Cryo-EM structure of PTH-PTH1R-Gq (upright state)
Resolution: 2.8 Å
EM Method: Single-particle
Fitted PDBs: 9jr2
Q-score: 0.492
Sano FK, Kobayashi K, Kawakami K, Akasaka H, Kobayashi TA, Tanaka T, Okamoto HH, Hirano H, Kusakizako T, Shihoya W, Kise Y, Itoh Y, Ishitani R, Okada Y, Inoue A, Nureki O
To Be Published
- Guanine nucleotide-binding protein g(i)/g(s)/g(o) subunit gamma-2 (7 kDa, Protein from Bos taurus)
- Gprotein gamma-2 (Complex from Bos taurus)
- Mini-g (Complex from Homo sapiens)
- Parathyroid hormone (4 kDa, Protein from Homo sapiens)
- Guanine nucleotide-binding protein g(i)/g(s)/g(t) subunit beta-1 (37 kDa, Protein from Rattus rattus)
- Scfv16 (27 kDa, Protein from Mus musculus)
- Parathyroid hormone/parathyroid hormone-related peptide receptor (63 kDa, Protein from Homo sapiens)
- Parathyroid hormone 1 receptor (Complex from Homo sapiens)
- Gprotein beta-1 (Complex from Rattus rattus)
- Parathyroid hormone (Complex from Homo sapiens)
- Scfv16 (Complex from Mus musculus)
- Water (18 Da, Ligand)
- Guanine nucleotide-binding protein g(q) subunit alpha-1 (minigq) (27 kDa, Protein from Homo sapiens)
- Pth-pth1r-gq complex (Complex)
Cryo-EM structure of PTH-PTH1R-Gq (tilted state)
Resolution: 2.8 Å
EM Method: Single-particle
Fitted PDBs: 9jr3
Q-score: 0.487
Sano FK, Kobayashi K, Kawakami K, Akasaka H, Kobayashi TA, Tanaka T, Okamoto HH, Hirano H, Kusakizako T, Shihoya W, Kise Y, Itoh Y, Ishitani R, Okada Y, Inoue A, Nureki O
To Be Published
- Pth (Complex from Homo sapiens)
- Minigq (Complex from Homo sapiens)
- Guanine nucleotide-binding protein g(i)/g(s)/g(o) subunit gamma-2 (7 kDa, Protein from Bos taurus)
- Guanine nucleotide-binding protein g(i)/g(s)/g(t) subunit gamma-2 (Complex from Bos taurus)
- Pth1r (Complex from Homo sapiens)
- Parathyroid hormone (4 kDa, Protein from Homo sapiens)
- Guanine nucleotide-binding protein g(i)/g(s)/g(t) subunit beta-1 (37 kDa, Protein from Rattus rattus)
- Scfv16 (27 kDa, Protein from Mus musculus)
- Parathyroid hormone/parathyroid hormone-related peptide receptor (63 kDa, Protein from Homo sapiens)
- Guanine nucleotide-binding protein g(i) subunit alpha-1 (minigq) (27 kDa, Protein from Homo sapiens)
- Scfv16 (Complex from Mus musculus)
- Guanine nucleotide-binding protein g(i)/g(s)/g(t) subunit beta-1 (Complex from Rattus rattus)
- Water (18 Da, Ligand)
- Pth-pth1r-gq complex (Complex)
Human sodium-dependent vitamin C transporter 1 in an apo inward-open state
Resolution: 2.6 Å
EM Method: Single-particle
Fitted PDBs: 8jez
Q-score: 0.616
Kobayashi TA, Shimada H, Sano FK, Itoh Y, Enoki S, Okada Y, Kusakizako T, Nureki O
Nat Commun (2024) 15 pp. 5569-5569 [ Pubmed: 38956111 DOI: doi:10.1038/s41467-024-49899-2 ]
- Solute carrier family 23 member 1 (64 kDa, Protein from Homo sapiens)
- Human svct1 dimer in an apo inward-open state (Complex from Homo sapiens)
- Lauryl maltose neopentyl glycol (1 kDa, Ligand)
- Palmitic acid (256 Da, Ligand)
- 1-palmitoyl-2-oleoyl-sn-glycero-3-phosphocholine (760 Da, Ligand)
- Cholesterol (386 Da, Ligand)
Human sodium-dependent vitamin C transporter 1 bound to L-ascorbic acid in an inward-open state
Kobayashi TA, Shimada H, Sano FK, Itoh Y, Enoki S, Okada Y, Kusakizako T, Nureki O
Nat Commun (2024) 15 pp. 5569-5569 [ Pubmed: 38956111 DOI: doi:10.1038/s41467-024-49899-2 ]
- Solute carrier family 23 member 1 (64 kDa, Protein from Homo sapiens)
- Ascorbic acid (176 Da, Ligand)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Lauryl maltose neopentyl glycol (1 kDa, Ligand)
- Palmitic acid (256 Da, Ligand)
- Sodium ion (22 Da, Ligand)
- 1-palmitoyl-2-oleoyl-sn-glycero-3-phosphocholine (760 Da, Ligand)
- Human svct1 dimer in a substrate-bound inward-open state (Complex from Homo sapiens)
- Cholesterol (386 Da, Ligand)
- Water (18 Da, Ligand)
Human sodium-dependent vitamin C transporter 1 in an intermediate state
Kobayashi TA, Shimada H, Sano FK, Itoh Y, Enoki S, Okada Y, Kusakizako T, Nureki O
Nat Commun (2024) 15 pp. 5569-5569 [ Pubmed: 38956111 DOI: doi:10.1038/s41467-024-49899-2 ]
Human sodium-dependent vitamin C transporter 1 in an apo occluded state
Resolution: 2.85 Å
EM Method: Single-particle
Fitted PDBs: 8jf1
Q-score: 0.595
Kobayashi TA, Shimada H, Sano FK, Itoh Y, Enoki S, Okada Y, Kusakizako T, Nureki O
Nat Commun (2024) 15 pp. 5569-5569 [ Pubmed: 38956111 DOI: doi:10.1038/s41467-024-49899-2 ]
- Solute carrier family 23 member 1 (64 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Lauryl maltose neopentyl glycol (1 kDa, Ligand)
- Palmitic acid (256 Da, Ligand)
- Cholesterol hemisuccinate (486 Da, Ligand)
- Cholesterol (386 Da, Ligand)
- Human svct1 dimer in an apo occluded state (Complex from Homo sapiens)
- Water (18 Da, Ligand)
RBD of SARS-CoV2 spike protein with ACE2 decoy
Resolution: 3.4 Å
EM Method: Single-particle
Fitted PDBs: 8jje
Q-score: 0.488
Urano E, Itoh Y, Suzuki T, Sasaki T, Kishikawa JI, Akamatsu K, Higuchi Y, Sakai Y, Okamura T, Mitoma S, Sugihara F, Takada A, Kimura M, Nakao S, Hirose M, Sasaki T, Koketsu R, Tsuji S, Yanagida S, Shioda T, Hara E, Matoba S, Matsuura Y, Kanda Y, Arase H, Okada M, Takagi J, Kato T, Hoshino A, Yasutomi Y, Saito A, Okamoto T
Sci Transl Med (2023) 15 pp. eadi2623-eadi2623 [ DOI: doi:10.1126/scitranslmed.adi2623 Pubmed: 37647387 ]
- Zinc ion (65 Da, Ligand)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Rbd of sars-cov2 spike protein with ace2 decoy. (460 kDa, Complex)
- Sulfate ion (96 Da, Ligand)
- Sars-cov2 spike protein (Complex from Severe acute respiratory syndrome coronavirus 2)
- Ace2 (Complex from Homo sapiens)
- Angiotensin-converting enzyme 2 (73 kDa, Protein from Homo sapiens)
- Spike glycoprotein (138 kDa, Protein from synthetic construct)
- Water (18 Da, Ligand)
Human mitochondrial ribosome in complex with LRPPRC, SLIRP, A-site, P-site, E-site tRNAs and mRNA
Resolution: 2.85 Å
EM Method: Single-particle
Fitted PDBs: 8any
Q-score: 0.554
Singh V, Moran JC, Itoh Y, Soto IC, Fontanesi F, Couvillion M, Huynen MA, Churchman LS, Barrientos A, Amunts A
Nat Struct Mol Biol (2024) [ DOI: doi:10.1038/s41594-024-01365-9 Pubmed: 39134711 ]
- 39s ribosomal protein l21, mitochondrial (22 kDa, Protein from Homo sapiens)
- Fe2/s2 (inorganic) cluster (175 Da, Ligand)
- 39s ribosomal protein l34, mitochondrial (10 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l55, mitochondrial (15 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s21, mitochondrial (10 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l10, mitochondrial (29 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l54, mitochondrial (15 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l13, mitochondrial (20 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l32, mitochondrial (21 kDa, Protein from Homo sapiens)
- Large ribosomal subunit protein ml43 (23 kDa, Protein from Homo sapiens)
- Water (18 Da, Ligand)
- 39s ribosomal protein l37, mitochondrial (48 kDa, Protein from Homo sapiens)
- Pentatricopeptide repeat domain-containing protein 3, mitochondrial (78 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l24, mitochondrial (24 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s10, mitochondrial (23 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l51, mitochondrial (15 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s7, mitochondrial (28 kDa, Protein from Homo sapiens)
- E/e-trna (22 kDa, RNA from Homo sapiens)
- Aurora kinase a-interacting protein (22 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s12, mitochondrial (15 kDa, Protein from Homo sapiens)
- Zinc ion (65 Da, Ligand)
- 28s ribosomal protein s25, mitochondrial (20 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l11, mitochondrial (20 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l46, mitochondrial (31 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s27, mitochondrial (47 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l19, mitochondrial (33 kDa, Protein from Homo sapiens)
- Peptidyl-trna hydrolase ict1, mitochondrial (23 kDa, Protein from Homo sapiens)
- Human mitochondrial ribosome bound to lrpprc-slirp, mrna and trnas in the a-site, p-site and e-site (Complex from Homo sapiens)
- 39s ribosomal protein l2, mitochondrial (33 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s24, mitochondrial (19 kDa, Protein from Homo sapiens)
- 16s mitochondrial rrna (500 kDa, RNA from Homo sapiens)
- 28s ribosomal protein s34, mitochondrial (25 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s18c, mitochondrial (15 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s35, mitochondrial (36 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l20, mitochondrial (17 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l48, mitochondrial (23 kDa, Protein from Homo sapiens)
- Spermine (202 Da, Ligand)
- Adenosine-5'-triphosphate (507 Da, Ligand)
- 28s ribosomal protein s14, mitochondrial (15 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l49, mitochondrial (19 kDa, Protein from Homo sapiens)
- 39s ribosomal protein s18a, mitochondrial (22 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s5, mitochondrial (48 kDa, Protein from Homo sapiens)
- Nicotinamide-adenine-dinucleotide (663 Da, Ligand)
- Spermidine (145 Da, Ligand)
- 39s ribosomal protein l50, mitochondrial (18 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l18, mitochondrial (20 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s2, mitochondrial (33 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l30, mitochondrial (18 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s18b, mitochondrial (29 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l3, mitochondrial (38 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l47, mitochondrial (29 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s31, mitochondrial (45 kDa, Protein from Homo sapiens)
- Leucine-rich ppr motif-containing protein, mitochondrial (158 kDa, Protein from Homo sapiens)
- Valine (117 Da, Ligand)
- 39s ribosomal protein l4, mitochondrial (34 kDa, Protein from Homo sapiens)
- Growth arrest and dna damage-inducible proteins-interacting protein 1 (25 kDa, Protein from Homo sapiens)
- Guanosine-5'-diphosphate (443 Da, Ligand)
- 39s ribosomal protein l44, mitochondrial (37 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l40, mitochondrial (24 kDa, Protein from Homo sapiens)
- Sra stem-loop-interacting rna-binding protein, mitochondrial (12 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s11, mitochondrial (20 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l9, mitochondrial (30 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l16, mitochondrial (28 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l28, mitochondrial (30 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l12, mitochondrial (21 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s16, mitochondrial (15 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l35, mitochondrial (21 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l38, mitochondrial (44 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s9, mitochondrial (45 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l22, mitochondrial (23 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l52, mitochondrial (13 kDa, Protein from Homo sapiens)
- Potassium ion (39 Da, Ligand from Homo sapiens)
- 39s ribosomal protein l27, mitochondrial (16 kDa, Protein from Homo sapiens)
- Mrna (13 kDa, RNA from Homo sapiens)
- Magnesium ion (24 Da, Ligand)
- 39s ribosomal protein l39, mitochondrial (38 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s6, mitochondrial (14 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l17, mitochondrial (20 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s26, mitochondrial (24 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s33, mitochondrial (12 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l14, mitochondrial (15 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s29, mitochondrial (45 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l36, mitochondrial (11 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l42, mitochondrial (16 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l45, mitochondrial (35 kDa, Protein from Homo sapiens)
- Ribosomal protein 63, mitochondrial (12 kDa, Protein from Homo sapiens)
- Mitochondrial trnaval (22 kDa, RNA from Homo sapiens)
- 1,4-diaminobutane (88 Da, Ligand)
- A/a-trna (21 kDa, RNA from Homo sapiens)
- 28s ribosomal protein s28, mitochondrial (20 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l41, mitochondrial (15 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l15, mitochondrial (33 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l33, mitochondrial (7 kDa, Protein from Homo sapiens)
- 12s mitochondrial rrna (306 kDa, RNA from Homo sapiens)
- 28s ribosomal protein s17, mitochondrial (14 kDa, Protein from Homo sapiens)
- 39s ribosomal protein s30, mitochondrial (50 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s23, mitochondrial (21 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l23, mitochondrial (17 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s22, mitochondrial (41 kDa, Protein from Homo sapiens)
- Coiled-coil-helix-coiled-coil-helix domain-containing protein 1 (13 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l53, mitochondrial (12 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l1, mitochondrial (36 kDa, Protein from Homo sapiens)
- P/p-trna (22 kDa, RNA from Homo sapiens)
- 28s ribosomal protein s15, mitochondrial (29 kDa, Protein from Homo sapiens)
Human mitochondrial ribosome in complex with mRNA, A/A-, P/P- and E/E-tRNAs at 2.63 A resolution
Resolution: 2.63 Å
EM Method: Single-particle
Fitted PDBs: 7qi5
Q-score: 0.594
Singh V, Itoh Y, Del'Olio S, Hassan A, Naschberger A, Flygaard RK, Nobe Y, Izumikawa K, Aibara S, Andrell J, Whitford PC, Barrientos A, Taoka M, Amunts A
Nat Commun (2024) 15 pp. 4272-4272 [ Pubmed: 38769321 DOI: doi:10.1038/s41467-024-48163-x ]
- 39s ribosomal protein l21, mitochondrial (22 kDa, Protein from Homo sapiens)
- Fe2/s2 (inorganic) cluster (175 Da, Ligand)
- 39s ribosomal protein l34, mitochondrial (10 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l55, mitochondrial (15 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l10, mitochondrial (29 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l54, mitochondrial (15 kDa, Protein from Homo sapiens)
- Potassium ion (39 Da, Ligand)
- 39s ribosomal protein l13, mitochondrial (20 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l32, mitochondrial (21 kDa, Protein from Homo sapiens)
- Large ribosomal subunit protein ml43 (23 kDa, Protein from Homo sapiens)
- Water (18 Da, Ligand)
- 39s ribosomal protein l37, mitochondrial (48 kDa, Protein from Homo sapiens)
- Human mitochondrial ribosome (Complex from Homo sapiens)
- Pentatricopeptide repeat domain-containing protein 3, mitochondrial (78 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l24, mitochondrial (24 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s10, mitochondrial (23 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l51, mitochondrial (15 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s7, mitochondrial (28 kDa, Protein from Homo sapiens)
- E/e-trna (22 kDa, RNA from Homo sapiens)
- Aurora kinase a-interacting protein (22 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s12, mitochondrial (15 kDa, Protein from Homo sapiens)
- Zinc ion (65 Da, Ligand)
- 28s ribosomal protein s25, mitochondrial (20 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l11, mitochondrial (20 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l46, mitochondrial (31 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s27, mitochondrial (47 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l19, mitochondrial (33 kDa, Protein from Homo sapiens)
- Peptidyl-trna hydrolase ict1, mitochondrial (23 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l2, mitochondrial (33 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s24, mitochondrial (19 kDa, Protein from Homo sapiens)
- 16s mitochondrial rrna (500 kDa, RNA from Homo sapiens)
- 28s ribosomal protein s34, mitochondrial (25 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s18c, mitochondrial (15 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s35, mitochondrial (36 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l20, mitochondrial (17 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l48, mitochondrial (23 kDa, Protein from Homo sapiens)
- Spermine (202 Da, Ligand)
- Adenosine-5'-triphosphate (507 Da, Ligand)
- 28s ribosomal protein s14, mitochondrial (15 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l49, mitochondrial (19 kDa, Protein from Homo sapiens)
- 39s ribosomal protein s18a, mitochondrial (22 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s5, mitochondrial (48 kDa, Protein from Homo sapiens)
- Nicotinamide-adenine-dinucleotide (663 Da, Ligand)
- Spermidine (145 Da, Ligand)
- 39s ribosomal protein l50, mitochondrial (18 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l18, mitochondrial (20 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s2, mitochondrial (33 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l30, mitochondrial (18 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s18b, mitochondrial (29 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l3, mitochondrial (38 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l47, mitochondrial (29 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s31, mitochondrial (45 kDa, Protein from Homo sapiens)
- Valine (117 Da, Ligand)
- 39s ribosomal protein l4, mitochondrial (34 kDa, Protein from Homo sapiens)
- Growth arrest and dna damage-inducible proteins-interacting protein 1 (25 kDa, Protein from Homo sapiens)
- Guanosine-5'-diphosphate (443 Da, Ligand)
- 39s ribosomal protein l44, mitochondrial (37 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l40, mitochondrial (24 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s11, mitochondrial (20 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l9, mitochondrial (30 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l16, mitochondrial (28 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l28, mitochondrial (30 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l12, mitochondrial (21 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s16, mitochondrial (15 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l35, mitochondrial (21 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l38, mitochondrial (44 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s9, mitochondrial (45 kDa, Protein from Homo sapiens)
- Mrps21 isoform 1 (10 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l22, mitochondrial (23 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l52, mitochondrial (13 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l27, mitochondrial (16 kDa, Protein from Homo sapiens)
- Magnesium ion (24 Da, Ligand)
- 39s ribosomal protein l39, mitochondrial (38 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s6, mitochondrial (14 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l17, mitochondrial (20 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s26, mitochondrial (24 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s33, mitochondrial (12 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l14, mitochondrial (15 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s29, mitochondrial (45 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l36, mitochondrial (11 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l42, mitochondrial (16 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l45, mitochondrial (35 kDa, Protein from Homo sapiens)
- Ribosomal protein 63, mitochondrial (12 kDa, Protein from Homo sapiens)
- Mitochondrial trnaval (22 kDa, RNA from Homo sapiens)
- 1,4-diaminobutane (88 Da, Ligand)
- A/a-trna (21 kDa, RNA from Homo sapiens)
- 28s ribosomal protein s28, mitochondrial (20 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l41, mitochondrial (15 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l15, mitochondrial (33 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l33, mitochondrial (7 kDa, Protein from Homo sapiens)
- 12s mitochondrial rrna (306 kDa, RNA from Homo sapiens)
- 28s ribosomal protein s17, mitochondrial (14 kDa, Protein from Homo sapiens)
- 39s ribosomal protein s30, mitochondrial (50 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s23, mitochondrial (21 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l23, mitochondrial (17 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s22, mitochondrial (41 kDa, Protein from Homo sapiens)
- Mrna (10 kDa, RNA from Homo sapiens)
- Coiled-coil-helix-coiled-coil-helix domain-containing protein 1 (13 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l53, mitochondrial (12 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l1, mitochondrial (36 kDa, Protein from Homo sapiens)
- P/p-trna (22 kDa, RNA from Homo sapiens)
- 28s ribosomal protein s15, mitochondrial (29 kDa, Protein from Homo sapiens)
Human mitochondrial ribosome in complex with mRNA, A/P- and P/E-tRNAs at 2.98 A resolution
Resolution: 2.98 Å
EM Method: Single-particle
Fitted PDBs: 7qi6
Q-score: 0.539
Singh V, Itoh Y, Del'Olio S, Hassan A, Naschberger A, Flygaard RK, Nobe Y, Izumikawa K, Aibara S, Andrell J, Whitford PC, Barrientos A, Taoka M, Amunts A
Nat Commun (2024) 15 pp. 4272-4272 [ Pubmed: 38769321 DOI: doi:10.1038/s41467-024-48163-x ]
- 39s ribosomal protein l21, mitochondrial (22 kDa, Protein from Homo sapiens)
- Fe2/s2 (inorganic) cluster (175 Da, Ligand)
- 39s ribosomal protein l34, mitochondrial (10 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l55, mitochondrial (15 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l10, mitochondrial (29 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l54, mitochondrial (15 kDa, Protein from Homo sapiens)
- Potassium ion (39 Da, Ligand)
- 39s ribosomal protein l13, mitochondrial (20 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l32, mitochondrial (21 kDa, Protein from Homo sapiens)
- Large ribosomal subunit protein ml43 (23 kDa, Protein from Homo sapiens)
- Water (18 Da, Ligand)
- 39s ribosomal protein l37, mitochondrial (48 kDa, Protein from Homo sapiens)
- Human mitochondrial ribosome (Complex from Homo sapiens)
- Pentatricopeptide repeat domain-containing protein 3, mitochondrial (78 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l24, mitochondrial (24 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s10, mitochondrial (23 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l51, mitochondrial (15 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s7, mitochondrial (28 kDa, Protein from Homo sapiens)
- Aurora kinase a-interacting protein (22 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s12, mitochondrial (15 kDa, Protein from Homo sapiens)
- Zinc ion (65 Da, Ligand)
- 28s ribosomal protein s25, mitochondrial (20 kDa, Protein from Homo sapiens)
- P/e-trna (22 kDa, RNA from Homo sapiens)
- 39s ribosomal protein l11, mitochondrial (20 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l46, mitochondrial (31 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s27, mitochondrial (47 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l19, mitochondrial (33 kDa, Protein from Homo sapiens)
- Peptidyl-trna hydrolase ict1, mitochondrial (23 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l2, mitochondrial (33 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s24, mitochondrial (19 kDa, Protein from Homo sapiens)
- 16s mitochondrial rrna (500 kDa, RNA from Homo sapiens)
- 28s ribosomal protein s34, mitochondrial (25 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s18c, mitochondrial (15 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s35, mitochondrial (36 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l20, mitochondrial (17 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l48, mitochondrial (23 kDa, Protein from Homo sapiens)
- Spermine (202 Da, Ligand)
- Adenosine-5'-triphosphate (507 Da, Ligand)
- 28s ribosomal protein s14, mitochondrial (15 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l49, mitochondrial (19 kDa, Protein from Homo sapiens)
- 39s ribosomal protein s18a, mitochondrial (22 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s5, mitochondrial (48 kDa, Protein from Homo sapiens)
- Nicotinamide-adenine-dinucleotide (663 Da, Ligand)
- Spermidine (145 Da, Ligand)
- 39s ribosomal protein l50, mitochondrial (18 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l18, mitochondrial (20 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s2, mitochondrial (33 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l30, mitochondrial (18 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s18b, mitochondrial (29 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l3, mitochondrial (38 kDa, Protein from Homo sapiens)
- A/p-trna (21 kDa, RNA from Homo sapiens)
- 39s ribosomal protein l47, mitochondrial (29 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s31, mitochondrial (45 kDa, Protein from Homo sapiens)
- Valine (117 Da, Ligand)
- 39s ribosomal protein l4, mitochondrial (34 kDa, Protein from Homo sapiens)
- Growth arrest and dna damage-inducible proteins-interacting protein 1 (25 kDa, Protein from Homo sapiens)
- Guanosine-5'-diphosphate (443 Da, Ligand)
- 39s ribosomal protein l44, mitochondrial (37 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l40, mitochondrial (24 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s11, mitochondrial (20 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l9, mitochondrial (30 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l16, mitochondrial (28 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l28, mitochondrial (30 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l12, mitochondrial (21 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s16, mitochondrial (15 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l35, mitochondrial (21 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l38, mitochondrial (44 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s9, mitochondrial (45 kDa, Protein from Homo sapiens)
- Mrps21 isoform 1 (10 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l22, mitochondrial (23 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l52, mitochondrial (13 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l27, mitochondrial (16 kDa, Protein from Homo sapiens)
- Magnesium ion (24 Da, Ligand)
- 39s ribosomal protein l39, mitochondrial (38 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s6, mitochondrial (14 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l17, mitochondrial (20 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s26, mitochondrial (24 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s33, mitochondrial (12 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l14, mitochondrial (15 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s29, mitochondrial (45 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l36, mitochondrial (11 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l42, mitochondrial (16 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l45, mitochondrial (35 kDa, Protein from Homo sapiens)
- Ribosomal protein 63, mitochondrial (12 kDa, Protein from Homo sapiens)
- Mitochondrial trnaval (22 kDa, RNA from Homo sapiens)
- 1,4-diaminobutane (88 Da, Ligand)
- 39s ribosomal protein l41, mitochondrial (15 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s28, mitochondrial (20 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l15, mitochondrial (33 kDa, Protein from Homo sapiens)
- Mrna (10 kDa, RNA from Homo sapiens)
- 39s ribosomal protein l33, mitochondrial (7 kDa, Protein from Homo sapiens)
- 12s mitochondrial rrna (306 kDa, RNA from Homo sapiens)
- 28s ribosomal protein s17, mitochondrial (14 kDa, Protein from Homo sapiens)
- 39s ribosomal protein s30, mitochondrial (50 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s23, mitochondrial (21 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l23, mitochondrial (17 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s22, mitochondrial (41 kDa, Protein from Homo sapiens)
- Coiled-coil-helix-coiled-coil-helix domain-containing protein 1 (13 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l53, mitochondrial (12 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l1, mitochondrial (36 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s15, mitochondrial (29 kDa, Protein from Homo sapiens)