7LX0

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


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.96 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

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


Macromolecules
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Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Photosystem I P700 chlorophyll a apoprotein A1Y [auth A], A [auth G], M [auth a]788Fischerella thermalis PCC 7521Mutation(s): 0 
EC: 1.97.1.12
Membrane Entity: Yes 
UniProt
Find proteins for G6FME9 (Fischerella thermalis)
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Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
Photosystem I P700 chlorophyll a apoprotein A2Z [auth B], B [auth H], N [auth b]741Fischerella thermalis PCC 7521Mutation(s): 0 
EC: 1.97.1.12
Membrane Entity: Yes 
UniProt
Find proteins for A0A2N6KXB6 (Fischerella thermalis CCMEE 5273)
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Entity ID: 3
MoleculeChainsSequence LengthOrganismDetailsImage
Photosystem I iron-sulfur centerAA [auth C], C [auth N], O [auth c]81Fischerella thermalis PCC 7521Mutation(s): 0 
EC: 1.97.1.12
Membrane Entity: Yes 
UniProt
Find proteins for G6FW50 (Fischerella thermalis)
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Entity ID: 4
MoleculeChainsSequence LengthOrganismDetailsImage
Photosystem I protein PsaDBA [auth D], D [auth O], P [auth d]159Fischerella thermalis PCC 7521Mutation(s): 0 
UniProt
Find proteins for G6FW99 (Fischerella thermalis)
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Entity ID: 5
MoleculeChainsSequence LengthOrganismDetailsImage
Photosystem I reaction center subunit IVCA [auth E], E [auth P], Q [auth e]72Fischerella thermalis PCC 7521Mutation(s): 0 
Membrane Entity: Yes 
UniProt
Find proteins for G6FQU3 (Fischerella thermalis)
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Entity ID: 6
MoleculeChainsSequence LengthOrganismDetailsImage
Photosystem I reaction center protein PsaF subunit IIIDA [auth F], F [auth Q], R [auth f]159Fischerella thermalis PCC 7521Mutation(s): 0 
Membrane Entity: Yes 
UniProt
Find proteins for G6FMD3 (Fischerella thermalis)
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Entity ID: 7
MoleculeChainsSequence LengthOrganismDetailsImage
photosystem I subunit VIIIEA [auth I], G [auth R], S [auth i]67Fischerella thermalis PCC 7521Mutation(s): 0 
Membrane Entity: Yes 
UniProt
Find proteins for A0A2N6MR25 (Fischerella thermalis CCMEE 5201)
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Entity ID: 8
MoleculeChainsSequence LengthOrganismDetailsImage
Photosystem I reaction centre subunit IX / PsaJFA [auth J], H [auth S], T [auth j]48Fischerella thermalis PCC 7521Mutation(s): 0 
Membrane Entity: Yes 
UniProt
Find proteins for G6FMD2 (Fischerella thermalis)
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Entity ID: 9
MoleculeChainsSequence LengthOrganismDetailsImage
Photosystem I reaction center subunit PsaKGA [auth K], I [auth T], U [auth k]49Fischerella thermalis PCC 7521Mutation(s): 0 
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Entity ID: 10
MoleculeChainsSequence LengthOrganismDetailsImage
PSI subunit VHA [auth L], J [auth U], V [auth l]174Fischerella thermalis PCC 7521Mutation(s): 0 
Membrane Entity: Yes 
UniProt
Find proteins for A0A2N6L446 (Fischerella thermalis CCMEE 5318)
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Entity ID: 11
MoleculeChainsSequence LengthOrganismDetailsImage
Photosystem I reaction center subunit XIIIA [auth M], K [auth V], W [auth m]31Fischerella thermalis PCC 7521Mutation(s): 0 
Membrane Entity: Yes 
UniProt
Find proteins for G6FWT6 (Fischerella thermalis)
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Entity ID: 12
MoleculeChainsSequence LengthOrganismDetailsImage
Photosystem one PsaXL [auth W], JA [auth X], X [auth x]101Fischerella thermalis PCC 7521Mutation(s): 0 
Membrane Entity: Yes 
UniProt
Find proteins for G6FSH2 (Fischerella thermalis)
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Small Molecules
Ligands 10 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
F6C (Subject of Investigation/LOI)
Query on F6C

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AE [auth H] , BE [auth H] , BG [auth a] , HB [auth G] , HN [auth B] , KM [auth B] , NI [auth b] , ON [auth B] , 
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
 Ligand Interaction
CLA (Subject of Investigation/LOI)
Query on CLA

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AB [auth G] , AC [auth G] , AD [auth H] , AG [auth a] , AI [auth b] , AK [auth A] , AL [auth A] , AN [auth B] , 
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
 Ligand Interaction
CL0 (Subject of Investigation/LOI)
Query on CL0

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EF [auth a], KA [auth G], YJ [auth A]CHLOROPHYLL A ISOMER
C55 H72 Mg N4 O5
VIQFHHZSLDFWDU-DVXFRRMCSA-M
 Ligand Interaction
LMG (Subject of Investigation/LOI)
Query on LMG

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BF [auth U] , BO [auth B] , EH [auth a] , HJ [auth b] , HO [auth I] , KC [auth G] , NE [auth H] , NJ [auth i] , 
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
 Ligand Interaction
LHG (Subject of Investigation/LOI)
Query on LHG

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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
 Ligand Interaction
BCR (Subject of Investigation/LOI)
Query on BCR

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AF [auth U] , AH [auth a] , AJ [auth b] , AO [auth B] , BH [auth a] , BJ [auth b] , CF [auth V] , CH [auth a] , 
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
 Ligand Interaction
LMT (Subject of Investigation/LOI)
Query on LMT

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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
 Ligand Interaction
PQN (Subject of Investigation/LOI)
Query on PQN

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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
 Ligand Interaction
SF4
Query on SF4

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CC [auth G] , DO [auth C] , EO [auth C] , JJ [auth c] , KJ [auth c] , PE [auth N] , QE [auth N] , QL [auth A] , 
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-VKOJMFJBAC
 Ligand Interaction
CA
Query on CA

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JO [auth L], PJ [auth l], VE [auth U]CALCIUM ION
Ca
BHPQYMZQTOCNFJ-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

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

Structure Validation

View Full Validation Report




Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Department of Energy (DOE, United States)United StatesDE-FG02-05ER15646

Revision History  (Full details and data files)

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