYWCRXZZVLY-QIEHNWLWSA-L
II0
Query on II0
Download Ideal Coordinates CCD File 
AM [auth P]
BH [auth 2]
BM [auth P]
BO [auth S]
CH [auth 2]
AM [auth P],
BH [auth 2],
BM [auth P],
BO [auth S],
CH [auth 2],
CM [auth P],
CO [auth S],
DH [auth 2],
DJ [auth 5],
DM [auth P],
DO [auth S],
EH [auth 2],
EJ [auth 5],
EO [auth S],
FJ [auth 5],
GJ [auth 5],
IL [auth O],
JL [auth O],
KL [auth O],
KN [auth R],
LI [auth 4],
LL [auth O],
LN [auth R],
MI [auth 4],
MN [auth R],
NI [auth 4],
NN [auth R],
OI [auth 4],
RK [auth 1],
SK [auth 1],
SM [auth Q],
TH [auth 3],
TK [auth 1],
TM [auth Q],
UH [auth 3],
UJ [auth 6],
UK [auth 1],
UM [auth Q],
VH [auth 3],
VJ [auth 6],
VM [auth Q],
VO [auth N],
WH [auth 3],
WJ [auth 6],
WO [auth N],
XJ [auth 6],
XO [auth N],
YO [auth N]
(1~{R})-3,5,5-trimethyl-4-[(3~{E},5~{E},7~{E},9~{E},11~{E},13~{E},15~{E})-3,7,12,16-tetramethyl-18-[(4~{R})-2,6,6-trimethyl-4-oxidanyl-cyclohexen-1-yl]octadeca-3,5,7,9,11,13,15-heptaen-1,17-diynyl]cyclohex-3-en-1-ol
C40 H52 O2
DVICWXUADSCSLL-DDEWRDOISA-N
IHT
Query on IHT
Download Ideal Coordinates CCD File 
FH [auth 2]
HJ [auth 5]
ML [auth O]
ON [auth R]
PI [auth 4]
FH [auth 2],
HJ [auth 5],
ML [auth O],
ON [auth R],
PI [auth 4],
VK [auth 1],
WM [auth Q],
ZO [auth N]
(1~{R})-3,5,5-trimethyl-4-[(3~{E},5~{E},7~{E},9~{E},11~{E},13~{E},15~{E},17~{E})-3,7,12,16-tetramethyl-18-(2,6,6-trimethylcyclohexen-1-yl)octadeca-3,5,7,9,11,13,15,17-octaen-1-ynyl]cyclohex-3-en-1-ol
C40 H54 O
UNJKJDIRJWIHLL-BQLQDKTLSA-N
WVN
Query on WVN
Download Ideal Coordinates CCD File 
AC [auth b]
EG [auth D]
EM [auth P]
FD [auth d]
FO [auth S]
AC [auth b],
EG [auth D],
EM [auth P],
FD [auth d],
FO [auth S],
HG [auth H],
ID [auth h],
MG [auth Y],
ND [auth y],
QF [auth C],
RC [auth c],
RF [auth C],
SC [auth c],
SF [auth C],
TC [auth c],
XE [auth B],
XH [auth 3],
YB [auth b],
YD [auth A],
YE [auth B],
YJ [auth 6],
ZA [auth a],
ZB [auth b],
ZE [auth B]
1,3,3-trimethyl-2-[(1E,3E,5E,7E,9E,11E,13E,15E,17E)-3,7,12,16-tetramethyl-18-[(1R)-2,6,6-trimethylcyclohex-2-en-1-yl]octadeca-1,3,5,7,9,11,13,15,17-nonaenyl]cyclohexene
C40 H56
ANVAOWXLWRTKGA-NTXLUARGSA-N
BCT (Subject of Investigation/LOI)
Query on BCT
Download Ideal Coordinates CCD File 
CE [auth A],
DB [auth a]		BICARBONATE ION
C H O3
BVKZGUZCCUSVTD-UHFFFAOYSA-M
FE2
Query on FE2
Download Ideal Coordinates CCD File 
TD [auth A],
UA [auth a]		FE (II) ION
Fe
CWYNVVGOOAEACU-UHFFFAOYSA-N
MN
Query on MN
Download Ideal Coordinates CCD File 
FE [auth A],
GB [auth a],
GE [auth A],
HB [auth a]		MANGANESE (II) ION
Mn
WAEMQWOKJMHJLA-UHFFFAOYSA-N
CL
Query on CL
Download Ideal Coordinates CCD File 
CF [auth C],
DC [auth c],
EE [auth A],
FB [auth a]		CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.57 Å
  • Aggregation State: 3D ARRAY 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
MODEL REFINEMENTPHENIX

Structure Validation

View Full Validation Report



View more in-depth experimental data
Entry History & Funding Information

Deposition Data

  • Released Date: 2024-07-31 
    • Deposition Author(s): Si, L., Li, M.
Funding OrganizationLocationGrant Number
National Basic Research Program of China (973 Program)China--

Revision History  (Full details and data files)

  • Version 1.0: 2024-07-31
    Type: Initial release
  • Version 1.1: 2024-10-23
    Changes: Data collection, Database references, Structure summary
  • Version 1.2: 2025-06-25
    Changes: Data collection