Structure of the astaxanthin mutant PSI-9VCPI supercomplex in Nannochloropsis oceanica
Shen, L.L., Shen, J.R., Wang, W.D.To be published.
Experimental Data Snapshot
wwPDB Validation   3D Report Full Report
Entity ID: 1 | |||||
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| Molecule | Chains | Sequence Length | Organism | Details | Image |
| VCPI-5 | A [auth 5] | 244 | Nannochloropsis oceanica strain IMET1 | Mutation(s): 0  | ![]() |
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| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
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Entity ID: 2 | |||||
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| Molecule | Chains | Sequence Length | Organism | Details | Image |
| VCPI-9 | B [auth 9] | 232 | Nannochloropsis oceanica strain IMET1 | Mutation(s): 0  | ![]() |
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| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
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Entity ID: 3 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| VCPI-8 | C [auth 8] | 200 | Nannochloropsis oceanica strain IMET1 | Mutation(s): 0  | ![]() |
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| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
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Entity ID: 4 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| VCPI-4/7 | D [auth 4], H [auth 7] | 202 | Nannochloropsis oceanica strain IMET1 | Mutation(s): 0  | ![]() |
Entity Groups   | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
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Entity ID: 5 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| VCPI-3 | E [auth 3] | 220 | Nannochloropsis oceanica strain IMET1 | Mutation(s): 0  | ![]() |
Entity Groups   | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
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Entity ID: 6 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| VCPI-6 | F [auth 6] | 259 | Nannochloropsis oceanica strain IMET1 | Mutation(s): 0  | ![]() |
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| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
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Entity ID: 7 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| VCPI-2 | G [auth 2] | 223 | Nannochloropsis oceanica strain IMET1 | Mutation(s): 0  | ![]() |
Entity Groups   | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
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Entity ID: 8 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| VCPI-1 | I [auth 1] | 208 | Nannochloropsis oceanica strain IMET1 | Mutation(s): 0  | ![]() |
Entity Groups   | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
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Entity ID: 9 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| Photosystem I P700 chlorophyll a apoprotein A1 | J [auth a] | 745 | Nannochloropsis oceanica strain IMET1 | Mutation(s): 0  EC: 1.97.1.12 | ![]() |
UniProt | |||||
Find proteins for T1RJP7 (Nannochloropsis oceanica) Explore T1RJP7  Go to UniProtKB:  T1RJP7 | |||||
Entity Groups   | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | T1RJP7 | ||||
Sequence AnnotationsExpand | |||||
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Entity ID: 10 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| Photosystem I P700 chlorophyll a apoprotein A2 | K [auth b] | 737 | Nannochloropsis oceanica strain IMET1 | Mutation(s): 0  EC: 1.97.1.12 | ![]() |
UniProt | |||||
Find proteins for T1RIQ1 (Nannochloropsis oceanica) Explore T1RIQ1  Go to UniProtKB:  T1RIQ1 | |||||
Entity Groups   | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | T1RIQ1 | ||||
Sequence AnnotationsExpand | |||||
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Entity ID: 11 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| Photosystem I reaction center subunit II | L [auth d] | 136 | Nannochloropsis oceanica strain IMET1 | Mutation(s): 0  | ![]() |
UniProt | |||||
Find proteins for T1RIT2 (Nannochloropsis oceanica) Explore T1RIT2  Go to UniProtKB:  T1RIT2 | |||||
Entity Groups   | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | T1RIT2 | ||||
Sequence AnnotationsExpand | |||||
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Entity ID: 12 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| Photosystem I reaction center subunit IV | M [auth e] | 67 | Nannochloropsis oceanica strain IMET1 | Mutation(s): 0  | ![]() |
UniProt | |||||
Find proteins for T1RJT6 (Nannochloropsis oceanica) Explore T1RJT6  Go to UniProtKB:  T1RJT6 | |||||
Entity Groups   | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | T1RJT6 | ||||
Sequence AnnotationsExpand | |||||
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Entity ID: 13 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| Photosystem I reaction center subunit III | N [auth f] | 185 | Nannochloropsis oceanica strain IMET1 | Mutation(s): 0  | ![]() |
UniProt | |||||
Find proteins for T1RJ05 (Nannochloropsis oceanica) Explore T1RJ05  Go to UniProtKB:  T1RJ05 | |||||
Entity Groups   | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | T1RJ05 | ||||
Sequence AnnotationsExpand | |||||
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Entity ID: 14 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| PsaR | O [auth h] | 128 | Nannochloropsis oceanica strain IMET1 | Mutation(s): 0  | ![]() |
Entity Groups   | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
Sequence AnnotationsExpand | |||||
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Entity ID: 15 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| Photosystem I reaction center subunit VIII | P [auth i] | 45 | Nannochloropsis oceanica strain IMET1 | Mutation(s): 0  | ![]() |
UniProt | |||||
Find proteins for T1RJ07 (Nannochloropsis oceanica) Explore T1RJ07  Go to UniProtKB:  T1RJ07 | |||||
Entity Groups   | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | T1RJ07 | ||||
Sequence AnnotationsExpand | |||||
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Entity ID: 16 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| Photosystem I reaction center subunit IX | Q [auth j] | 41 | Nannochloropsis oceanica strain IMET1 | Mutation(s): 0  | ![]() |
UniProt | |||||
Find proteins for T1RJW8 (Nannochloropsis oceanica) Explore T1RJW8  Go to UniProtKB:  T1RJW8 | |||||
Entity Groups   | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | T1RJW8 | ||||
Sequence AnnotationsExpand | |||||
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Entity ID: 17 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| PSI subunit V | R [auth l] | 172 | Nannochloropsis oceanica strain IMET1 | Mutation(s): 0  | ![]() |
UniProt | |||||
Find proteins for T1RJZ1 (Nannochloropsis oceanica) Explore T1RJZ1  Go to UniProtKB:  T1RJZ1 | |||||
Entity Groups   | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | T1RJZ1 | ||||
Sequence AnnotationsExpand | |||||
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Entity ID: 18 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| PsaM | S [auth m] | 30 | Nannochloropsis oceanica strain IMET1 | Mutation(s): 0  | ![]() |
UniProt | |||||
Find proteins for A0A8F5PPL2 (Chaetoceros tenuissimus) Explore A0A8F5PPL2  Go to UniProtKB:  A0A8F5PPL2 | |||||
Entity Groups   | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | A0A8F5PPL2 | ||||
Sequence AnnotationsExpand | |||||
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Entity ID: 19 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| PsaS | T [auth g] | 55 | Nannochloropsis oceanica strain IMET1 | Mutation(s): 0  | ![]() |
Sequence AnnotationsExpand | |||||
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Entity ID: 20 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| Photosystem I iron-sulfur center | U [auth c] | 81 | Nannochloropsis oceanica strain IMET1 | Mutation(s): 0  EC: 1.97.1.12 | ![]() |
UniProt | |||||
Find proteins for T1RJY1 (Nannochloropsis oceanica) Explore T1RJY1  Go to UniProtKB:  T1RJY1 | |||||
Entity Groups   | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | T1RJY1 | ||||
Sequence AnnotationsExpand | |||||
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| Ligands 11 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| DGD (Subject of Investigation/LOI) Query on DGD | HC [auth 4], MJ [auth b], QB [auth 8] | DIGALACTOSYL DIACYL GLYCEROL (DGDG) C51 H96 O15 LDQFLSUQYHBXSX-HXXRYREZSA-N | |||
| CLA (Subject of Investigation/LOI) Query on CLA | AA [auth 5] AB [auth 9] AC [auth 4] AE [auth 2] AF [auth 1] | CHLOROPHYLL A C55 H72 Mg N4 O5 ATNHDLDRLWWWCB-AENOIHSZSA-M | |||
| SQD (Subject of Investigation/LOI) Query on SQD | JF [auth 1], LA [auth 5] | 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 | AK [auth j], DE [auth 2], MH [auth a] | 1,2-DISTEAROYL-MONOGALACTOSYL-DIGLYCERIDE C45 H86 O10 DCLTVZLYPPIIID-CVELTQQQSA-N | |||
| A1L1F (Subject of Investigation/LOI) Query on A1L1F | AD [auth 6] FB [auth 8] NA [auth 9] UJ [auth h] XC [auth 6] | [(2~{Z},4~{E},6~{E},8~{E},10~{E},12~{E},14~{E})-17-[(4~{S},6~{R})-4-acetyloxy-2,2,6-trimethyl-6-oxidanyl-cyclohexylidene]-6,11,15-trimethyl-2-[(~{E})-2-[(1~{S},4~{S},6~{R})-2,2,6-trimethyl-4-oxidanyl-7-oxabicyclo[4.1.0]heptan-1-yl]ethenyl]heptadeca-2,4,6,8,10,12,14,16-octaenyl] octanoate C50 H72 O7 JYJFYJLLQQTZBJ-AYSGSIDZSA-N | |||
| LHG (Subject of Investigation/LOI) Query on LHG | CH [auth a], DH [auth a], EK [auth m], KJ [auth b], SA [auth 9] | 1,2-DIPALMITOYL-PHOSPHATIDYL-GLYCEROLE C38 H75 O10 P BIABMEZBCHDPBV-MPQUPPDSSA-N | |||
| A1L1G (Subject of Investigation/LOI) Query on A1L1G | FE [auth 7] JC [auth 3] MA [auth 9] NC [auth 3] RA [auth 9] | (1~{R},3~{S})-6-[(3~{E},5~{E},7~{E},9~{E},11~{E},13~{E},15~{Z},17~{E})-16-(hydroxymethyl)-3,7,12-trimethyl-18-[(1~{S},4~{S},6~{R})-2,2,6-trimethyl-4-oxidanyl-7-oxabicyclo[4.1.0]heptan-1-yl]octadeca-1,3,5,7,9,11,13,15,17-nonaenylidene]-1,5,5-trimethyl-cyclohexane-1,3-diol C40 H56 O5 OWWSPDNLRSCPIS-XZHZJERWSA-N | |||
| XAT (Subject of Investigation/LOI) Query on XAT | BD [auth 6] CB [auth 8] CD [auth 6] DB [auth 8] EB [auth 8] | (3S,5R,6S,3'S,5'R,6'S)-5,6,5',6'-DIEPOXY-5,6,5',6'- TETRAHYDRO-BETA,BETA-CAROTENE-3,3'-DIOL C40 H56 O4 SZCBXWMUOPQSOX-WVJDLNGLSA-N | |||
| BCR (Subject of Investigation/LOI) Query on BCR | EH [auth a] EJ [auth b] FH [auth a] FJ [auth b] FK [auth m] | BETA-CAROTENE C40 H56 OENHQHLEOONYIE-JLTXGRSLSA-N | |||
| PQN (Subject of Investigation/LOI) Query on PQN | AH [auth a], DJ [auth b] | PHYLLOQUINONE C31 H46 O2 MBWXNTAXLNYFJB-NKFFZRIASA-N | |||
| SF4 (Subject of Investigation/LOI) Query on SF4 | GK [auth c], HK [auth c], IH [auth a] | IRON/SULFUR CLUSTER Fe4 S4 LJBDFODJNLIPKO-UHFFFAOYSA-N | |||
| Task | Software Package | Version |
|---|---|---|
| MODEL REFINEMENT | PHENIX | |
| Funding Organization | Location | Grant Number |
|---|---|---|
| Chinese Academy of Sciences | China | -- |