Structure of a photosystem II-FCPII supercomplex from a haptophyte reveals a distinct antenna organization
La Rocca, R., Kato, K., Pi-Cheng, T., Nakajima, Y., Akita, F., Shen, J.R.(2025) Nat Commun 
Experimental Data Snapshot
wwPDB Validation   3D Report Full Report
(2025) Nat Commun 
Entity ID: 1 | |||||
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Molecule | Chains | Sequence Length | Organism | Details | Image |
Fucoxanthin chlorophyll a/c binding protein II (FCPII-1) | A [auth 1], C [auth 7], NA [auth 5], OA [auth g] | 166 | Chrysotila roscoffensis | Mutation(s): 0  | ![]() |
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Entity ID: 2 | |||||
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Molecule | Chains | Sequence Length | Organism | Details | Image |
Fucoxanthin chlorophyll a/c binding protein II (FCPII-5) | B [auth 6], J | 167 | Chrysotila roscoffensis | Mutation(s): 0  | ![]() |
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Entity ID: 3 | |||||
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Molecule | Chains | Sequence Length | Organism | Details | Image |
Photosystem II protein D1 | D [auth A], R [auth a] | 360 | Chrysotila roscoffensis | Mutation(s): 0  | ![]() |
UniProt | |||||
Find proteins for A0A7S4BZA9 (Chrysotila carterae) Explore A0A7S4BZA9  Go to UniProtKB:  A0A7S4BZA9 | |||||
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Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | A0A7S4BZA9 | ||||
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Entity ID: 4 | |||||
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Molecule | Chains | Sequence Length | Organism | Details | Image |
Photosystem II CP47 reaction center protein | E [auth B], S [auth b] | 509 | Chrysotila roscoffensis | Mutation(s): 0  | ![]() |
UniProt | |||||
Find proteins for Q4G3C5 (Emiliania huxleyi) Explore Q4G3C5  Go to UniProtKB:  Q4G3C5 | |||||
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Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | Q4G3C5 | ||||
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Entity ID: 5 | |||||
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Molecule | Chains | Sequence Length | Organism | Details | Image |
Cytochrome b559 subunit alpha | F [auth E], T [auth e] | 82 | Chrysotila roscoffensis | Mutation(s): 0  | ![]() |
UniProt | |||||
Find proteins for Q4G380 (Emiliania huxleyi) Explore Q4G380  Go to UniProtKB:  Q4G380 | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | Q4G380 | ||||
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Entity ID: 6 | |||||
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Molecule | Chains | Sequence Length | Organism | Details | Image |
Cytochrome b559 subunit beta | G [auth F], U [auth f] | 42 | Chrysotila roscoffensis | Mutation(s): 0  | ![]() |
UniProt | |||||
Find proteins for Q4G381 (Emiliania huxleyi) Explore Q4G381  Go to UniProtKB:  Q4G381 | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | Q4G381 | ||||
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Entity ID: 7 | |||||
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Molecule | Chains | Sequence Length | Organism | Details | Image |
Photosystem II reaction center protein H (psbH) | H, V [auth h] | 65 | Chrysotila roscoffensis | Mutation(s): 0  | ![]() |
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Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
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Entity ID: 8 | |||||
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Molecule | Chains | Sequence Length | Organism | Details | Image |
Photosystem II reaction center protein I (psbI) | I, W [auth i] | 38 | Chrysotila roscoffensis | Mutation(s): 0  | ![]() |
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Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
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Entity ID: 9 | |||||
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Molecule | Chains | Sequence Length | Organism | Details | Image |
Photosystem II reaction center protein K (psbK) | K, X [auth k] | 40 | Chrysotila roscoffensis | Mutation(s): 0  | ![]() |
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Entity ID: 10 | |||||
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Molecule | Chains | Sequence Length | Organism | Details | Image |
Photosystem II reaction center protein L | L, Y [auth l] | 38 | Chrysotila roscoffensis | Mutation(s): 0  | ![]() |
UniProt | |||||
Find proteins for D9MYJ9 (uncultured prymnesiophyte C19847) Explore D9MYJ9  Go to UniProtKB:  D9MYJ9 | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | D9MYJ9 | ||||
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Entity ID: 11 | |||||
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Molecule | Chains | Sequence Length | Organism | Details | Image |
Photosystem II reaction center protein M (psbM) | M, Z [auth m] | 130 | Chrysotila roscoffensis | Mutation(s): 0  | ![]() |
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
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Entity ID: 12 | |||||
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Molecule | Chains | Sequence Length | Organism | Details | Image |
Photosystem II reaction center protein Psb36 | AA [auth n], N | 36 | Chrysotila roscoffensis | Mutation(s): 0  | ![]() |
UniProt | |||||
Find proteins for A0A7S4C3N2 (Chrysotila carterae) Explore A0A7S4C3N2  Go to UniProtKB:  A0A7S4C3N2 | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | A0A7S4C3N2 | ||||
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Entity ID: 13 | |||||
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Molecule | Chains | Sequence Length | Organism | Details | Image |
Photosystem II reaction center protein T | BA [auth t], O [auth T] | 32 | Chrysotila roscoffensis | Mutation(s): 0  | ![]() |
UniProt | |||||
Find proteins for A0A3S6R2W1 (Tisochrysis lutea) Explore A0A3S6R2W1  Go to UniProtKB:  A0A3S6R2W1 | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | A0A3S6R2W1 | ||||
Sequence AnnotationsExpand | |||||
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Entity ID: 14 | |||||
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Molecule | Chains | Sequence Length | Organism | Details | Image |
Photosystem II reaction center protein W (psbW) | CA [auth w], P [auth W] | 53 | Chrysotila roscoffensis | Mutation(s): 0  | ![]() |
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
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Entity ID: 15 | |||||
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Molecule | Chains | Sequence Length | Organism | Details | Image |
Photosystem II reaction center protein X (psbX) | DA [auth x], Q [auth X] | 36 | Chrysotila roscoffensis | Mutation(s): 0  | ![]() |
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
Sequence AnnotationsExpand | |||||
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Entity ID: 16 | |||||
---|---|---|---|---|---|
Molecule | Chains | Sequence Length | Organism | Details | Image |
Fucoxanthin chlorophyll a/c binding protein II (FCPII-2) | EA [auth 2], FA [auth 8] | 225 | Chrysotila roscoffensis | Mutation(s): 0  | ![]() |
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
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Entity ID: 17 | |||||
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Molecule | Chains | Sequence Length | Organism | Details | Image |
Photosystem II D2 protein | GA [auth D], HA [auth d] | 351 | Chrysotila roscoffensis | Mutation(s): 0  EC: 1.10.3.9 | ![]() |
UniProt | |||||
Find proteins for Q4G395 (Emiliania huxleyi) Explore Q4G395  Go to UniProtKB:  Q4G395 | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | Q4G395 | ||||
Sequence AnnotationsExpand | |||||
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Entity ID: 18 | |||||
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Molecule | Chains | Sequence Length | Organism | Details | Image |
Photosystem II CP43 reaction center protein | IA [auth C], JA [auth c] | 445 | Chrysotila roscoffensis | Mutation(s): 0  | ![]() |
UniProt | |||||
Find proteins for A0A075DWU3 (Chrysochromulina tobinii) Explore A0A075DWU3  Go to UniProtKB:  A0A075DWU3 | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | A0A075DWU3 | ||||
Sequence AnnotationsExpand | |||||
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Entity ID: 19 | |||||
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Molecule | Chains | Sequence Length | Organism | Details | Image |
Light harvesting protein | KA [auth 9], LA [auth 3] | 216 | Chrysotila roscoffensis | Mutation(s): 0  | ![]() |
UniProt | |||||
Find proteins for A0A7S4BJL5 (Chrysotila carterae) Explore A0A7S4BJL5  Go to UniProtKB:  A0A7S4BJL5 | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | A0A7S4BJL5 | ||||
Sequence AnnotationsExpand | |||||
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Entity ID: 20 | |||||
---|---|---|---|---|---|
Molecule | Chains | Sequence Length | Organism | Details | Image |
Fucoxanthin chlorophyll a/c binding protein II (FCPII-4) | MA [auth 4], PA [auth G] | 167 | Chrysotila roscoffensis | Mutation(s): 0  | ![]() |
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
Sequence AnnotationsExpand | |||||
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Ligands 15 Unique | |||||
---|---|---|---|---|---|
ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
DGD (Subject of Investigation/LOI) Query on DGD | CJ [auth C] DG [auth h] DJ [auth C] QD [auth B] TJ [auth c] | DIGALACTOSYL DIACYL GLYCEROL (DGDG) C51 H96 O15 LDQFLSUQYHBXSX-HXXRYREZSA-N | |||
CLA (Subject of Investigation/LOI) Query on CLA | AC [auth 7] AD [auth B] AE [auth J] AH [auth 8] AJ [auth C] | CHLOROPHYLL A C55 H72 Mg N4 O5 ATNHDLDRLWWWCB-AENOIHSZSA-M | |||
PHO (Subject of Investigation/LOI) Query on PHO | EI [auth d], NC [auth A], QH [auth D], UE [auth a] | PHEOPHYTIN A C55 H74 N4 O5 CQIKWXUXPNUNDV-RCBXBCQGSA-N | |||
SQD (Subject of Investigation/LOI) Query on SQD | AF [auth b], NI [auth C], QE [auth X], RD [auth B], SD [auth B] | 1,2-DI-O-ACYL-3-O-[6-DEOXY-6-SULFO-ALPHA-D-GLUCOPYRANOSYL]-SN-GLYCEROL C41 H78 O12 S RVUUQPKXGDTQPG-JUDHQOGESA-N | |||
LMG (Subject of Investigation/LOI) Query on LMG | AG [auth f] AI [auth D] LD [auth B] LE [auth L] MD [auth B] | 1,2-DISTEAROYL-MONOGALACTOSYL-DIGLYCERIDE C45 H86 O10 DCLTVZLYPPIIID-CVELTQQQSA-N | |||
PL9 (Subject of Investigation/LOI) Query on PL9 | JI [auth d], YH [auth D] | 2,3-DIMETHYL-5-(3,7,11,15,19,23,27,31,35-NONAMETHYL-2,6,10,14,18,22,26,30,34-HEXATRIACONTANONAENYL-2,5-CYCLOHEXADIENE-1,4-DIONE-2,3-DIMETHYL-5-SOLANESYL-1,4-BENZOQUINONE C53 H80 O2 FKUYMLZIRPABFK-UHFFFAOYSA-N | |||
LHG (Subject of Investigation/LOI) Query on LHG | DI [auth d] EG [auth l] KI [auth d] QC [auth A] RE [auth a] | 1,2-DIPALMITOYL-PHOSPHATIDYL-GLYCEROLE C38 H75 O10 P BIABMEZBCHDPBV-MPQUPPDSSA-N | |||
A86 (Subject of Investigation/LOI) Query on A86 | BB [auth 1] CB [auth 1] DB [auth 1] DL [auth 5] EL [auth 5] | (3S,3'S,5R,5'R,6S,6'R,8'R)-3,5'-dihydroxy-8-oxo-6',7'-didehydro-5,5',6,6',7,8-hexahydro-5,6-epoxy-beta,beta-caroten-3'-
yl acetate C42 H58 O6 SJWWTRQNNRNTPU-XJUZQKKNSA-N | |||
HEM (Subject of Investigation/LOI) Query on HEM | UD [auth E], ZF [auth f] | PROTOPORPHYRIN IX CONTAINING FE C34 H32 Fe N4 O4 KABFMIBPWCXCRK-RGGAHWMASA-L | |||
KC1 (Subject of Investigation/LOI) Query on KC1 | AK [auth 9] BK [auth 9] EB [auth 1] FB [auth 1] FL [auth 5] | Chlorophyll c1 C35 H30 Mg N4 O5 DGNIJJSSARBJSH-QIEHNWLWSA-L | |||
DD6 (Subject of Investigation/LOI) Query on DD6 | AB [auth 1], CL [auth 5], FC [auth 7], SL [auth g] | (3S,3'R,5R,6S,7cis)-7',8'-didehydro-5,6-dihydro-5,6-epoxy-beta,beta-carotene-3,3'-diol C40 H54 O3 OGHZCSINIMWCSB-WMTIXGNLSA-N | |||
BCR (Subject of Investigation/LOI) Query on BCR | BG [auth h] BJ [auth C] CG [auth h] EJ [auth c] FG [auth m] | BETA-CAROTENE C40 H56 OENHQHLEOONYIE-JLTXGRSLSA-N | |||
LMU (Subject of Investigation/LOI) Query on LMU | BI [auth D] IL [auth 5] JL [auth g] PH [auth 8] SC [auth A] | DODECYL-ALPHA-D-MALTOSIDE C24 H46 O11 NLEBIOOXCVAHBD-YHBSTRCHSA-N | |||
BCT (Subject of Investigation/LOI) Query on BCT | CI [auth d], RH [auth D] | BICARBONATE ION C H O3 BVKZGUZCCUSVTD-UHFFFAOYSA-M | |||
FE2 (Subject of Investigation/LOI) Query on FE2 | LI [auth d], UH [auth D] | FE (II) ION Fe CWYNVVGOOAEACU-UHFFFAOYSA-N |
Funding Organization | Location | Grant Number |
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Not funded | -- |