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 9OY9 | pdb_00009oy9

Structure of a red shifted PSI monomer from 6803


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 1.76 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation 3D Report Full Report

Validation slider image for 9OY9

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

Literature

Red states modulate energy localization between the antenna and trap in PSI

Mazor, Y., Kahtun, H., Asido, M., Gorski, C., Schlau-Cohen, G.S.

To be published.

Macromolecule Content 

  • Total Structure Weight: 363.73 kDa 
  • Atom Count: 25,286 
  • Modeled Residue Count: 2,241 
  • Deposited Residue Count: 2,301 
  • Unique protein chains: 11

Macromolecules

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Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
Photosystem I P700 chlorophyll a apoprotein A1751Synechocystis sp. PCC 6803Mutation(s): 0 
EC: 1.97.1.12
UniProt
Find proteins for P29254 (Synechocystis sp. (strain ATCC 27184 / PCC 6803 / Kazusa))
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Reference Sequence
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Entity ID: 2
MoleculeChains  Sequence LengthOrganismDetailsImage
Photosystem I P700 chlorophyll a apoprotein A2735Synechocystis sp. PCC 6803Mutation(s): 1 
Gene Names: psaB, slr1835
EC: 1.97.1.12
UniProt
Find proteins for P29255 (Synechocystis sp. (strain ATCC 27184 / PCC 6803 / Kazusa))
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Reference Sequence
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Entity ID: 3
MoleculeChains  Sequence LengthOrganismDetailsImage
Photosystem I iron-sulfur center81Synechocystis sp. PCC 6803Mutation(s): 0 
EC: 1.97.1.12
UniProt
Find proteins for P32422 (Synechocystis sp. (strain ATCC 27184 / PCC 6803 / Kazusa))
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Reference Sequence
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Entity ID: 4
MoleculeChains  Sequence LengthOrganismDetailsImage
Photosystem I reaction center subunit II141Synechocystis sp. PCC 6803Mutation(s): 0 
UniProt
Find proteins for P19569 (Synechocystis sp. (strain ATCC 27184 / PCC 6803 / Kazusa))
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UniProt GroupP19569
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Reference Sequence
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Entity ID: 5
MoleculeChains  Sequence LengthOrganismDetailsImage
Photosystem I reaction center subunit IV74Synechocystis sp. PCC 6803Mutation(s): 0 
UniProt
Find proteins for P12975 (Synechocystis sp. (strain ATCC 27184 / PCC 6803 / Kazusa))
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Reference Sequence
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Entity ID: 6
MoleculeChains  Sequence LengthOrganismDetailsImage
Photosystem I reaction center subunit III165Synechocystis sp. PCC 6803Mutation(s): 0 
UniProt
Find proteins for P29256 (Synechocystis sp. (strain ATCC 27184 / PCC 6803 / Kazusa))
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Reference Sequence
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Entity ID: 7
MoleculeChains  Sequence LengthOrganismDetailsImage
Photosystem I reaction center subunit VIIIG [auth I]40Synechocystis sp. PCC 6803Mutation(s): 0 
UniProt
Find proteins for Q55330 (Synechocystis sp. (strain ATCC 27184 / PCC 6803 / Kazusa))
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Reference Sequence
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Entity ID: 8
MoleculeChains  Sequence LengthOrganismDetailsImage
Photosystem I reaction center subunit IXH [auth J]40Synechocystis sp. PCC 6803Mutation(s): 0 
UniProt
Find proteins for Q55329 (Synechocystis sp. (strain ATCC 27184 / PCC 6803 / Kazusa))
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Reference Sequence
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Entity ID: 9
MoleculeChains  Sequence LengthOrganismDetailsImage
Photosystem I reaction center subunit PsaK 1I [auth K]86Synechocystis sp. PCC 6803Mutation(s): 0 
UniProt
Find proteins for P72712 (Synechocystis sp. (strain ATCC 27184 / PCC 6803 / Kazusa))
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Reference Sequence
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Entity ID: 10
MoleculeChains  Sequence LengthOrganismDetailsImage
Photosystem I reaction center subunit XIJ [auth L]157Synechocystis sp. PCC 6803Mutation(s): 0 
UniProt
Find proteins for P37277 (Synechocystis sp. (strain ATCC 27184 / PCC 6803 / Kazusa))
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Reference Sequence
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Entity ID: 11
MoleculeChains  Sequence LengthOrganismDetailsImage
Photosystem I reaction center subunit XIIK [auth M]31Synechocystis sp. PCC 6803Mutation(s): 0 
UniProt
Find proteins for P72986 (Synechocystis sp. (strain ATCC 27184 / PCC 6803 / Kazusa))
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Reference Sequence

Small Molecules

Ligands 10 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
CLA
(Subject of Investigation/LOI)

Query on CLA



Download:Ideal Coordinates CCD File
AA [auth A]
AB [auth A]
AC [auth B]
AD [auth B]
BA [auth A]
AA [auth A],
AB [auth A],
AC [auth B],
AD [auth B],
BA [auth A],
BB [auth A],
BC [auth B],
BD [auth B],
CA [auth A],
CB [auth A],
CC [auth B],
CD [auth B],
DA [auth A],
DB [auth A],
DC [auth B],
DD [auth B],
EA [auth A],
EC [auth B],
ED [auth B],
EE [auth J],
FA [auth A],
FC [auth B],
FD [auth B],
FE [auth J],
GA [auth A],
GC [auth B],
GD [auth B],
GE [auth J],
HA [auth A],
HC [auth B],
HD [auth B],
IA [auth A],
IC [auth B],
JA [auth A],
JC [auth B],
KA [auth A],
KC [auth B],
KE [auth K],
LA [auth A],
LC [auth B],
LE [auth K],
MA [auth A],
MC [auth B],
ME [auth K],
N [auth A],
NA [auth A],
NC [auth B],
O [auth A],
OA [auth A],
OC [auth B],
P [auth A],
PA [auth A],
PC [auth B],
PE [auth L],
Q [auth A],
QA [auth A],
QC [auth B],
QE [auth L],
R [auth A],
RA [auth A],
RB [auth A],
RC [auth B],
RE [auth L],
S [auth A],
SA [auth A],
SB [auth B],
SC [auth B],
T [auth A],
TA [auth A],
TC [auth B],
U [auth A],
UA [auth A],
UC [auth B],
UD [auth F],
V [auth A],
VA [auth A],
VB [auth B],
VC [auth B],
W [auth A],
WA [auth A],
WB [auth B],
WC [auth B],
WD [auth F],
X [auth A],
XA [auth A],
XB [auth B],
XC [auth B],
XD [auth F],
Y [auth A],
YA [auth A],
YB [auth B],
YC [auth B],
Z [auth A],
ZA [auth A],
ZB [auth B],
ZC [auth B]
CHLOROPHYLL A
C55 H72 Mg N4 O5
ATNHDLDRLWWWCB-AENOIHSZSA-M
CL0
(Subject of Investigation/LOI)

Query on CL0



Download:Ideal Coordinates CCD File
M [auth A]CHLOROPHYLL A ISOMER
C55 H72 Mg N4 O5
VIQFHHZSLDFWDU-DVXFRRMCSA-M
LMG

Query on LMG



Download:Ideal Coordinates CCD File
BE [auth I],
LB [auth A],
QD [auth B],
TB [auth B]
1,2-DISTEAROYL-MONOGALACTOSYL-DIGLYCERIDE
C45 H86 O10
DCLTVZLYPPIIID-CVELTQQQSA-N
LHG

Query on LHG



Download:Ideal Coordinates CCD File
L [auth A],
NB [auth A],
PD [auth B],
UE [auth M]
1,2-DIPALMITOYL-PHOSPHATIDYL-GLYCEROLE
C38 H75 O10 P
BIABMEZBCHDPBV-MPQUPPDSSA-N
ECH
(Subject of Investigation/LOI)

Query on ECH



Download:Ideal Coordinates CCD File
DE [auth I],
LD [auth B],
VE [auth M]
beta,beta-caroten-4-one
C40 H54 O
QXNWZXMBUKUYMD-QQGJMDNJSA-N
BCR
(Subject of Investigation/LOI)

Query on BCR



Download:Ideal Coordinates CCD File
CE [auth I]
GB [auth A]
HB [auth A]
HE [auth J]
IB [auth A]
CE [auth I],
GB [auth A],
HB [auth A],
HE [auth J],
IB [auth A],
IE [auth J],
JB [auth A],
JD [auth B],
JE [auth K],
KB [auth A],
KD [auth B],
MD [auth B],
ND [auth B],
NE [auth K],
OD [auth B],
RD [auth B],
SE [auth L],
TE [auth L],
VD [auth F],
YD [auth F]
BETA-CAROTENE
C40 H56
OENHQHLEOONYIE-JLTXGRSLSA-N
LMT

Query on LMT



Download:Ideal Coordinates CCD File
AE [auth F]
MB [auth A]
OB [auth A]
PB [auth A]
QB [auth A]
AE [auth F],
MB [auth A],
OB [auth A],
PB [auth A],
QB [auth A],
ZD [auth F]
DODECYL-BETA-D-MALTOSIDE
C24 H46 O11
NLEBIOOXCVAHBD-QKMCSOCLSA-N
PQN

Query on PQN



Download:Ideal Coordinates CCD File
EB [auth A],
ID [auth B]
PHYLLOQUINONE
C31 H46 O2
MBWXNTAXLNYFJB-NKFFZRIASA-N
SF4
(Subject of Investigation/LOI)

Query on SF4



Download:Ideal Coordinates CCD File
FB [auth A],
SD [auth C],
TD [auth C]
IRON/SULFUR CLUSTER
Fe4 S4
LJBDFODJNLIPKO-UHFFFAOYSA-N
CA
(Subject of Investigation/LOI)

Query on CA



Download:Ideal Coordinates CCD File
OE [auth L],
UB [auth B]
CALCIUM ION
Ca
BHPQYMZQTOCNFJ-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 1.76 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
MODEL REFINEMENTPHENIX1.21.2_5419
RECONSTRUCTIONcryoSPARC4.7

Structure Validation

View Full Validation Report



Entry History 

& Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Department of Energy (DOE, United States)United StatesDE-SC0022956
Department of Energy (DOE, United States)United StatesDE-SC0018097

Revision History  (Full details and data files)

  • Version 1.0: 2026-11-11
    Type: Initial release