8WQL image
Deposition Date 2023-10-11
Release Date 2024-07-31
Last Version Date 2025-09-17
Entry Detail
PDB ID:
8WQL
Keywords:
PHOTOSYNTHESIS
Title:
In situ PBS-PSII supercomplex from cyanobacterial Spirulina platensis
Biological Source:
Source Organism:
Arthrospira sp. FACHB-439 (Taxon ID: 153964)
Host Organism:
Arthrospira sp. FACHB-439
Method Details:
Experimental Method:
ELECTRON MICROSCOPY
Resolution:
3.50 Å
Aggregation State:
CELL
Reconstruction Method:
SINGLE PARTICLE
8WQL validation report
Macromolecular Entities
Polymer Type:polypeptide(L)
Molecule:Photosystem II protein D1
Chain IDs:Q (auth: AD), MA (auth: AE), RD (auth: A1), ME (auth: a1), JL (auth: aD), EM (auth: aE)
Chain Length:359
Number of Molecules:6
Biological Source:Arthrospira sp. FACHB-439
Polymer Type:polypeptide(L)
Molecule:LRC1
Chain IDs:A (auth: BA), P (auth: BC), LC (auth: BH), MC (auth: BI), NC (auth: BJ), UF (auth: B2), HG (auth: B3), KH (auth: B5), JI (auth: B6), WI (auth: B7), XI (auth: B8), WJ (auth: B9)
Chain Length:254
Number of Molecules:12
Biological Source:Arthrospira sp. FACHB-439
Polymer Type:polypeptide(L)
Molecule:LCM
Chain IDs:B (auth: BB), C (auth: CB), EH (auth: B4), FH (auth: C4)
Chain Length:914
Number of Molecules:4
Biological Source:Arthrospira sp. FACHB-439
Polymer Type:polypeptide(L)
Molecule:Photosystem II CP47 reaction center protein
Chain IDs:R (auth: BD), NA (auth: BE), SD (auth: B1), NE (auth: b1), KL (auth: bD), FM (auth: bE)
Chain Length:509
Number of Molecules:6
Biological Source:Arthrospira sp. FACHB-439
Polymer Type:polypeptide(L)
Molecule:Photosystem II CP43 reaction center protein
Chain IDs:S (auth: CD), OA (auth: CE), TD (auth: C1), OE (auth: c1), LL (auth: cD), GM (auth: cE)
Chain Length:469
Number of Molecules:6
Biological Source:Arthrospira sp. FACHB-439
Polymer Type:polypeptide(L)
Molecule:Photosystem II D2 protein
Chain IDs:T (auth: DD), PA (auth: DE), UD (auth: D1), PE (auth: d1), ML (auth: dD), HM (auth: dE)
Chain Length:352
Number of Molecules:6
Biological Source:Arthrospira sp. FACHB-439
Polymer Type:polypeptide(L)
Molecule:Cytochrome b559 subunit alpha
Chain IDs:U (auth: ED), QA (auth: EE), VD (auth: E1), QE (auth: e1), NL (auth: eD), IM (auth: eE)
Chain Length:82
Number of Molecules:6
Biological Source:Arthrospira sp. FACHB-439
Polymer Type:polypeptide(L)
Molecule:LPP2
Chain IDs:IB (auth: EF), TB (auth: BG), OC (auth: EK), ZC (auth: BL)
Chain Length:150
Number of Molecules:4
Biological Source:Arthrospira sp. FACHB-439
Polymer Type:polypeptide(L)
Molecule:Cytochrome b559 subunit beta
Chain IDs:V (auth: FD), RA (auth: FE), WD (auth: F1), RE (auth: f1), OL (auth: fD), JM (auth: fE)
Chain Length:44
Number of Molecules:6
Biological Source:Arthrospira sp. FACHB-439
Polymer Type:polypeptide(L)
Molecule:Photosystem II reaction center protein H
Chain IDs:W (auth: HD), SA (auth: HE), XD (auth: H1), SE (auth: h1), PL (auth: hD), KM (auth: hE)
Chain Length:67
Number of Molecules:6
Biological Source:Arthrospira sp. FACHB-439
Polymer Type:polypeptide(L)
Molecule:Photosystem II reaction center protein I
Chain IDs:X (auth: ID), TA (auth: IE), YD (auth: I1), TE (auth: i1), QL (auth: iD), LM (auth: iE)
Chain Length:38
Number of Molecules:6
Biological Source:Arthrospira sp. FACHB-439
Polymer Type:polypeptide(L)
Molecule:Photosystem II reaction center protein J
Chain IDs:Y (auth: JD), UA (auth: JE), ZD (auth: J1), UE (auth: j1), RL (auth: jD), MM (auth: jE)
Chain Length:39
Number of Molecules:6
Biological Source:Arthrospira sp. FACHB-439
Polymer Type:polypeptide(L)
Molecule:Photosystem II reaction center protein K
Chain IDs:Z (auth: KD), VA (auth: KE), AE (auth: K1), VE (auth: k1), SL (auth: kD), NM (auth: kE)
Chain Length:45
Number of Molecules:6
Biological Source:Arthrospira sp. FACHB-439
Polymer Type:polypeptide(L)
Molecule:Photosystem II reaction center protein L
Chain IDs:AA (auth: LD), WA (auth: LE), BE (auth: L1), WE (auth: l1), TL (auth: lD), OM (auth: lE)
Chain Length:39
Number of Molecules:6
Biological Source:Arthrospira sp. FACHB-439
Polymer Type:polypeptide(L)
Molecule:Photosystem II reaction center protein M
Chain IDs:BA (auth: MD), XA (auth: ME), CE (auth: M1), XE (auth: m1), UL (auth: mD), PM (auth: mE)
Chain Length:37
Number of Molecules:6
Biological Source:Arthrospira sp. FACHB-439
Polymer Type:polypeptide(L)
Molecule:Allophycocyanin alpha chain
Chain IDs:D (auth: OB), F (auth: QB), H (auth: SB), K (auth: VB), M (auth: XB), O (auth: ZB), KB (auth: JF), MB (auth: LF), PB (auth: XF), RB (auth: ZF), SB (auth: AG), UB (auth: GG), WB (auth: IG), YB (auth: KG), BC (auth: NG), DC (auth: PG), FC (auth: RG), HC (auth: TG), QC (auth: JK), SC (auth: LK), VC (auth: XK), XC (auth: ZK), YC (auth: AL), AD (auth: GL), CD (auth: IL), ED (auth: KL), HD (auth: NL), JD (auth: PL), LD (auth: RL), ND (auth: TL), IG (auth: Z4), LG (auth: S4), OG (auth: V4), QG (auth: X4), SG (auth: s4), UG (auth: u4), WG (auth: w4), XG (auth: o4), ZG (auth: q4), CH (auth: y4), GH (auth: O4), IH (auth: Q4), LK (auth: sB), NK (auth: uB), PK (auth: wB), QK (auth: oB), SK (auth: qB), VK (auth: yB), AN (auth: bF), CN (auth: dF), FN (auth: fF), IN (auth: iF), KN (auth: kF), ON (auth: 9F), RN (auth: 4G), TN (auth: 6G), HP (auth: bK), JP (auth: dK), MP (auth: fK), PP (auth: iK), RP (auth: kK), VP (auth: 9K), YP (auth: 4L), AQ (auth: 6L)
Chain Length:161
Number of Molecules:64
Biological Source:Arthrospira sp. FACHB-439
Polymer Type:polypeptide(L)
Molecule:Photosystem II extrinsic protein O
Chain IDs:CA (auth: OD), YA (auth: OE), DE (auth: O1), YE (auth: o1), VL (auth: oD), QM (auth: oE)
Chain Length:278
Number of Molecules:6
Biological Source:Arthrospira sp. FACHB-439
Polymer Type:polypeptide(L)
Molecule:Allophycocyanin beta chain
Chain IDs:E (auth: PB), G (auth: RB), I (auth: TB), L (auth: WB), N (auth: YB), JB (auth: IF), LB (auth: KF), NB (auth: MF), QB (auth: YF), VB (auth: HG), XB (auth: JG), ZB (auth: LG), AC (auth: MG), CC (auth: OG), GC (auth: SG), IC (auth: UG), KC (auth: WG), PC (auth: IK), RC (auth: KK), TC (auth: MK), WC (auth: YK), BD (auth: HL), DD (auth: JL), FD (auth: LL), GD (auth: ML), ID (auth: OL), MD (auth: SL), OD (auth: UL), QD (auth: WL), JG (auth: a4), MG (auth: T4), PG (auth: W4), RG (auth: Y4), TG (auth: t4), VG (auth: v4), YG (auth: p4), AH (auth: r4), BH (auth: x4), DH (auth: z4), HH (auth: P4), JH (auth: R4), JK (auth: aB), MK (auth: tB), OK (auth: vB), RK (auth: pB), TK (auth: rB), UK (auth: xB), WK (auth: zB), ZM (auth: aF), BN (auth: cF), DN (auth: eF), HN (auth: hF), JN (auth: jF), LN (auth: lF), NN (auth: nF), QN (auth: 1G), SN (auth: 5G), UN (auth: 7G), GP (auth: aK), IP (auth: cK), KP (auth: eK), OP (auth: hK), QP (auth: jK), SP (auth: lK), UP (auth: nK), XP (auth: 1L), ZP (auth: 5L), BQ (auth: 7L)
Chain Length:161
Number of Molecules:68
Biological Source:Arthrospira sp. FACHB-439
Polymer Type:polypeptide(L)
Molecule:PsbQ protein
Chain IDs:DA (auth: QD), ZA (auth: QE), EE (auth: Q1), ZE (auth: q1), WL (auth: qD), RM (auth: qE)
Chain Length:164
Number of Molecules:6
Biological Source:Arthrospira sp. FACHB-439
Polymer Type:polypeptide(L)
Molecule:Allophycocyanin beta-18 subunit
Chain IDs:EC (auth: QG), KD (auth: QL), GN (auth: gF), NP (auth: gK)
Chain Length:169
Number of Molecules:4
Biological Source:Arthrospira sp. FACHB-439
Polymer Type:polypeptide(L)
Molecule:Photosystem II reaction center protein Y
Chain IDs:EA (auth: RD), AB (auth: RE), FE (auth: R1), AF (auth: r1), XL (auth: rD), SM (auth: rE)
Chain Length:39
Number of Molecules:6
Biological Source:Arthrospira sp. FACHB-439
Polymer Type:polypeptide(L)
Molecule:LPP1
Chain IDs:FA (auth: SD), BB (auth: SE), BF (auth: S1)
Chain Length:47
Number of Molecules:3
Biological Source:Arthrospira sp. FACHB-439
Polymer Type:polypeptide(L)
Molecule:Photosystem II reaction center protein T
Chain IDs:GA (auth: TD), CB (auth: TE), GE (auth: T1), CF (auth: t1), YL (auth: tD), TM (auth: tE)
Chain Length:31
Number of Molecules:6
Biological Source:Arthrospira sp. FACHB-439
Polymer Type:polypeptide(L)
Molecule:Phycobilisome 7.8 kDa linker polypeptide, allophycocyanin-associated, core
Chain IDs:J (auth: UB), OB (auth: NF), UC (auth: NK), KG (auth: b4), NG (auth: U4), KK (auth: bB), EN (auth: 3F), PN (auth: 2G), VN (auth: 8G), LP (auth: 3K), WP (auth: 2L), CQ (auth: 8L)
Chain Length:67
Number of Molecules:12
Biological Source:Arthrospira sp. FACHB-439
Polymer Type:polypeptide(L)
Molecule:PsbU
Chain IDs:HA (auth: UD), DB (auth: UE), HE (auth: U1), DF (auth: u1), ZL (auth: uD), UM (auth: uE)
Chain Length:95
Number of Molecules:6
Biological Source:Arthrospira sp. FACHB-439
Polymer Type:polypeptide(L)
Molecule:Photosystem II extrinsic protein V
Chain IDs:IA (auth: VD), EB (auth: VE), IE (auth: V1), EF (auth: v1), AM (auth: vD), VM (auth: vE)
Chain Length:163
Number of Molecules:6
Biological Source:Arthrospira sp. FACHB-439
Polymer Type:polypeptide(L)
Molecule:Allophycocyanin-B alpha subunit
Chain IDs:JC (auth: VG), PD (auth: VL), MN (auth: mF), TP (auth: mK)
Chain Length:161
Number of Molecules:4
Biological Source:Arthrospira sp. FACHB-439
Polymer Type:polypeptide(L)
Molecule:Photosystem II reaction center protein X
Chain IDs:JA (auth: XD), FB (auth: XE), JE (auth: X1), FF (auth: x1), BM (auth: xD), WM (auth: xE)
Chain Length:48
Number of Molecules:6
Biological Source:Arthrospira sp. FACHB-439
Polymer Type:polypeptide(L)
Molecule:Photosystem II reaction center protein Psb30
Chain IDs:KA (auth: YD), GB (auth: YE), KE (auth: Y1), GF (auth: y1), CM (auth: yD), XM (auth: yE)
Chain Length:43
Number of Molecules:6
Biological Source:Arthrospira sp. FACHB-439
Polymer Type:polypeptide(L)
Molecule:Photosystem II reaction center protein Z
Chain IDs:LA (auth: ZD), HB (auth: ZE), LE (auth: Z1), HF (auth: z1), DM (auth: zD), YM (auth: zE)
Chain Length:63
Number of Molecules:6
Biological Source:Arthrospira sp. FACHB-439
Polymer Type:polypeptide(L)
Molecule:C-phycocyanin alpha subunit
Chain IDs:IF (auth: b2), KF (auth: d2), MF (auth: f2), OF (auth: h2), QF (auth: j2), SF (auth: l2), VF (auth: b3), XF (auth: d3), ZF (auth: f3), BG (auth: h3), DG (auth: j3), FG (auth: l3), LH (auth: b5), NH (auth: d5), PH (auth: f5), RH (auth: h5), TH (auth: j5), VH (auth: l5), XH (auth: b6), ZH (auth: d6), BI (auth: f6), DI (auth: h6), FI (auth: j6), HI (auth: l6), KI (auth: b7), MI (auth: d7), OI (auth: f7), QI (auth: h7), SI (auth: j7), UI (auth: l7), YI (auth: b8), AJ (auth: d8), CJ (auth: f8), EJ (auth: h8), GJ (auth: j8), IJ (auth: l8), KJ (auth: b9), MJ (auth: d9), OJ (auth: f9), QJ (auth: h9), SJ (auth: j9), UJ (auth: l9), XJ (auth: bA), ZJ (auth: dA), BK (auth: fA), DK (auth: hA), FK (auth: jA), HK (auth: lA), XK (auth: bC), ZK (auth: dC), BL (auth: fC), DL (auth: hC), FL (auth: jC), HL (auth: lC), WN (auth: bH), YN (auth: dH), AO (auth: fH), CO (auth: hH), EO (auth: jH), GO (auth: lH), IO (auth: bI), KO (auth: dI), MO (auth: fI), OO (auth: hI), QO (auth: jI), SO (auth: lI), UO (auth: bJ), WO (auth: dJ), YO (auth: fJ), AP (auth: hJ), CP (auth: jJ), EP (auth: lJ)
Chain Length:254
Number of Molecules:72
Biological Source:Arthrospira sp. FACHB-439
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Phycocyanin beta subunit
Gene (Uniprot):cpcB
Chain IDs:JF (auth: c2), LF (auth: e2), NF (auth: g2), PF (auth: i2), RF (auth: k2), TF (auth: m2), WF (auth: c3), YF (auth: e3), AG (auth: g3), CG (auth: i3), EG (auth: k3), GG (auth: m3), MH (auth: c5), OH (auth: e5), QH (auth: g5), SH (auth: i5), UH (auth: k5), WH (auth: m5), YH (auth: c6), AI (auth: e6), CI (auth: g6), EI (auth: i6), GI (auth: k6), II (auth: m6), LI (auth: c7), NI (auth: e7), PI (auth: g7), RI (auth: i7), TI (auth: k7), VI (auth: m7), ZI (auth: c8), BJ (auth: e8), DJ (auth: g8), FJ (auth: i8), HJ (auth: k8), JJ (auth: m8), LJ (auth: c9), NJ (auth: e9), PJ (auth: g9), RJ (auth: i9), TJ (auth: k9), VJ (auth: m9), YJ (auth: cA), AK (auth: eA), CK (auth: gA), EK (auth: iA), GK (auth: kA), IK (auth: mA), YK (auth: cC), AL (auth: eC), CL (auth: gC), EL (auth: iC), GL (auth: kC), IL (auth: mC), XN (auth: cH), ZN (auth: eH), BO (auth: gH), DO (auth: iH), FO (auth: kH), HO (auth: mH), JO (auth: cI), LO (auth: eI), NO (auth: gI), PO (auth: iI), RO (auth: kI), TO (auth: mI), VO (auth: cJ), XO (auth: eJ), ZO (auth: gJ), BP (auth: iJ), DP (auth: kJ), FP (auth: mJ)
Chain Length:172
Number of Molecules:72
Biological Source:Arthrospira sp. FACHB-439
UniProt ID:A9UKJ0 Pfam ID:PF00502
Ligand Molecules
BCR
BCT
CA
CL
CLA
CYC
DGD
FE2
HEM
LHG
LMG
LMT
OEX
PHO
PL9
SQD
Primary Citation
In situ structural determination of cyanobacterial phycobilisome-PSII supercomplex by STAgSPA strategy.
Nat Commun 15 7201 7201 (2024)
PMID: 39169020 DOI: 10.1038/s41467-024-51460-0

Abstact

Photosynthesis converting solar energy to chemical energy is one of the most important chemical reactions on earth. In cyanobacteria, light energy is captured by antenna system phycobilisomes (PBSs) and transferred to photosynthetic reaction centers of photosystem II (PSII) and photosystem I (PSI). While most of the protein complexes involved in photosynthesis have been characterized by in vitro structural analyses, how these protein complexes function together in vivo is not well understood. Here we implemented STAgSPA, an in situ structural analysis strategy, to solve the native structure of PBS-PSII supercomplex from the cyanobacteria Arthrospira sp. FACHB439 at resolution of ~3.5 Å. The structure reveals coupling details among adjacent PBSs and PSII dimers, and the collaborative energy transfer mechanism mediated by multiple super-PBS in cyanobacteria. Our results provide insights into the diversity of photosynthesis-related systems between prokaryotic cyanobacteria and eukaryotic red algae but are also a methodological demonstration for high-resolution structural analysis in cellular or tissue samples.

Legend

Protein

Chemical

Disease

Primary Citation of related structures
8WQL
Feedback Form
Name
Email
Institute
Feedback