7BLX

Photosystem I of a temperature sensitive mutant Chlamydomonas reinhardtii


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.15 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.0 of the entry. See complete history


Literature

Dimeric and high-resolution structures of Chlamydomonas Photosystem I from a temperature-sensitive Photosystem II mutant

Caspy, I.Schwartz, T.Bayro-Kaiser, V.Fadeeva, M.Kessel, A.Ben-Tal, N.Nelson, N.

(2021) Commun Biol 4: 1380


Macromolecules
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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Photosystem I P700 chlorophyll a apoprotein A1741Chlamydomonas reinhardtiiMutation(s): 0 
EC: 1.97.1.12
Membrane Entity: Yes 
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Photosystem I P700 chlorophyll a apoprotein A2733Chlamydomonas reinhardtiiMutation(s): 0 
EC: 1.97.1.12
Membrane Entity: Yes 
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
Photosystem I iron-sulfur center80Chlamydomonas reinhardtiiMutation(s): 0 
EC: 1.97.1.12
Membrane Entity: Yes 
UniProt
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Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
Photosystem I reaction center subunit II, chloroplastic144Chlamydomonas reinhardtiiMutation(s): 0 
Membrane Entity: Yes 
UniProt
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Entity ID: 5
MoleculeChains Sequence LengthOrganismDetailsImage
Photosystem I reaction center subunit IV, chloroplastic63Chlamydomonas reinhardtiiMutation(s): 0 
Membrane Entity: Yes 
UniProt
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Entity ID: 6
MoleculeChains Sequence LengthOrganismDetailsImage
Photosystem I reaction center subunit III, chloroplastic165Chlamydomonas reinhardtiiMutation(s): 0 
Membrane Entity: Yes 
UniProt
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Entity ID: 7
MoleculeChains Sequence LengthOrganismDetailsImage
Photosystem I reaction center subunit V, chloroplastic91Chlamydomonas reinhardtiiMutation(s): 0 
Membrane Entity: Yes 
UniProt
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Entity ID: 8
MoleculeChains Sequence LengthOrganismDetailsImage
Photosystem I reaction center subunit VIIIH [auth I]37Chlamydomonas reinhardtiiMutation(s): 0 
Membrane Entity: Yes 
UniProt
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Entity ID: 9
MoleculeChains Sequence LengthOrganismDetailsImage
Photosystem I reaction center subunit IXI [auth J]39Chlamydomonas reinhardtiiMutation(s): 0 
Membrane Entity: Yes 
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Entity ID: 10
MoleculeChains Sequence LengthOrganismDetailsImage
Photosystem I reaction center subunit psaK, chloroplasticJ [auth K]84Chlamydomonas reinhardtiiMutation(s): 0 
Membrane Entity: Yes 
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Entity ID: 11
MoleculeChains Sequence LengthOrganismDetailsImage
PSI subunit VK [auth L]126Chlamydomonas reinhardtiiMutation(s): 0 
Membrane Entity: Yes 
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Entity ID: 12
MoleculeChains Sequence LengthOrganismDetailsImage
Chlorophyll a-b binding protein, chloroplasticL [auth 1],
M [auth Z]
194Chlamydomonas reinhardtiiMutation(s): 0 
UniProt
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Entity ID: 13
MoleculeChains Sequence LengthOrganismDetailsImage
Chlorophyll a-b binding protein, chloroplasticN [auth 3]219Chlamydomonas reinhardtiiMutation(s): 0 
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Entity ID: 14
MoleculeChains Sequence LengthOrganismDetailsImage
Chlorophyll a-b binding protein, chloroplasticO [auth 7]213Chlamydomonas reinhardtiiMutation(s): 0 
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Entity ID: 15
MoleculeChains Sequence LengthOrganismDetailsImage
Chlorophyll a-b binding protein, chloroplasticP [auth 8]217Chlamydomonas reinhardtiiMutation(s): 0 
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Entity ID: 16
MoleculeChains Sequence LengthOrganismDetailsImage
Chlorophyll a-b binding protein, chloroplasticQ [auth 4]210Chlamydomonas reinhardtiiMutation(s): 0 
Membrane Entity: Yes 
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Entity ID: 17
MoleculeChains Sequence LengthOrganismDetailsImage
Chlorophyll a-b binding protein, chloroplasticR [auth 5]227Chlamydomonas reinhardtiiMutation(s): 0 
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Entity ID: 18
MoleculeChains Sequence LengthOrganismDetailsImage
Chlorophyll a-b binding protein, chloroplasticS [auth 6]229Chlamydomonas reinhardtiiMutation(s): 0 
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Small Molecules
Ligands 24 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
DGD
Query on DGD

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

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BI [auth 7]
CJ [auth 8]
HH [auth 3]
LG [auth Z]
OG [auth Z]
BI [auth 7],
CJ [auth 8],
HH [auth 3],
LG [auth Z],
OG [auth Z],
PL [auth 6],
QF [auth 1],
QL [auth 6],
RG [auth Z],
SK [auth 5],
SL [auth 6],
TJ [auth 4],
TK [auth 5],
UJ [auth 4],
UL [auth 6],
WJ [auth 4],
XF [auth 1],
XK [auth 5],
YJ [auth 4],
ZI [auth 8]
CHLOROPHYLL B
C55 H70 Mg N4 O6
MWVCRINOIIOUAU-UYSPMESUSA-M
CLA
Query on CLA

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AA [auth A]
AB [auth A]
AC [auth B]
AD [auth B]
AH [auth 3]
AA [auth A],
AB [auth A],
AC [auth B],
AD [auth B],
AH [auth 3],
AI [auth 7],
AJ [auth 8],
BA [auth A],
BB [auth A],
BC [auth B],
BD [auth B],
BH [auth 3],
BJ [auth 8],
BK [auth 4],
CA [auth A],
CB [auth A],
CC [auth B],
CD [auth B],
CF [auth L],
CH [auth 3],
CI [auth 7],
CL [auth 6],
DA [auth A],
DB [auth A],
DC [auth B],
DD [auth B],
DF [auth L],
DG [auth Z],
DH [auth 3],
DI [auth 7],
DJ [auth 8],
DL [auth 6],
EA [auth A],
EB [auth A],
EC [auth B],
ED [auth B],
EG [auth Z],
EH [auth 3],
EI [auth 7],
FA [auth A],
FB [auth A],
FC [auth B],
FD [auth B],
FE [auth B],
FG [auth Z],
FH [auth 3],
FI [auth 7],
GA [auth A],
GB [auth A],
GC [auth B],
GD [auth B],
GG [auth Z],
GH [auth 3],
HA [auth A],
HC [auth B],
HD [auth B],
HG [auth Z],
IA [auth A],
IC [auth B],
ID [auth B],
IE [auth F],
IF [auth 1],
IG [auth Z],
IH [auth 3],
IL [auth 6],
JA [auth A],
JC [auth B],
JD [auth B],
JF [auth 1],
JG [auth Z],
JH [auth 3],
JK [auth 5],
JL [auth 6],
KA [auth A],
KC [auth B],
KD [auth B],
KF [auth 1],
KG [auth Z],
KH [auth 3],
KK [auth 5],
KL [auth 6],
LA [auth A],
LC [auth B],
LD [auth B],
LE [auth F],
LF [auth 1],
LI [auth 7],
LJ [auth 4],
LK [auth 5],
LL [auth 6],
MA [auth A],
MC [auth B],
MD [auth B],
ME [auth G],
MF [auth 1],
MG [auth Z],
MI [auth 8],
MJ [auth 4],
MK [auth 5],
ML [auth 6],
NA [auth A],
NC [auth B],
ND [auth B],
NE [auth G],
NF [auth 1],
NG [auth Z],
NH [auth 3],
NJ [auth 4],
NK [auth 5],
NL [auth 6],
OA [auth A],
OC [auth B],
OD [auth B],
OF [auth 1],
OH [auth 7],
OJ [auth 4],
OK [auth 5],
OL [auth 6],
PA [auth A],
PC [auth B],
PD [auth B],
PF [auth 1],
PG [auth Z],
PJ [auth 4],
PK [auth 5],
QA [auth A],
QC [auth B],
QE [auth J],
QJ [auth 4],
QK [auth 5],
RA [auth A],
RC [auth B],
RF [auth 1],
RI [auth 8],
RJ [auth 4],
RK [auth 5],
RL [auth 6],
SA [auth A],
SC [auth B],
SF [auth 1],
SI [auth 8],
SJ [auth 4],
TA [auth A],
TB [auth A],
TC [auth B],
TF [auth 1],
TH [auth 7],
TI [auth 8],
TL [auth 6],
U [auth A],
UA [auth A],
UB [auth A],
UC [auth B],
UF [auth 1],
UH [auth 7],
UI [auth 8],
UK [auth 5],
V [auth A],
VA [auth A],
VB [auth A],
VC [auth B],
VE [auth K],
VH [auth 7],
VI [auth 8],
VJ [auth 4],
VK [auth 5],
VL [auth 6],
W [auth A],
WA [auth A],
WB [auth A],
WC [auth B],
WE [auth K],
WH [auth 7],
WI [auth 8],
WK [auth 5],
WL [auth 6],
X [auth A],
XA [auth A],
XC [auth B],
XE [auth K],
XH [auth 7],
XI [auth 8],
XJ [auth 4],
Y [auth A],
YA [auth A],
YC [auth B],
YE [auth K],
YG [auth 3],
YH [auth 7],
YI [auth 8],
YK [auth 5],
Z [auth A],
ZA [auth A],
ZC [auth B],
ZG [auth 3],
ZH [auth 7],
ZK [auth 5]
CHLOROPHYLL A
C55 H72 Mg N4 O5
ATNHDLDRLWWWCB-AENOIHSZSA-M
CL0
Query on CL0

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

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YF [auth 1]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

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TE [auth J],
YB [auth A]
1,2-DISTEAROYL-MONOGALACTOSYL-DIGLYCERIDE
C45 H86 O10
DCLTVZLYPPIIID-CVELTQQQSA-N
LHG
Query on LHG

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AL [auth 5]
BE [auth B]
CK [auth 4]
EJ [auth 8]
EL [auth 6]
AL [auth 5],
BE [auth B],
CK [auth 4],
EJ [auth 8],
EL [auth 6],
GI [auth 7],
LH [auth 3],
OB [auth A],
PB [auth A],
QG [auth Z],
VF [auth 1],
XD [auth B],
YD [auth B],
ZJ [auth 4]
1,2-DIPALMITOYL-PHOSPHATIDYL-GLYCEROLE
C38 H75 O10 P
BIABMEZBCHDPBV-MPQUPPDSSA-N
3PH
Query on 3PH

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DK [auth 5],
NI [auth 8],
PH [auth 7],
XL [auth 6]
1,2-DIACYL-GLYCEROL-3-SN-PHOSPHATE
C39 H77 O8 P
YFWHNAWEOZTIPI-DIPNUNPCSA-N
DGA
Query on DGA

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ZB [auth A]DIACYL GLYCEROL
C39 H76 O5
UHUSDOQQWJGJQS-QNGWXLTQSA-N
LUT
Query on LUT

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AG [auth Z]
BG [auth Z]
EK [auth 5]
FF [auth 1]
FK [auth 5]
AG [auth Z],
BG [auth Z],
EK [auth 5],
FF [auth 1],
FK [auth 5],
FL [auth 6],
GF [auth 1],
GL [auth 6],
IJ [auth 4],
JJ [auth 4],
OI [auth 8],
PI [auth 8],
QH [auth 7],
RH [auth 7],
SG [auth 3],
TG [auth 3],
ZF [auth Z]
(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

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HF [auth 1],
IK [auth 5],
SE [auth J]
(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

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JE [auth F](3R)-beta,beta-caroten-3-ol
C40 H56 O
DMASLKHVQRHNES-FKKUPVFPSA-N
BCR
Query on BCR

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BF [auth L]
BL [auth 6]
EE [auth B]
EF [auth L]
GK [auth 5]
BF [auth L],
BL [auth 6],
EE [auth B],
EF [auth L],
GK [auth 5],
HK [auth 5],
HL [auth 6],
JB [auth A],
JI [auth 7],
KB [auth A],
KJ [auth 4],
LB [auth A],
MB [auth A],
NB [auth A],
OE [auth G],
PE [auth I],
QI [auth 8],
RD [auth B],
RE [auth J],
SD [auth B],
SH [auth 7],
TD [auth B],
UD [auth B],
UE [auth K],
UG [auth 3],
VD [auth B],
VG [auth 3],
WD [auth B],
WG [auth 3],
XG [auth 3],
ZE [auth K]
BETA-CAROTENE
C40 H56
OENHQHLEOONYIE-JLTXGRSLSA-N
LMT
Query on LMT

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AE [auth B]
AK [auth 4]
DE [auth B]
HJ [auth 8]
KE [auth F]
AE [auth B],
AK [auth 4],
DE [auth B],
HJ [auth 8],
KE [auth F],
RB [auth A],
WF [auth 1]
DODECYL-BETA-D-MALTOSIDE
C24 H46 O11
NLEBIOOXCVAHBD-QKMCSOCLSA-N
LPX
Query on LPX

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GJ [auth 8](2S)-3-{[(R)-(2-aminoethoxy)(hydroxy)phosphoryl]oxy}-2-hydroxypropyl hexadecanoate
C21 H44 N O7 P
YVYMBNSKXOXSKW-FQEVSTJZSA-N
PQN
Query on PQN

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HB [auth A],
QD [auth B]
PHYLLOQUINONE
C31 H46 O2
MBWXNTAXLNYFJB-NKFFZRIASA-N
NKP
Query on NKP

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FJ [auth 8],
MH [auth 3],
QB [auth A]
(2R)-2-hydroxy-3-(phosphonooxy)propyl (9E)-octadec-9-enoate
C21 H41 O7 P
WRGQSWVCFNIUNZ-SQUSKLHYSA-N
SF4
Query on SF4

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GE [auth C],
HE [auth C],
IB [auth A]
IRON/SULFUR CLUSTER
Fe4 S4
LJBDFODJNLIPKO-UHFFFAOYSA-N
SPH
Query on SPH

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AF [auth K],
HI [auth 7],
KI [auth 7]
SPHINGOSINE
C18 H37 N O2
WWUZIQQURGPMPG-MSOLQXFVSA-N
QTB
Query on QTB

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CG [auth Z](3~{E},5~{E},7~{E})-6-methyl-8-[(6~{R})-2,2,6-trimethylcyclohexyl]octa-3,5,7-trien-2-one
C18 H28 O
WXNCHUZBWWHNPM-FHRFKLSGSA-N
PLM
Query on PLM

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II [auth 7]PALMITIC ACID
C16 H32 O2
IPCSVZSSVZVIGE-UHFFFAOYSA-N
DAO
Query on DAO

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XB [auth A]LAURIC ACID
C12 H24 O2
POULHZVOKOAJMA-UHFFFAOYSA-N
OCA
Query on OCA

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SB [auth A]OCTANOIC ACID (CAPRYLIC ACID)
C8 H16 O2
WWZKQHOCKIZLMA-UHFFFAOYSA-N
CA
Query on CA

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CE [auth B]CALCIUM ION
Ca
BHPQYMZQTOCNFJ-UHFFFAOYSA-N
Modified Residues  1 Unique
IDChains TypeFormula2D DiagramParent
SNC
Query on SNC
D
L-PEPTIDE LINKINGC3 H6 N2 O3 SCYS
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.15 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
MODEL REFINEMENTPHENIX
RECONSTRUCTIONRELION3.0.7

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Israel Science FoundationIsrael569/17
German-Israeli Foundation for Research and DevelopmentIsraelG-1483-207/2018

Revision History  (Full details and data files)

  • Version 1.0: 2021-12-15
    Type: Initial release