Resolution: 2.8 Å
EM Method: Single-particle
Fitted PDBs: 7qhm
Q-score: 0.567
Kao WC, Ortmann de Percin Northumberland C, Cheng TC, Ortiz J, Durand A, von Loeffelholz O, Schilling O, Biniossek ML, Klaholz BP, Hunte C
Nat Commun (2022) 13 pp. 545-545 [ Pubmed: 35087070 DOI: doi:10.1038/s41467-022-28179-x ]
- Oxygen molecule (31 Da, Ligand)
- [(2~{r})-3-[[(1~{s},2~{r},3~{s},4~{s},5~{r},6~{r})-2-[(2~{r},3~{s},4~{s},5~{s},6~{r})-6-[[(2~{s},3~{s},4~{s},5~{s},6~{r})-6-[[(2~{s},3~{s},4~{s},5~{s},6~{r})-6-(hydroxymethyl)-3-[(2~{r},3~{s},4~{s},5~{s},6~{r})-6-(hydroxymethyl)-3,4,5-tris(oxidanyl)oxan-2-yl]oxy-4,5-bis(oxidanyl)oxan-2-yl]oxymethyl]-3,4,5-tris(oxidanyl)oxan-2-yl]oxymethyl]-3,4,5-tris(oxidanyl)oxan-2-yl]oxy-3,4,5-tris(oxidanyl)-6-[(2~{r},3~{s},4~{s},5~{s},6~{r})-3,4,5-tris(oxidanyl)-6-(undecanoyloxymethyl)oxan-2-yl]oxy-cyclohexyl]oxy-oxidanyl-phosphoryl]oxy-2-undecanoyloxy-propyl] (10~{r})-10-methyldodecanoate (1 kDa, Ligand)
- Heme c (618 Da, Ligand)
- Cytochrome bc1 complex cytochrome c subunit (29 kDa, Protein from Corynebacterium glutamicum ATCC 13032)
- Thiamine biosynthesis protein x (17 kDa, Protein from Corynebacterium glutamicum ATCC 13032)
- Dodecyl-beta-d-maltoside (510 Da, Ligand)
- Fe2/s2 (inorganic) cluster (175 Da, Ligand)
- Cytochrome bc1 complex rieske iron-sulfur subunit (45 kDa, Protein from Corynebacterium glutamicum ATCC 13032)
- Azide ion (42 Da, Ligand)
- Actinobacterial supercomplex, subunit c (ascc) (8 kDa, Protein from Corynebacterium glutamicum ATCC 13032)
- Hypothetical membrane protein (6 kDa, Protein from Corynebacterium glutamicum ATCC 13032)
- Uncharacterized membrane protein cgl2017/cg2211 (16 kDa, Protein from Corynebacterium glutamicum ATCC 13032)
- Copper (ii) ion (63 Da, Ligand)
- Lycopene (536 Da, Ligand)
- Uncharacterized protein cgl2664/cg2949 (16 kDa, Protein from Corynebacterium glutamicum ATCC 13032)
- Cytochrome c oxidase polypeptide 4 (15 kDa, Protein from Corynebacterium glutamicum ATCC 13032)
- Water (18 Da, Ligand)
- Menaquinone-9 (785 Da, Ligand)
- 1,2-distearoyl-sn-glycerophosphoethanolamine (748 Da, Ligand)
- Cytochrome bcc-aa3 supercomplex (Complex from Corynebacterium glutamicum ATCC 13032)
- Heme-as (920 Da, Ligand)
- Manganese (ii) ion (54 Da, Ligand)
- Cytochrome bc1 complex cytochrome b subunit (59 kDa, Protein from Corynebacterium glutamicum ATCC 13032)
- Palmitic acid (256 Da, Ligand)
- Stigmatellin a (514 Da, Ligand)
- Protoporphyrin ix containing fe (616 Da, Ligand)
- (2r)-2-(hexadecanoyloxy)-3-{[(s)-hydroxy{[(1r,2r,3r,4r,5r,6s)-2,3,4,5,6-pentahydroxycyclohexyl]oxy}phosphoryl]oxy}propyl (9s)-9-methyloctadecanoate (853 Da, Ligand)
- Diacyl glycerol (625 Da, Ligand)
- Cytochrome c oxidase subunit 1 (66 kDa, Protein from Corynebacterium glutamicum ATCC 13032)
- Calcium ion (40 Da, Ligand)
- Cardiolipin (1 kDa, Ligand)
- Dinuclear copper ion (127 Da, Ligand)
- Hypothetical membrane protein (12 kDa, Protein from Corynebacterium glutamicum ATCC 13032)
- Cytochrome c oxidase subunit 2 (36 kDa, Protein from Corynebacterium glutamicum ATCC 13032)
- Cytochrome c oxidase subunit 3 (22 kDa, Protein from Corynebacterium glutamicum ATCC 13032)
- [(2~{r})-3-[[(1~{s},2~{r},3~{r},4~{s},5~{s},6~{r})-2-[(2~{r},3~{s},4~{s},5~{s},6~{r})-6-(hexadecanoyloxymethyl)-3,4,5-tris(oxidanyl)oxan-2-yl]oxy-6-[(2~{r},3~{s},4~{s},5~{s},6~{r})-6-(hydroxymethyl)-3,4,5-tris(oxidanyl)oxan-2-yl]oxy-3,4,5-tris(oxidanyl)cyclohexyl]oxy-oxidanyl-phosphoryl]oxy-2-undecanoyloxy-propyl] (10~{s})-10-methylhenicosanoate (1 kDa, Ligand)
Resolution: 3.1 Å
EM Method: Single-particle
Fitted PDBs: 7qho
Q-score: 0.516
Kao W-C, Ortmann de Percin Northumberland C, Cheng TC, Ortiz J, Durand A, von Loeffelholz O, Schilling O, Biniossek ML, Klaholz BP, Hunte C
Nat Commun (2022) 13 pp. 545- [ Pubmed: 35087070 DOI: doi:10.1038/s41467-022-28179-x ]
- [(2~{r})-3-[[(1~{s},2~{r},3~{s},4~{s},5~{r},6~{r})-2-[(2~{r},3~{s},4~{s},5~{s},6~{r})-6-[[(2~{s},3~{s},4~{s},5~{s},6~{r})-6-[[(2~{s},3~{s},4~{s},5~{s},6~{r})-6-(hydroxymethyl)-3-[(2~{r},3~{s},4~{s},5~{s},6~{r})-6-(hydroxymethyl)-3,4,5-tris(oxidanyl)oxan-2-yl]oxy-4,5-bis(oxidanyl)oxan-2-yl]oxymethyl]-3,4,5-tris(oxidanyl)oxan-2-yl]oxymethyl]-3,4,5-tris(oxidanyl)oxan-2-yl]oxy-3,4,5-tris(oxidanyl)-6-[(2~{r},3~{s},4~{s},5~{s},6~{r})-3,4,5-tris(oxidanyl)-6-(undecanoyloxymethyl)oxan-2-yl]oxy-cyclohexyl]oxy-oxidanyl-phosphoryl]oxy-2-undecanoyloxy-propyl] (10~{r})-10-methyldodecanoate (1 kDa, Ligand)
- Heme c (618 Da, Ligand)
- Cytochrome bc1 complex cytochrome c subunit (29 kDa, Protein from Corynebacterium glutamicum ATCC 13032)
- Thiamine biosynthesis protein x (17 kDa, Protein from Corynebacterium glutamicum ATCC 13032)
- Dodecyl-beta-d-maltoside (510 Da, Ligand)
- 1,2-diacyl-glycerol-3-sn-phosphate (704 Da, Ligand)
- Fe2/s2 (inorganic) cluster (175 Da, Ligand)
- Cytochrome bc1 complex rieske iron-sulfur subunit (45 kDa, Protein from Corynebacterium glutamicum ATCC 13032)
- Actinobacterial supercomplex, subunit c (ascc) (8 kDa, Protein from Corynebacterium glutamicum ATCC 13032)
- Hypothetical membrane protein (6 kDa, Protein from Corynebacterium glutamicum ATCC 13032)
- Uncharacterized membrane protein cgl2017/cg2211 (16 kDa, Protein from Corynebacterium glutamicum ATCC 13032)
- Copper (ii) ion (63 Da, Ligand)
- Lycopene (536 Da, Ligand)
- Uncharacterized protein cgl2664/cg2949 (16 kDa, Protein from Corynebacterium glutamicum ATCC 13032)
- Cytochrome c oxidase polypeptide 4 (15 kDa, Protein from Corynebacterium glutamicum ATCC 13032)
- Water (18 Da, Ligand)
- Menaquinone-9 (785 Da, Ligand)
- 1,2-distearoyl-sn-glycerophosphoethanolamine (748 Da, Ligand)
- Cytochrome bcc-aa3 supercomplex (Complex from Corynebacterium glutamicum ATCC 13032)
- Heme-as (920 Da, Ligand)
- Manganese (ii) ion (54 Da, Ligand)
- Cytochrome bc1 complex cytochrome b subunit (59 kDa, Protein from Corynebacterium glutamicum ATCC 13032)
- Palmitic acid (256 Da, Ligand)
- Protoporphyrin ix containing fe (616 Da, Ligand)
- Diacyl glycerol (625 Da, Ligand)
- (2r)-2-(hexadecanoyloxy)-3-{[(s)-hydroxy{[(1r,2r,3r,4r,5r,6s)-2,3,4,5,6-pentahydroxycyclohexyl]oxy}phosphoryl]oxy}propyl (9s)-9-methyloctadecanoate (853 Da, Ligand)
- Cytochrome c oxidase subunit 1 (66 kDa, Protein from Corynebacterium glutamicum ATCC 13032)
- Calcium ion (40 Da, Ligand)
- Cardiolipin (1 kDa, Ligand)
- Dinuclear copper ion (127 Da, Ligand)
- Hypothetical membrane protein (12 kDa, Protein from Corynebacterium glutamicum ATCC 13032)
- Cytochrome c oxidase subunit 2 (36 kDa, Protein from Corynebacterium glutamicum ATCC 13032)
- Cytochrome c oxidase subunit 3 (22 kDa, Protein from Corynebacterium glutamicum ATCC 13032)
- [(2~{r})-3-[[(1~{s},2~{r},3~{r},4~{s},5~{s},6~{r})-2-[(2~{r},3~{s},4~{s},5~{s},6~{r})-6-(hexadecanoyloxymethyl)-3,4,5-tris(oxidanyl)oxan-2-yl]oxy-6-[(2~{r},3~{s},4~{s},5~{s},6~{r})-6-(hydroxymethyl)-3,4,5-tris(oxidanyl)oxan-2-yl]oxy-3,4,5-tris(oxidanyl)cyclohexyl]oxy-oxidanyl-phosphoryl]oxy-2-undecanoyloxy-propyl] (10~{s})-10-methylhenicosanoate (1 kDa, Ligand)
Structure of human ribosome in classical-PRE state
Resolution: 3.2 Å
EM Method: Single-particle
Fitted PDBs: 6y0g
Q-score: 0.488
Bhaskar V, Graff-Meyer A, Schenk AD, Cavadini S, von Loeffelholz O, Natchiar SK, Artus-Revel CG, Hotz HR, Bretones G, Klaholz BP, Chao JA
Cell Rep (2020) 31 pp. 107473-107473 [ DOI: doi:10.1016/j.celrep.2020.03.037 Pubmed: 32268098 ]
- 60s ribosomal protein l39 (6 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l17 (21 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s28 (7 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l27 (15 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l13a (23 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l10-like (24 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l27a (16 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l32 (15 kDa, Protein from Homo sapiens)
- Ubiquitin-40s ribosomal protein s27a (18 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l28 (15 kDa, Protein from Homo sapiens)
- Nascent peptide (188 Da, Protein from Homo sapiens)
- 40s ribosomal protein s15 (17 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l7 (29 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s5 (22 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s24 (15 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s25 (13 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l18a (20 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l29 (17 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)
- 18s ribosomal rna (602 kDa, RNA from Homo sapiens)
- 40s ribosomal protein s18 (17 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l5 (34 kDa, Protein from Homo sapiens)
- 5s rrna (38 kDa, RNA from Homo sapiens)
- 60s ribosomal protein l23 (14 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l13 (24 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l21 (18 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s17 (15 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l7a (30 kDa, Protein from Homo sapiens)
- Receptor of activated protein c kinase 1 (35 kDa, Protein from Homo sapiens)
- Human ribosomes in the classical-pre state (4 MDa, Complex from Homo sapiens)
- 40s ribosomal protein s20 (13 kDa, Protein from Homo sapiens)
- Trna (24 kDa, RNA from Homo sapiens)
- Zinc ion (65 Da, Ligand)
- 5.8s ribosomal rna (50 kDa, RNA from Homo sapiens)
- 60s ribosomal protein l4 (47 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l36 (12 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s7 (22 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l6 (32 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s30 (6 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l24 (17 kDa, Protein from Homo sapiens)
- Mrna (8 kDa, RNA from Homo sapiens)
- 60s ribosomal protein l26 (17 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l22 (14 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l9 (21 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l30 (12 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l41 (3 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s16 (16 kDa, Protein from Homo sapiens)
- 4-{(2r)-2-[(1s,3s,5s)-3,5-dimethyl-2-oxocyclohexyl]-2-hydroxyethyl}piperidine-2,6-dione (281 Da, Ligand)
- 60s ribosomal protein l11 (20 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s23 (15 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s29 (6 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l35a (12 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l31 (14 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s27 (9 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)
- 60s ribosomal protein l8 (28 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s11 (18 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l19 (23 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l23a (17 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l38 (8 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s6 (28 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l37a (10 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l14 (23 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l35 (14 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s13 (17 kDa, Protein from Homo sapiens)
- 40s ribosomal protein sa (32 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s2 (31 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s26 (13 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s14 (16 kDa, Protein from Homo sapiens)
- 28s ribosomal rna (1 MDa, RNA from Homo sapiens)
- 40s ribosomal protein s19 (16 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s12 (14 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l3 (46 kDa, Protein from Homo sapiens)
- Water (18 Da, Ligand)
- 60s ribosomal protein l36a (12 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l18 (21 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l34 (13 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 s8 (24 kDa, Protein from Homo sapiens)
- Magnesium ion (24 Da, Ligand)
- 40s ribosomal protein s4, x isoform (29 kDa, Protein from Homo sapiens)
- Ubiquitin-60s ribosomal protein l40 (14 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l15 (24 kDa, Protein from Homo sapiens)
Cryo-EM map of human ribosome in POST state
Resolution: 3.0 Å
EM Method: Single-particle
Fitted PDBs: 6y2l
Q-score: 0.537
Bhaskar V, Graff-Meyer A, Schenk AD, Cavadini S, von Loeffelholz O, Natchiar SK, Artus-Revel CG, Hotz HR, Bretones G, Klaholz BP, Chao JA
Cell Rep (2020) 31 pp. 107473-107473 [ DOI: doi:10.1016/j.celrep.2020.03.037 Pubmed: 32268098 ]
- 60s ribosomal protein l39 (6 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l17 (21 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s28 (7 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l27 (15 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l13a (23 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l10-like (24 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l27a (16 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l32 (15 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l28 (15 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s15 (17 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l7 (29 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s5 (22 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s24 (15 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s25 (13 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l18a (20 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l29 (17 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)
- 18s ribosomal rna (602 kDa, RNA from Homo sapiens)
- 40s ribosomal protein s18 (17 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l5 (34 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l23 (14 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l13 (24 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l21 (18 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s17 (15 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l7a (30 kDa, Protein from Homo sapiens)
- Receptor of activated protein c kinase 1 (35 kDa, Protein from Homo sapiens)
- Human ribosomes in the classical-pre state (4 MDa, Complex from Homo sapiens)
- 40s ribosomal protein s20 (13 kDa, Protein from Homo sapiens)
- Trna (24 kDa, RNA from Homo sapiens)
- Zinc ion (65 Da, Ligand)
- 5.8s ribosomal rna (50 kDa, RNA from Homo sapiens)
- 60s ribosomal protein l4 (47 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l36 (12 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s7 (22 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l6 (32 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s30 (6 kDa, Protein from Homo sapiens)
- Nascent polypeptide (188 Da, Protein from Homo sapiens)
- 60s ribosomal protein l24 (17 kDa, Protein from Homo sapiens)
- Mrna (8 kDa, RNA from Homo sapiens)
- 60s ribosomal protein l26 (17 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l22 (14 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l9 (21 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l30 (12 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l41 (3 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s16 (16 kDa, Protein from Homo sapiens)
- 4-{(2r)-2-[(1s,3s,5s)-3,5-dimethyl-2-oxocyclohexyl]-2-hydroxyethyl}piperidine-2,6-dione (281 Da, Ligand)
- 60s ribosomal protein l11 (20 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s23 (15 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s29 (6 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l35a (12 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l31 (14 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s27 (9 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)
- 60s ribosomal protein l8 (28 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s11 (18 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l19 (23 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l23a (17 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l38 (8 kDa, Protein from Homo sapiens)
- 5s ribosomal rna (38 kDa, RNA from Homo sapiens)
- 40s ribosomal protein s6 (28 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l37a (10 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l14 (23 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l35 (14 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s13 (17 kDa, Protein from Homo sapiens)
- 40s ribosomal protein sa (32 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s2 (31 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s26 (13 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s14 (16 kDa, Protein from Homo sapiens)
- 28s ribosomal rna (1 MDa, RNA from Homo sapiens)
- 40s ribosomal protein s19 (16 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l3 (46 kDa, Protein from Homo sapiens)
- Water (18 Da, Ligand)
- 60s ribosomal protein l36a (12 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l18 (21 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l34 (13 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 s8 (24 kDa, Protein from Homo sapiens)
- Magnesium ion (24 Da, Ligand)
- 40s ribosomal protein s4, x isoform (29 kDa, Protein from Homo sapiens)
- Ubiquitin-60s ribosomal protein l40 (14 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l15 (24 kDa, Protein from Homo sapiens)
Cryo-EM map of human ribosome in hybrid-PRE state
Resolution: 3.5 Å
EM Method: Single-particle
Fitted PDBs: 6y57
Q-score: 0.462
Bhaskar V, Graff-Meyer A, Schenk AD, Cavadini S, von Loeffelholz O, Natchiar SK, Artus-Revel CG, Hotz HR, Bretones G, Klaholz BP, Chao JA
Cell Rep (2020) 31 pp. 107473-107473 [ DOI: doi:10.1016/j.celrep.2020.03.037 Pubmed: 32268098 ]
- 60s ribosomal protein l39 (6 kDa, Protein from Homo sapiens)
- Mrna (4 kDa, RNA from Homo sapiens)
- 60s ribosomal protein l17 (21 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s28 (7 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l27 (15 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l13a (23 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l10-like (24 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l27a (16 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l32 (15 kDa, Protein from Homo sapiens)
- Ubiquitin-40s ribosomal protein s27a (18 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l28 (15 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s15 (17 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l7 (29 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s5 (22 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s24 (15 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s25 (13 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l18a (20 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l29 (17 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)
- 18s ribosomal rna (602 kDa, RNA from Homo sapiens)
- 40s ribosomal protein s18 (17 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l5 (34 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l23 (14 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l13 (24 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l21 (18 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s17 (15 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l7a (30 kDa, Protein from Homo sapiens)
- Receptor of activated protein c kinase 1 (35 kDa, Protein from Homo sapiens)
- Human ribosomes in the classical-pre state (4 MDa, Complex from Homo sapiens)
- 40s ribosomal protein s20 (13 kDa, Protein from Homo sapiens)
- Zinc ion (65 Da, Ligand)
- 5.8s ribosomal rna (50 kDa, RNA from Homo sapiens)
- 60s ribosomal protein l4 (47 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l36 (12 kDa, Protein from Homo sapiens)
- P/e trna (24 kDa, RNA from Homo sapiens)
- 40s ribosomal protein s7 (22 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l6 (32 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s30 (6 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l24 (17 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l26 (17 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l22 (14 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l9 (21 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l30 (12 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l41 (3 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s16 (16 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l11 (20 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s23 (15 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s29 (6 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l35a (12 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l31 (14 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s27 (9 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)
- 60s ribosomal protein l8 (28 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s11 (18 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l19 (23 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l23a (17 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l38 (8 kDa, Protein from Homo sapiens)
- 5s ribosomal rna (38 kDa, RNA from Homo sapiens)
- 40s ribosomal protein s6 (28 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l37a (10 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l14 (23 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l35 (14 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s13 (17 kDa, Protein from Homo sapiens)
- 40s ribosomal protein sa (32 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s2 (31 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s26 (13 kDa, Protein from Homo sapiens)
- A/p trna (24 kDa, RNA from Homo sapiens)
- 40s ribosomal protein s14 (16 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s12 (14 kDa, Protein from Homo sapiens)
- 28s ribosomal rna (1 MDa, RNA from Homo sapiens)
- 40s ribosomal protein s19 (16 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l3 (46 kDa, Protein from Homo sapiens)
- Water (18 Da, Ligand)
- 60s ribosomal protein l36a (12 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l18 (21 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l34 (13 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 s8 (24 kDa, Protein from Homo sapiens)
- Magnesium ion (24 Da, Ligand)
- 40s ribosomal protein s4, x isoform (29 kDa, Protein from Homo sapiens)
- Ubiquitin-60s ribosomal protein l40 (14 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l15 (24 kDa, Protein from Homo sapiens)
Structure-function insights reveal the human ribosome as a cancer target for antibiotics
Resolution: 3.6 Å
EM Method: Single-particle
Fitted PDBs: 5lks
Q-score: 0.429
Myasnikov AG, Kundhavai Natchiar S, Nebout M, Hazemann I, Imbert V, Khatter H, Peyron JF, Klaholz BP
Nat Commun (2016) 7 pp. 12856-12856 [ Pubmed: 27665925 DOI: doi:10.1038/ncomms12856 ]
- 40s ribosomal protein s9 (22 kDa, Protein from Human)
- 40s ribosomal protein s7 (22 kDa, Protein from Human)
- 60s ribosomal protein l11 (20 kDa, Protein from Human)
- 60s ribosomal protein l21 (18 kDa, Protein from Human)
- 60s ribosomal protein l32 (15 kDa, Protein from Human)
- 60s ribosomal protein l4 (47 kDa, Protein from Human)
- 40s ribosomal protein s3 (26 kDa, Protein from Human)
- 60s ribosomal protein l14 (23 kDa, Protein from Human)
- 40s ribosomal protein s11 (18 kDa, Protein from Human)
- 60s ribosomal protein l19 (23 kDa, Protein from Human)
- 40s ribosomal protein s20 (13 kDa, Protein from Human)
- 60s ribosomal protein l39 (6 kDa, Protein from Human)
- 60s ribosomal protein l37a (10 kDa, Protein from Human)
- 60s ribosomal protein l26 (17 kDa, Protein from Human)
- 18s ribosomal rna (602 kDa, RNA from Human)
- 40s ribosomal protein s12 (14 kDa, Protein from Human)
- Ubiquitin-60s ribosomal protein l40 (14 kDa, Protein from Human)
- 60s ribosomal protein l3 (46 kDa, Protein from Human)
- 40s ribosomal protein s25 (13 kDa, Protein from Human)
- 40s ribosomal protein sa (32 kDa, Protein from Human)
- 40s ribosomal protein s29 (6 kDa, Protein from Human)
- 60s ribosomal protein l10a (24 kDa, Protein from Human)
- 40s ribosomal protein s15 (17 kDa, Protein from Human)
- 40s ribosomal protein s24 (15 kDa, Protein from Human)
- 60s ribosomal protein l5 (34 kDa, Protein from Human)
- 40s ribosomal protein s5 (22 kDa, Protein from Human)
- Zinc ion (65 Da, Ligand)
- 60s ribosomal protein l6 (32 kDa, Protein from Human)
- 40s ribosomal protein s21 (9 kDa, Protein from Human)
- 60s ribosomal protein l36a (12 kDa, Protein from Human)
- 60s ribosomal protein l10-like (24 kDa, Protein from Human)
- 40s ribosomal protein s14 (16 kDa, Protein from Human)
- 5s ribosomal rna (38 kDa, RNA from Human)
- Ribosomal protein l29, isoform cra_a (17 kDa, Protein from Human)
- 28s ribosomal rna (1 MDa, RNA from Human)
- 60s ribosomal protein l30 (12 kDa, Protein from Human)
- 60s ribosomal protein l7 (29 kDa, Protein from Human)
- 60s ribosomal protein l27 (15 kDa, Protein from Human)
- 5.8s ribosomal rna (50 kDa, RNA from Human)
- 60s ribosomal protein l27a (16 kDa, Protein from Human)
- 4-{(2r)-2-[(1s,3s,5s)-3,5-dimethyl-2-oxocyclohexyl]-2-hydroxyethyl}piperidine-2,6-dione (281 Da, Ligand)
- 40s ribosomal protein s19 (16 kDa, Protein from Human)
- 40s ribosomal protein s3a (30 kDa, Protein from Human)
- 60s ribosomal protein l13 (24 kDa, Protein from Human)
- 60s ribosomal protein l35 (14 kDa, Protein from Human)
- 60s ribosomal protein l37 (11 kDa, Protein from Human)
- 40s ribosomal protein s8 (24 kDa, Protein from Human)
- Receptor of activated protein c kinase 1 (35 kDa, Protein from Human)
- 40s ribosomal protein s28 (7 kDa, Protein from Human)
- 60s ribosomal protein l38 (8 kDa, Protein from Human)
- 60s ribosomal protein l28 (15 kDa, Protein from Human)
- 40s ribosomal protein s15a (14 kDa, Protein from Human)
- 60s ribosomal protein l22 (14 kDa, Protein from Human)
- 60s ribosomal protein l13a (23 kDa, Protein from Human)
- 40s ribosomal protein s26 (13 kDa, Protein from Human)
- 60s ribosomal protein l31 (14 kDa, Protein from Human)
- 60s ribosomal protein l9 (21 kDa, Protein from Human)
- 60s ribosomal protein l24 (17 kDa, Protein from Human)
- 40s ribosomal protein s6 (28 kDa, Protein from Human)
- Ribosomal protein s30 (14 kDa, Protein from Human)
- 60s ribosomal protein l18 (21 kDa, Protein from Human)
- 60s ribosomal protein l15 (24 kDa, Protein from Human)
- Ubiquitin-40s ribosomal protein s27a (18 kDa, Protein from Human)
- 60s ribosomal protein l23a (17 kDa, Protein from Human)
- 60s ribosomal protein l8 (28 kDa, Protein from Human)
- 60s ribosomal protein l36 (12 kDa, Protein from Human)
- 40s ribosomal protein s13 (17 kDa, Protein from Human)
- 60s ribosomal protein l35a (12 kDa, Protein from Human)
- Water (18 Da, Ligand)
- 60s ribosomal protein l18a (20 kDa, Protein from Human)
- 40s ribosomal protein s18 (17 kDa, Protein from Human)
- 40s ribosomal protein s23 (15 kDa, Protein from Human)
- 60s ribosomal protein l17 (21 kDa, Protein from Human)
- 40s ribosomal protein s10 (18 kDa, Protein from Human)
- 40s ribosomal protein s16 (16 kDa, Protein from Human)
- 60s ribosomal protein l7a (30 kDa, Protein from Human)
- 60s ribosomal protein l34 (13 kDa, Protein from Human)
- 60s ribosomal protein l41 (3 kDa, Protein from Human)
- 40s ribosomal protein s27 (9 kDa, Protein from Human)
- 40s ribosomal protein s4, x isoform (29 kDa, Protein from Human)
- 40s ribosomal protein s17 (15 kDa, Protein from Human)
- 40s ribosomal protein s2 (31 kDa, Protein from Human)
- Magnesium ion (24 Da, Ligand)
- 60s ribosomal protein l23 (14 kDa, Protein from Human)
- Human 80s ribsome (Complex from Homo sapiens)
Resolution: 5.34 Å
EM Method: Single-particle
Fitted PDBs: 5jbh
Q-score: 0.117
Coureux PD, Lazennec-Schurdevin C, Monestier A, Larquet E, Cladiere L, Klaholz BP, Schmitt E, Mechulam Y
Nat Commun (2016) 7 pp. 13366-13366 [ DOI: doi:10.1038/ncomms13366 Pubmed: 27819266 ]
- Aif2-beta (15 kDa, Protein from Pyrococcus abyssi GE5)
- 30s archaeal translation initiation complex (Complex from Pyrococcus)
- 30s ribosomal protein us15 (18 kDa, Protein from Pyrococcus abyssi GE5)
- 16s ribosomal rna (492 kDa, RNA from Pyrococcus abyssi GE5)
- 30s ribosomal protein us8 (14 kDa, Protein from Pyrococcus abyssi GE5)
- Initiator met-trna fmet from e. coli (a1u72 variant) (24 kDa, RNA from Escherichia coli)
- Zinc ion (65 Da, Ligand)
- 30s ribosomal protein us9 (15 kDa, Protein from Pyrococcus abyssi GE5)
- 30s ribosomal protein us2 (23 kDa, Protein from Pyrococcus abyssi GE5)
- 30s ribosomal protein el41 (3 kDa, Protein from Pyrococcus abyssi GE5)
- 30s ribosomal protein es4 (28 kDa, Protein from Pyrococcus abyssi GE5)
- 30s ribosomal protein us11 (14 kDa, Protein from Pyrococcus abyssi GE5)
- Aif1a (13 kDa, Protein from Pyrococcus abyssi GE5)
- 30s ribosomal protein es28 (8 kDa, Protein from Pyrococcus abyssi GE5)
- Aif1 (11 kDa, Protein from Pyrococcus abyssi GE5)
- 30s ribosomal protein us3 (22 kDa, Protein from Pyrococcus abyssi GE5)
- Mrna (8 kDa, RNA from Pyrococcus)
- 30s ribosomal protein us12 (16 kDa, Protein from Pyrococcus abyssi GE5)
- 30s ribosomal protein es6 (14 kDa, Protein from Pyrococcus abyssi GE5)
- 30s ribosomal protein us5 (26 kDa, Protein from Pyrococcus abyssi GE5)
- 30s ribosomal protein us14 (6 kDa, Protein from Pyrococcus abyssi GE5)
- Aif2-gamma (45 kDa, Protein from Pyrococcus abyssi GE5)
- Methionine (149 Da, Ligand)
- 30s ribosomal protein es27 (5 kDa, Protein from Pyrococcus abyssi GE5)
- 30s ribosomal protein es27 (6 kDa, Protein from Pyrococcus abyssi GE5)
- Phosphoaminophosphonic acid-guanylate ester (522 Da, Ligand)
- 30s archaeal translation initiation complex (Complex from Escherichia coli)
- 30s ribosomal protein us19 (15 kDa, Protein from Pyrococcus abyssi GE5)
- 30s ribosomal protein us17 (13 kDa, Protein from Pyrococcus abyssi GE5)
- 30s ribosomal protein us10 (11 kDa, Protein from Pyrococcus abyssi GE5)
- 30s ribosomal protein sx (4 kDa, Protein from Pyrococcus abyssi GE5)
- 50s ribosomal protein ul30 (13 kDa, Protein from Pyrococcus abyssi GE5)
- 30s ribosomal protein us3 (23 kDa, Protein from Pyrococcus abyssi GE5)
- 30s ribosomal protein es17 (7 kDa, Protein from Pyrococcus abyssi GE5)
- 30s archaeal translation initiation complex (982 kDa, Complex)
- 30s ribosomal protein us7 (24 kDa, Protein from Pyrococcus abyssi GE5)
- 30s ribosomal protein es19 (17 kDa, Protein from Pyrococcus abyssi GE5)
- 30s ribosomal protein es8 (14 kDa, Protein from Pyrococcus abyssi GE5)
- 30s ribosomal protein us4 (21 kDa, Protein from Pyrococcus abyssi GE5)
- Aif2-alpha (30 kDa, Protein from Pyrococcus abyssi GE5)
- Magnesium ion (24 Da, Ligand)
- 30s archaeal translation initiation complex (Complex from Pyrococcus abyssi GE5)
- 30s ribosomal protein es24 (11 kDa, Protein from Pyrococcus abyssi GE5)
- 30s ribosomal protein us13 (16 kDa, Protein from Pyrococcus abyssi GE5)
Resolution: 5.34 Å
EM Method: Single-particle
Fitted PDBs: 5jb3
Q-score: 0.164
Coureux PD, Lazennec-Schurdevin C, Monestier A, Larquet E, Cladiere L, Klaholz BP, Schmitt E, Mechulam Y
Nat Commun (2016) 7 pp. 13366-13366 [ DOI: doi:10.1038/ncomms13366 Pubmed: 27819266 ]
- 30s ribosomal protein s13 (16 kDa, Protein from Pyrococcus abyssi GE5)
- 30s ribosomal protein s9 (15 kDa, Protein from Pyrococcus abyssi GE5)
- Translation initiation factor 2 subunit alpha (30 kDa, Protein from Pyrococcus abyssi GE5)
- 30s ribosomal protein s15 (18 kDa, Protein from Pyrococcus abyssi GE5)
- Initiator met-trna fmet from e. coli (a1u72 variant) (24 kDa, RNA from Escherichia coli)
- 30s ribosomal protein s3 (23 kDa, Protein from Pyrococcus abyssi GE5)
- Zinc ion (65 Da, Ligand)
- 30s ribosomal protein s12 (16 kDa, Protein from Pyrococcus abyssi GE5)
- 30s ribosomal protein el41 (3 kDa, Protein from Pyrococcus abyssi GE5)
- 30s ribosomal protein s24e (11 kDa, Protein from Pyrococcus abyssi GE5)
- Translation initiation factor 1a (13 kDa, Protein from Pyrococcus abyssi GE5)
- 30s ribosomal protein s5 (26 kDa, Protein from Pyrococcus abyssi GE5)
- Translation initiation factor 2 subunit gamma (45 kDa, Protein from Pyrococcus abyssi GE5)
- 50s ribosomal protein l7ae (13 kDa, Protein from Pyrococcus abyssi GE5)
- 30s ribosomal protein s2 (23 kDa, Protein from Pyrococcus abyssi GE5)
- 30s ribosomal protein s10 (11 kDa, Protein from Pyrococcus abyssi GE5)
- 30s ribosomal protein s28e (8 kDa, Protein from Pyrococcus abyssi GE5)
- Methionine (149 Da, Ligand)
- Translation initiation factor 2 subunit beta (15 kDa, Protein from Pyrococcus abyssi GE5)
- Phosphoaminophosphonic acid-guanylate ester (522 Da, Ligand)
- 30s ribosomal protein s8 (14 kDa, Protein from Pyrococcus abyssi GE5)
- 16s ribosomal rna (493 kDa, RNA from Pyrococcus abyssi GE5)
- 30s ribosomal protein s19 (15 kDa, Protein from Pyrococcus abyssi GE5)
- 30s ribosomal protein s6e (14 kDa, Protein from Pyrococcus abyssi GE5)
- 30s ribosomal protein s27ae (5 kDa, Protein from Pyrococcus abyssi GE5)
- 30s ribosomal protein s14 type z (6 kDa, Protein from Pyrococcus abyssi GE5)
- 30s ribosomal protein sx (4 kDa, Protein from Pyrococcus abyssi GE5)
- 30s archaeal translation initiation complex (982 kDa, Complex)
- Mrna (8 kDa, RNA from Pyrococcus abyssi GE5)
- 30s ribosomal protein s17e (7 kDa, Protein from Pyrococcus abyssi GE5)
- 30s ribosomal protein s17p (13 kDa, Protein from Pyrococcus abyssi GE5)
- 30s ribosomal protein s8e (14 kDa, Protein from Pyrococcus abyssi GE5)
- 30s ribosomal protein s7 (24 kDa, Protein from Pyrococcus abyssi GE5)
- Protein translation factor sui1 homolog (11 kDa, Protein from Pyrococcus abyssi GE5)
- 30s ribosomal protein s19e (17 kDa, Protein from Pyrococcus abyssi GE5)
- 30s ribosomal protein s4 (21 kDa, Protein from Pyrococcus abyssi GE5)
- Magnesium ion (24 Da, Ligand)
- 30s ribosomal protein s3ae (22 kDa, Protein from Pyrococcus abyssi GE5)
- 30s ribosomal protein s4e (28 kDa, Protein from Pyrococcus abyssi GE5)
- 30s ribosomal protein s11 (14 kDa, Protein from Pyrococcus abyssi GE5)
- 30s ribosomal protein s27e (6 kDa, Protein from Pyrococcus abyssi GE5)