Resolution: 3.3 Å
EM Method: Single-particle
Fitted PDBs: 9er2
Q-score: 0.448
van den Heuvel D, Rodriguez-Martinez M, van der Meer PJ, Nieto Moreno N, Park J, Kim HS, van Schie JJM, Wondergem AP, D'Souza A, Yakoub G, Herlihy AE, Kashyap K, Boissiere T, Walker J, Mitter R, Apelt K, de Lint K, Kirdok I, Ljungman M, Wolthuis RMF, Cramer P, Scharer OD, Kokic G, Svejstrup JQ, Luijsterburg MS
Cell (2024) 187 pp. 7107- [ DOI: doi:10.1016/j.cell.2024.10.018 Pubmed: 39547229 ]
- Dna-directed rna polymerases i, ii, and iii subunit rpabc3 (17 kDa, Protein from Sus scrofa)
- Isoform 1 of inactive serine/threonine-protein kinase 19 (28 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase ii subunit rpb9 (14 kDa, Protein from Sus scrofa)
- Dna-directed rna polymerase subunit (19 kDa, Protein from Sus scrofa)
- Dna-directed rna polymerase ii subunit rpb3 (31 kDa, Protein from Sus scrofa)
- Rna (5'-r(p*cp*ap*ap*ap*ap*up*cp*gp*ap*gp*ap*gp*gp*a)-3') (4 kDa, RNA from Homo sapiens)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc2 (14 kDa, Protein from Sus scrofa)
- Dna-directed rna polymerase ii subunit rpb11-a (13 kDa, Protein from Sus scrofa)
- Dna damage-binding protein 1 (127 kDa, Protein from Homo sapiens)
- Uv-stimulated scaffold protein a (80 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase subunit beta (133 kDa, Protein from Sus scrofa)
- Dna excision repair protein ercc-6 (168 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase ii subunit e (24 kDa, Protein from Sus scrofa)
- Beryllium trifluoride ion (66 Da, Ligand)
- Transcription elongation factor 1 homolog (7 kDa, Protein from Homo sapiens)
- Rna polymerase ii subunit d (16 kDa, Protein from Sus scrofa)
- Nts (16 kDa, DNA from Homo sapiens)
- Ts (15 kDa, DNA from Homo sapiens)
- Adenosine-5'-diphosphate (427 Da, Ligand)
- Rna polymerase ii subunit k (7 kDa, Protein from Sus scrofa)
- Zinc ion (65 Da, Ligand)
- Dna-directed rna polymerase subunit (218 kDa, Protein from Sus scrofa)
- Magnesium ion (24 Da, Ligand)
- Dna excision repair protein ercc-8 (44 kDa, Protein from Homo sapiens)
- Pol ii-tcr-stk19 (Complex from Homo sapiens)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc5 (7 kDa, Protein from Sus scrofa)
Structure of Pol II-TC-NER-STK19 complex, composite map
Resolution: 3.4 Å
EM Method: Single-particle
Fitted PDBs: 9fd2
Q-score: 0.436
Ramadhin AR, Lee SH, Zhou D, Salmazo A, Gonzalo-Hansen C, van Sluis M, Blom CMA, Janssens RC, Raams A, Dekkers D, Bezstarosti K, Slade D, Vermeulen W, Pines A, Demmers JAA, Bernecky C, Sixma TK, Marteijn JA
Mol Cell (2024) 84 pp. 4740- [ DOI: doi:10.1016/j.molcel.2024.10.030 Pubmed: 39547223 ]
- Dna-directed rna polymerase ii subunit rpb3 (31 kDa, Protein from Sus scrofa domesticus)
- Dna damage-binding protein 1 (129 kDa, Protein from Homo sapiens)
- Dna excision repair protein ercc-6 (168 kDa, Protein from Homo sapiens)
- Template dna (18 kDa, DNA from Homo sapiens)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc2 (14 kDa, Protein from Sus scrofa domesticus)
- Dna-directed rna polymerase subunit (217 kDa, Protein from Sus scrofa domesticus)
- Zinc ion (65 Da, Ligand)
- Uv-stimulated scaffold protein a (82 kDa, Protein from Homo sapiens)
- Rna polymerase ii, i and iii subunit k (7 kDa, Protein from Sus scrofa domesticus)
- Dna-directed rna polymerase ii subunit e (24 kDa, Protein from Sus scrofa domesticus)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc3 (17 kDa, Protein from Sus scrofa domesticus)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc5 (7 kDa, Protein from Sus scrofa domesticus)
- Transcription elongation factor 1 homolog (9 kDa, Protein from Homo sapiens)
- Det1- and ddb1-associated protein 1 (16 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase ii subunit rpb11-a (13 kDa, Protein from Sus scrofa domesticus)
- Dna-directed rna polymerase ii subunit rpb9 (14 kDa, Protein from Sus scrofa domesticus)
- Dna-directed rna polymerase subunit beta (147 kDa, Protein from Sus scrofa domesticus)
- Ternary complex of pol ii-tc-ner-stk19, composite map (1 MDa, Complex from Homo sapiens)
- Non-template dna (18 kDa, DNA from Homo sapiens)
- Dna-directed rna polymerase subunit (19 kDa, Protein from Sus scrofa domesticus)
- Rna polymerase ii subunit d (16 kDa, Protein from Sus scrofa domesticus)
- Rna (8 kDa, RNA from Homo sapiens)
- Dna excision repair protein ercc-8 (45 kDa, Protein from Homo sapiens)
- Magnesium ion (24 Da, Ligand)
- Inactive serine/threonine-protein kinase 19 (28 kDa, Protein from Homo sapiens)
Respiratory complex I from Paracoccus denitrificans in MSP2N2 nanodiscs
Resolution: 2.3 Å
EM Method: Single-particle
Fitted PDBs: 8qby
Q-score: 0.683
Ivanov BS, Bridges HR, Hirst J, Jarman OD
To Be Published
- Nadh-quinone oxidoreductase subunit k (10 kDa, Protein from Paracoccus denitrificans PD1222)
- Nadh-quinone oxidoreductase subunit a (13 kDa, Protein from Paracoccus denitrificans PD1222)
- Nadh-quinone oxidoreductase chain 10 (21 kDa, Protein from Paracoccus denitrificans PD1222)
- Respiratory complex i (Complex from Paracoccus denitrificans PD1222)
- Nadh dehydrogenase subunit e (26 kDa, Protein from Paracoccus denitrificans PD1222)
- Fe2/s2 (inorganic) cluster (175 Da, Ligand)
- Zinc ion (65 Da, Ligand)
- Sodium ion (22 Da, Ligand)
- Nadh dehydrogenase subunit l (77 kDa, Protein from Paracoccus denitrificans PD1222)
- O-[(r)-{[(2r)-2,3-bis(octadecanoyloxy)propyl]oxy}(hydroxy)phosphoryl]-l-serine (792 Da, Ligand)
- Water (18 Da, Ligand)
- Nadh:ubiquinone oxidoreductase 17.2 kd subunit (14 kDa, Protein from Paracoccus denitrificans PD1222)
- Nadh-quinone oxidoreductase subunit n (52 kDa, Protein from Paracoccus denitrificans PD1222)
- Flavin mononucleotide (456 Da, Ligand)
- Nadh-quinone oxidoreductase subunit f (47 kDa, Protein from Paracoccus denitrificans PD1222)
- 1,2-distearoyl-sn-glycerophosphoethanolamine (748 Da, Ligand)
- Nadh-quinone oxidoreductase subunit c (23 kDa, Protein from Paracoccus denitrificans PD1222)
- Etc complex i subunit conserved region (12 kDa, Protein from Paracoccus denitrificans PD1222)
- Protein-l-isoaspartate o-methyltransferase (23 kDa, Protein from Paracoccus denitrificans PD1222)
- Nadh-quinone oxidoreductase subunit h (38 kDa, Protein from Paracoccus denitrificans PD1222)
- Iron/sulfur cluster (351 Da, Ligand)
- Nadh-quinone oxidoreductase (73 kDa, Protein from Paracoccus denitrificans PD1222)
- Nadh-quinone oxidoreductase subunit d (46 kDa, Protein from Paracoccus denitrificans PD1222)
- Nadh-quinone oxidoreductase subunit i (18 kDa, Protein from Paracoccus denitrificans PD1222)
- Calcium ion (40 Da, Ligand)
- Cardiolipin (1 kDa, Ligand)
- 1,2-diacyl-sn-glycero-3-phosphocholine (790 Da, Ligand)
- Ubiquinone-10 (863 Da, Ligand)
- Zinc finger chcc-type domain-containing protein (7 kDa, Protein from Paracoccus denitrificans PD1222)
- Nadh-quinone oxidoreductase subunit b (19 kDa, Protein from Paracoccus denitrificans PD1222)
- 1,2-diacyl-glycerol-3-sn-phosphate (704 Da, Ligand)
- Nadh dehydrogenase subunit m (56 kDa, Protein from Paracoccus denitrificans PD1222)
The structure of human Pdcd4 bound to the 40S-eIF4A-eIF3-eIF1 complex
Brito Querido J, Sokabe M, Diaz-Lopez I, Gordiyenko Y, Zuber P, Du Y, Albacete-Albacete L, Ramakrishnan V, Fraser CS
Nat Commun (2024) 15 pp. 6633-6633 [ DOI: doi:10.1038/s41467-024-50672-8 Pubmed: 39117603 ]
- Eukaryotic translation initiation factor 3 subunit b (77 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein es28 (7 kDa, Protein from Homo sapiens)
- Acetic acid (60 Da, Ligand)
- Small ribosomal subunit protein es26 (13 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein es4, x isoform (29 kDa, Protein from Homo sapiens)
- Eukaryotic translation initiation factor 3 subunit e (52 kDa, Protein from Homo sapiens)
- Eukaryotic translation initiation factor 3 subunit m (42 kDa, Protein from Homo sapiens)
- Eukaryotic initiation factor 4a-i (44 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein es7 (22 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein us5 (31 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein es17 (15 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein us10 (13 kDa, Protein from Homo sapiens)
- Programmed cell death protein 4 (52 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein us17 (18 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein es21 (9 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein es10 (18 kDa, Protein from Homo sapiens)
- Rrna (555 kDa, RNA from Homo sapiens)
- Spermidine (145 Da, Ligand)
- Eukaryotic translation initiation factor 1 (12 kDa, Protein from Homo sapiens)
- Eukaryotic translation initiation factor 3 subunit l (66 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein es8 (24 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein us15 (17 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein us2 (32 kDa, Protein from Homo sapiens)
- Eukaryotic translation initiation factor 3 subunit c (105 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein es32 (3 kDa, Protein from Homo sapiens)
- Eukaryotic translation initiation factor 3 subunit i (36 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein us12 (15 kDa, Protein from Homo sapiens)
- Receptor of activated protein c kinase 1 (35 kDa, Protein from Homo sapiens)
- Potassium ion (39 Da, Ligand)
- Small ribosomal subunit protein es12 (14 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein es24 (15 kDa, Protein from Homo sapiens)
- Eukaryotic translation initiation factor 3 subunit f (37 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein us13 (17 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein us7 (22 kDa, Protein from Homo sapiens)
- Eukaryotic translation initiation factor 3 subunit h (39 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein es25 (13 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein us8 (14 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein es19 (16 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein us9 (16 kDa, Protein from Homo sapiens)
- Pdcd4-40s-eif4a-eif3-eif1 complex (2 MDa, Complex from Homo sapiens)
- Small ribosomal subunit protein es6 (28 kDa, Protein from Homo sapiens)
- Eukaryotic translation initiation factor 3 subunit k (25 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein es30 (6 kDa, Protein from Homo sapiens)
- Ubiquitin-40s ribosomal protein s27a (18 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s14 (16 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein us19 (17 kDa, Protein from Homo sapiens)
- Eukaryotic translation initiation factor 3 subunit a (166 kDa, Protein from Homo sapiens)
- Zinc ion (65 Da, Ligand)
- Small ribosomal subunit protein es27 (9 kDa, Protein from Homo sapiens)
- Eukaryotic translation initiation factor 3 subunit d (64 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein us4 (22 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein us3 (26 kDa, Protein from Homo sapiens)
- Eukaryotic translation initiation factor 3 subunit g (35 kDa, Protein from Homo sapiens)
- Magnesium ion (24 Da, Ligand)
- Small ribosomal subunit protein us14 (6 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein es1 (30 kDa, Protein from Homo sapiens)
N5-methyl-H4MPT:CoM methyltransferase -coenzyme M complex + CoM
Aziz I, Kayastha K, Kaltwasser S, Vonck J, Welsch S, Murohy BJ, Kahnt J, Wu D, Wagner T, Shima S, Ermler U
To Be Published
- Tetrahydromethanopterin s-methyltransferase subunit d (22 kDa, Protein from Methanothermobacter marburgensis)
- Water (18 Da, Ligand)
- Sodium ion (22 Da, Ligand)
- Tetrahydromethanopterin s-methyltransferase subunit a 1 (25 kDa, Protein from Methanothermobacter marburgensis)
- Tetrahydromethanopterin s-methyltransferase subunit e (31 kDa, Protein from Methanothermobacter marburgensis)
- Magnesium ion (24 Da, Ligand)
- Methyl-h4mpt:com methyltransferase (430 MDa, Complex from Methanothermobacter marburgensis)
- 1-thioethanesulfonic acid (142 Da, Ligand)
- Tetrahydromethanopterin s-methyltransferase subunit g (9 kDa, Protein from Methanothermobacter marburgensis)
- [(2~{s},7~{r},11~{r},15~{s},19~{s},22~{s},26~{s},30~{r},34~{r},39~{s},43~{r},47~{r},51~{s},55~{s},58~{s},62~{s},66~{r},70~{r})-39-[[(2~{r},3~{r},4~{s},5~{s},6~{r})-6-(hydroxymethyl)-3,4,5-tris(oxidanyl)oxan-2-yl]oxymethyl]-7,11,15,19,22,26,30,34,43,47,51,55,58,62,66,70-hexadecamethyl-1,4,37,40-tetraoxacyclodoheptacont-2-yl]methyl [(2~{r},3~{s},5~{r},6~{r})-2,3,4,5,6-pentakis(oxidanyl)cyclohexyl] hydrogen phosphate (1 kDa, Ligand)
- Tetrahydromethanopterin s-methyltransferase subunit f (7 kDa, Protein from Methanothermobacter marburgensis)
- Tetrahydromethanopterin s-methyltransferase subunit c (27 kDa, Protein from Methanothermobacter marburgensis)
- Tetrahydromethanopterin s-methyltransferase subunit b (10 kDa, Protein from Methanothermobacter marburgensis)
Structure of human 48S translation initiation complex in open codon scanning state (48S-1)
Resolution: 3.4 Å
EM Method: Single-particle
Fitted PDBs: 8pj1
Q-score: 0.368
Petrychenko V, Yi SH, Liedtke D, Peng BZ, Rodnina MV, Fischer N
Nat Struct Mol Biol (2024) [ DOI: doi:10.1038/s41594-024-01378-4 Pubmed: 39289545 ]
- 60s ribosomal protein l41 (3 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s13 (17 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s16 (16 kDa, Protein from Homo sapiens)
- 40s ribosomal protein sa (32 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s28 (7 kDa, Protein from Homo sapiens)
- Receptor of activated protein c kinase 1 (35 kDa, Protein from Homo sapiens)
- Eukaryotic translation initiation factor 2 subunit 2 (38 kDa, Protein from Homo sapiens)
- Guanosine-5'-triphosphate (523 Da, Ligand)
- 40s ribosomal protein s20 (13 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s2 (31 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s23 (15 kDa, Protein from Homo sapiens)
- Zinc ion (65 Da, Ligand)
- Eukaryotic translation initiation factor 3 subunit f (37 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s26 (13 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s29 (6 kDa, Protein from Homo sapiens)
- Eukaryotic translation initiation factor 3 subunit k (25 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s14 (16 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s12 (14 kDa, Protein from Homo sapiens)
- Mrna (82 kDa, RNA from Homo sapiens)
- 40s ribosomal protein s15 (17 kDa, Protein from Homo sapiens)
- Eukaryotic translation initiation factor 3 subunit l (66 kDa, Protein from Homo sapiens)
- Eukaryotic translation initiation factor 3 subunit g (35 kDa, Protein from Homo sapiens)
- 18s rrna (603 kDa, RNA from Homo sapiens)
- 40s ribosomal protein s5 (22 kDa, Protein from Homo sapiens)
- Ubiquitin (18 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s19 (16 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s27 (9 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s7 (22 kDa, Protein from Homo sapiens)
- Eukaryotic translation initiation factor 3 subunit h (39 kDa, Protein from Homo sapiens)
- Eukaryotic translation initiation factor 3 subunit d (64 kDa, Protein from Homo sapiens)
- Eukaryotic translation initiation factor 2 subunit 1 (36 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s24 (15 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s30 (6 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s10 (18 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s3a (30 kDa, Protein from Homo sapiens)
- Eukaryotic translation initiation factor 3 subunit a (166 kDa, Protein from Homo sapiens)
- Eukaryotic translation initiation factor 3 subunit b (92 kDa, Protein from Homo sapiens)
- Eukaryotic translation initiation factor 3 subunit e (52 kDa, Protein from Homo sapiens)
- Methionine (149 Da, Ligand)
- 40s ribosomal protein s25 (13 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s11 (18 kDa, Protein from Homo sapiens)
- Eukaryotic translation initiation factor 3 subunit c (105 kDa, Protein from Homo sapiens)
- Eukaryotic translation initiation factor 3 subunit i (36 kDa, Protein from Homo sapiens)
- Eukaryotic translation initiation factor 1 (12 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s21 (9 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s9 (22 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s15a (14 kDa, Protein from Homo sapiens)
- Human 48s initiation complex 40s-eif1-eif1a-eif2-eif3-trna-met-mrna (Complex from Homo sapiens)
- 40s ribosomal protein s18 (17 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s3 (26 kDa, Protein from Homo sapiens)
- Eukaryotic translation initiation factor 1a, x-chromosomal (16 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s8 (24 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s6 (28 kDa, Protein from Homo sapiens)
- Magnesium ion (24 Da, Ligand)
- 40s ribosomal protein s4, x isoform (29 kDa, Protein from Homo sapiens)
- Eukaryotic translation initiation factor 2 subunit 3 (51 kDa, Protein from Homo sapiens)
- Initiator met-trna-i (24 kDa, RNA from Homo sapiens)
- 40s ribosomal protein s17 (15 kDa, Protein from Homo sapiens)
- Eukaryotic translation initiation factor 3 subunit m (42 kDa, Protein from Homo sapiens)
Resolution: 3.4 Å
EM Method: Single-particle
Fitted PDBs: 8pj2
Q-score: 0.32
Petrychenko V, Yi SH, Liedtke D, Peng BZ, Rodnina MV, Fischer N
Nat Struct Mol Biol (2024) [ Pubmed: 39289545 DOI: doi:10.1038/s41594-024-01378-4 ]
- 40s ribosomal protein s26 (13 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s25 (13 kDa, Protein from Homo sapiens)
- Mrna (82 kDa, RNA from Homo sapiens)
- 40s ribosomal protein s28 (7 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s16 (16 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s30 (6 kDa, Protein from Homo sapiens)
- Eukaryotic translation initiation factor 3 subunit e (52 kDa, Protein from Homo sapiens)
- Eukaryotic translation initiation factor 3 subunit m (42 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s9 (22 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s11 (18 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s24 (15 kDa, Protein from Homo sapiens)
- 40s ribosomal protein sa (32 kDa, Protein from Homo sapiens)
- Mrna, 18s rrna, eukaryotic translation initiation factor 1a, x-chromosomal, initiator met-trna-i and eukaryotic translation initiation factor 5 (Complex from Homo sapiens)
- Eukaryotic translation initiation factor 3 subunit l (66 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s10 (18 kDa, Protein from Homo sapiens)
- Initiator met-trna-i (24 kDa, RNA from Homo sapiens)
- Eukaryotic translation initiation factor 5 (49 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s27 (9 kDa, Protein from Homo sapiens)
- Eukaryotic translation initiation factor 3 subunit c (105 kDa, Protein from Homo sapiens)
- Eukaryotic translation initiation factor 3 subunit i (36 kDa, Protein from Homo sapiens)
- Receptor of activated protein c kinase 1 (35 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s20 (13 kDa, Protein from Homo sapiens)
- Eukaryotic translation initiation factor 2 subunit 3 (51 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s13 (17 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s17 (15 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s15 (17 kDa, Protein from Homo sapiens)
- Eukaryotic translation initiation factor 3 subunit f (37 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s15a (14 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s6 (28 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s12 (14 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s29 (6 kDa, Protein from Homo sapiens)
- Human 48s initiation complex 40s-eif1a-eif2-eif3-eif5-trna-met-mrna (Complex)
- Eukaryotic translation initiation factor 3 subunit h (39 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s18 (17 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l41 (3 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s3 (26 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s2 (31 kDa, Protein from Homo sapiens)
- 18s rrna (603 kDa, RNA from Homo sapiens)
- 40s ribosomal protein s5 (22 kDa, Protein from Homo sapiens)
- Eukaryotic translation initiation factor 3 subunit k (25 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s7 (22 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s21 (9 kDa, Protein from Homo sapiens)
- Human 48s initiation complex (Complex from Homo sapiens)
- 40s ribosomal protein s14 (16 kDa, Protein from Homo sapiens)
- Eukaryotic translation initiation factor 3 subunit a (166 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s23 (15 kDa, Protein from Homo sapiens)
- Zinc ion (65 Da, Ligand)
- Eukaryotic translation initiation factor 3 subunit d (64 kDa, Protein from Homo sapiens)
- Eukaryotic translation initiation factor 3 subunit b (92 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s4, x isoform (29 kDa, Protein from Homo sapiens)
- Ubiquitin (18 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s8 (24 kDa, Protein from Homo sapiens)
- Magnesium ion (24 Da, Ligand)
- Eukaryotic translation initiation factor 3 subunit g (35 kDa, Protein from Homo sapiens)
- Eukaryotic translation initiation factor 1a, x-chromosomal (16 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s19 (16 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s3a (30 kDa, Protein from Homo sapiens)
- Eukaryotic translation initiation factor 2 subunit 1 (36 kDa, Protein from Homo sapiens)
Resolution: 3.7 Å
EM Method: Single-particle
Fitted PDBs: 8pj3
Q-score: 0.312
Petrychenko V, Yi SH, Liedtke D, Peng BZ, Rodnina MV, Fischer N
Nat Struct Mol Biol (2024) [ DOI: doi:10.1038/s41594-024-01378-4 Pubmed: 39289545 ]
- 60s ribosomal protein l41 (3 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s13 (17 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s16 (16 kDa, Protein from Homo sapiens)
- 40s ribosomal protein sa (32 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s28 (7 kDa, Protein from Homo sapiens)
- Receptor of activated protein c kinase 1 (35 kDa, Protein from Homo sapiens)
- Guanosine-5'-triphosphate (523 Da, Ligand)
- 40s ribosomal protein s20 (13 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein es30 (14 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s2 (31 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s23 (15 kDa, Protein from Homo sapiens)
- Zinc ion (65 Da, Ligand)
- Eukaryotic translation initiation factor 3 subunit f (37 kDa, Protein from Homo sapiens)
- Eukaryotic translation initiation factor 5b (139 kDa, Protein from Homo sapiens)
- Sodium ion (22 Da, Ligand)
- 40s ribosomal protein s26 (13 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s29 (6 kDa, Protein from Homo sapiens)
- Eukaryotic translation initiation factor 3 subunit k (25 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s14 (16 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s12 (14 kDa, Protein from Homo sapiens)
- Human 48s initiation complex 40s-eif1a-eif2-eif3-eif5-eif5b-trna-met-mrna (Complex from Homo sapiens)
- Mrna (82 kDa, RNA from Homo sapiens)
- 40s ribosomal protein s15 (17 kDa, Protein from Homo sapiens)
- Eukaryotic translation initiation factor 3 subunit l (66 kDa, Protein from Homo sapiens)
- Eukaryotic translation initiation factor 3 subunit g (35 kDa, Protein from Homo sapiens)
- 18s rrna (603 kDa, RNA from Homo sapiens)
- 40s ribosomal protein s5 (22 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s19 (16 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s27 (9 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s7 (22 kDa, Protein from Homo sapiens)
- Eukaryotic translation initiation factor 3 subunit h (39 kDa, Protein from Homo sapiens)
- Eukaryotic translation initiation factor 3 subunit d (64 kDa, Protein from Homo sapiens)
- Eukaryotic translation initiation factor 2 subunit 1 (36 kDa, Protein from Homo sapiens)
- Eukaryotic translation initiation factor 5 (49 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s24 (15 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s10 (18 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s3a (30 kDa, Protein from Homo sapiens)
- Eukaryotic translation initiation factor 3 subunit a (166 kDa, Protein from Homo sapiens)
- Eukaryotic translation initiation factor 3 subunit b (92 kDa, Protein from Homo sapiens)
- Eukaryotic translation initiation factor 3 subunit e (52 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s25 (13 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s11 (18 kDa, Protein from Homo sapiens)
- Eukaryotic translation initiation factor 3 subunit c (105 kDa, Protein from Homo sapiens)
- Eukaryotic translation initiation factor 3 subunit i (36 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s21 (9 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s9 (22 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s15a (14 kDa, Protein from Homo sapiens)
- Ubiquitin (18 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s18 (17 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s3 (26 kDa, Protein from Homo sapiens)
- Eukaryotic translation initiation factor 1a, x-chromosomal (16 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s8 (24 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s6 (28 kDa, Protein from Homo sapiens)
- Magnesium ion (24 Da, Ligand)
- 40s ribosomal protein s4, x isoform (29 kDa, Protein from Homo sapiens)
- Eukaryotic translation initiation factor 2 subunit 3 (51 kDa, Protein from Homo sapiens)
- Initiator met-trna-i (24 kDa, RNA from Homo sapiens)
- 40s ribosomal protein s17 (15 kDa, Protein from Homo sapiens)
- Eukaryotic translation initiation factor 3 subunit m (42 kDa, Protein from Homo sapiens)
Structure of human 48S translation initiation complex after eIF5 release (48S-4)
Resolution: 3.2 Å
EM Method: Single-particle
Fitted PDBs: 8pj4
Q-score: 0.361
Petrychenko V, Yi SH, Liedtke D, Peng BZ, Rodnina MV, Fischer N
Nat Struct Mol Biol (2025) 32 pp. 62-72 [ DOI: doi:10.1038/s41594-024-01378-4 Pubmed: 39289545 ]
- 60s ribosomal protein l41 (3 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s13 (17 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s16 (16 kDa, Protein from Homo sapiens)
- 40s ribosomal protein sa (32 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s28 (7 kDa, Protein from Homo sapiens)
- Receptor of activated protein c kinase 1 (35 kDa, Protein from Homo sapiens)
- Guanosine-5'-triphosphate (523 Da, Ligand)
- 40s ribosomal protein s20 (13 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein es30 (14 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s2 (31 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s23 (15 kDa, Protein from Homo sapiens)
- Zinc ion (65 Da, Ligand)
- Eukaryotic translation initiation factor 3 subunit f (37 kDa, Protein from Homo sapiens)
- Eukaryotic translation initiation factor 5b (139 kDa, Protein from Homo sapiens)
- Sodium ion (22 Da, Ligand)
- 40s ribosomal protein s26 (13 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s29 (6 kDa, Protein from Homo sapiens)
- Eukaryotic translation initiation factor 3 subunit k (25 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s14 (16 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s12 (14 kDa, Protein from Homo sapiens)
- Mrna (82 kDa, RNA from Homo sapiens)
- 40s ribosomal protein s15 (17 kDa, Protein from Homo sapiens)
- Eukaryotic translation initiation factor 3 subunit l (66 kDa, Protein from Homo sapiens)
- Eukaryotic translation initiation factor 3 subunit g (35 kDa, Protein from Homo sapiens)
- 18s rrna (603 kDa, RNA from Homo sapiens)
- 40s ribosomal protein s5 (22 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s19 (16 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s27 (9 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s7 (22 kDa, Protein from Homo sapiens)
- Eukaryotic translation initiation factor 3 subunit h (39 kDa, Protein from Homo sapiens)
- Eukaryotic translation initiation factor 3 subunit d (64 kDa, Protein from Homo sapiens)
- Eukaryotic translation initiation factor 2 subunit 1 (36 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s24 (15 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s10 (18 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s3a (30 kDa, Protein from Homo sapiens)
- Eukaryotic translation initiation factor 3 subunit a (166 kDa, Protein from Homo sapiens)
- Eukaryotic translation initiation factor 3 subunit b (92 kDa, Protein from Homo sapiens)
- Eukaryotic translation initiation factor 3 subunit e (52 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s25 (13 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s11 (18 kDa, Protein from Homo sapiens)
- Eukaryotic translation initiation factor 3 subunit c (105 kDa, Protein from Homo sapiens)
- Eukaryotic translation initiation factor 3 subunit i (36 kDa, Protein from Homo sapiens)
- Human 48s initiation complex 40s-eif1a-eif2-eif3-eif5b-trna-met-mrna (Complex from Homo sapiens)
- 40s ribosomal protein s21 (9 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s9 (22 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s15a (14 kDa, Protein from Homo sapiens)
- Ubiquitin (18 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s18 (17 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s3 (26 kDa, Protein from Homo sapiens)
- Eukaryotic translation initiation factor 1a, x-chromosomal (16 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s8 (24 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s6 (28 kDa, Protein from Homo sapiens)
- Magnesium ion (24 Da, Ligand)
- 40s ribosomal protein s4, x isoform (29 kDa, Protein from Homo sapiens)
- Eukaryotic translation initiation factor 2 subunit 3 (51 kDa, Protein from Homo sapiens)
- Initiator met-trna-i (24 kDa, RNA from Homo sapiens)
- 40s ribosomal protein s17 (15 kDa, Protein from Homo sapiens)
- Eukaryotic translation initiation factor 3 subunit m (42 kDa, Protein from Homo sapiens)
Resolution: 2.9 Å
EM Method: Single-particle
Fitted PDBs: 8pj5
Q-score: 0.437
Petrychenko V, Yi SH, Liedtke D, Peng BZ, Rodnina MV, Fischer N
Nat Struct Mol Biol (2024) [ DOI: doi:10.1038/s41594-024-01378-4 Pubmed: 39289545 ]
- 60s ribosomal protein l41 (3 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s13 (17 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s16 (16 kDa, Protein from Homo sapiens)
- 40s ribosomal protein sa (32 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s28 (7 kDa, Protein from Homo sapiens)
- Receptor of activated protein c kinase 1 (35 kDa, Protein from Homo sapiens)
- Guanosine-5'-triphosphate (523 Da, Ligand)
- 40s ribosomal protein s20 (13 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s2 (31 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s23 (15 kDa, Protein from Homo sapiens)
- Zinc ion (65 Da, Ligand)
- Eukaryotic translation initiation factor 3 subunit f (37 kDa, Protein from Homo sapiens)
- Eukaryotic translation initiation factor 5b (139 kDa, Protein from Homo sapiens)
- Human 48s initiation complex 40s-eif1a-eif3-eif5-eif5b-trna-met-mrna (Complex from Homo sapiens)
- 40s ribosomal protein s26 (13 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s29 (6 kDa, Protein from Homo sapiens)
- Eukaryotic translation initiation factor 3 subunit k (25 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s14 (16 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s12 (14 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s30 (6 kDa, Protein from Homo sapiens)
- Mrna (82 kDa, RNA from Homo sapiens)
- 40s ribosomal protein s15 (17 kDa, Protein from Homo sapiens)
- Eukaryotic translation initiation factor 3 subunit l (66 kDa, Protein from Homo sapiens)
- Eukaryotic translation initiation factor 3 subunit g (35 kDa, Protein from Homo sapiens)
- 18s rrna (603 kDa, RNA from Homo sapiens)
- 40s ribosomal protein s5 (22 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s19 (16 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s27 (9 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s7 (22 kDa, Protein from Homo sapiens)
- Eukaryotic translation initiation factor 3 subunit h (39 kDa, Protein from Homo sapiens)
- Eukaryotic translation initiation factor 3 subunit d (64 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s24 (15 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s10 (18 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s3a (30 kDa, Protein from Homo sapiens)
- Eukaryotic translation initiation factor 3 subunit a (166 kDa, Protein from Homo sapiens)
- Eukaryotic translation initiation factor 3 subunit b (92 kDa, Protein from Homo sapiens)
- Eukaryotic translation initiation factor 3 subunit e (52 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s25 (13 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s11 (18 kDa, Protein from Homo sapiens)
- Eukaryotic translation initiation factor 3 subunit c (105 kDa, Protein from Homo sapiens)
- Eukaryotic translation initiation factor 3 subunit i (36 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s21 (9 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s9 (22 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s15a (14 kDa, Protein from Homo sapiens)
- Ubiquitin (18 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s18 (17 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s3 (26 kDa, Protein from Homo sapiens)
- Eukaryotic translation initiation factor 1a, x-chromosomal (16 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s8 (24 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s6 (28 kDa, Protein from Homo sapiens)
- Magnesium ion (24 Da, Ligand)
- 40s ribosomal protein s4, x isoform (29 kDa, Protein from Homo sapiens)
- Initiator met-trna-i (24 kDa, RNA from Homo sapiens)
- 40s ribosomal protein s17 (15 kDa, Protein from Homo sapiens)
- Eukaryotic translation initiation factor 3 subunit m (42 kDa, Protein from Homo sapiens)