9SE6 | pdb_00009se6

Structure of Photosystem I from Chlamydomonas reinhardtii at 1.83 A resolution


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 1.83 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Starting Model: experimental
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wwPDB Validation   3D Report Full Report


This is version 1.0 of the entry. See complete history


Literature

Structure of Photosystem I from Chlamydomonas reinhardtii at 1.83 A resolution

Mahapatra, G.P.Schuller, J.M.

(2026) Nature 


Macromolecules
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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Light-harvesting chlorophyll-a/b protein of photosystem I, type IIIA [auth 3]221Chlamydomonas reinhardtiiMutation(s): 0 
UniProt
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Chlorophyll a-b binding protein, chloroplasticB [auth 4]212Chlamydomonas reinhardtiiMutation(s): 0 
UniProt
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
Chlorophyll a-b binding protein, chloroplasticC [auth 5]227Chlamydomonas reinhardtiiMutation(s): 0 
UniProt
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Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
Chlorophyll a-b binding protein, chloroplasticD [auth 6]230Chlamydomonas reinhardtiiMutation(s): 0 
UniProt
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Entity ID: 5
MoleculeChains Sequence LengthOrganismDetailsImage
Chlorophyll a-b binding protein, chloroplasticE [auth 7]213Chlamydomonas reinhardtiiMutation(s): 0 
UniProt
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Entity ID: 6
MoleculeChains Sequence LengthOrganismDetailsImage
Chlorophyll a-b binding protein, chloroplasticF [auth 8]217Chlamydomonas reinhardtiiMutation(s): 0 
UniProt
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Entity ID: 7
MoleculeChains Sequence LengthOrganismDetailsImage
Photosystem I P700 chlorophyll a apoprotein A1G [auth A]742Chlamydomonas reinhardtiiMutation(s): 0 
EC: 1.97.1.12
UniProt
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Entity ID: 8
MoleculeChains Sequence LengthOrganismDetailsImage
Photosystem I P700 chlorophyll a apoprotein A2H [auth B]733Chlamydomonas reinhardtiiMutation(s): 0 
EC: 1.97.1.12
UniProt
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Entity ID: 9
MoleculeChains Sequence LengthOrganismDetailsImage
Photosystem I iron-sulfur centerI [auth C]80Chlamydomonas reinhardtiiMutation(s): 0 
EC: 1.97.1.12
UniProt
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Entity ID: 10
MoleculeChains Sequence LengthOrganismDetailsImage
Photosystem I reaction center subunit II, chloroplasticJ [auth D]144Chlamydomonas reinhardtiiMutation(s): 0 
UniProt
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Entity ID: 11
MoleculeChains Sequence LengthOrganismDetailsImage
Photosystem I reaction center subunit IV, chloroplasticK [auth E]64Chlamydomonas reinhardtiiMutation(s): 0 
UniProt
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Entity ID: 12
MoleculeChains Sequence LengthOrganismDetailsImage
Photosystem I reaction center subunit VIIIL [auth I]37Chlamydomonas reinhardtiiMutation(s): 0 
UniProt
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Entity ID: 13
MoleculeChains Sequence LengthOrganismDetailsImage
Photosystem I reaction center subunit IXM [auth J]41Chlamydomonas reinhardtiiMutation(s): 1 
UniProt
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Entity ID: 14
MoleculeChains Sequence LengthOrganismDetailsImage
Photosystem I reaction center subunit psaK, chloroplasticN [auth K]86Chlamydomonas reinhardtiiMutation(s): 0 
UniProt
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Entity ID: 15
MoleculeChains Sequence LengthOrganismDetailsImage
Chlorophyll a-b binding protein, chloroplasticO [auth Z],
P [auth 1]
194Chlamydomonas reinhardtiiMutation(s): 0 
UniProt
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Entity ID: 16
MoleculeChains Sequence LengthOrganismDetailsImage
Photosystem I reaction center subunit III, chloroplasticQ [auth F]165Chlamydomonas reinhardtiiMutation(s): 0 
UniProt
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Entity ID: 17
MoleculeChains Sequence LengthOrganismDetailsImage
Photosystem I reaction center subunit V, chloroplasticR [auth G]95Chlamydomonas reinhardtiiMutation(s): 0 
UniProt
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Entity ID: 18
MoleculeChains Sequence LengthOrganismDetailsImage
Chains: LS [auth L]124Chlamydomonas reinhardtiiMutation(s): 0 
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Small Molecules
Ligands 13 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
DGD
Query on DGD

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LJ [auth B]DIGALACTOSYL DIACYL GLYCEROL (DGDG)
C51 H96 O15
LDQFLSUQYHBXSX-HXXRYREZSA-N
CHL (Subject of Investigation/LOI)
Query on CHL

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CL [auth 1]
DD [auth 6]
DK [auth Z]
DL [auth 1]
FD [auth 6]
CL [auth 1],
DD [auth 6],
DK [auth Z],
DL [auth 1],
FD [auth 6],
GB [auth 4],
GF [auth 8],
HC [auth 5],
HK [auth Z],
IK [auth Z],
LE [auth 7],
QC [auth 6],
RD [auth 7],
RE [auth 8],
SA [auth 4],
SE [auth 8],
UC [auth 6],
VC [auth 6],
VD [auth 7],
WA [auth 4],
WB [auth 5],
WC [auth 6],
WD [auth 7],
XA [auth 4],
XB [auth 5],
Y [auth 3],
YA [auth 4],
YB [auth 5]
CHLOROPHYLL B
C55 H70 Mg N4 O6
MWVCRINOIIOUAU-UYSPMESUSA-M
CL0 (Subject of Investigation/LOI)
Query on CL0

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JF [auth A]CHLOROPHYLL A ISOMER
C55 H72 Mg N4 O5
VIQFHHZSLDFWDU-DVXFRRMCSA-M
CLA (Subject of Investigation/LOI)
Query on CLA

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AA [auth 3]
AB [auth 4]
AC [auth 5]
AD [auth 6]
AE [auth 7]
AA [auth 3],
AB [auth 4],
AC [auth 5],
AD [auth 6],
AE [auth 7],
AF [auth 8],
AG [auth A],
AI [auth B],
AJ [auth B],
AK [auth K],
AL [auth 1],
BA [auth 3],
BB [auth 4],
BC [auth 5],
BD [auth 6],
BE [auth 7],
BG [auth A],
BH [auth A],
BI [auth B],
BJ [auth B],
BK [auth K],
BL [auth 1],
BM [auth G],
CA [auth 3],
CB [auth 4],
CC [auth 5],
CD [auth 6],
CE [auth 7],
CG [auth A],
CI [auth B],
CJ [auth B],
CM [auth G],
DA [auth 3],
DB [auth 4],
DC [auth 5],
DE [auth 7],
DG [auth A],
DI [auth B],
DJ [auth B],
EA [auth 3],
EB [auth 4],
EC [auth 5],
ED [auth 6],
EE [auth 7],
EG [auth A],
EI [auth B],
EK [auth Z],
EL [auth 1],
FA [auth 3],
FB [auth 4],
FC [auth 5],
FG [auth A],
FI [auth B],
FK [auth Z],
FL [auth 1],
GA [auth 3],
GC [auth 5],
GG [auth A],
GI [auth B],
GK [auth Z],
GL [auth 1],
GM [auth L],
HG [auth A],
HI [auth B],
HL [auth 1],
HM [auth L],
ID [auth 6],
IG [auth A],
II [auth B],
IL [auth 1],
JC [auth 5],
JG [auth A],
JI [auth B],
JK [auth Z],
JL [auth 1],
KF [auth A],
KG [auth A],
KI [auth B],
KK [auth Z],
KL [auth 1],
LF [auth A],
LG [auth A],
LI [auth B],
LK [auth Z],
LL [auth 1],
MF [auth A],
MG [auth A],
MI [auth B],
MK [auth Z],
NF [auth A],
NG [auth A],
NI [auth B],
NK [auth Z],
OE [auth 8],
OF [auth A],
OG [auth A],
OH [auth B],
OI [auth B],
OK [auth Z],
PD [auth 6],
PE [auth 8],
PF [auth A],
PG [auth A],
PI [auth B],
PK [auth Z],
QE [auth 8],
QF [auth A],
QG [auth A],
QH [auth B],
QI [auth B],
QK [auth Z],
RC [auth 6],
RF [auth A],
RG [auth A],
RH [auth B],
RI [auth B],
SB [auth 5],
SC [auth 6],
SD [auth 7],
SF [auth A],
SG [auth A],
SH [auth B],
SI [auth B],
T [auth 3],
TA [auth 4],
TB [auth 5],
TC [auth 6],
TD [auth 7],
TE [auth 8],
TF [auth A],
TG [auth A],
TH [auth B],
TI [auth B],
TJ [auth J],
U [auth 3],
UA [auth 4],
UB [auth 5],
UD [auth 7],
UE [auth 8],
UF [auth A],
UG [auth A],
UH [auth B],
UI [auth B],
V [auth 3],
VA [auth 4],
VB [auth 5],
VE [auth 8],
VF [auth A],
VG [auth A],
VH [auth B],
VI [auth B],
VL [auth F],
W [auth 3],
WE [auth 8],
WF [auth A],
WG [auth A],
WH [auth B],
WI [auth B],
WL [auth F],
X [auth 3],
XC [auth 6],
XD [auth 7],
XE [auth 8],
XF [auth A],
XG [auth A],
XH [auth B],
XI [auth B],
XL [auth F],
YC [auth 6],
YD [auth 7],
YE [auth 8],
YF [auth A],
YG [auth A],
YH [auth B],
YI [auth B],
YJ [auth K],
Z [auth 3],
ZA [auth 4],
ZB [auth 5],
ZC [auth 6],
ZD [auth 7],
ZE [auth 8],
ZF [auth A],
ZG [auth A],
ZH [auth B],
ZI [auth B],
ZJ [auth K],
ZK [auth 1]
CHLOROPHYLL A
C55 H72 Mg N4 O5
ATNHDLDRLWWWCB-AENOIHSZSA-M
LMG
Query on LMG

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AM [auth G]
EM [auth L]
HF [auth 8]
MB [auth 4]
ME [auth 7]
AM [auth G],
EM [auth L],
HF [auth 8],
MB [auth 4],
ME [auth 7],
NA [auth 3],
NJ [auth B],
OD [auth 6],
PC [auth 6],
UL [auth F],
VJ [auth J],
WJ [auth J]
1,2-DISTEAROYL-MONOGALACTOSYL-DIGLYCERIDE
C45 H86 O10
DCLTVZLYPPIIID-CVELTQQQSA-N
LHG
Query on LHG

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CH [auth A]
DH [auth A]
EF [auth 8]
GD [auth 6]
IE [auth 7]
CH [auth A],
DH [auth A],
EF [auth 8],
GD [auth 6],
IE [auth 7],
IF [auth A],
KB [auth 4],
LB [auth 4],
LC [auth 5],
MJ [auth B],
ND [auth 6],
PL [auth 1],
RB [auth 5],
UK [auth Z]
1,2-DIPALMITOYL-PHOSPHATIDYL-GLYCEROLE
C38 H75 O10 P
BIABMEZBCHDPBV-MPQUPPDSSA-N
NEX (Subject of Investigation/LOI)
Query on NEX

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LD [auth 6],
NC [auth 5]
(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 (Subject of Investigation/LOI)
Query on XAT

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CF [auth 8]
GE [auth 7]
IB [auth 4]
KD [auth 6]
MC [auth 5]
CF [auth 8],
GE [auth 7],
IB [auth 4],
KD [auth 6],
MC [auth 5],
NL [auth 1],
SK [auth Z]
(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

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BF [auth 8]
FE [auth 7]
HB [auth 4]
HD [auth 6]
IA [auth 3]
BF [auth 8],
FE [auth 7],
HB [auth 4],
HD [auth 6],
IA [auth 3],
IC [auth 5],
JA [auth 3],
MA [auth 3],
ML [auth 1],
NE [auth 8],
OC [auth 5],
OL [auth 1],
RK [auth Z],
SJ [auth J],
TK [auth Z],
YL [auth F]
(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

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CK [auth K]
DF [auth 8]
DM [auth G]
EH [auth A]
FH [auth A]
CK [auth K],
DF [auth 8],
DM [auth G],
EH [auth A],
FH [auth A],
FJ [auth B],
FM [auth L],
GH [auth A],
GJ [auth B],
HA [auth 3],
HE [auth 7],
HH [auth A],
HJ [auth B],
IH [auth A],
IJ [auth B],
IM [auth L],
JB [auth 4],
JD [auth 6],
JJ [auth B],
KA [auth 3],
KC [auth 5],
KJ [auth B],
LA [auth 3],
NH [auth A],
PH [auth B],
RJ [auth I],
UJ [auth J]
BETA-CAROTENE
C40 H56
OENHQHLEOONYIE-JLTXGRSLSA-N
LMU
Query on LMU

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FF [auth 8]
JE [auth 7]
KE [auth 7]
KH [auth A]
LH [auth A]
FF [auth 8],
JE [auth 7],
KE [auth 7],
KH [auth A],
LH [auth A],
MD [auth 6],
MH [auth A],
NB [auth 4],
OA [auth 3],
OB [auth 4],
OJ [auth B],
PA [auth 3],
PB [auth 4],
QA [auth 3],
QB [auth 4],
QD [auth 6],
QL [auth 1],
RA [auth 3],
RL [auth 1],
SL [auth 1],
TL [auth 1],
VK [auth Z],
WK [auth Z],
XJ [auth K],
XK [auth Z],
YK [auth 1],
ZL [auth F]
DODECYL-ALPHA-D-MALTOSIDE
C24 H46 O11
NLEBIOOXCVAHBD-YHBSTRCHSA-N
PQN (Subject of Investigation/LOI)
Query on PQN

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AH [auth A],
EJ [auth B]
PHYLLOQUINONE
C31 H46 O2
MBWXNTAXLNYFJB-NKFFZRIASA-N
SF4 (Subject of Investigation/LOI)
Query on SF4

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JH [auth A],
PJ [auth C],
QJ [auth C]
IRON/SULFUR CLUSTER
Fe4 S4
LJBDFODJNLIPKO-UHFFFAOYSA-N
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 1.83 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
RECONSTRUCTIONcryoSPARC4.7.1
MODEL REFINEMENTPHENIXdev_5533

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
German Research Foundation (DFG)Germany--

Revision History  (Full details and data files)

  • Version 1.0: 2026-04-01
    Type: Initial release