Cryo-EM structure of a tri-heme cytochrome-associated RC-LH1 complex from a marine photoheterotrophic bacterium, purified with EDTA-containing solutions
Chen, J.H., Zheng, Q., Zhang, X., Wang, W., Liu, Y., Gu, J.To be published.
Experimental Data Snapshot
wwPDB Validation   3D Report Full Report
Entity ID: 1 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| Antenna pigment protein alpha chain | 53 | Dinoroseobacter shibae DFL 12 = DSM 16493 | Mutation(s): 0  | ![]() | |
UniProt | |||||
Find proteins for A8LQ15 (Dinoroseobacter shibae (strain DSM 16493 / NCIMB 14021 / DFL 12)) Explore A8LQ15  Go to UniProtKB:  A8LQ15 | |||||
Entity Groups   | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | A8LQ15 | ||||
Sequence AnnotationsExpand | |||||
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Entity ID: 2 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| Reaction center protein O chain | B [auth O] | 239 | Dinoroseobacter shibae DFL 12 = DSM 16493 | Mutation(s): 0  | ![]() |
UniProt | |||||
Find proteins for A8LIU2 (Dinoroseobacter shibae (strain DSM 16493 / NCIMB 14021 / DFL 12)) Explore A8LIU2  Go to UniProtKB:  A8LIU2 | |||||
Entity Groups   | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | A8LIU2 | ||||
Sequence AnnotationsExpand | |||||
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Entity ID: 3 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| Antenna pigment protein beta chain | 49 | Dinoroseobacter shibae DFL 12 = DSM 16493 | Mutation(s): 0  | ![]() | |
UniProt | |||||
Find proteins for A8LQ14 (Dinoroseobacter shibae (strain DSM 16493 / NCIMB 14021 / DFL 12)) Explore A8LQ14  Go to UniProtKB:  A8LQ14 | |||||
Entity Groups   | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | A8LQ14 | ||||
Sequence AnnotationsExpand | |||||
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Entity ID: 4 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| Reaction center protein M chain | JA [auth M] | 330 | Dinoroseobacter shibae DFL 12 = DSM 16493 | Mutation(s): 0  | ![]() |
UniProt | |||||
Find proteins for A8LQ17 (Dinoroseobacter shibae (strain DSM 16493 / NCIMB 14021 / DFL 12)) Explore A8LQ17  Go to UniProtKB:  A8LQ17 | |||||
Entity Groups   | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | A8LQ17 | ||||
Sequence AnnotationsExpand | |||||
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Entity ID: 5 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| Reaction center protein L chain | KA [auth L] | 279 | Dinoroseobacter shibae DFL 12 = DSM 16493 | Mutation(s): 0  | ![]() |
UniProt | |||||
Find proteins for A8LQ16 (Dinoroseobacter shibae (strain DSM 16493 / NCIMB 14021 / DFL 12)) Explore A8LQ16  Go to UniProtKB:  A8LQ16 | |||||
Entity Groups   | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | A8LQ16 | ||||
Sequence AnnotationsExpand | |||||
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Entity ID: 6 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| Reaction center protein H chain | LA [auth H] | 256 | Dinoroseobacter shibae DFL 12 = DSM 16493 | Mutation(s): 0  | ![]() |
UniProt | |||||
Find proteins for A8LQ33 (Dinoroseobacter shibae (strain DSM 16493 / NCIMB 14021 / DFL 12)) Explore A8LQ33  Go to UniProtKB:  A8LQ33 | |||||
Entity Groups   | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | A8LQ33 | ||||
Sequence AnnotationsExpand | |||||
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Entity ID: 7 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| Photosynthetic reaction center cytochrome c subunit | MA [auth C] | 360 | Dinoroseobacter shibae DFL 12 = DSM 16493 | Mutation(s): 0  | ![]() |
UniProt | |||||
Find proteins for A8LQ18 (Dinoroseobacter shibae (strain DSM 16493 / NCIMB 14021 / DFL 12)) Explore A8LQ18  Go to UniProtKB:  A8LQ18 | |||||
Entity Groups   | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | A8LQ18 | ||||
Sequence AnnotationsExpand | |||||
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| Ligands 9 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| CDL Query on CDL | DE [auth H], EE [auth H] | CARDIOLIPIN C81 H156 O17 P2 XVTUQDWPJJBEHJ-KZCWQMDCSA-L | |||
| BCL (Subject of Investigation/LOI) Query on BCL | AC [auth J] CB [auth r] CC [auth i] CD [auth b] EB [auth R] | BACTERIOCHLOROPHYLL A C55 H74 Mg N4 O6 DSJXIQQMORJERS-AGGZHOMASA-M | |||
| BPH Query on BPH | ND [auth M], UD [auth L] | BACTERIOPHEOPHYTIN A C55 H76 N4 O6 KWOZSBGNAHVCKG-SZQBJALDSA-N | |||
| U10 Query on U10 | QD [auth M], VD [auth L] | UBIQUINONE-10 C59 H90 O4 ACTIUHUUMQJHFO-UPTCCGCDSA-N | |||
| MW9 Query on MW9 | AB [auth Q] AE [auth L] BD [auth D] CE [auth H] FD [auth B] | (21R,24R,27S)-24,27,28-trihydroxy-18,24-dioxo-19,23,25-trioxa-24lambda~5~-phosphaoctacosan-21-yl (9Z)-octadec-9-enoate C42 H81 O10 P ZEFGRNLJASLRBZ-QIJYXWHJSA-N | |||
| HEC (Subject of Investigation/LOI) Query on HEC | FE [auth C], GE [auth C], HE [auth C] | HEME C C34 H34 Fe N4 O4 HXQIYSLZKNYNMH-LJNAALQVSA-N | |||
| SPN Query on SPN | AD [auth D] BB [auth r] BC [auth i] DB [auth r] DC [auth i] | SPEROIDENONE C41 H70 O2 GWQAMGYOEYXWJF-YCDPMLDASA-N | |||
| LMT Query on LMT | BE [auth H], IE [auth C], WC [auth E], XD [auth L], YD [auth L] | DODECYL-BETA-D-MALTOSIDE C24 H46 O11 NLEBIOOXCVAHBD-QKMCSOCLSA-N | |||
| FE Query on FE | LD [auth M] | FE (III) ION Fe VTLYFUHAOXGGBS-UHFFFAOYSA-N | |||
| Task | Software Package | Version |
|---|---|---|
| RECONSTRUCTION | cryoSPARC | 4.5.1 |
| Funding Organization | Location | Grant Number |
|---|---|---|
| Ministry of Science and Technology (MoST, China) | China | -- |