8YGL | pdb_00008ygl

Rhodobacter blasticus RC-LH1 monomer

PDB DOI: https://doi.org/10.2210/pdb8YGL/pdb
EM Map EMD-39255: EMDB EMDataResource

Classification: PHOTOSYNTHESIS
Organism(s): Fuscovulum blasticum DSM 2131
Mutation(s): No
Membrane Protein: Yes PDBTM MemProtMD mpstruc

Deposited: 2024-02-26 Released: 2025-03-05
Deposition Author(s): Liu, L.N., Zhang, Y.Z., Wang, P., Christianson, B.M., Ugurlar, D.
Funding Organization(s): National Science Foundation (NSF, China)

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 2.60 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

wwPDB Validation 3D Report Full Report

This is version 1.1 of the entry. See complete history.

Literature

Architectures of photosynthetic RC-LH1 supercomplexes from Rhodobacter blasticus.

Wang, P., Christianson, B.M., Ugurlar, D., Mao, R., Zhang, Y., Liu, Z.K., Zhang, Y.Y., Gardner, A.M., Gao, J., Zhang, Y.Z., Liu, L.N.

(2024) Sci Adv 10: eadp6678-eadp6678

PubMed: 39383221 Search on PubMed Search on PubMed Central
DOI: https://doi.org/10.1126/sciadv.adp6678
Primary Citation Related Structures:
8YGD, 8YGL

PubMed Abstract:
The reaction center-light-harvesting complex 1 (RC-LH1) plays an essential role in the primary reactions of bacterial photosynthesis. Here, we present high-resolution structures of native monomeric and dimeric RC-LH1 supercomplexes from Rhodobacter ( Rba. ) blasticus using cryo-electron microscopy. The RC-LH1 monomer is composed of an RC encircled by an open LH1 ring comprising 15 αβ heterodimers and a PufX transmembrane polypeptide. In the RC-LH1 dimer, two crossing PufX polypeptides mediate dimerization. Unlike Rhodabacter sphaeroides counterpart, Rba. blasticus RC-LH1 dimer has a less bent conformation, lacks the PufY subunit near the LH1 opening, and includes two extra LH1 αβ subunits, forming a more enclosed S-shaped LH1 ring. Spectroscopic assays reveal that these unique structural features are accompanied by changes in the kinetics of quinone/quinol trafficking between RC-LH1 and cytochrome bc ₁. Our findings reveal the assembly principles and structural variability of photosynthetic RC-LH1 supercomplexes, highlighting diverse strategies used by phototrophic bacteria to optimize light-harvesting and electron transfer in competitive environments.

Organizational Affiliation

MOE Key Laboratory of Evolution and Marine Biodiversity, Frontiers Science Center for Deep Ocean Multispheres and Earth System & College of Marine Life Sciences, Ocean University of China, Qingdao 266003, China.

Macromolecule Content

Total Structure Weight: 361.52 kDa
Atom Count: 23,222
Modeled Residue Count: 2,297
Deposited Residue Count: 2,585
Unique protein chains: 6

Macromolecules

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| 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Antenna pigment protein beta chain	A [auth 0] AA [auth T] C [auth 2] CA [auth V] F [auth 8] A [auth 0], AA [auth T], C [auth 2], CA [auth V], F [auth 8], FA [auth Z], HA [auth b], I [auth B], J [auth C], L [auth E], N [auth G], Q [auth J], U [auth N], W [auth P], Y [auth R]	49	Fuscovulum blasticum DSM 2131	Mutation(s): 0 Membrane Entity: Yes
UniProt
Find proteins for A0A2T4JAH7 (Fuscovulum blasticum DSM 2131) Explore A0A2T4JAH7 Go to UniProtKB: A0A2T4JAH7
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	A0A2T4JAH7
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Reference Sequence

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| 3D Structure

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Antenna pigment protein alpha chain	B [auth 1] BA [auth U] D [auth 3] DA [auth W] E [auth 7] B [auth 1], BA [auth U], D [auth 3], DA [auth W], E [auth 7], G [auth 9], GA [auth a], H [auth A], K [auth D], M [auth F], P [auth I], R [auth K], V [auth O], X [auth Q], Z [auth S]	62	Fuscovulum blasticum DSM 2131	Mutation(s): 0 Membrane Entity: Yes
UniProt
Find proteins for A0A2T4JA00 (Fuscovulum blasticum DSM 2131) Explore A0A2T4JA00 Go to UniProtKB: A0A2T4JA00
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	A0A2T4JA00
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Reference Sequence

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| 3D Structure

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
Photosynthetic reaction center subunit H	O [auth H]	256	Fuscovulum blasticum DSM 2131	Mutation(s): 0 Membrane Entity: Yes
UniProt
Find proteins for A0A2T4J4Z7 (Fuscovulum blasticum DSM 2131) Explore A0A2T4J4Z7 Go to UniProtKB: A0A2T4J4Z7
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Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	A0A2T4J4Z7
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Reference Sequence

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| 3D Structure

Entity ID: 4
Molecule	Chains	Sequence Length	Organism	Details	Image
Reaction center protein L chain	S [auth L]	282	Fuscovulum blasticum DSM 2131	Mutation(s): 0 Membrane Entity: Yes
UniProt
Find proteins for A0A2L1K3X9 (Fuscovulum blasticum DSM 2131) Explore A0A2L1K3X9 Go to UniProtKB: A0A2L1K3X9
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UniProt Group	A0A2L1K3X9
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Reference Sequence

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| 3D Structure

Entity ID: 5
Molecule	Chains	Sequence Length	Organism	Details	Image
Reaction center protein M chain	T [auth M]	307	Fuscovulum blasticum DSM 2131	Mutation(s): 0 Membrane Entity: Yes
UniProt
Find proteins for A0A2T4J9V9 (Fuscovulum blasticum DSM 2131) Explore A0A2T4J9V9 Go to UniProtKB: A0A2T4J9V9
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Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	A0A2T4J9V9
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Reference Sequence

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| 3D Structure

Entity ID: 6
Molecule	Chains	Sequence Length	Organism	Details	Image
1-deoxy-D-xylulose-5-phosphate synthase	EA [auth X]	75	Fuscovulum blasticum DSM 2131	Mutation(s): 0 Membrane Entity: Yes
UniProt
Find proteins for A0A2T4J9W4 (Fuscovulum blasticum DSM 2131) Explore A0A2T4J9W4 Go to UniProtKB: A0A2T4J9W4
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	A0A2T4J9W4
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Reference Sequence

Small Molecules

Ligands 7 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
CDL (Subject of Investigation/LOI) Query on CDL Download:Ideal Coordinates CCD File SDF format, chain MB [auth H] SDF format, chain MC [auth M] SDF format, chain NC [auth M] MOL2 format, chain MB [auth H] MOL2 format, chain MC [auth M] MOL2 format, chain NC [auth M] mmCIF format, chain MB [auth H] mmCIF format, chain MC [auth M] mmCIF format, chain NC [auth M]	MB [auth H], MC [auth M], NC [auth M]	CARDIOLIPIN C₈₁ H₁₅₆ O₁₇ P₂ XVTUQDWPJJBEHJ-KZCWQMDCSA-L		Interactions Focus chain MB [auth H] Focus chain MC [auth M] Focus chain NC [auth M] Interactions & Density Focus chain MB [auth H] Focus chain MC [auth M] Focus chain NC [auth M]
BCL Query on BCL Download:Ideal Coordinates CCD File SDF format, chain AB [auth C] SDF format, chain AD [auth S] SDF format, chain CD [auth T] SDF format, chain DB [auth D] SDF format, chain ED [auth U] SDF format, chain GB [auth E] SDF format, chain HC [auth M] SDF format, chain IA [auth 0] SDF format, chain IB [auth F] SDF format, chain IC [auth M] SDF format, chain ID [auth V] SDF format, chain JD [auth W] SDF format, chain KB [auth G] SDF format, chain LA [auth 1] SDF format, chain MD [auth Z] SDF format, chain NA [auth 2] SDF format, chain NB [auth I] SDF format, chain OD [auth a] SDF format, chain PA [auth 3] SDF format, chain PB [auth J] SDF format, chain QC [auth N] SDF format, chain QD [auth b] SDF format, chain RA [auth 7] SDF format, chain RC [auth O] SDF format, chain SA [auth 8] SDF format, chain SB [auth K] SDF format, chain TA [auth 9] SDF format, chain TB [auth L] SDF format, chain UB [auth L] SDF format, chain VA [auth A] SDF format, chain VC [auth P] SDF format, chain YC [auth Q] SDF format, chain ZA [auth B] SDF format, chain ZC [auth R] MOL2 format, chain AB [auth C] MOL2 format, chain AD [auth S] MOL2 format, chain CD [auth T] MOL2 format, chain DB [auth D] MOL2 format, chain ED [auth U] MOL2 format, chain GB [auth E] MOL2 format, chain HC [auth M] MOL2 format, chain IA [auth 0] MOL2 format, chain IB [auth F] MOL2 format, chain IC [auth M] MOL2 format, chain ID [auth V] MOL2 format, chain JD [auth W] MOL2 format, chain KB [auth G] MOL2 format, chain LA [auth 1] MOL2 format, chain MD [auth Z] MOL2 format, chain NA [auth 2] MOL2 format, chain NB [auth I] MOL2 format, chain OD [auth a] MOL2 format, chain PA [auth 3] MOL2 format, chain PB [auth J] MOL2 format, chain QC [auth N] MOL2 format, chain QD [auth b] MOL2 format, chain RA [auth 7] MOL2 format, chain RC [auth O] MOL2 format, chain SA [auth 8] MOL2 format, chain SB [auth K] MOL2 format, chain TA [auth 9] MOL2 format, chain TB [auth L] MOL2 format, chain UB [auth L] MOL2 format, chain VA [auth A] MOL2 format, chain VC [auth P] MOL2 format, chain YC [auth Q] MOL2 format, chain ZA [auth B] MOL2 format, chain ZC [auth R] mmCIF format, chain AB [auth C] mmCIF format, chain AD [auth S] mmCIF format, chain CD [auth T] mmCIF format, chain DB [auth D] mmCIF format, chain ED [auth U] mmCIF format, chain GB [auth E] mmCIF format, chain HC [auth M] mmCIF format, chain IA [auth 0] mmCIF format, chain IB [auth F] mmCIF format, chain IC [auth M] mmCIF format, chain ID [auth V] mmCIF format, chain JD [auth W] mmCIF format, chain KB [auth G] mmCIF format, chain LA [auth 1] mmCIF format, chain MD [auth Z] mmCIF format, chain NA [auth 2] mmCIF format, chain NB [auth I] mmCIF format, chain OD [auth a] mmCIF format, chain PA [auth 3] mmCIF format, chain PB [auth J] mmCIF format, chain QC [auth N] mmCIF format, chain QD [auth b] mmCIF format, chain RA [auth 7] mmCIF format, chain RC [auth O] mmCIF format, chain SA [auth 8] mmCIF format, chain SB [auth K] mmCIF format, chain TA [auth 9] mmCIF format, chain TB [auth L] mmCIF format, chain UB [auth L] mmCIF format, chain VA [auth A] mmCIF format, chain VC [auth P] mmCIF format, chain YC [auth Q] mmCIF format, chain ZA [auth B] mmCIF format, chain ZC [auth R]	AB [auth C] AD [auth S] CD [auth T] DB [auth D] ED [auth U] AB [auth C], AD [auth S], CD [auth T], DB [auth D], ED [auth U], GB [auth E], HC [auth M], IA [auth 0], IB [auth F], IC [auth M], ID [auth V], JD [auth W], KB [auth G], LA [auth 1], MD [auth Z], NA [auth 2], NB [auth I], OD [auth a], PA [auth 3], PB [auth J], QC [auth N], QD [auth b], RA [auth 7], RC [auth O], SA [auth 8], SB [auth K], TA [auth 9], TB [auth L], UB [auth L], VA [auth A], VC [auth P], YC [auth Q], ZA [auth B], ZC [auth R]	BACTERIOCHLOROPHYLL A C₅₅ H₇₄ Mg N₄ O₆ DSJXIQQMORJERS-AGGZHOMASA-M		Interactions Focus chain AB [auth C] Focus chain AD [auth S] Focus chain CD [auth T] Focus chain DB [auth D] Focus chain ED [auth U] Focus chain GB [auth E] Focus chain HC [auth M] Focus chain IA [auth 0] Focus chain IB [auth F] Focus chain IC [auth M] Focus chain ID [auth V] Focus chain JD [auth W] Focus chain KB [auth G] Focus chain LA [auth 1] Focus chain MD [auth Z] Focus chain NA [auth 2] Focus chain NB [auth I] Focus chain OD [auth a] Focus chain PA [auth 3] Focus chain PB [auth J] Focus chain QC [auth N] Focus chain QD [auth b] Focus chain RA [auth 7] Focus chain RC [auth O] Focus chain SA [auth 8] Focus chain SB [auth K] Focus chain TA [auth 9] Focus chain TB [auth L] Focus chain UB [auth L] Focus chain VA [auth A] Focus chain VC [auth P] Focus chain YC [auth Q] Focus chain ZA [auth B] Focus chain ZC [auth R] Interactions & Density Focus chain AB [auth C] Focus chain AD [auth S] Focus chain CD [auth T] Focus chain DB [auth D] Focus chain ED [auth U] Focus chain GB [auth E] Focus chain HC [auth M] Focus chain IA [auth 0] Focus chain IB [auth F] Focus chain IC [auth M] Focus chain ID [auth V] Focus chain JD [auth W] Focus chain KB [auth G] Focus chain LA [auth 1] Focus chain MD [auth Z] Focus chain NA [auth 2] Focus chain NB [auth I] Focus chain OD [auth a] Focus chain PA [auth 3] Focus chain PB [auth J] Focus chain QC [auth N] Focus chain QD [auth b] Focus chain RA [auth 7] Focus chain RC [auth O] Focus chain SA [auth 8] Focus chain SB [auth K] Focus chain TA [auth 9] Focus chain TB [auth L] Focus chain UB [auth L] Focus chain VA [auth A] Focus chain VC [auth P] Focus chain YC [auth Q] Focus chain ZA [auth B] Focus chain ZC [auth R]
BPH (Subject of Investigation/LOI) Query on BPH Download:Ideal Coordinates CCD File SDF format, chain CC [auth L] SDF format, chain VB [auth L] MOL2 format, chain CC [auth L] MOL2 format, chain VB [auth L] mmCIF format, chain CC [auth L] mmCIF format, chain VB [auth L]	CC [auth L], VB [auth L]	BACTERIOPHEOPHYTIN A C₅₅ H₇₆ N₄ O₆ KWOZSBGNAHVCKG-SZQBJALDSA-N		Interactions Focus chain CC [auth L] Focus chain VB [auth L] Interactions & Density Focus chain CC [auth L] Focus chain VB [auth L]
U10 (Subject of Investigation/LOI) Query on U10 Download:Ideal Coordinates CCD File SDF format, chain AC [auth L] SDF format, chain BC [auth L] SDF format, chain GC [auth M] SDF format, chain KC [auth M] SDF format, chain LD [auth X] SDF format, chain XB [auth L] SDF format, chain ZB [auth L] MOL2 format, chain AC [auth L] MOL2 format, chain BC [auth L] MOL2 format, chain GC [auth M] MOL2 format, chain KC [auth M] MOL2 format, chain LD [auth X] MOL2 format, chain XB [auth L] MOL2 format, chain ZB [auth L] mmCIF format, chain AC [auth L] mmCIF format, chain BC [auth L] mmCIF format, chain GC [auth M] mmCIF format, chain KC [auth M] mmCIF format, chain LD [auth X] mmCIF format, chain XB [auth L] mmCIF format, chain ZB [auth L]	AC [auth L] BC [auth L] GC [auth M] KC [auth M] LD [auth X] AC [auth L], BC [auth L], GC [auth M], KC [auth M], LD [auth X], XB [auth L], ZB [auth L]	UBIQUINONE-10 C₅₉ H₉₀ O₄ ACTIUHUUMQJHFO-UPTCCGCDSA-N		Interactions Focus chain AC [auth L] Focus chain BC [auth L] Focus chain GC [auth M] Focus chain KC [auth M] Focus chain LD [auth X] Focus chain XB [auth L] Focus chain ZB [auth L] Interactions & Density Focus chain AC [auth L] Focus chain BC [auth L] Focus chain GC [auth M] Focus chain KC [auth M] Focus chain LD [auth X] Focus chain XB [auth L] Focus chain ZB [auth L]
PC1 (Subject of Investigation/LOI) Query on PC1 Download:Ideal Coordinates CCD File SDF format, chain DC [auth L] SDF format, chain EC [auth M] SDF format, chain FB [auth D] SDF format, chain FC [auth M] SDF format, chain OC [auth M] SDF format, chain TC [auth O] SDF format, chain WA [auth A] SDF format, chain WB [auth L] SDF format, chain XA [auth A] SDF format, chain YA [auth A] SDF format, chain YB [auth L] MOL2 format, chain DC [auth L] MOL2 format, chain EC [auth M] MOL2 format, chain FB [auth D] MOL2 format, chain FC [auth M] MOL2 format, chain OC [auth M] MOL2 format, chain TC [auth O] MOL2 format, chain WA [auth A] MOL2 format, chain WB [auth L] MOL2 format, chain XA [auth A] MOL2 format, chain YA [auth A] MOL2 format, chain YB [auth L] mmCIF format, chain DC [auth L] mmCIF format, chain EC [auth M] mmCIF format, chain FB [auth D] mmCIF format, chain FC [auth M] mmCIF format, chain OC [auth M] mmCIF format, chain TC [auth O] mmCIF format, chain WA [auth A] mmCIF format, chain WB [auth L] mmCIF format, chain XA [auth A] mmCIF format, chain YA [auth A] mmCIF format, chain YB [auth L]	DC [auth L] EC [auth M] FB [auth D] FC [auth M] OC [auth M] DC [auth L], EC [auth M], FB [auth D], FC [auth M], OC [auth M], TC [auth O], WA [auth A], WB [auth L], XA [auth A], YA [auth A], YB [auth L]	1,2-DIACYL-SN-GLYCERO-3-PHOSPHOCHOLINE C₄₄ H₈₈ N O₈ P NRJAVPSFFCBXDT-HUESYALOSA-N		Interactions Focus chain DC [auth L] Focus chain EC [auth M] Focus chain FB [auth D] Focus chain FC [auth M] Focus chain OC [auth M] Focus chain TC [auth O] Focus chain WA [auth A] Focus chain WB [auth L] Focus chain XA [auth A] Focus chain YA [auth A] Focus chain YB [auth L] Interactions & Density Focus chain DC [auth L] Focus chain EC [auth M] Focus chain FB [auth D] Focus chain FC [auth M] Focus chain OC [auth M] Focus chain TC [auth O] Focus chain WA [auth A] Focus chain WB [auth L] Focus chain XA [auth A] Focus chain YA [auth A] Focus chain YB [auth L]
SPO (Subject of Investigation/LOI) Query on SPO Download:Ideal Coordinates CCD File SDF format, chain BB [auth C] SDF format, chain BD [auth S] SDF format, chain CB [auth D] SDF format, chain DD [auth T] SDF format, chain EB [auth D] SDF format, chain FD [auth U] SDF format, chain GD [auth U] SDF format, chain HB [auth F] SDF format, chain HD [auth V] SDF format, chain JA [auth 0] SDF format, chain JB [auth F] SDF format, chain KA [auth 0] SDF format, chain KD [auth X] SDF format, chain LB [auth G] SDF format, chain LC [auth M] SDF format, chain MA [auth 1] SDF format, chain ND [auth Z] SDF format, chain OA [auth 2] SDF format, chain OB [auth I] SDF format, chain PC [auth N] SDF format, chain PD [auth b] SDF format, chain QA [auth 3] SDF format, chain QB [auth J] SDF format, chain RB [auth J] SDF format, chain SC [auth O] SDF format, chain UA [auth 9] SDF format, chain UC [auth O] SDF format, chain WC [auth P] SDF format, chain XC [auth P] MOL2 format, chain BB [auth C] MOL2 format, chain BD [auth S] MOL2 format, chain CB [auth D] MOL2 format, chain DD [auth T] MOL2 format, chain EB [auth D] MOL2 format, chain FD [auth U] MOL2 format, chain GD [auth U] MOL2 format, chain HB [auth F] MOL2 format, chain HD [auth V] MOL2 format, chain JA [auth 0] MOL2 format, chain JB [auth F] MOL2 format, chain KA [auth 0] MOL2 format, chain KD [auth X] MOL2 format, chain LB [auth G] MOL2 format, chain LC [auth M] MOL2 format, chain MA [auth 1] MOL2 format, chain ND [auth Z] MOL2 format, chain OA [auth 2] MOL2 format, chain OB [auth I] MOL2 format, chain PC [auth N] MOL2 format, chain PD [auth b] MOL2 format, chain QA [auth 3] MOL2 format, chain QB [auth J] MOL2 format, chain RB [auth J] MOL2 format, chain SC [auth O] MOL2 format, chain UA [auth 9] MOL2 format, chain UC [auth O] MOL2 format, chain WC [auth P] MOL2 format, chain XC [auth P] mmCIF format, chain BB [auth C] mmCIF format, chain BD [auth S] mmCIF format, chain CB [auth D] mmCIF format, chain DD [auth T] mmCIF format, chain EB [auth D] mmCIF format, chain FD [auth U] mmCIF format, chain GD [auth U] mmCIF format, chain HB [auth F] mmCIF format, chain HD [auth V] mmCIF format, chain JA [auth 0] mmCIF format, chain JB [auth F] mmCIF format, chain KA [auth 0] mmCIF format, chain KD [auth X] mmCIF format, chain LB [auth G] mmCIF format, chain LC [auth M] mmCIF format, chain MA [auth 1] mmCIF format, chain ND [auth Z] mmCIF format, chain OA [auth 2] mmCIF format, chain OB [auth I] mmCIF format, chain PC [auth N] mmCIF format, chain PD [auth b] mmCIF format, chain QA [auth 3] mmCIF format, chain QB [auth J] mmCIF format, chain RB [auth J] mmCIF format, chain SC [auth O] mmCIF format, chain UA [auth 9] mmCIF format, chain UC [auth O] mmCIF format, chain WC [auth P] mmCIF format, chain XC [auth P]	BB [auth C] BD [auth S] CB [auth D] DD [auth T] EB [auth D] BB [auth C], BD [auth S], CB [auth D], DD [auth T], EB [auth D], FD [auth U], GD [auth U], HB [auth F], HD [auth V], JA [auth 0], JB [auth F], KA [auth 0], KD [auth X], LB [auth G], LC [auth M], MA [auth 1], ND [auth Z], OA [auth 2], OB [auth I], PC [auth N], PD [auth b], QA [auth 3], QB [auth J], RB [auth J], SC [auth O], UA [auth 9], UC [auth O], WC [auth P], XC [auth P]	SPHEROIDENE C₄₁ H₆₀ O FJOCMTHZSURUFA-KXCOHNEYSA-N		Interactions Focus chain BB [auth C] Focus chain BD [auth S] Focus chain CB [auth D] Focus chain DD [auth T] Focus chain EB [auth D] Focus chain FD [auth U] Focus chain GD [auth U] Focus chain HB [auth F] Focus chain HD [auth V] Focus chain JA [auth 0] Focus chain JB [auth F] Focus chain KA [auth 0] Focus chain KD [auth X] Focus chain LB [auth G] Focus chain LC [auth M] Focus chain MA [auth 1] Focus chain ND [auth Z] Focus chain OA [auth 2] Focus chain OB [auth I] Focus chain PC [auth N] Focus chain PD [auth b] Focus chain QA [auth 3] Focus chain QB [auth J] Focus chain RB [auth J] Focus chain SC [auth O] Focus chain UA [auth 9] Focus chain UC [auth O] Focus chain WC [auth P] Focus chain XC [auth P] Interactions & Density Focus chain BB [auth C] Focus chain BD [auth S] Focus chain CB [auth D] Focus chain DD [auth T] Focus chain EB [auth D] Focus chain FD [auth U] Focus chain GD [auth U] Focus chain HB [auth F] Focus chain HD [auth V] Focus chain JA [auth 0] Focus chain JB [auth F] Focus chain KA [auth 0] Focus chain KD [auth X] Focus chain LB [auth G] Focus chain LC [auth M] Focus chain MA [auth 1] Focus chain ND [auth Z] Focus chain OA [auth 2] Focus chain OB [auth I] Focus chain PC [auth N] Focus chain PD [auth b] Focus chain QA [auth 3] Focus chain QB [auth J] Focus chain RB [auth J] Focus chain SC [auth O] Focus chain UA [auth 9] Focus chain UC [auth O] Focus chain WC [auth P] Focus chain XC [auth P]
FE2 (Subject of Investigation/LOI) Query on FE2 Download:Ideal Coordinates CCD File SDF format, chain JC [auth M] MOL2 format, chain JC [auth M] mmCIF format, chain JC [auth M]	JC [auth M]	FE (II) ION Fe CWYNVVGOOAEACU-UHFFFAOYSA-N		Interactions Focus chain JC [auth M] Interactions & Density Focus chain JC [auth M]

Experimental Data & Validation

Experimental Data

Method: ELECTRON MICROSCOPY
Resolution: 2.60 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

EM Software:

Task	Software Package	Version
MODEL REFINEMENT	PHENIX	1.16_3549:

Structure Validation

View Full Validation Report

View more in-depth experimental data

Entry History

& Funding Information

Deposition Data

Released Date: 2025-03-05

Deposition Author(s):

Funding Organization	Location	Grant Number
National Science Foundation (NSF, China)	China	32170127

Revision History (Full details and data files)

Version 1.0: 2025-03-05
Type: Initial release
Version 1.1: 2026-08-12
Type: Remediation
Reason: Metalloprotein remediation
Changes: Data collection, Derived calculations, Structure summary

8YGL | pdb_00008ygl

Rhodobacter blasticus RC-LH1 monomer

Literature

Architectures of photosynthetic RC-LH1 supercomplexes from Rhodobacter blasticus.

Biological Assembly 1

Macromolecules

Entity ID: 1

UniProt

Entity Groups

Sequence Annotations

Expand

Entity ID: 2

UniProt

Entity Groups

Sequence Annotations

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Entity ID: 3

UniProt

Entity Groups

Sequence Annotations

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Entity ID: 4

UniProt

Entity Groups

Sequence Annotations

Expand

Entity ID: 5

UniProt

Entity Groups

Sequence Annotations

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Entity ID: 6

UniProt

Entity Groups

Sequence Annotations

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Small Molecules

Experimental Data & Validation

Experimental Data

Structure Validation

Entry History

Deposition Data

Revision History (Full details and data files)