7F0L: Photosynthetic reaction center L subunit

Structure of photosynthetic LH1-rc super-complex of rhodobacter sphaeroides monomer. Determined by electron microscopy at 2.94 Å resolution. Released 10 Nov 2021.

Method: Electron microscopy
Resolution: 2.94 Å
Organism: Rhodobacter sphaeroides
Chains: 33
Atoms: 23,458
Mol. weight: 355.75 kDa
Ligands: BCL, BPH, U10, PGV
Released: 10 Nov 2021

Explore 7F0L in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

7F0L contains 109 α-helices and 40 β-strands across 33 chains. Residue ranges use author residue numbering, as in the PDB file, from PDBe. To see them in 3D, choose the Cartoon representation with Secondary structure coloring: helices, sheets and coils get different colors.

Chains 1, 5 and S: 3 helices, 0 β-strands

Element	Residues	Length
α-helix	4-9	6
α-helix	13-37	25
α-helix	43-50	8

Chains 2, 4, 6, 8, B, E, G, J, N, R, T, W and Z: 1 helix, 0 β-strands

Element	Residues	Length	Sheet
α-helix	13-44	32

Chain 3: 4 helices, 0 β-strands

Element	Residues	Length
α-helix	4-6	3
α-helix	7-10	4
α-helix	13-37	25
α-helix	43-51	9

Chain 7: 3 helices, 0 β-strands

Element	Residues	Length
α-helix	7-10	4
α-helix	13-37	25
α-helix	43-50	8

Chain A: 2 helices, 0 β-strands

Element	Residues	Length	Sheet
α-helix	4-9	6
α-helix	13-37	25

Chains D and F: 4 helices, 0 β-strands

Element	Residues	Length
α-helix	4-9	6
α-helix	13-37	25
α-helix	39-41	3
α-helix	43-50	8

Chain H: 10 helices, 22 β-strands

Element	Residues	Length	Sheet
β-strand	5-7	3	11
β-strand	10-11	2	11
α-helix	12-33	22
β-strand	43	1	1
β-strand	49	1	1
α-helix	50	1
α-helix	57-58	2
β-strand	62-65	4	12
α-helix	66	1
β-strand	72-75	4	12
β-strand	87-89	3	13
β-strand	98-100	3	13
α-helix	104-107	4
α-helix	110-112	3
β-strand	121	1	14
β-strand	123	1	15
β-strand	129	1	15
β-strand	131-133	3	16
β-strand	141-144	4	5
β-strand	152-154	3	16
β-strand	160-170	11	16
β-strand	175-182	8	16
β-strand	188-192	5	16
α-helix	193-195	3
β-strand	197-198	2	16
β-strand	203-204	2	16
α-helix	210-215	6
β-strand	221	1	17
β-strand	224	1	17
β-strand	226	1	14
α-helix	227-238	12
α-helix	240-243	4

Chain I: 3 helices, 0 β-strands

Element	Residues	Length
α-helix	2-9	8
α-helix	13-37	25
α-helix	43-51	9

9 more chain groups are not listed. Open the entry in the viewer and use the sequence panel to see them.

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
Photosynthetic reaction center L subunit	L	protein	282	Rhodobacter sphaeroides	Q3J1A5 (AlphaFold model)
Reaction center protein M chain	M	protein	308	Rhodobacter sphaeroides	Q3J1A6 (AlphaFold model)
Reaction center protein H chain	H	protein	260	Rhodobacter sphaeroides	Q3J170 (AlphaFold model)
Light-harvesting protein B-875 alpha chain	1, 3, A, D, F, I, K, O, Q, S, V, Y	protein	54	Rhodobacter sphaeroides	Q3J1A4 (AlphaFold model)
Antenna pigment protein beta chain	2, 4, 6, 8, B, E, G, J, N, P, R, T, W, Z	protein	49	Rhodobacter sphaeroides	Q3J1A3
Light-harvesting protein B-875 alpha chain	5, 7	protein	54	Rhodobacter sphaeroides	P0C0X9
PufX	X	protein	82	Rhodobacter sphaeroides	P13402
protein-U	U	protein	53	Rhodobacter sphaeroides	U5NME9

Sequence of entity 1 (L), FASTA

>7F0L_1 Photosynthetic reaction center L subunit (chains L)
MALLSFERKYRVPGGTLVGGNLFDFWVGPFYVGFFGVATFFFAALGIILIAWSAVLQGTW
NPQLISVYPPALEYGLGGAPLAKGGLWQIITICATGAFVSWALREVEICRKLGIGYHIPF
AFAFAILAYLTLVLFRPVMMGAWGYAFPYGIWTHLDWVSNTGYTYGNFHYNPAHMIAITF
FFTNALALALHGALVLSAANPEKGKEMRTPDHEDTFFRDLVGYSIGTLGIHRLGLLLSLS
AVFFSALCMIITGTIWFDQWVDWWQWWVKLPWWANIPGGING

Sequence of entity 2 (M), FASTA

>7F0L_2 Reaction center protein M chain (chains M)
MAEYQNIFTQVQVRGPADLGMTEDVNLANRSGVGPFSTLLGWFGNAQLGPIYLGSLGVLS
LFSGLMWFFTIGIWFWYQAGWNPAVFLRDLFFFSLEPPAPEYGLSFAAPLKEGGLWLIAS
FFMFVAVWSWWGRTYLRAQALGMGKHTAWAFLSAIWLWMVLGFIRPILMGSWSEAVPYGI
FSHLDWTNNFSLVHGNLFYNPFHGLSIAFLYGSALLFAMHGATILAVSRFGGERELEQIA
DRGTAAERAALFWRWTMGFNATMEGIHRWAIWMAVLVTLTGGIGILLSGTVVDNWYVWGQ
NHGMAPLN

Sequence of entity 3 (H), FASTA

>7F0L_3 Reaction center protein H chain (chains H)
MVGVTAFGNFDLASLAIYSFWIFLAGLIYYLQTENMREGYPLENEDGTPAANQGPFPLPK
PKTFILPHGRGTLTVPGPESEDRPIALARTAVSEGFPHAPTGDPMKDGVGPASWVARRDL
PELDGHGHNKIKPMKAAAGFYVSAGKNPIGLPVRGCDLEIAGKVVDIWVDIPEQMARFLE
VELKDGSTRLLPMQMVKVQSNRVHVNALSSDLFAGIPTIKSPTEVTLLEEDKICGYVAGG
LMYAAPKRKSVVAAMLAEYA

Sequence of entity 4 (1, 3, A, D, F, I, K, O, Q, S, V, Y), FASTA

>7F0L_4 Light-harvesting protein B-875 alpha chain (chains 1, 3, A, D, F, I, K, O, Q, S, V, Y)
MSKFYKIWMIFDPRRVFVAQGVFLFLLAVMIHLILLSTPSYNWLEISAAKYNRV

Sequence of entity 5 (2, 4, 6, 8, B, E, G, J, N, P, R, T, W, Z), FASTA

>7F0L_5 Antenna pigment protein beta chain (chains 2, 4, 6, 8, B, E, G, J, N, P, R, T, W, Z)
MADKSDLGYTGLTDEQAQELHSVYMSGLWLFSAVAIVAHLAVYIWRPWF

Sequence of entity 6 (5, 7), FASTA

>7F0L_6 Light-harvesting protein B-875 alpha chain (chains 5, 7)
MSKFYKIWMIFDPRRVFVAQGVFLFLLAVMIHLILLSTPSYNWLEISAAKYNRV

Sequence of entity 7 (X), FASTA

>7F0L_7 PufX (chains X)
MADKTIFNDHLNTNPKTNLRLWVAFQMMKGAGWAGGVFFGTLLLIGFFRVVGRMLPIDEN
PAPAPNITGALETGIELIKHLV

Sequence of entity 8 (U), FASTA

>7F0L_8 protein-U (chains U)
MPEVSEFAFRLMMAAVIFVGVGIMFAFAGGHWFVGLVVGGLVAAFFAATPNSN

Ligands and cofactors

ID	Name	Formula	Copies
BCL	Bacteriochlorophyll a	C55 H74 Mg N4 O6	32
BPH	Bacteriopheophytin a	C55 H76 N4 O6	2
U10	Ubiquinone-10	C59 H90 O4	3
PGV	(1R)-2-{[{[(2S)-2,3-dihydroxypropyl]oxy}(hydroxy)phosphoryl]oxy}-1-[(palmitoylo…	C40 H77 O10 P	13
LDA	Lauryl dimethylamine-N-oxide	C14 H31 N O	6
FE	FE (III) ion	Fe	1
SPO	Spheroidene	C41 H60 O	27
LMT	Dodecyl-beta-D-maltoside	C24 H46 O11	24
CDL	Cardiolipin	C81 H156 O17 P2	4

Primary citation

A previously unrecognized membrane protein in the Rhodobacter sphaeroides LH1-RC photocomplex. Tani, K., Nagashima, K.V.P., Kanno, R. et al. Nat Commun (2021) 12:6300-6300. DOI 10.1038/s41467-021-26561-9 · PubMed

Other PDB entries of the same protein (UniProt Q3J1A5 (AlphaFold model), which also has an AlphaFold model), best resolution first:

7P2C 2.04 Å, F(M197)H mutant structure of Photosynthetic Reaction Center From Rhodobacter Sphaeroides…
7OD5 2.1 Å, F(M197)H mutant structure of Photosynthetic Reaction Center From Rhodobacter Sphaeroides…
4IN5 2.2 Å, (M)L214G mutant of the Rhodobacter sphaeroides Reaction Center
7MH3 2.3 Å, Crystal structure of R. sphaeroides Photosynthetic Reaction Center variant;…
5LRI 2.4 Å, Photosynthetic reaction center mutant with GLUL212 replaced with trp (chain L, EL212W)
8C87 2.45 Å, Double mutant A(L172)C/L(L246)C structure of Photosynthetic Reaction Center From…
7MH4 2.48 Å, Crystal structure of R. sphaeroides Photosynthetic Reaction Center variant;…
7PIL 2.5 Å, Cryo-EM structure of the Rhodobacter sphaeroides RC-LH1-PufXY monomer complex at 2.5 A
8C3F 2.6 Å, Double mutant I(L177)H/F(M197)H structure of Photosynthetic Reaction Center From…
8C5X 2.6 Å, Double mutant A(L37)C/S(L99)C structure of Photosynthetic Reaction Center From…
8C7C 2.6 Å, Double mutant V(M84)C/A(L278)C structure of Photosynthetic Reaction Center From…
2WX5 2.63 Å, Hexa-coordination of a bacteriochlorophyll cofactor in the Rhodobacter sphaeroides…

Browse structure collections

About this viewer

MolViewer shows 7F0L directly in your browser with nothing to install. Switch between cartoon, ball-and-stick, spacefill and surface views, color by chain, secondary structure or B-factor, measure distances, angles and dihedrals, and share or embed the view.