PSI-LHCI supercomplex binding with 10 Lhcas from C. subellipsoidea
Resolution: 1.92 Å
EM Method: Single-particle
Fitted PDBs: 9kqp
Q-score: 0.723
Tsai PC, Kato K, Shen JR, Akita F
Biochim Biophys Acta Bioenerg (2025) 1866 pp. 149543-149543 [ Pubmed: 39947506 DOI: doi:10.1016/j.bbabio.2025.149543 ]
- Photosystem i iron-sulfur center (8 kDa, Protein from Coccomyxa subellipsoidea C-169)
- Photosystem i reaction centre subunit vi (14 kDa, Protein from Coccomyxa subellipsoidea C-169)
- Photosystem i reaction center subunit ii, chloroplastic (20 kDa, Protein from Coccomyxa subellipsoidea C-169)
- Chlorophyll a-b binding protein, chloroplastic (24 kDa, Protein from Coccomyxa subellipsoidea C-169)
- Dodecyl-beta-d-maltoside (510 Da, Ligand)
- Chlorophyll a-b binding protein, chloroplastic (26 kDa, Protein from Coccomyxa subellipsoidea C-169)
- Photosystem i reaction centre subunit iv/psae (8 kDa, Protein from Coccomyxa subellipsoidea C-169)
- Photosystem i reaction center subunit xii (3 kDa, Protein from Coccomyxa subellipsoidea C-169)
- Chlorophyll a-b binding protein, chloroplastic (29 kDa, Protein from Coccomyxa subellipsoidea C-169)
- (3r,3'r,6s)-4,5-didehydro-5,6-dihydro-beta,beta-carotene-3,3'-diol (568 Da, Ligand)
- Phylloquinone (450 Da, Ligand)
- Photosystem i p700 chlorophyll a apoprotein a1 (83 kDa, Protein from Coccomyxa subellipsoidea C-169)
- Photosystem i psao (15 kDa, Protein from Coccomyxa subellipsoidea C-169)
- Chlorophyll a-b binding protein, chloroplastic (27 kDa, Protein from Coccomyxa subellipsoidea C-169)
- Chlorophyll a-b binding protein, chloroplastic (24 kDa, Protein from Coccomyxa subellipsoidea C-169)
- 1,2-di-o-acyl-3-o-[6-deoxy-6-sulfo-alpha-d-glucopyranosyl]-sn-glycerol (795 Da, Ligand)
- (3~{e},5~{e},7~{e})-6-methyl-8-[(6~{r})-2,2,6-trimethylcyclohexyl]octa-3,5,7-trien-2-one (260 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)
- Photosystem i reaction center subunit ix (4 kDa, Protein from Coccomyxa subellipsoidea C-169)
- Beta-carotene (536 Da, Ligand)
- Chlorophyll a-b binding protein, chloroplastic (26 kDa, Protein from Coccomyxa subellipsoidea C-169)
- Chlorophyll a-b binding protein, chloroplastic (27 kDa, Protein from Coccomyxa subellipsoidea C-169)
- Photosystem i reaction center subunit viii (3 kDa, Protein from Coccomyxa subellipsoidea C-169)
- Psi subunit v (21 kDa, Protein from Coccomyxa subellipsoidea C-169)
- [2-((1-oxododecanoxy-(2-hydroxy-3-propanyl))-phosphonate-oxy)-ethyl]-trimethylammonium (440 Da, Ligand)
- Astaxanthin (596 Da, Ligand)
- Phosphatidylethanolamine (734 Da, Ligand)
- 1,2-dipalmitoyl-phosphatidyl-glycerole (722 Da, Ligand)
- Chlorophyll a-b binding protein, chloroplastic/lhca2 (29 kDa, Protein from Coccomyxa subellipsoidea C-169)
- 1,2-diacyl-glycerol-3-sn-phosphate (704 Da, Ligand)
- Chlorophyll b (907 Da, Ligand)
- Digalactosyl diacyl glycerol (dgdg) (949 Da, Ligand)
- 1,2-distearoyl-monogalactosyl-diglyceride (787 Da, Ligand)
- Photosystem i reaction center subunit iii (25 kDa, Protein from Coccomyxa subellipsoidea C-169)
- Diacyl glycerol (625 Da, Ligand)
- Photosystem i reaction center subunit v, chloroplastic (14 kDa, Protein from Coccomyxa subellipsoidea C-169)
- Green alga photosystem i lhci supercomplex binding with 10 lhcas (Complex from Coccomyxa subellipsoidea C-169)
- Chlorophyll a-b binding protein, chloroplastic (29 kDa, Protein from Coccomyxa subellipsoidea C-169)
- Chlorophyll a (893 Da, Ligand)
- Unknown ligand (254 Da, Ligand)
- Chlorophyll a isomer (893 Da, Ligand)
- Psi-k (13 kDa, Protein from Coccomyxa subellipsoidea C-169)
- Water (18 Da, Ligand)
- Photosystem i p700 chlorophyll a apoprotein a2 (81 kDa, Protein from Coccomyxa subellipsoidea C-169)
- Iron/sulfur cluster (351 Da, Ligand)
Resolution: 1.8 Å
EM Method: Single-particle
Fitted PDBs: 9f0h
Q-score: 0.719
Wang P, Li J, Li T, Li K, Ng PC, Wang S, Chriscoli V, Basle A, Marles-Wright J, Zhang YZ, Liu LN
Sci Adv (2024) 10 pp. eadr4227-eadr4227 [ Pubmed: 39612341 DOI: doi:10.1126/sciadv.adr4227 ]
- Water (18 Da, Ligand)
- Carboxysome assembly protein csos2b (29 kDa, Protein from Halothiobacillus neapolitanus)
- Magnesium ion (24 Da, Ligand)
- Carboxysome shell vertex protein csos4a (8 kDa, Protein from Halothiobacillus neapolitanus)
- Carboxysome shell protein csos1c (9 kDa, Protein from Halothiobacillus neapolitanus)
- T=9 minishell carboxysome complex of s4a and s1c shell subunits and csos2 scaffolding protein (9 MDa, Complex from Halothiobacillus neapolitanus)
Cryo-EM structure of IMPDH2 bound to IMP and GAD
Resolution: 1.82 Å
EM Method: Single-particle
Fitted PDBs: 9dmu
Q-score: 0.802
Chen YJ, Iyer SV, Hsieh DC, Li B, Elias HK, Wang T, Li J, Ganbold M, Lien MC, Peng YC, Xie XP, Jayewickreme CD, van den Brink MRM, Brady SF, Lim SK, Parada LF
Nature (2024) 636 pp. 466-473 [ DOI: doi:10.1038/s41586-024-08224-z Pubmed: 39567689 ]
- Potassium ion (39 Da, Ligand)
- [[(2~{r},3~{s},4~{r},5~{r})-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methoxy-oxidanyl-phosphoryl] [(2~{r},3~{s},4~{r},5~{r})-3,4-bis(oxidanyl)-5-[3-(thiophen-2-ylcarbonylamino)pyridin-1-yl]oxolan-2-yl]methyl hydrogen phosphate (746 Da, Ligand)
- Inosinic acid (348 Da, Ligand)
- Inosine-5'-monophosphate dehydrogenase 2 (56 kDa, Protein from Homo sapiens)
- Ternary complex of impdh2 bound to imp and gad (Complex from Homo sapiens)
- Water (18 Da, Ligand)
Resolution: 1.9 Å
EM Method: Single-particle
Fitted PDBs: 8qoi
Q-score: 0.669
Holvec S, Barchet C, Lechner A, Frechin L, De Silva SNT, Hazemann I, Wolff P, von Loeffelholz O, Klaholz BP
Nat Struct Mol Biol (2024) 31 pp. 1251-1264 [ Pubmed: 38844527 DOI: doi:10.1038/s41594-024-01274-x ]
- 40s ribosomal protein s8 (24 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s18 (17 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s14 (16 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l37 (11 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s3 (26 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s16 (16 kDa, Protein from Homo sapiens)
- Ubiquitin-40s ribosomal protein s27a (18 kDa, Protein from Homo sapiens)
- Potassium ion (39 Da, Ligand)
- 60s ribosomal protein l17 (21 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l15 (24 kDa, Protein from Homo sapiens)
- Water (18 Da, Ligand)
- 40s ribosomal protein s13 (17 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s24 (15 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l13a (23 kDa, Protein from Homo sapiens)
- Zinc ion (65 Da, Ligand)
- 40s ribosomal protein s25 (13 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l18 (21 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l21 (18 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s15 (17 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s2 (31 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l35 (14 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s21 (9 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l35a (12 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s29 (6 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s27 (9 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s26 (13 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l9 (21 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s3a (30 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l23a (17 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s4, x isoform (29 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s15a (14 kDa, Protein from Homo sapiens)
- Spermidine (145 Da, Ligand)
- 40s ribosomal protein s23 (15 kDa, Protein from Homo sapiens)
- Large ribosomal subunit protein ul4 (41 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s20 (13 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l27 (15 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l11 (20 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l34 (13 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l14 (23 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l7a (30 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l13 (24 kDa, Protein from Homo sapiens)
- 18s rrna (1740-mer) (603 kDa, RNA from Homo sapiens)
- 60s ribosomal protein l32 (15 kDa, Protein from Homo sapiens)
- Large ribosomal subunit protein ul15 (16 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l37a (10 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l23 (14 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s7 (22 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l10-like (24 kDa, Protein from Homo sapiens)
- 28s rrna (3773-mer) (1 MDa, RNA from Homo sapiens)
- 5s rrna (120-mer) (38 kDa, RNA from Homo sapiens)
- 60s ribosomal protein l39 (6 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s10 (18 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s6 (28 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l36 (12 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s5 (22 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l24 (17 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l36a (12 kDa, Protein from Homo sapiens)
- Large ribosomal subunit protein ul30 (29 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l19 (23 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l30 (12 kDa, Protein from Homo sapiens)
- Magnesium ion (24 Da, Ligand)
- 40s ribosomal protein s28 (7 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l31 (14 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l22 (14 kDa, Protein from Homo sapiens)
- Large ribosomal subunit protein el6 (28 kDa, Protein from Homo sapiens)
- 40s ribosomal protein sa (32 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s11 (18 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l29 (17 kDa, Protein from Homo sapiens)
- 5.8s rrna (156-mer) (50 kDa, RNA from Homo sapiens)
- Human 80s ribosome (4 MDa, Complex from Homo sapiens)
- 60s ribosomal protein l28 (15 kDa, Protein from Homo sapiens)
- Large ribosomal subunit protein ul18 (34 kDa, Protein from Homo sapiens)
- Large ribosomal subunit protein ul3 (46 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l38 (8 kDa, Protein from Homo sapiens)
- Receptor of activated protein c kinase 1 (35 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l8 (28 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l41 (3 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein es19 (16 kDa, Protein from Homo sapiens)
- Ubiquitin-60s ribosomal protein l40 (14 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s12 (14 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l18a (20 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s17 (15 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s9 (22 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l26 (17 kDa, Protein from Homo sapiens)
- Ubiquitin-like fubi-ribosomal protein es30 fusion protein (14 kDa, Protein from Homo sapiens)
Cryo-EM structure of CAK in complex with inhibitor ICEC0943
Resolution: 1.8 Å
EM Method: Single-particle
Fitted PDBs: 8p77
Q-score: 0.719
Cushing VI, Koh AF, Feng J, Jurgaityte K, Bondke A, Kroll SHB, Barbazanges M, Scheiper B, Bahl AK, Barrett AGM, Ali S, Kotecha A, Greber BJ
Nat Commun (2024) 15 pp. 2265-2265 [ Pubmed: 38480681 DOI: doi:10.1038/s41467-024-46375-9 ]
- Cdk-activating kinase assembly factor mat1 (10 kDa, Protein from Homo sapiens)
- Cdk-activating kinase (85 kDa, Complex from Homo sapiens)
- Cyclin-dependent kinase 7 (39 kDa, Protein from Homo sapiens)
- (3s,4s)-4-[[[7-[(phenylmethyl)amino]-3-propan-2-yl-pyrazolo[1,5-a]pyrimidin-5-yl]amino]methyl]piperidin-3-ol (394 Da, Ligand)
- Cyclin-h (37 kDa, Protein from Homo sapiens)
- Water (18 Da, Ligand)
80S S. cerevisiae ribosome with ligands in hybrid-1 pre-translocation (PRE-H1) complex
Resolution: 1.97 Å
EM Method: Single-particle
Fitted PDBs: 8ccs
Q-score: 0.64
Milicevic N, Jenner L, Myasnikov A, Yusupov M, Yusupova G
Nature (2024) 625 pp. 393-400 [ DOI: doi:10.1038/s41586-023-06780-4 Pubmed: 38030725 ]
- 60s acidic ribosomal protein p0 (33 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l19-a (21 kDa, Protein from Saccharomyces cerevisiae)
- 40s ribosomal protein s10-a (12 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l7-a (27 kDa, Protein from Saccharomyces cerevisiae)
- 40s ribosomal protein s16-a (15 kDa, Protein from Saccharomyces cerevisiae)
- Potassium ion (39 Da, Ligand)
- 60s ribosomal protein l43-a (10 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l14-a (15 kDa, Protein from Saccharomyces cerevisiae)
- 40s ribosomal protein s6-a (27 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l31-a (12 kDa, Protein from Saccharomyces cerevisiae)
- Water (18 Da, Ligand)
- 60s ribosomal protein l36-a (11 kDa, Protein from Saccharomyces cerevisiae)
- 40s ribosomal protein s22-a (14 kDa, Protein from Saccharomyces cerevisiae)
- 40s ribosomal protein s28-a (7 kDa, Protein from Saccharomyces cerevisiae)
- Zinc ion (65 Da, Ligand)
- 40s ribosomal protein s27-a (8 kDa, Protein from Saccharomyces cerevisiae)
- 40s ribosomal protein s21-a (9 kDa, Protein from Saccharomyces cerevisiae)
- 40s ribosomal protein s11-a (17 kDa, Protein from Saccharomyces cerevisiae)
- Rps3 isoform 1 (26 kDa, Protein from Saccharomyces cerevisiae)
- 40s ribosomal protein s5 (25 kDa, Protein from Saccharomyces cerevisiae)
- 25s ribosomal rna (1 MDa, RNA from Saccharomyces cerevisiae)
- 60s ribosomal protein l35-a (13 kDa, Protein from Saccharomyces cerevisiae)
- Transfer rna fmet (24 kDa, RNA from Escherichia coli)
- Hlj1_g0030400.mrna.1.cds.1 (6 kDa, Protein from Saccharomyces cerevisiae)
- Di-peptide (296 Da, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l30 (11 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l23-a (14 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l38 (8 kDa, Protein from Saccharomyces cerevisiae)
- Elongating saccharomyces cerevisiae 80s ribosome in complex with ligands (Complex from Saccharomyces cerevisiae)
- 60s ribosomal protein l6-a (20 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l2-a (27 kDa, Protein from Saccharomyces cerevisiae)
- Spermidine (145 Da, Ligand)
- 40s ribosomal protein s17-a (15 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l3 (43 kDa, Protein from Saccharomyces cerevisiae)
- 40s ribosomal protein s24-a (15 kDa, Protein from Saccharomyces cerevisiae)
- 40s ribosomal protein s2 (27 kDa, Protein from Saccharomyces cerevisiae)
- 40s ribosomal protein s1-a (28 kDa, Protein from Saccharomyces cerevisiae)
- 40s ribosomal protein s8-b (22 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l25 (15 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l8-a (28 kDa, Protein from Saccharomyces cerevisiae)
- 5s ribosomal rna (38 kDa, RNA from Saccharomyces cerevisiae)
- 60s ribosomal protein l12-a (17 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l15-a (24 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l20-a (20 kDa, Protein from Saccharomyces cerevisiae)
- 18s ribosomal rna (580 kDa, RNA from Saccharomyces cerevisiae)
- 60s ribosomal protein l33-a (12 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l32 (14 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l24-a (17 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l42-a (12 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l5 (33 kDa, Protein from Saccharomyces cerevisiae)
- 40s ribosomal protein s9-a (22 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l18-a (20 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l34-a (13 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l28 (16 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l21-a (18 kDa, Protein from Saccharomyces cerevisiae)
- 40s ribosomal protein s25-a (12 kDa, Protein from Saccharomyces cerevisiae)
- 5.8s ribosomal rna (50 kDa, RNA from Saccharomyces cerevisiae)
- Magnesium ion (24 Da, Ligand)
- 40s ribosomal protein s0-a (28 kDa, Protein from Saccharomyces cerevisiae)
- 40s ribosomal protein s20 (13 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l10 (25 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l11-a (19 kDa, Protein from Saccharomyces cerevisiae)
- 40s ribosomal protein s15 (16 kDa, Protein from Saccharomyces cerevisiae)
- 40s ribosomal protein s23-a (16 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l13-a (22 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l17-a (20 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l41-a (3 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l4-a (39 kDa, Protein from Saccharomyces cerevisiae)
- Transfer rna phe (24 kDa, RNA from Saccharomyces cerevisiae)
- 60s ribosomal protein l16-a (22 kDa, Protein from Saccharomyces cerevisiae)
- 40s ribosomal protein s14-a (14 kDa, Protein from Saccharomyces cerevisiae)
- 40s ribosomal protein s19-a (15 kDa, Protein from Saccharomyces cerevisiae)
- Guanine nucleotide-binding protein subunit beta-like protein (34 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l9-a (21 kDa, Protein from Saccharomyces cerevisiae)
- 40s ribosomal protein s7-a (21 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l39 (6 kDa, Protein from Saccharomyces cerevisiae)
- Messenger rna (12 kDa, RNA from Saccharomyces cerevisiae)
- Ubiquitin-60s ribosomal protein l40 (14 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l29 (6 kDa, Protein from Saccharomyces cerevisiae)
- 40s ribosomal protein s30-a (7 kDa, Protein from Saccharomyces cerevisiae)
- 40s ribosomal protein s18-a (17 kDa, Protein from Saccharomyces cerevisiae)
- 40s ribosomal protein s4-a (29 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l27-a (15 kDa, Protein from Saccharomyces cerevisiae)
- Ubiquitin-40s ribosomal protein s31 (17 kDa, Protein from Saccharomyces cerevisiae)
- 40s ribosomal protein s26 (13 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l37-a (9 kDa, Protein from Saccharomyces cerevisiae)
- 40s ribosomal protein s13 (17 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l26-a (14 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l22-a (13 kDa, Protein from Saccharomyces cerevisiae)
Resolution: 1.86 Å
EM Method: Single-particle
Fitted PDBs: 8b12
Q-score: 0.771
Ni T, Jiang Q, Ng PC, Shen J, Dou H, Zhu Y, Radecke J, Dykes GF, Huang F, Liu LN, Zhang P
Nat Commun (2023) 14 pp. 5512-5512 [ Pubmed: 37679318 DOI: doi:10.1038/s41467-023-41211-y ]
- Major carboxysome shell protein csos1a (9 kDa, Protein from Halothiobacillus neapolitanus)
- Carboxysome assembly protein csos2b (91 kDa, Protein from Halothiobacillus neapolitanus)
- Mini-shell assembly from halothiobacillus neapolitanus with csos4a/1a and csos2 co-expression (t= 9) (Complex from Halothiobacillus neapolitanus)
- Carboxysome shell vertex protein csos4a (8 kDa, Protein from Halothiobacillus neapolitanus)
- Water (18 Da, Ligand)
E. coli 70S ribosome with an improved MS2 Tag inserted in H98 (Composite Map)
Resolution: 1.85 Å
EM Method: Single-particle
Fitted PDBs: 8fto
Q-score: 0.722
Nissley AJ, Kamal TS, Cate JHD
RNA (2023) 29 pp. 1500-1508 [ Pubmed: 37419664 DOI: doi:10.1261/rna.079690.123 ]
- 30s ribosomal protein s7 (20 kDa, Protein from Escherichia coli)
- Mrna (Complex from Escherichia coli)
- 30s ribosomal protein s15 (10 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l36 (4 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l9 (15 kDa, Protein from Escherichia coli)
- Trna (Complex from Escherichia coli)
- 30s ribosomal protein s2 (26 kDa, Protein from Escherichia coli)
- E. coli 70s ribosome (Complex)
- 30s ribosomal protein s12 (13 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s14 (11 kDa, Protein from Escherichia coli)
- Mrna (8 kDa, RNA from Escherichia coli)
- 50s ribosomal protein l13 (16 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l14 (13 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l15 (15 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l25 (10 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l18 (12 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s9 (14 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s21 (8 kDa, Protein from Escherichia coli)
- 30s subunit (Complex from Escherichia coli)
- 30s ribosomal protein s13 (13 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l17 (14 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l24 (11 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l31 (7 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l20 (13 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l16 (15 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l5 (20 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l33 (6 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l2 (29 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l23 (11 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s18 (9 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s5 (17 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l22 (12 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l6 (18 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s6 (15 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s3 (26 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l34 (5 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l30 (6 kDa, Protein from Escherichia coli)
- Water (18 Da, Ligand)
- 50s ribosomal protein l35 (7 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l32 (6 kDa, Protein from Escherichia coli)
- 50s subunit (Complex from Escherichia coli)
- 30s ribosomal protein s16 (9 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l3 (22 kDa, Protein from Escherichia coli)
- N-formylmethionine (177 Da, Ligand)
- 30s ribosomal protein s8 (14 kDa, Protein from Escherichia coli)
- Magnesium ion (24 Da, Ligand)
- 30s ribosomal protein s4 (23 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s17 (9 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l29 (7 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l4 (22 kDa, Protein from Escherichia coli)
- P-site trna-fmet (24 kDa, RNA from Escherichia coli)
- 30s ribosomal protein s20 (9 kDa, Protein from Escherichia coli)
- 16s rrna (499 kDa, RNA from Escherichia coli)
- 50s ribosomal protein l19 (13 kDa, Protein from Escherichia coli)
- Ribosomal protein l21 (11 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l27 (9 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s10 (11 kDa, Protein from Escherichia coli)
- 23s rrna (952 kDa, RNA from Escherichia coli)
- 30s ribosomal protein s19 (10 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s11 (13 kDa, Protein from Escherichia coli)
- 5s rrna (38 kDa, RNA from Escherichia coli)
- 50s ribosomal protein l28 (9 kDa, Protein from Escherichia coli)
Streptomycin bound to the 30S body
Resolution: 1.79 Å
EM Method: Single-particle
Fitted PDBs: 8cgj
Q-score: 0.729
Paternoga H, Crowe-McAuliffe C, Bock LV, Koller TO, Morici M, Beckert B, Myasnikov AG, Grubmuller H, Novacek J, Wilson DN
Nat Struct Mol Biol (2023) 30 pp. 1380-1392 [ Pubmed: 37550453 DOI: doi:10.1038/s41594-023-01047-y ]
- Small ribosomal subunit protein us5 (17 kDa, Protein from Escherichia coli BW25113)
- 30s ribosomal protein s16 (9 kDa, Protein from Escherichia coli BW25113)
- Small ribosomal subunit protein bs21 (8 kDa, Protein from Escherichia coli BW25113)
- Tetracycline (444 Da, Ligand)
- Small ribosomal subunit protein us11 (13 kDa, Protein from Escherichia coli BW25113)
- Small ribosomal subunit protein us8 (14 kDa, Protein from Escherichia coli BW25113)
- Small ribosomal subunit protein us15 (10 kDa, Protein from Escherichia coli BW25113)
- 30s ribosomal protein s2 (26 kDa, Protein from Escherichia coli BW25113)
- Small ribosomal subunit protein bs6, non-modified isoform (15 kDa, Protein from Escherichia coli BW25113)
- Small ribosomal subunit protein us4 (23 kDa, Protein from Escherichia coli BW25113)
- Potassium ion (39 Da, Ligand)
- 23s rrna (941 kDa, RNA from Escherichia coli BW25113)
- Water (18 Da, Ligand)
- 70s ribosomes with antibiotic cocktail (Complex from Escherichia coli BW25113)
- Magnesium ion (24 Da, Ligand)
- 16s rrna (499 kDa, RNA from Escherichia coli BW25113)
- Small ribosomal subunit protein us12 (13 kDa, Protein from Escherichia coli BW25113)
- Small ribosomal subunit protein us17 (9 kDa, Protein from Escherichia coli BW25113)
- 30s ribosomal protein s20 (9 kDa, Protein from Escherichia coli BW25113)
- Small ribosomal subunit protein us3 (26 kDa, Protein from Escherichia coli BW25113)
- Small ribosomal subunit protein bs18 (9 kDa, Protein from Escherichia coli BW25113)
- [(2~{s},3~{s},4~{s},5~{r},6~{s})-2-[(2~{r},3~{r},4~{r},5~{s})-2-[(1~{r},2~{s},3~{r},4~{r},5~{s},6~{r})-2,4-bis[[azaniumylidene(azanyl)methyl]amino]-3,5,6-tris(oxidanyl)cyclohexyl]oxy-4-[bis(oxidanyl)methyl]-5-methyl-4-oxidanyl-oxolan-3-yl]oxy-6-(hydroxymethyl)-4,5-bis(oxidanyl)oxan-3-yl]-methyl-azanium (602 Da, Ligand)
Gentamicin bound to the 30S body
Resolution: 1.89 Å
EM Method: Single-particle
Fitted PDBs: 8cgu
Q-score: 0.76
Paternoga H, Crowe-McAuliffe C, Bock LV, Koller TO, Morici M, Beckert B, Myasnikov AG, Grubmuller H, Novacek J, Wilson DN
Nat Struct Mol Biol (2023) 30 pp. 1380-1392 [ Pubmed: 37550453 DOI: doi:10.1038/s41594-023-01047-y ]
- Small ribosomal subunit protein us5 (17 kDa, Protein from Escherichia coli BW25113)
- 30s ribosomal protein s16 (9 kDa, Protein from Escherichia coli BW25113)
- Small ribosomal subunit protein bs21 (8 kDa, Protein from Escherichia coli BW25113)
- Small ribosomal subunit protein us11 (13 kDa, Protein from Escherichia coli BW25113)
- Small ribosomal subunit protein us8 (14 kDa, Protein from Escherichia coli BW25113)
- Small ribosomal subunit protein us15 (10 kDa, Protein from Escherichia coli BW25113)
- Small ribosomal subunit protein bs6, non-modified isoform (15 kDa, Protein from Escherichia coli BW25113)
- Small ribosomal subunit protein us4 (23 kDa, Protein from Escherichia coli BW25113)
- (2r,3r,4r,5r)-2-((1s,2s,3r,4s,6r)-4,6-diamino-3-((2r,3r,6s)-3-amino-6-(aminomethyl)-tetrahydro-2h-pyran-2-yloxy)-2-hydr oxycyclohexyloxy)-5-methyl-4-(methylamino)-tetrahydro-2h-pyran-3,5-diol (449 Da, Ligand)
- Potassium ion (39 Da, Ligand)
- 23s rrna (941 kDa, RNA from Escherichia coli BW25113)
- Water (18 Da, Ligand)
- 70s ribosomes with antibiotic cocktail (Complex from Escherichia coli BW25113)
- Magnesium ion (24 Da, Ligand)
- 16s rrna (499 kDa, RNA from Escherichia coli BW25113)
- Small ribosomal subunit protein us12 (13 kDa, Protein from Escherichia coli BW25113)
- 30s ribosomal protein s20 (9 kDa, Protein from Escherichia coli BW25113)
- Small ribosomal subunit protein bs18 (9 kDa, Protein from Escherichia coli BW25113)
- Small ribosomal subunit protein us17 (9 kDa, Protein from Escherichia coli BW25113)