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 1.1 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

Download Ideal Coordinates CCD File 
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]
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]
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]
(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]
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

View Full Validation Report



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
  • Version 1.1: 2024-11-06
    Changes: Data collection, Structure summary