Cryo-EM structure of Light-harvesting complex from Spinacia oleracea
Resolution: 2.17 Å
EM Method: Single-particle
Fitted PDBs: 8y15
Q-score: 0.709
Seki S, Miyata T, Norioka N, Tanaka H, Kurisu G, Namba K, Fujii R
Pnas Nexus (2024) 3 pp. pgae405-pgae405 [ Pubmed: 39346626 DOI: doi:10.1093/pnasnexus/pgae405 ]
- Chlorophyll a-b binding protein, chloroplastic (23 kDa, Protein from Spinacia oleracea)
- 1,2-dipalmitoyl-phosphatidyl-glycerole (722 Da, Ligand)
- Water (18 Da, Ligand)
- Light-harvesting complex ii from spinacia oleracea (700 kDa, Complex from Spinacia oleracea)
- Chlorophyll b (907 Da, Ligand)
- (1r,3r)-6-{(3e,5e,7e,9e,11e,13e,15e,17e)-18-[(1s,4r,6r)-4-hydroxy-2,2,6-trimethyl-7-oxabicyclo[4.1.0]hept-1-yl]-3,7,12,16-tetramethyloctadeca-1,3,5,7,9,11,13,15,17-nonaenylidene}-1,5,5-trimethylcyclohexane-1,3-diol (600 Da, Ligand)
- Chlorophyll a (893 Da, Ligand)
- Lutein (568 Da, Ligand)
- (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 (600 Da, Ligand)
Cryo-EM structure of in vitro reconstituted Light-harvesting complex II trimer
Resolution: 2.37 Å
EM Method: Single-particle
Fitted PDBs: 8yee
Q-score: 0.678
Seki S, Miyata T, Norioka N, Tanaka H, Kurisu G, Namba K, Fujii R
Pnas Nexus (2024) 3 pp. pgae405-pgae405 [ Pubmed: 39346626 DOI: doi:10.1093/pnasnexus/pgae405 ]
- Chlorophyll b (907 Da, Ligand)
- Water (18 Da, Ligand)
- In vitro reconstituted light-harvesting complex ii (120 kDa, Complex from Spinacia oleracea)
- Chlorophyll a (893 Da, Ligand)
- Chlorophyll a-b binding protein, chloroplastic (24 kDa, Protein from Spinacia oleracea)
- (1r,3r)-6-{(3e,5e,7e,9e,11e,13e,15e,17e)-18-[(1s,4r,6r)-4-hydroxy-2,2,6-trimethyl-7-oxabicyclo[4.1.0]hept-1-yl]-3,7,12,16-tetramethyloctadeca-1,3,5,7,9,11,13,15,17-nonaenylidene}-1,5,5-trimethylcyclohexane-1,3-diol (600 Da, Ligand)
- 1,2-dipalmitoyl-phosphatidyl-glycerole (722 Da, Ligand)
- Lutein (568 Da, Ligand)
Cryo-EM structure of light-harvesting complex II with C1 symmetry
Seki S, Miyata T, Norioka N, Tanaka H, Kurisu G, Namba K, Fujii R
Pnas Nexus (2024) 3 pp. pgae405-pgae405 [ Pubmed: 39346626 DOI: doi:10.1093/pnasnexus/pgae405 ]
- Light-harvesting complex ii (120 kDa, Complex from Spinacia oleracea)
Cryo-EM structure of in vitro reconstituted LHCII with C1 symmetry
Cryo-EM structure of 30S ribosome with cleaved AP-mRNA bound complex-II (Body 2)
Resolution: 2.63 Å
EM Method: Single-particle
Fitted PDBs: 8g5j
Q-score: 0.513
Buchel G, Nayak AR, Herbine K, Sarfallah A, Sokolova VO, Zamudio-Ochoa A, Temiakov D
Nat Commun (2023) 14 pp. 8501-8501 [ Pubmed: 38151585 DOI: doi:10.1038/s41467-023-44198-8 ]
- Dna polymerase subunit gamma-1 (139 kDa, Protein from Homo sapiens)
- Dna polymerase subunit gamma-2, mitochondrial (54 kDa, Protein from Homo sapiens)
- Mismatched primer dna (6 kDa, DNA from synthetic construct)
- Cryo-em structure of the mismatch uncoupling complex (ii) of human mitochondrial dna polymerase gamma (362 kDa, Complex from Homo sapiens)
- Template dna (7 kDa, DNA from synthetic construct)
Bry-LHCII homotrimer of Bryopsis corticulans
Resolution: 2.55 Å
EM Method: Single-particle
Fitted PDBs: 8hlv
Q-score: 0.608
Li Z, Zhou C, Zhao S, Zhang J, Liu X, Sang M, Qin X, Yang Y, Han G, Kuang T, Shen JR, Wang W
Structure (2023) 31 pp. 1247- [ Pubmed: 37633266 DOI: doi:10.1016/j.str.2023.08.001 ]
- Siphonaxanthin chlorophyll a/b binding light-harvesting complex ii, bry-lhcb1 (26 kDa, Protein from Bryopsis corticulans)
- 1,2-dipalmitoyl-phosphatidyl-glycerole (722 Da, Ligand)
- Chlorophyll b (907 Da, Ligand)
- (1r,3r)-6-{(3e,5e,7e,9e,11e,13e,15e,17e)-18-[(1s,4r,6r)-4-hydroxy-2,2,6-trimethyl-7-oxabicyclo[4.1.0]hept-1-yl]-3,7,12,16-tetramethyloctadeca-1,3,5,7,9,11,13,15,17-nonaenylidene}-1,5,5-trimethylcyclohexane-1,3-diol (600 Da, Ligand)
- Siphonein (781 Da, Ligand)
- Siphonaxanthin (600 Da, Ligand)
- Chlorophyll a (893 Da, Ligand)
- Bryopsis corticulans chlorophyll a/b-type light-harvesting complex ii homotrimer (Complex from Bryopsis corticulans)
Bry-LHCII heterotrimer of Bryopsis corticulans
Resolution: 2.74 Å
EM Method: Single-particle
Fitted PDBs: 8hpd
Q-score: 0.571
Li Z, Zhou C, Zhao S, Zhang J, Liu X, Sang M, Qin X, Yang Y, Han G, Kuang T, Shen JR, Wang W
Structure (2023) 31 pp. 1247-1258.e3 [ DOI: doi:10.1016/j.str.2023.08.001 Pubmed: 37633266 ]
- Siphonaxanthin chlorophyll a/b binding light-harvesting complex ii, bry-lhcb1 (26 kDa, Protein from Bryopsis corticulans)
- Chlorophyll b (907 Da, Ligand)
- 1,2-dipalmitoyl-phosphatidyl-glycerole (722 Da, Ligand)
- Siphonein (781 Da, Ligand)
- Siphonaxanthin (600 Da, Ligand)
- Chlorophyll a (893 Da, Ligand)
- Siphonaxanthin chlorophyll a/b binding light-harvesting complex ii, bry-lhcb3 (27 kDa, Protein from Bryopsis corticulans)
- (1r,3r)-6-{(3e,5e,7e,9e,11e,13e,15e,17e)-18-[(1s,4r,6r)-4-hydroxy-2,2,6-trimethyl-7-oxabicyclo[4.1.0]hept-1-yl]-3,7,12,16-tetramethyloctadeca-1,3,5,7,9,11,13,15,17-nonaenylidene}-1,5,5-trimethylcyclohexane-1,3-diol (600 Da, Ligand)
- Siphonaxanthin chlorophyll a/b binding light-harvesting complex ii, bry-lhcb2 (27 kDa, Protein from Bryopsis corticulans)
- Bryopsis corticulans chlorophyll a/b-type light-harvesting complex ii heterotrimer (Complex from Bryopsis corticulans)
Cryo-EM map of Tetrahymena thermophila respiratory complex II
cryo-EM structure of the human respiratory complex II
Resolution: 2.86 Å
EM Method: Single-particle
Fitted PDBs: 8gs8
Q-score: 0.577
Du Z, Zhou X, Lai Y, Xu J, Zhang Y, Zhou S, Feng Z, Yu L, Tang Y, Wang W, Yu L, Tian C, Ran T, Chen H, Guddat LW, Liu F, Gao Y, Rao Z, Gong H
PNAS (2023) 120 pp. e2216713120-e2216713120 [ Pubmed: 37098072 DOI: doi:10.1073/pnas.2216713120 ]
- Succinate dehydrogenase cytochrome b560 subunit, mitochondrial (18 kDa, Protein from Homo sapiens)
- Succinate dehydrogenase [ubiquinone] cytochrome b small subunit, mitochondrial (17 kDa, Protein from Homo sapiens)
- Iron/sulfur cluster (351 Da, Ligand)
- Succinate dehydrogenase [ubiquinone] iron-sulfur subunit, mitochondrial (31 kDa, Protein from Homo sapiens)
- The human mitochondrial complex ii, composed of sdha, sdhb, sdhc and sdhd (Complex from Homo sapiens)
- Fe3-s4 cluster (295 Da, Ligand)
- (1s)-2-{[(2-aminoethoxy)(hydroxy)phosphoryl]oxy}-1-[(palmitoyloxy)methyl]ethyl stearate (720 Da, Ligand)
- Flavin-adenine dinucleotide (785 Da, Ligand)
- Succinate dehydrogenase [ubiquinone] flavoprotein subunit, mitochondrial (72 kDa, Protein from Homo sapiens)
- Ubiquinone-1 (250 Da, Ligand)
- Fe2/s2 (inorganic) cluster (175 Da, Ligand)
- Protoporphyrin ix containing fe (616 Da, Ligand)