7BLZ

Red alga C.merolae Photosystem I


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.10 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

Red alga C.merolae Photosystem I

Nelson, N.Klaiman, D.Hippler, M.

To be published.

Macromolecules
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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Similar to light harvesting proteinA [auth 1]173Cyanidioschyzon merolae strain 10DMutation(s): 0 
UniProt
Find proteins for M1VKK5 (Cyanidioschyzon merolae (strain NIES-3377 / 10D))
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Similar to chlorophyll a/b-binding protein, CP24B [auth 2]179Cyanidioschyzon merolae strain 10DMutation(s): 0 
UniProt
Find proteins for M1UU36 (Cyanidioschyzon merolae (strain NIES-3377 / 10D))
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
Lhcr3C [auth 3]174Cyanidioschyzon merolae strain 10DMutation(s): 0 
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Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
Photosystem I P700 chlorophyll a apoprotein A1D [auth A]743Cyanidioschyzon merolae strain 10DMutation(s): 0 
EC: 1.97.1.12
Membrane Entity: Yes 
UniProt
Find proteins for Q85FY7 (Cyanidioschyzon merolae (strain NIES-3377 / 10D))
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Entity ID: 5
MoleculeChains Sequence LengthOrganismDetailsImage
Photosystem I P700 chlorophyll a apoprotein A2E [auth B]731Cyanidioschyzon merolae strain 10DMutation(s): 0 
EC: 1.97.1.12
Membrane Entity: Yes 
UniProt
Find proteins for Q85FY6 (Cyanidioschyzon merolae (strain NIES-3377 / 10D))
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Entity ID: 6
MoleculeChains Sequence LengthOrganismDetailsImage
Photosystem I iron-sulfur centerF [auth C]80Cyanidioschyzon merolae strain 10DMutation(s): 0 
EC: 1.97.1.12
Membrane Entity: Yes 
UniProt
Find proteins for Q85G47 (Cyanidioschyzon merolae (strain NIES-3377 / 10D))
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Entity ID: 7
MoleculeChains Sequence LengthOrganismDetailsImage
Photosystem I p700 chlorophyll A apoprotein A2G [auth D]138Cyanidioschyzon merolae strain 10DMutation(s): 0 
UniProt
Find proteins for Q85FY0 (Cyanidioschyzon merolae (strain NIES-3377 / 10D))
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Entity ID: 8
MoleculeChains Sequence LengthOrganismDetailsImage
Photosystem I iron-sulfur center subunit VIIH [auth E]61Cyanidioschyzon merolae strain 10DMutation(s): 0 
Membrane Entity: Yes 
UniProt
Find proteins for Q85FZ1 (Cyanidioschyzon merolae (strain NIES-3377 / 10D))
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Entity ID: 9
MoleculeChains Sequence LengthOrganismDetailsImage
PSI-FI [auth F]155Cyanidioschyzon merolae strain 10DMutation(s): 0 
Membrane Entity: Yes 
UniProt
Find proteins for Q85FS9 (Cyanidioschyzon merolae (strain NIES-3377 / 10D))
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Entity ID: 10
MoleculeChains Sequence LengthOrganismDetailsImage
Photosystem I reaction center subunit VIIIJ [auth I]31Cyanidioschyzon merolae strain 10DMutation(s): 0 
Membrane Entity: Yes 
UniProt
Find proteins for Q85FQ6 (Cyanidioschyzon merolae (strain NIES-3377 / 10D))
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Entity ID: 11
MoleculeChains Sequence LengthOrganismDetailsImage
Photosystem I reaction center subunit IXK [auth J]38Cyanidioschyzon merolae strain 10DMutation(s): 0 
Membrane Entity: Yes 
UniProt
Find proteins for Q85FS8 (Cyanidioschyzon merolae (strain NIES-3377 / 10D))
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Entity ID: 12
MoleculeChains Sequence LengthOrganismDetailsImage
PSI-KL [auth K]54Cyanidioschyzon merolae strain 10DMutation(s): 0 
Membrane Entity: Yes 
UniProt
Find proteins for Q85G51 (Cyanidioschyzon merolae (strain NIES-3377 / 10D))
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Entity ID: 13
MoleculeChains Sequence LengthOrganismDetailsImage
Photosystem I reaction center subunit XIM [auth L]136Cyanidioschyzon merolae strain 10DMutation(s): 0 
Membrane Entity: Yes 
UniProt
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Entity ID: 14
MoleculeChains Sequence LengthOrganismDetailsImage
Photosystem I reaction center subunit XIIN [auth M]27Cyanidioschyzon merolae strain 10DMutation(s): 0 
Membrane Entity: Yes 
UniProt
Find proteins for Q85G73 (Cyanidioschyzon merolae (strain NIES-3377 / 10D))
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Entity ID: 15
MoleculeChains Sequence LengthOrganismDetailsImage
PsaO97Cyanidioschyzon merolae strain 10DMutation(s): 0 
Membrane Entity: Yes 
UniProt
Find proteins for M1VFJ4 (Cyanidioschyzon merolae (strain NIES-3377 / 10D))
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Small Molecules
Ligands 17 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
DGD
Query on DGD

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AG [auth B],
WF [auth B],
ZF [auth B]
DIGALACTOSYL DIACYL GLYCEROL (DGDG)
C51 H96 O15
LDQFLSUQYHBXSX-HXXRYREZSA-N
CL0
Query on CL0

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

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AC [auth A]
AD [auth A]
AE [auth A]
AF [auth B]
AH [auth L]
AC [auth A],
AD [auth A],
AE [auth A],
AF [auth B],
AH [auth L],
BC [auth A],
BD [auth A],
BE [auth A],
BF [auth B],
CC [auth A],
CD [auth A],
CF [auth B],
CH [auth L],
DC [auth A],
DD [auth A],
DE [auth B],
DF [auth B],
DH [auth L],
EC [auth A],
ED [auth A],
EE [auth B],
EF [auth B],
EH [auth L],
FB [auth 3],
FC [auth A],
FD [auth A],
FE [auth B],
FF [auth B],
GB [auth 3],
GC [auth A],
GD [auth A],
GE [auth B],
GF [auth B],
HA [auth 2],
HB [auth 3],
HC [auth A],
HD [auth A],
HE [auth B],
HF [auth B],
IA [auth 2],
IB [auth 3],
IC [auth A],
ID [auth A],
IE [auth B],
IF [auth B],
IG [auth F],
IH [auth O],
JA [auth 2],
JB [auth 3],
JC [auth A],
JD [auth A],
JE [auth B],
JF [auth B],
JG [auth F],
JH [auth O],
KA [auth 2],
KB [auth 3],
KC [auth A],
KD [auth A],
KE [auth B],
KF [auth B],
KH [auth O],
LA [auth 2],
LB [auth 3],
LC [auth A],
LE [auth B],
LF [auth B],
LG [auth F],
LH [auth O],
MA [auth 2],
MB [auth 3],
MC [auth A],
ME [auth B],
MF [auth B],
MG [auth F],
NA [auth 2],
NB [auth 3],
NC [auth A],
NE [auth B],
NF [auth B],
OA [auth 2],
OB [auth 3],
OC [auth A],
OE [auth B],
OF [auth B],
OG [auth I],
P [auth 1],
PA [auth 2],
PB [auth 3],
PC [auth A],
PE [auth B],
PG [auth I],
Q [auth 1],
QA [auth 2],
QB [auth 3],
QC [auth A],
QE [auth B],
R [auth 1],
RA [auth 2],
RC [auth A],
RE [auth B],
S [auth 1],
SA [auth 2],
SC [auth A],
SE [auth B],
SG [auth J],
T [auth 1],
TA [auth 2],
TC [auth A],
TE [auth B],
U [auth 1],
UC [auth A],
UE [auth B],
V [auth 1],
VC [auth A],
VE [auth B],
W [auth 1],
WC [auth A],
WE [auth B],
WG [auth K],
X [auth 1],
XC [auth A],
XE [auth B],
XG [auth K],
Y [auth 1],
YC [auth A],
YE [auth B],
Z [auth 1],
ZB [auth A],
ZC [auth A],
ZD [auth A],
ZE [auth B]
CHLOROPHYLL A
C55 H72 Mg N4 O5
ATNHDLDRLWWWCB-AENOIHSZSA-M
T7X
Query on T7X

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WD [auth A]Phosphatidylinositol
C47 H83 O13 P
KRTOMQDUKGRFDJ-TWUHCGEESA-N
PGT
Query on PGT

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YF [auth B],
ZA [auth 2]
(1S)-2-{[{[(2R)-2,3-DIHYDROXYPROPYL]OXY}(HYDROXY)PHOSPHORYL]OXY}-1-[(PALMITOYLOXY)METHYL]ETHYL STEARATE
C40 H79 O10 P
KBPVYRBBONZJHF-AMAPPZPBSA-N
PTY
Query on PTY

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HH [auth L],
WB [auth 3],
XB [auth 3],
XD [auth A]
PHOSPHATIDYLETHANOLAMINE
C40 H80 N O8 P
NJGIRBISCGPRPF-KXQOOQHDSA-N
LHG
Query on LHG

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BG [auth B]
CB [auth 2]
FA [auth 1]
MD [auth A]
ND [auth A]
BG [auth B],
CB [auth 2],
FA [auth 1],
MD [auth A],
ND [auth A],
VB [auth 3]
1,2-DIPALMITOYL-PHOSPHATIDYL-GLYCEROLE
C38 H75 O10 P
BIABMEZBCHDPBV-MPQUPPDSSA-N
3PH
Query on 3PH

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EG [auth B],
UD [auth A],
VG [auth J]
1,2-DIACYL-GLYCEROL-3-SN-PHOSPHATE
C39 H77 O8 P
YFWHNAWEOZTIPI-DIPNUNPCSA-N
DGA
Query on DGA

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AB [auth 2],
RG [auth J]
DIACYL GLYCEROL
C39 H76 O5
UHUSDOQQWJGJQS-QNGWXLTQSA-N
C7Z
Query on C7Z

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AA [auth 1]
CA [auth 1]
DA [auth 1]
DB [auth 3]
EA [auth 1]
AA [auth 1],
CA [auth 1],
DA [auth 1],
DB [auth 3],
EA [auth 1],
OD [auth A],
RB [auth 3],
SB [auth 3],
TB [auth 3],
UA [auth 2],
UB [auth 3],
UG [auth J],
VA [auth 2]
(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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BA [auth 1],
SD [auth A],
TG [auth J],
WA [auth 2],
YG [auth K]
(3R)-beta,beta-caroten-3-ol
C40 H56 O
DMASLKHVQRHNES-FKKUPVFPSA-N
BCR
Query on BCR

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BH [auth L]
CE [auth A]
FG [auth B]
FH [auth L]
GH [auth L]
BH [auth L],
CE [auth A],
FG [auth B],
FH [auth L],
GH [auth L],
KG [auth F],
MH [auth O],
NG [auth F],
PD [auth A],
QD [auth A],
QF [auth B],
QG [auth I],
RD [auth A],
RF [auth B],
SF [auth B],
TF [auth B],
UF [auth B],
VD [auth A],
VF [auth B],
XA [auth 2],
XF [auth B],
ZG [auth K]
BETA-CAROTENE
C40 H56
OENHQHLEOONYIE-JLTXGRSLSA-N
LMU
Query on LMU

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EB [auth 3],
YD [auth A]
DODECYL-ALPHA-D-MALTOSIDE
C24 H46 O11
NLEBIOOXCVAHBD-YHBSTRCHSA-N
PQN
Query on PQN

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LD [auth A],
PF [auth B]
PHYLLOQUINONE
C31 H46 O2
MBWXNTAXLNYFJB-NKFFZRIASA-N
ERG
Query on ERG

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BB [auth 2],
GA [auth 1],
YA [auth 2]
ERGOSTEROL
C28 H44 O
DNVPQKQSNYMLRS-APGDWVJJSA-N
SF4
Query on SF4

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GG [auth C],
HG [auth C],
TD [auth A]
IRON/SULFUR CLUSTER
Fe4 S4
LJBDFODJNLIPKO-UHFFFAOYSA-N
CA
Query on CA

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CG [auth B],
DG [auth B]
CALCIUM ION
Ca
BHPQYMZQTOCNFJ-UHFFFAOYSA-N
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.10 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
MODEL REFINEMENTPHENIX1.19-4092-000
RECONSTRUCTIONRELION3.1.0

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Israel Science FoundationIsrael569/17

Revision History  (Full details and data files)

  • Version 1.0: 2022-03-02
    Type: Initial release