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sample_name:"60S ribosomal protein L2, mitochondrial"
The structure of the mitoribosome from Neurospora crassa in the P/E tRNA bound state
Release date: Nov. 11, 2020
Resolution: 2.99 Å
EM Method: Single-particle
Fitted PDBs: 6ywe
Q-score: 0.575
Resolution: 2.99 Å
EM Method: Single-particle
Fitted PDBs: 6ywe
Q-score: 0.575
Itoh Y, Naschberger A, Mortezaei N, Herrmann JM, Amunts A
Nat Commun (2020) 11 pp. 5187-5187 [ Pubmed: 33056988 DOI: doi:10.1038/s41467-020-18830-w ]
Sample:
- 23s rrna (1 MDa, RNA from Neurospora crassa)
- Related to ribosomal protein s5 (mitochondrial) (53 kDa, Protein from Neurospora crassa)
- Ribosomal_s7 domain-containing protein (33 kDa, Protein from Neurospora crassa)
- Related to ribosomal protein yml20, mitochondrial (25 kDa, Protein from Neurospora crassa)
- Ml50 (49 kDa, Protein from Neurospora crassa)
- 60s ribosomal protein l1, mitochondrial (33 kDa, Protein from Neurospora crassa)
- Kow domain-containing protein (45 kDa, Protein from Neurospora crassa)
- Ribosomal protein s19/s15 (10 kDa, Protein from Neurospora crassa)
- Mitochondrial ribosomal protein dap3 (51 kDa, Protein from Neurospora crassa)
- Ribosomal protein l14 (14 kDa, Protein from Neurospora crassa)
- Us9m (35 kDa, Protein from Neurospora crassa)
- Ul11m (16 kDa, Protein from Neurospora crassa)
- Ribosomal_l9 domain-containing protein (33 kDa, Protein from Neurospora crassa)
- Related to ribosomal protein l3, mitochondrial (41 kDa, Protein from Neurospora crassa)
- Ml41 (11 kDa, Protein from Neurospora crassa)
- 60s ribosomal protein l2, mitochondrial (42 kDa, Protein from Neurospora crassa)
- Bl33m (7 kDa, Protein from Neurospora crassa)
- Ribosomal protein l15 (33 kDa, Protein from Neurospora crassa)
- Ms46 (43 kDa, Protein from Neurospora crassa)
- S4 rna-binding domain-containing protein (51 kDa, Protein from Neurospora crassa)
- Us8m (17 kDa, Protein from Neurospora crassa)
- Bl19m (28 kDa, Protein from Neurospora crassa)
- 60s ribosomal protein l4, variant (36 kDa, Protein from Neurospora crassa)
- Related to ribosomal protein l34, mitochondrial (14 kDa, Protein from Neurospora crassa)
- Ml67 (32 kDa, Protein from Neurospora crassa)
- Mitoribosome of neurospora crassa in the p/e state (Complex from Neurospora crassa)
- 37s ribosomal protein s25, mitochondrial (29 kDa, Protein from Neurospora crassa)
- Rnase iii domain-containing protein (29 kDa, Protein from Neurospora crassa)
- Ribosomal protein s12 (18 kDa, Protein from Neurospora crassa)
- 37s ribosomal protein s24, mitochondrial (44 kDa, Protein from Neurospora crassa)
- Potassium ion (39 Da, Ligand)
- Related to ribosomal protein yml49, mitochondrial (23 kDa, Protein from Neurospora crassa)
- Duf1713 domain-containing protein (38 kDa, Protein from Neurospora crassa)
- Ml40 (41 kDa, Protein from Neurospora crassa)
- Related to ribosomal protein yml11, mitochondrial (37 kDa, Protein from Neurospora crassa)
- Probable ribosomal protein yml44, mitochondrial (11 kDa, Protein from Neurospora crassa)
- Ribosomal protein s6 (13 kDa, Protein from Neurospora crassa)
- Mitochondrial large ribosomal subunit (41 kDa, Protein from Neurospora crassa)
- Ml54 (23 kDa, Protein from Neurospora crassa)
- Ul23m (26 kDa, Protein from Neurospora crassa)
- Ms45 (39 kDa, Protein from Neurospora crassa)
- Probable ribosomal protein s13 (13 kDa, Protein from Neurospora crassa)
- Translational machinery component (42 kDa, Protein from Neurospora crassa)
- Mrp-l46 domain-containing protein (41 kDa, Protein from Neurospora crassa)
- 30s ribosomal protein s10, mitochondrial (30 kDa, Protein from Neurospora crassa)
- Bs16m (12 kDa, Protein from Neurospora crassa)
- Pebp-like protein (50 kDa, Protein from Neurospora crassa)
- Ms27 (44 kDa, Protein from Neurospora crassa)
- Us17m (18 kDa, Protein from Neurospora crassa)
- Related to ribosomal protein l30 (18 kDa, Protein from Neurospora crassa)
- Magnesium ion (24 Da, Ligand)
- L51_s25_ci-b8 domain-containing protein (22 kDa, Protein from Neurospora crassa)
- 54s ribosomal protein l31, mitochondrial (13 kDa, Protein from Neurospora crassa)
- Ul17m (22 kDa, Protein from Neurospora crassa)
- Ul13m (20 kDa, Protein from Neurospora crassa)
- Ribosomal protein (13 kDa, Protein from Neurospora crassa)
- Ml49 (18 kDa, Protein from Neurospora crassa)
- Trna p/e state (23 kDa, RNA from Neurospora crassa)
- Mrna (3 kDa, RNA from Neurospora crassa)
- Bl28m (31 kDa, Protein from Neurospora crassa)
- Nicotinamide-adenine-dinucleotide (663 Da, Ligand)
- Ribosomal protein s18 (28 kDa, Protein from Neurospora crassa)
- Related to ribosomal protein yml32 (mitochondrial),mitochondrial ribosomal protein subunit l32 (14 kDa, Protein from Neurospora crassa)
- Related to ribosomal protein yml36, mitochondrial (23 kDa, Protein from Neurospora crassa)
- Related to ribosomal protein l16, mitochondrial (27 kDa, Protein from Neurospora crassa)
- Related to ribosomal protein l5, mitochondrial (39 kDa, Protein from Neurospora crassa)
- Bs21m (25 kDa, Protein from Neurospora crassa)
- L51_s25_ci-b8 domain-containing protein (15 kDa, Protein from Neurospora crassa)
- 16s rrna (600 kDa, RNA from Neurospora crassa)
- Ms26 (35 kDa, Protein from Neurospora crassa)
- Spermine (202 Da, Ligand)
- Mitochondrial 37s ribosomal protein mrp2 (13 kDa, Protein from Neurospora crassa)
- Related to 60s ribosomal protein l2 (mitochondrial) (49 kDa, Protein from Neurospora crassa)
- 37s ribosomal protein mrp10, mitochondrial (9 kDa, Protein from Neurospora crassa)
- 3-hydroxyisobutyryl-coa hydrolase, mitochondrial (56 kDa, Protein from Neurospora crassa)
- Ribonuclease iii (48 kDa, Protein from Neurospora crassa)
- Zinc ion (65 Da, Ligand)
- Mitoc_ml59 domain-containing protein (18 kDa, Protein from Neurospora crassa)
- Related to ribosomal protein s15 (mitochondrial) (35 kDa, Protein from Neurospora crassa)
- Ul6m (28 kDa, Protein from Neurospora crassa)
- Adenosine-5'-triphosphate (507 Da, Ligand)
- If1 (10 kDa, Protein from Neurospora crassa)
- Mito ribosomal protein s2 (47 kDa, Protein from Neurospora crassa)
- Protein fyv4, mitochondrial (26 kDa, Protein from Neurospora crassa)
- Ribosomal protein s5 (58 kDa, Protein from Neurospora crassa)
- Manganese and iron superoxide dismutase (34 kDa, Protein from Neurospora crassa)
- 54s ribosomal protein l4, mitochondrial (29 kDa, Protein from Neurospora crassa)
- Ms33 (12 kDa, Protein from Neurospora crassa)
- Bs1m (51 kDa, Protein from Neurospora crassa)
The structure of the mitoribosome from Neurospora crassa with bound tRNA at the P-site
Release date: Nov. 11, 2020
Resolution: 3.05 Å
EM Method: Single-particle
Fitted PDBs: 6ywy
Q-score: 0.56
Resolution: 3.05 Å
EM Method: Single-particle
Fitted PDBs: 6ywy
Q-score: 0.56
Itoh Y, Naschberger A, Mortezaei N, Herrmann JM, Amunts A
Nat Commun (2020) 11 pp. 5187-5187 [ Pubmed: 33056988 DOI: doi:10.1038/s41467-020-18830-w ]
Sample:
- 23s rrna (1 MDa, RNA from Neurospora crassa)
- Related to ribosomal protein s5 (mitochondrial) (53 kDa, Protein from Neurospora crassa)
- Ribosomal_s7 domain-containing protein (33 kDa, Protein from Neurospora crassa)
- Related to ribosomal protein yml20, mitochondrial (25 kDa, Protein from Neurospora crassa)
- Ml50 (49 kDa, Protein from Neurospora crassa)
- 60s ribosomal protein l1, mitochondrial (33 kDa, Protein from Neurospora crassa)
- Kow domain-containing protein (45 kDa, Protein from Neurospora crassa)
- Ribosomal protein s19/s15 (10 kDa, Protein from Neurospora crassa)
- Mitochondrial ribosomal protein dap3 (51 kDa, Protein from Neurospora crassa)
- Ribosomal protein l14 (14 kDa, Protein from Neurospora crassa)
- Us9m (35 kDa, Protein from Neurospora crassa)
- Ul11m (16 kDa, Protein from Neurospora crassa)
- Ribosomal_l9 domain-containing protein (33 kDa, Protein from Neurospora crassa)
- Related to ribosomal protein l3, mitochondrial (41 kDa, Protein from Neurospora crassa)
- Ml41 (11 kDa, Protein from Neurospora crassa)
- Related to ribosomal protein yml32 (mitochondrial) (14 kDa, Protein from Neurospora crassa)
- 60s ribosomal protein l2, mitochondrial (42 kDa, Protein from Neurospora crassa)
- Bl33m (7 kDa, Protein from Neurospora crassa)
- Ribosomal protein l15 (33 kDa, Protein from Neurospora crassa)
- Ms46 (43 kDa, Protein from Neurospora crassa)
- S4 rna-binding domain-containing protein (51 kDa, Protein from Neurospora crassa)
- Us8m (17 kDa, Protein from Neurospora crassa)
- Bl19m (28 kDa, Protein from Neurospora crassa)
- 60s ribosomal protein l4, variant (36 kDa, Protein from Neurospora crassa)
- Related to ribosomal protein l34, mitochondrial (14 kDa, Protein from Neurospora crassa)
- Ml67 (32 kDa, Protein from Neurospora crassa)
- P-site-trna (23 kDa, RNA from Neurospora crassa)
- 37s ribosomal protein s25, mitochondrial (29 kDa, Protein from Neurospora crassa)
- Rnase iii domain-containing protein (29 kDa, Protein from Neurospora crassa)
- Ribosomal protein s12 (18 kDa, Protein from Neurospora crassa)
- 37s ribosomal protein s24, mitochondrial (44 kDa, Protein from Neurospora crassa)
- Potassium ion (39 Da, Ligand)
- Related to ribosomal protein yml49, mitochondrial (23 kDa, Protein from Neurospora crassa)
- Duf1713 domain-containing protein (38 kDa, Protein from Neurospora crassa)
- Mrna (3 kDa, RNA from Neurospora crassa)
- Ml40 (41 kDa, Protein from Neurospora crassa)
- Related to ribosomal protein yml11, mitochondrial (37 kDa, Protein from Neurospora crassa)
- Probable ribosomal protein yml44, mitochondrial (11 kDa, Protein from Neurospora crassa)
- Ribosomal protein s6 (13 kDa, Protein from Neurospora crassa)
- Mitochondrial large ribosomal subunit (41 kDa, Protein from Neurospora crassa)
- Ml54 (23 kDa, Protein from Neurospora crassa)
- Ul23m (26 kDa, Protein from Neurospora crassa)
- Ms45 (39 kDa, Protein from Neurospora crassa)
- Probable ribosomal protein s13 (13 kDa, Protein from Neurospora crassa)
- Translational machinery component (42 kDa, Protein from Neurospora crassa)
- 30s ribosomal protein s10, mitochondrial (30 kDa, Protein from Neurospora crassa)
- Bs16m (12 kDa, Protein from Neurospora crassa)
- Pebp-like protein (50 kDa, Protein from Neurospora crassa)
- Ms27 (44 kDa, Protein from Neurospora crassa)
- Us17m (18 kDa, Protein from Neurospora crassa)
- Related to ribosomal protein l30 (18 kDa, Protein from Neurospora crassa)
- Magnesium ion (24 Da, Ligand)
- L51_s25_ci-b8 domain-containing protein (22 kDa, Protein from Neurospora crassa)
- 54s ribosomal protein l31, mitochondrial (13 kDa, Protein from Neurospora crassa)
- Ul17m (22 kDa, Protein from Neurospora crassa)
- Ul13m (20 kDa, Protein from Neurospora crassa)
- Ribosomal protein (13 kDa, Protein from Neurospora crassa)
- Ml49 (18 kDa, Protein from Neurospora crassa)
- Mitoribosome of neurospora crassa in the trna bound state (p-site). (Complex from Neurospora crassa)
- Bl28m (31 kDa, Protein from Neurospora crassa)
- Nicotinamide-adenine-dinucleotide (663 Da, Ligand)
- Ribosomal protein s18 (28 kDa, Protein from Neurospora crassa)
- Related to ribosomal protein yml36, mitochondrial (23 kDa, Protein from Neurospora crassa)
- Related to ribosomal protein l16, mitochondrial (27 kDa, Protein from Neurospora crassa)
- Related to ribosomal protein l5, mitochondrial (39 kDa, Protein from Neurospora crassa)
- Bs21m (25 kDa, Protein from Neurospora crassa)
- L51_s25_ci-b8 domain-containing protein (15 kDa, Protein from Neurospora crassa)
- Poly-peptide (515 Da, Protein from Neurospora crassa)
- 16s rrna (600 kDa, RNA from Neurospora crassa)
- Ms26 (35 kDa, Protein from Neurospora crassa)
- Spermine (202 Da, Ligand)
- Mitochondrial 37s ribosomal protein mrp2 (13 kDa, Protein from Neurospora crassa)
- Related to 60s ribosomal protein l2 (mitochondrial) (49 kDa, Protein from Neurospora crassa)
- 37s ribosomal protein mrp10, mitochondrial (9 kDa, Protein from Neurospora crassa)
- 3-hydroxyisobutyryl-coa hydrolase, mitochondrial (56 kDa, Protein from Neurospora crassa)
- Ribonuclease iii (48 kDa, Protein from Neurospora crassa)
- Zinc ion (65 Da, Ligand)
- Mitoc_ml59 domain-containing protein (18 kDa, Protein from Neurospora crassa)
- Related to ribosomal protein s15 (mitochondrial) (35 kDa, Protein from Neurospora crassa)
- Ml46 (41 kDa, Protein from Neurospora crassa)
- Ul6m (28 kDa, Protein from Neurospora crassa)
- Adenosine-5'-triphosphate (507 Da, Ligand)
- If1 (10 kDa, Protein from Neurospora crassa)
- Mito ribosomal protein s2 (47 kDa, Protein from Neurospora crassa)
- Protein fyv4, mitochondrial (26 kDa, Protein from Neurospora crassa)
- Ribosomal protein s5 (58 kDa, Protein from Neurospora crassa)
- Manganese and iron superoxide dismutase (34 kDa, Protein from Neurospora crassa)
- 54s ribosomal protein l4, mitochondrial (29 kDa, Protein from Neurospora crassa)
- Ms33 (12 kDa, Protein from Neurospora crassa)
- Bs1m (51 kDa, Protein from Neurospora crassa)
Structure of the plant mitochondrial ribosome
Release date: April 15, 2020
Resolution: 3.86 Å
EM Method: Single-particle
Fitted PDBs: 6xyw
Q-score: 0.359
Resolution: 3.86 Å
EM Method: Single-particle
Fitted PDBs: 6xyw
Q-score: 0.359
Waltz F, Soufari H, Bochler A, Giege P, Hashem Y
Nat Plants (2020) 6 pp. 377-383 [ Pubmed: 32251374 DOI: doi:10.1038/s41477-020-0631-5 ]
Sample:
- At4g31460/f3l17_30 (24 kDa, Protein from thale cress)
- 50s ribosomal protein l21, mitochondrial (30 kDa, Protein from thale cress)
- At5g09770 (18 kDa, Protein from thale cress)
- Ribosomal protein l25/gln-trna synthetase, anti-codon-binding domain-containing protein (27 kDa, Protein from thale cress)
- At1g73940/f2p9_19 (17 kDa, Protein from thale cress)
- Pentatricopeptide repeat-containing protein pnm1, mitochondrial (59 kDa, Protein from thale cress)
- Ribosomal protein s21 family protein (11 kDa, Protein from thale cress)
- 28s ribosomal s34 protein (15 kDa, Protein from thale cress)
- Gb|aac32909.1 (48 kDa, Protein from thale cress)
- 39s ribosomal protein (14 kDa, Protein from thale cress)
- At5g27820 (12 kDa, Protein from thale cress)
- 30s ribosomal protein s16-2, chloroplastic/mitochondrial (15 kDa, Protein from thale cress)
- At4g05400 (27 kDa, Protein from thale cress)
- At4g35490 (16 kDa, Protein from thale cress)
- At3g18240 protein (48 kDa, Protein from thale cress)
- Ribosomal protein s4, mitochondrial (43 kDa, Protein from thale cress)
- 40s ribosomal protein s19, mitochondrial (23 kDa, Protein from thale cress)
- Small ribosomal subunit protein s13, mitochondrial (17 kDa, Protein from thale cress)
- At1g52370 protein (30 kDa, Protein from thale cress)
- 30s ribosomal protein s9, mitochondrial (48 kDa, Protein from thale cress)
- Unk-5 (6 kDa, Protein from thale cress)
- Rppr* (24 kDa, Protein from thale cress)
- At1g15810/f7h2_23 (47 kDa, Protein from thale cress)
- Probable ribosomal protein s11, mitochondrial (33 kDa, Protein from thale cress)
- Unk-3 (4 kDa, Protein from thale cress)
- 30s ribosomal protein s31, mitochondrial (10 kDa, Protein from thale cress)
- At1g64880 (60 kDa, Protein from thale cress)
- At5g26800 (12 kDa, Protein from thale cress)
- Ribosomal protein s12, mitochondrial (14 kDa, Protein from thale cress)
- 60s ribosomal protein l16, mitochondrial (20 kDa, Protein from thale cress)
- Pentatricopeptide repeat-containing protein at1g60770 (55 kDa, Protein from thale cress)
- 3-hydroxyisobutyryl-coa hydrolase-like protein 2, mitochondrial (45 kDa, Protein from thale cress)
- Ribosomal protein l18e/l15 superfamily protein (31 kDa, Protein from thale cress)
- Rppr* (22 kDa, Protein from thale cress)
- Ribosomal protein l31 (8 kDa, Protein from thale cress)
- At5g55140 (12 kDa, Protein from thale cress)
- Rna (118-mer) (37 kDa, RNA from thale cress)
- 50s ribosomal protein l24 (17 kDa, Protein from thale cress)
- Mitochondrial ribosomal protein l51/s25/ci-b8 family protein (16 kDa, Protein from thale cress)
- Expressed protein (22 kDa, Protein from thale cress)
- At4g39880 (19 kDa, Protein from thale cress)
- F10k1.8 protein (29 kDa, Protein from thale cress)
- 60s ribosomal protein l2, mitochondrial (37 kDa, Protein from thale cress)
- Ribosomal protein s7, mitochondrial (17 kDa, Protein from thale cress)
- The large mitoribosomal subunit of the plant mitoribosome (Complex from Arabidopsis thaliana)
- 50s ribosomal protein l4 (33 kDa, Protein from thale cress)
- Unk-1 (4 kDa, Protein from thale cress)
- Rppr* (18 kDa, Protein from thale cress)
- At1g07830/f24b9_7 (16 kDa, Protein from thale cress)
- Translation elongation factor ef1b/ribosomal protein s6 family protein (15 kDa, Protein from thale cress)
- At5g40080 (10 kDa, Protein from thale cress)
- Cx9c domain-containing protein (10 kDa, Protein from thale cress)
- Ms31/ms46 (8 kDa, Protein from thale cress)
- 50s ribosomal protein l27 (16 kDa, Protein from thale cress)
- Ribosomal protein s2, mitochondrial (24 kDa, Protein from thale cress)
- At3g06320 (6 kDa, Protein from thale cress)
- 40s ribosomal protein s10, mitochondrial (27 kDa, Protein from thale cress)
- 50s ribosomal protein l3-2, mitochondrial (35 kDa, Protein from thale cress)
- 50s ribosomal protein hlp, mitochondrial (18 kDa, Protein from thale cress)
- Ribosomal protein l9/rnase h1 (25 kDa, Protein from thale cress)
- At1g14620/t5e21_15 (27 kDa, Protein from thale cress)
- At1g24240/f3i6_17 (25 kDa, Protein from thale cress)
- Ribosomal protein (11 kDa, Protein from thale cress)
- Nucleic acid-binding, ob-fold-like protein (12 kDa, Protein from thale cress)
- At4g22000 (15 kDa, Protein from thale cress)
- 60s ribosomal protein l5, mitochondrial (21 kDa, Protein from thale cress)
- At1g26740/t24p13_11 (14 kDa, Protein from thale cress)
- Rna (2842-mer) (918 kDa, RNA from thale cress)
- Ms38 (15 kDa, Protein from thale cress)
- 50s ribosomal protein l20 (14 kDa, Protein from thale cress)
- Pentatricopeptide repeat-containing protein at3g02650, mitochondrial (63 kDa, Protein from thale cress)
- At3g51010 (21 kDa, Protein from thale cress)
- At5g49210/k21p3_8 (23 kDa, Protein from thale cress)
- At2g34520 (18 kDa, Protein from thale cress)
- 40s ribosomal protein s15a-5 (14 kDa, Protein from thale cress)
- Putative ribosomal protein l6 (11 kDa, Protein from thale cress)
- Unk-4 (2 kDa, Protein from thale cress)
- At1g01640 (23 kDa, Protein from thale cress)
- 50s ribosomal protein l10 (19 kDa, Protein from thale cress)
- Ribosomal protein s3, mitochondrial (64 kDa, Protein from thale cress)
- Uncharacterized protein (22 kDa, Protein from thale cress)
- Rna (1743-mer) (564 kDa, RNA from thale cress)
- Unk-6 (2 kDa, Protein from thale cress)
- Uncharacterized protein at1g27435/f17l21.30 (8 kDa, Protein from thale cress)
- Mitochondrial 28s ribosomal protein s29-like protein (53 kDa, Protein from thale cress)
- 37s ribosomal protein s27 (11 kDa, Protein from thale cress)
- Rppr* (47 kDa, Protein from thale cress)
- Adenylyl cyclase (43 kDa, Protein from thale cress)
- Ribosomal protein l35 (20 kDa, Protein from thale cress)
- Unk-2 (5 kDa, Protein from thale cress)