7LX0

Quantitative assessment of chlorophyll types in cryo-EM maps of photosystem I acclimated to far-red light

• PDB DOI: https://doi.org/10.2210/pdb7LX0/pdb
• EM Map EMD-23563: EMDB EMDataResource

• Classification: PHOTOSYNTHESIS
• Organism(s): Fischerella thermalis PCC 7521
• Mutation(s): No 
• Membrane Protein: Yes  PDBTM


• Deposited: 2021-03-02 Released: 2021-07-28 
• Deposition Author(s): Gisriel, C.J., Wang, J.
• Funding Organization(s): Department of Energy (DOE, United States)

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 2.96 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Literature

Quantitative assessment of chlorophyll types in cryo-EM maps of photosystem I acclimated to far-red light

Gisriel, C.J., Huang, H.L., Reiss, K.M., Flesher, D.A., Batista, V.S., Bryant, D.A., Brudvig, G.W., Wang, J.

(2021) BBA Adv 1: 100019

• DOI: https://doi.org/10.1016/j.bbadva.2021.100019

Biological Assembly 1  

Global Symmetry: Cyclic - C3  (Explore in 3D)
Global Stoichiometry: Hetero 36-mer - A3B3C3D3E3F3G3H3I3J3K3L3 Pseudo Symmetry: Cyclic - C3  (Explore in 3D)
Pseudo Stoichiometry: Hetero 36-mer - A6B6C3D3E3F3G3H3I3J3 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: microscopy

Macromolecule Content

• Total Structure Weight: 1,119.61 kDa 
• Atom Count: 72,462 
• Modelled Residue Count: 6,774 
• Deposited Residue Count: 7,410 
• Unique protein chains: 12

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Photosystem I P700 chlorophyll a apoprotein A1	A [auth G], M [auth a], Y [auth A]	788	Fischerella thermalis PCC 7521	Mutation(s): 0  EC: 1.97.1.12 Membrane Entity: Yes
UniProt
Find proteins for G6FME9 (Fischerella thermalis JSC-11) Explore G6FME9  Go to UniProtKB:  G6FME9

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Photosystem I P700 chlorophyll a apoprotein A2	B [auth H], N [auth b], Z [auth B]	741	Fischerella thermalis PCC 7521	Mutation(s): 0  EC: 1.97.1.12 Membrane Entity: Yes
UniProt
Find proteins for G6FMF0 (Fischerella thermalis JSC-11) Explore G6FMF0  Go to UniProtKB:  G6FMF0

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
Photosystem I iron-sulfur center	AA [auth C], C [auth N], O [auth c]	81	Fischerella thermalis PCC 7521	Mutation(s): 0  EC: 1.97.1.12 Membrane Entity: Yes
UniProt
Find proteins for G6FW50 (Fischerella thermalis JSC-11) Explore G6FW50  Go to UniProtKB:  G6FW50

Entity ID: 4
Molecule	Chains	Sequence Length	Organism	Details	Image
Photosystem I protein PsaD	BA [auth D], D [auth O], P [auth d]	159	Fischerella thermalis PCC 7521	Mutation(s): 0
UniProt
Find proteins for G6FW99 (Fischerella thermalis JSC-11) Explore G6FW99  Go to UniProtKB:  G6FW99

Entity ID: 5
Molecule	Chains	Sequence Length	Organism	Details	Image
Photosystem I reaction center subunit IV	CA [auth E], E [auth P], Q [auth e]	72	Fischerella thermalis PCC 7521	Mutation(s): 0  Membrane Entity: Yes
UniProt
Find proteins for G6FQU3 (Fischerella thermalis JSC-11) Explore G6FQU3  Go to UniProtKB:  G6FQU3

Entity ID: 6
Molecule	Chains	Sequence Length	Organism	Details	Image
Photosystem I reaction center protein PsaF subunit III	DA [auth F], F [auth Q], R [auth f]	159	Fischerella thermalis PCC 7521	Mutation(s): 0  Membrane Entity: Yes
UniProt
Find proteins for G6FMD3 (Fischerella thermalis JSC-11) Explore G6FMD3  Go to UniProtKB:  G6FMD3

Entity ID: 7
Molecule	Chains	Sequence Length	Organism	Details	Image
photosystem I subunit VIII	EA [auth I], G [auth R], S [auth i]	67	Fischerella thermalis PCC 7521	Mutation(s): 0  Membrane Entity: Yes
UniProt
Find proteins for G6FMF2 (Fischerella thermalis JSC-11) Explore G6FMF2  Go to UniProtKB:  G6FMF2

Entity ID: 8
Molecule	Chains	Sequence Length	Organism	Details	Image
Photosystem I reaction centre subunit IX / PsaJ	FA [auth J], H [auth S], T [auth j]	48	Fischerella thermalis PCC 7521	Mutation(s): 0  Membrane Entity: Yes
UniProt
Find proteins for G6FMD2 (Fischerella thermalis JSC-11) Explore G6FMD2  Go to UniProtKB:  G6FMD2

Entity ID: 9
Molecule	Chains	Sequence Length	Organism	Details	Image
Photosystem I reaction center subunit PsaK	GA [auth K], I [auth T], U [auth k]	49	Fischerella thermalis PCC 7521	Mutation(s): 0  Membrane Entity: Yes
UniProt
Find proteins for G6FV28 (Fischerella thermalis JSC-11) Explore G6FV28  Go to UniProtKB:  G6FV28

Entity ID: 10
Molecule	Chains	Sequence Length	Organism	Details	Image
PSI subunit V	HA [auth L], J [auth U], V [auth l]	174	Fischerella thermalis PCC 7521	Mutation(s): 0  Membrane Entity: Yes
UniProt
Find proteins for G6FMF1 (Fischerella thermalis JSC-11) Explore G6FMF1  Go to UniProtKB:  G6FMF1

Entity ID: 11
Molecule	Chains	Sequence Length	Organism	Details	Image
Photosystem I reaction center subunit XII	IA [auth M], K [auth V], W [auth m]	31	Fischerella thermalis PCC 7521	Mutation(s): 0  Membrane Entity: Yes
UniProt
Find proteins for G6FWT6 (Fischerella thermalis JSC-11) Explore G6FWT6  Go to UniProtKB:  G6FWT6

Entity ID: 12
Molecule	Chains	Sequence Length	Organism	Details	Image
Photosystem one PsaX	JA [auth X], L [auth W], X [auth x]	101	Fischerella thermalis PCC 7521	Mutation(s): 0  Membrane Entity: Yes
UniProt
Find proteins for G6FSH2 (Fischerella thermalis JSC-11) Explore G6FSH2  Go to UniProtKB:  G6FSH2

Small Molecules

Ligands 10 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
F6C (Subject of Investigation/LOI)	AE [auth H], BE [auth H], BG [auth a], HB [auth G], HN [auth B], KM [auth B], NI [auth b], ON [auth B], PN [auth B], QH [auth b], TD [auth H], UI [auth b], VI [auth b], VK [auth A], WC [auth H]	Chlorophyll F C55 H68 Mg N4 O6 YUTLCKLMRUVWDE-FOFJUSMOSA-M
CLA	AB [auth G], AC [auth G], AD [auth H], AG [auth a], AI [auth b], AK [auth A], AL [auth A], AN [auth B], BB [auth G], BD [auth H], BI [auth b], BK [auth A], BL [auth A], BM [auth B], BN [auth B], CB [auth G], CD [auth H], CE [auth H], CG [auth a], CI [auth b], CK [auth A], CL [auth A], CM [auth B], CN [auth B], DB [auth G], DD [auth H], DF [auth W], DG [auth a], DI [auth b], DK [auth A], DL [auth A], DM [auth B], DN [auth B], EB [auth G], ED [auth H], EG [auth a], EI [auth b], EK [auth A], EL [auth A], EM [auth B], EN [auth B], FB [auth G], FD [auth H], FF [auth a], FG [auth a], FI [auth b], FK [auth A], FL [auth A], FM [auth B], FN [auth B], GB [auth G], GD [auth H], GF [auth a], GG [auth a], GI [auth b], GK [auth A], GL [auth A], GM [auth B], GN [auth B], HD [auth H], HF [auth a], HG [auth a], HH [auth b], HI [auth b], HK [auth A], HL [auth A], HM [auth B], IB [auth G], ID [auth H], IF [auth a], IG [auth a], IH [auth b], II [auth b], IK [auth A], IL [auth A], IM [auth B], IN [auth B], IO [auth K], JB [auth G], JD [auth H], JF [auth a], JG [auth a], JH [auth b], JI [auth b], JK [auth A], JL [auth A], JM [auth B], JN [auth B], KB [auth G], KD [auth H], KF [auth a], KG [auth a], KH [auth b], KI [auth b], KK [auth A], KL [auth A], KN [auth B], KO [auth L], LA [auth G], LB [auth G], LD [auth H], LF [auth a], LG [auth a], LH [auth b], LI [auth b], LK [auth A], LL [auth A], LM [auth B], LN [auth B], LO [auth L], MA [auth G], MB [auth G], MD [auth H], MF [auth a], MG [auth a], MH [auth b], MI [auth b], MK [auth A], ML [auth A], MM [auth B], MN [auth B], MO [auth L], NA [auth G], NB [auth G], NC [auth H], ND [auth H], NF [auth a], NG [auth a], NH [auth b], NK [auth A], NL [auth A], NM [auth B], NN [auth B], OA [auth G], OB [auth G], OC [auth H], OD [auth H], OF [auth a], OG [auth a], OH [auth b], OI [auth b], OJ [auth k], OK [auth A], OL [auth A], OM [auth B], PA [auth G], PB [auth G], PC [auth H], PD [auth H], PF [auth a], PG [auth a], PH [auth b], PI [auth b], PK [auth A], PM [auth B], QA [auth G], QB [auth G], QC [auth H], QD [auth H], QF [auth a], QG [auth a], QI [auth b], QJ [auth l], QK [auth A], QM [auth B], QN [auth B], RA [auth G], RB [auth G], RC [auth H], RD [auth H], RF [auth a], RG [auth a], RH [auth b], RI [auth b], RJ [auth l], RK [auth A], RM [auth B], RO [auth X], SA [auth G], SB [auth G], SC [auth H], SD [auth H], SF [auth a], SG [auth a], SH [auth b], SI [auth b], SJ [auth l], SK [auth A], SM [auth B], TA [auth G], TB [auth G], TC [auth H], TF [auth a], TG [auth a], TH [auth b], TI [auth b], TK [auth A], TM [auth B], UA [auth G], UB [auth G], UC [auth H], UD [auth H], UE [auth T], UF [auth a], UG [auth a], UH [auth b], UK [auth A], UM [auth B], VA [auth G], VB [auth G], VC [auth H], VD [auth H], VF [auth a], VH [auth b], VM [auth B], WA [auth G], WB [auth G], WD [auth H], WE [auth U], WF [auth a], WH [auth b], WI [auth b], WK [auth A], WM [auth B], XA [auth G], XB [auth G], XC [auth H], XD [auth H], XE [auth U], XF [auth a], XH [auth b], XJ [auth x], XK [auth A], XM [auth B], YA [auth G], YB [auth G], YC [auth H], YD [auth H], YE [auth U], YF [auth a], YH [auth b], YK [auth A], YM [auth B], ZA [auth G], ZB [auth G], ZC [auth H], ZD [auth H], ZF [auth a], ZH [auth b], ZJ [auth A], ZK [auth A], ZM [auth B]	CHLOROPHYLL A C55 H72 Mg N4 O5 ATNHDLDRLWWWCB-AENOIHSZSA-M
CL0	EF [auth a], KA [auth G], YJ [auth A]	CHLOROPHYLL A ISOMER C55 H72 Mg N4 O5 VIQFHHZSLDFWDU-DVXFRRMCSA-M
LMG	BF [auth U], BO [auth B], EH [auth a], HJ [auth b], HO [auth I], KC [auth G], NE [auth H], NJ [auth i], PO [auth L], TE [auth R], VJ [auth l], YL [auth A]	1,2-DISTEAROYL-MONOGALACTOSYL-DIGLYCERIDE C45 H86 O10 DCLTVZLYPPIIID-CVELTQQQSA-N
LHG	CO [auth B], DH [auth a], IJ [auth b], JC [auth G], OE [auth H], XL [auth A]	1,2-DIPALMITOYL-PHOSPHATIDYL-GLYCEROLE C38 H75 O10 P BIABMEZBCHDPBV-MPQUPPDSSA-N
BCR	AF [auth U], AH [auth a], AJ [auth b], AO [auth B], BH [auth a], BJ [auth b], CF [auth V], CH [auth a], CJ [auth b], DC [auth G], DJ [auth b], EC [auth G], EE [auth H], EJ [auth b], FC [auth G], FE [auth H], FJ [auth b], FO [auth I], GC [auth G], GE [auth H], GJ [auth b], GO [auth I], HC [auth G], HE [auth H], IC [auth G], IE [auth H], JE [auth H], KE [auth H], LE [auth H], LJ [auth i], ME [auth H], MJ [auth i], NO [auth L], OO [auth L], QO [auth M], RE [auth R], RL [auth A], SE [auth R], SL [auth A], SN [auth B], TJ [auth l], TL [auth A], TN [auth B], UJ [auth l], UL [auth A], UN [auth B], VL [auth A], VN [auth B], WJ [auth m], WL [auth A], WN [auth B], XG [auth a], XN [auth B], YG [auth a], YI [auth b], YN [auth B], ZE [auth U], ZG [auth a], ZI [auth b], ZN [auth B]	BETA-CAROTENE C40 H56 OENHQHLEOONYIE-JLTXGRSLSA-N
LMT	AM [auth A], FH [auth a], GH [auth a], LC [auth G], MC [auth G], ZL [auth A]	DODECYL-BETA-D-MALTOSIDE C24 H46 O11 NLEBIOOXCVAHBD-QKMCSOCLSA-N
PQN	BC [auth G], DE [auth H], PL [auth A], RN [auth B], VG [auth a], XI [auth b]	PHYLLOQUINONE C31 H46 O2 MBWXNTAXLNYFJB-NKFFZRIASA-N
SF4	CC [auth G], DO [auth C], EO [auth C], JJ [auth c], KJ [auth c], PE [auth N], QE [auth N], QL [auth A], WG [auth a]	IRON/SULFUR CLUSTER Fe4 S4 LJBDFODJNLIPKO-UHFFFAOYSA-N
CA	JO [auth L], PJ [auth l], VE [auth U]	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 2.96 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2021-07-28 
Deposition Author(s): Gisriel, C.J., Wang, J.

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Funding Organization	Location	Grant Number
Department of Energy (DOE, United States)	United States	DE-FG02-05ER15646

Revision History  

• Version 1.0: 2021-07-28
  Type: Initial release