5ZJI

Structure of photosystem I supercomplex with light-harvesting complexes I and II


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.30 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

Structure of the maize photosystem I supercomplex with light-harvesting complexes I and II.

Pan, X.Ma, J.Su, X.Cao, P.Chang, W.Liu, Z.Zhang, X.Li, M.

(2018) Science 360: 1109-1113

  • DOI: https://doi.org/10.1126/science.aat1156
  • Primary Citation of Related Structures:  
    5ZJI

  • PubMed Abstract: 

    Plants regulate photosynthetic light harvesting to maintain balanced energy flux into photosystems I and II (PSI and PSII). Under light conditions favoring PSII excitation, the PSII antenna, light-harvesting complex II (LHCII), is phosphorylated and forms a supercomplex with PSI core and the PSI antenna, light-harvesting complex I (LHCI). Both LHCI and LHCII then transfer excitation energy to the PSI core. We report the structure of maize PSI-LHCI-LHCII solved by cryo-electron microscopy, revealing the recognition site between LHCII and PSI. The PSI subunits PsaN and PsaO are observed at the PSI-LHCI interface and the PSI-LHCII interface, respectively. Each subunit relays excitation to PSI core through a pair of chlorophyll molecules, thus revealing previously unseen paths for energy transfer between the antennas and the PSI core.


  • Organizational Affiliation

    National Laboratory of Biomacromolecules, CAS Center for Excellence in Biomacromolecules, Institute of Biophysics, Chinese Academy of Sciences, Beijing 100101, P.R. China.


Macromolecules
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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Chlorophyll a-b binding protein, chloroplasticA [auth 1]245Zea maysMutation(s): 0 
UniProt
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Chlorophyll a-b binding protein, chloroplasticB [auth 2]270Zea maysMutation(s): 0 
UniProt
Find proteins for B6T892 (Zea mays)
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
Chlorophyll a-b binding protein, chloroplasticC [auth 3]267Zea maysMutation(s): 0 
UniProt
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Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
Chlorophyll a-b binding protein, chloroplasticD [auth 4]252Zea maysMutation(s): 0 
UniProt
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Entity ID: 5
MoleculeChains Sequence LengthOrganismDetailsImage
Photosystem I P700 chlorophyll a apoprotein A1E [auth A]750Zea maysMutation(s): 0 
EC: 1.97.1.12
Membrane Entity: Yes 
UniProt
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Entity ID: 6
MoleculeChains Sequence LengthOrganismDetailsImage
Photosystem I P700 chlorophyll a apoprotein A2F [auth B]734Zea mays subsp. maysMutation(s): 0 
EC: 1.97.1.12
Membrane Entity: Yes 
UniProt
Find proteins for A0A059Q6U2 (Zea mays subsp. mays)
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Entity ID: 7
MoleculeChains Sequence LengthOrganismDetailsImage
photosystem I subunit VIIG [auth C]81Zea mays subsp. maysMutation(s): 0 
Membrane Entity: Yes 
UniProt
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Entity ID: 8
MoleculeChains Sequence LengthOrganismDetailsImage
Photosystem I reaction center subunit IIH [auth D]199Zea maysMutation(s): 0 
UniProt
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Entity ID: 9
MoleculeChains Sequence LengthOrganismDetailsImage
Photosystem I reaction center subunit IV AI [auth E]136Zea maysMutation(s): 0 
Membrane Entity: Yes 
UniProt
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Entity ID: 10
MoleculeChains Sequence LengthOrganismDetailsImage
Photosystem I reaction center subunit IIIJ [auth F]225Zea maysMutation(s): 0 
UniProt
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Entity ID: 11
MoleculeChains Sequence LengthOrganismDetailsImage
Photosystem I reaction center subunit VK [auth G]145Zea maysMutation(s): 0 
Membrane Entity: Yes 
UniProt
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Entity ID: 12
MoleculeChains Sequence LengthOrganismDetailsImage
Photosystem I reaction center subunit VI, chloroplasticL [auth H]142Zea maysMutation(s): 0 
Membrane Entity: Yes 
UniProt
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Entity ID: 13
MoleculeChains Sequence LengthOrganismDetailsImage
Photosystem I reaction center subunit VIIIM [auth I]36Zea maysMutation(s): 0 
Membrane Entity: Yes 
UniProt
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Entity ID: 14
MoleculeChains Sequence LengthOrganismDetailsImage
Photosystem I reaction center subunit IXN [auth J]42Zea maysMutation(s): 0 
Membrane Entity: Yes 
UniProt
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Entity ID: 15
MoleculeChains Sequence LengthOrganismDetailsImage
Photosystem I reaction center subunit psaKO [auth K]134Zea maysMutation(s): 0 
Membrane Entity: Yes 
UniProt
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Entity ID: 16
MoleculeChains Sequence LengthOrganismDetailsImage
Photosystem I reaction center subunit XIP [auth L]211Zea maysMutation(s): 0 
Membrane Entity: Yes 
UniProt
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Entity ID: 17
MoleculeChains Sequence LengthOrganismDetailsImage
16kDa membrane proteinQ [auth O]127Zea maysMutation(s): 0 
Membrane Entity: Yes 
UniProt
Find proteins for B6SQZ7 (Zea mays)
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Entity ID: 18
MoleculeChains Sequence LengthOrganismDetailsImage
Photosystem I reaction center subunit NR [auth N]145Zea maysMutation(s): 0 
Membrane Entity: Yes 
UniProt
Find proteins for B6TXS5 (Zea mays)
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Entity ID: 19
MoleculeChains Sequence LengthOrganismDetailsImage
Chlorophyll a-b binding protein 1, chloroplasticS [auth X],
U [auth Z]
232Zea maysMutation(s): 0 
Membrane Entity: Yes 
UniProt
Find proteins for P12329 (Zea mays)
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Entity ID: 20
MoleculeChains Sequence LengthOrganismDetailsImage
Chlorophyll a-b binding protein, chloroplasticT [auth Y]228Zea maysMutation(s): 0 
Membrane Entity: Yes 
UniProt
Find proteins for B6SZT9 (Zea mays)
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Small Molecules
Ligands 13 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
DGD
Query on DGD

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KH [auth J],
TG [auth B]
DIGALACTOSYL DIACYL GLYCEROL (DGDG)
C51 H96 O15
LDQFLSUQYHBXSX-HXXRYREZSA-N
CHL
Query on CHL

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AA [auth 1]
AJ [auth Y]
BI [auth X]
BJ [auth Y]
CB [auth 2]
AA [auth 1],
AJ [auth Y],
BI [auth X],
BJ [auth Y],
CB [auth 2],
CC [auth 4],
CJ [auth Y],
DC [auth 4],
EC [auth 4],
FI [auth X],
GI [auth X],
HI [auth X],
II [auth X],
JI [auth X],
MC [auth 4],
NB [auth 3],
NJ [auth Z],
PA [auth 2],
RJ [auth Z],
SJ [auth Z],
TA [auth 2],
TJ [auth Z],
UA [auth 2],
UI [auth Y],
UJ [auth Z],
V [auth 1],
VA [auth 2],
VJ [auth Z],
YI [auth Y],
ZI [auth Y]
CHLOROPHYLL B
C55 H70 Mg N4 O6
MWVCRINOIIOUAU-UYSPMESUSA-M
CL0
Query on CL0

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SC [auth A]CHLOROPHYLL A ISOMER
C55 H72 Mg N4 O5
VIQFHHZSLDFWDU-DVXFRRMCSA-M
CLA
Query on CLA

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AB [auth 2]
AC [auth 4]
AD [auth A]
AE [auth A]
AF [auth B]
AB [auth 2],
AC [auth 4],
AD [auth A],
AE [auth A],
AF [auth B],
AG [auth B],
AI [auth N],
AK [auth Z],
BA [auth 1],
BB [auth 2],
BC [auth 4],
BD [auth A],
BE [auth A],
BF [auth B],
BG [auth B],
BH [auth G],
CA [auth 1],
CD [auth A],
CE [auth A],
CF [auth B],
CG [auth B],
CI [auth X],
DA [auth 1],
DD [auth A],
DE [auth A],
DF [auth B],
DG [auth B],
DH [auth G],
DI [auth X],
DJ [auth Y],
EA [auth 1],
ED [auth A],
EE [auth A],
EF [auth B],
EG [auth B],
EH [auth G],
EI [auth X],
EJ [auth Y],
FA [auth 1],
FC [auth 4],
FD [auth A],
FE [auth A],
FF [auth B],
FG [auth B],
FJ [auth Y],
GA [auth 1],
GC [auth 4],
GD [auth A],
GE [auth A],
GF [auth B],
GG [auth B],
GH [auth H],
GJ [auth Y],
HA [auth 1],
HC [auth 4],
HD [auth A],
HE [auth A],
HF [auth B],
HG [auth B],
HJ [auth Y],
IA [auth 1],
IB [auth 3],
IC [auth 4],
ID [auth A],
IE [auth A],
IF [auth B],
IG [auth B],
IH [auth J],
JB [auth 3],
JC [auth 4],
JD [auth A],
JF [auth B],
JG [auth B],
KB [auth 3],
KC [auth 4],
KD [auth A],
KE [auth A],
KF [auth B],
KG [auth B],
KI [auth X],
LB [auth 3],
LC [auth 4],
LD [auth A],
LF [auth B],
LH [auth K],
LI [auth X],
MB [auth 3],
MD [auth A],
MF [auth B],
MI [auth X],
ND [auth A],
NF [auth B],
NH [auth K],
NI [auth X],
OB [auth 3],
OD [auth A],
OF [auth B],
OH [auth K],
OI [auth X],
OJ [auth Z],
PB [auth 3],
PD [auth A],
PF [auth B],
PJ [auth Z],
QA [auth 2],
QB [auth 3],
QD [auth A],
QF [auth B],
QH [auth K],
QJ [auth Z],
RA [auth 2],
RB [auth 3],
RD [auth A],
RF [auth B],
SA [auth 2],
SB [auth 3],
SD [auth A],
SF [auth B],
SH [auth L],
TB [auth 3],
TC [auth A],
TD [auth A],
TE [auth A],
TF [auth B],
TH [auth L],
UB [auth 3],
UC [auth A],
UD [auth A],
UF [auth B],
UH [auth L],
VC [auth A],
VD [auth A],
VF [auth B],
VI [auth Y],
W [auth 1],
WA [auth 2],
WC [auth A],
WD [auth A],
WF [auth B],
WI [auth Y],
WJ [auth Z],
X [auth 1],
XA [auth 2],
XC [auth A],
XD [auth A],
XE [auth B],
XF [auth B],
XG [auth F],
XH [auth O],
XI [auth Y],
XJ [auth Z],
Y [auth 1],
YA [auth 2],
YB [auth 4],
YC [auth A],
YD [auth A],
YE [auth B],
YF [auth B],
YG [auth F],
YH [auth O],
YJ [auth Z],
Z [auth 1],
ZA [auth 2],
ZB [auth 4],
ZC [auth A],
ZD [auth A],
ZE [auth B],
ZF [auth B],
ZG [auth F],
ZH [auth N],
ZJ [auth Z]
CHLOROPHYLL A
C55 H72 Mg N4 O5
ATNHDLDRLWWWCB-AENOIHSZSA-M
LMG
Query on LMG

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CH [auth G],
HB [auth 2],
OA [auth 1],
QC [auth 4],
RC [auth 4]
1,2-DISTEAROYL-MONOGALACTOSYL-DIGLYCERIDE
C45 H86 O10
DCLTVZLYPPIIID-CVELTQQQSA-N
LHG
Query on LHG

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FK [auth Z]
GB [auth 2]
LE [auth A]
MA [auth 1]
ME [auth A]
FK [auth Z],
GB [auth 2],
LE [auth A],
MA [auth 1],
ME [auth A],
MJ [auth Y],
SI [auth X],
UG [auth B]
1,2-DIPALMITOYL-PHOSPHATIDYL-GLYCEROLE
C38 H75 O10 P
BIABMEZBCHDPBV-MPQUPPDSSA-N
NEX
Query on NEX

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EK [auth Z],
LJ [auth Y],
RI [auth X]
(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

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BK [auth Z]
EB [auth 2]
IJ [auth Y]
KA [auth 1]
OC [auth 4]
BK [auth Z],
EB [auth 2],
IJ [auth Y],
KA [auth 1],
OC [auth 4],
TI [auth X],
WB [auth 3]
(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

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CK [auth Z]
DB [auth 2]
DK [auth Z]
JA [auth 1]
JJ [auth Y]
CK [auth Z],
DB [auth 2],
DK [auth Z],
JA [auth 1],
JJ [auth Y],
KJ [auth Y],
NA [auth 1],
NC [auth 4],
PI [auth X],
QI [auth X],
VB [auth 3]
(3R,3'R,6S)-4,5-DIDEHYDRO-5,6-DIHYDRO-BETA,BETA-CAROTENE-3,3'-DIOL
C40 H56 O2
KBPHJBAIARWVSC-NSIPBSJQSA-N
BCR
Query on BCR

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AH [auth F]
FB [auth 2]
FH [auth G]
HH [auth I]
JH [auth J]
AH [auth F],
FB [auth 2],
FH [auth G],
HH [auth I],
JH [auth J],
LA [auth 1],
MG [auth B],
MH [auth K],
NE [auth A],
NG [auth B],
OE [auth A],
OG [auth B],
PC [auth 4],
PE [auth A],
PG [auth B],
PH [auth K],
QE [auth A],
QG [auth B],
RE [auth A],
RG [auth B],
RH [auth L],
UE [auth A],
VH [auth L],
WE [auth B],
WH [auth L],
XB [auth 3]
BETA-CAROTENE
C40 H56
OENHQHLEOONYIE-JLTXGRSLSA-N
LMU
Query on LMU

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SG [auth B],
VE [auth A]
DODECYL-ALPHA-D-MALTOSIDE
C24 H46 O11
NLEBIOOXCVAHBD-YHBSTRCHSA-N
PQN
Query on PQN

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JE [auth A],
LG [auth B]
PHYLLOQUINONE
C31 H46 O2
MBWXNTAXLNYFJB-NKFFZRIASA-N
SF4
Query on SF4

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SE [auth A],
VG [auth C],
WG [auth C]
IRON/SULFUR CLUSTER
Fe4 S4
LJBDFODJNLIPKO-UHFFFAOYSA-N
Modified Residues  1 Unique
IDChains TypeFormula2D DiagramParent
TPO
Query on TPO
T [auth Y]L-PEPTIDE LINKINGC4 H10 N O6 PTHR
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.30 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
the National Key R&D Program of ChinaChina2017YFA0503702
the National Key R&D Program of ChinaChina2017YFA0504700
the National Key R&D Program of ChinaChina2016YFA0502900
the Strategic Priority Research Program of CASChinaXDB08020302
the Strategic Priority Research Program of CASChinaXDB08030204
the Key Research Program of Frontier Sciences of CASChinaQYZDB-SSW-SMC005
National Natural Science Foundation of ChinaChina31770778
National Natural Science Foundation of ChinaChina31700649
National Natural Science Foundation of ChinaChina31600609
National Thousand (Young) Talents ProgramChina--

Revision History  (Full details and data files)

  • Version 1.0: 2018-06-20
    Type: Initial release
  • Version 1.1: 2019-05-01
    Changes: Advisory, Data collection
  • Version 1.2: 2019-11-06
    Changes: Data collection, Other