The structure of the large subunit of the mitoribosome from Neurospora crassa
Resolution: 2.74 Å
EM Method: Single-particle
Fitted PDBs: 6yws
Q-score: 0.601
Itoh Y, Naschberger A, Mortezaei N, Herrmann JM, Amunts A
Nat Commun (2020) 11 pp. 5187-5187 [ DOI: doi:10.1038/s41467-020-18830-w Pubmed: 33056988 ]
- Ribosomal protein (13 kDa, Protein from Neurospora crassa OR74A)
- 60s ribosomal protein l6 (28 kDa, Protein from Neurospora crassa OR74A)
- Potassium ion (39 Da, Ligand)
- 60s ribosomal protein l2 (42 kDa, Protein from Neurospora crassa OR74A)
- Ribosomal_l9 domain-containing protein (33 kDa, Protein from Neurospora crassa OR74A)
- Uncharacterized protein (49 kDa, Protein from Neurospora crassa OR74A)
- 50s ribosomal protein l14 (14 kDa, Protein from Neurospora crassa OR74A)
- Uncharacterized protein (37 kDa, Protein from Neurospora crassa OR74A)
- 60s ribosomal protein l20 (25 kDa, Protein from Neurospora crassa OR74A)
- 50s ribosomal subunit l30 (41 kDa, Protein from Neurospora crassa OR74A)
- Magnesium ion (24 Da, Ligand)
- Uncharacterized protein (32 kDa, Protein from Neurospora crassa OR74A)
- Uncharacterized protein (49 kDa, Protein from Neurospora crassa OR74A)
- 54s ribosomal protein l4, mitochondrial (29 kDa, Protein from Neurospora crassa OR74A)
- Uncharacterized protein (41 kDa, Protein from Neurospora crassa OR74A)
- 60s ribosomal protein l4, variant (36 kDa, Protein from Neurospora crassa OR74A)
- 50s ribosomal protein l5 (39 kDa, Protein from Neurospora crassa OR74A)
- Mitochondrial ribosomal protein subunit l32 (14 kDa, Protein from Neurospora crassa OR74A)
- Aconitate hydratase (23 kDa, Protein from Neurospora crassa OR74A)
- 50s ribosomal protein l30 (18 kDa, Protein from Neurospora crassa OR74A)
- Mitochondrial ribosomal protein l43 (15 kDa, Protein from Neurospora crassa OR74A)
- Ribosomal protein l13 (20 kDa, Protein from Neurospora crassa OR74A)
- Nicotinamide-adenine-dinucleotide (663 Da, Ligand)
- Mitochondrial ribosomal protein l44 (11 kDa, Protein from Neurospora crassa OR74A)
- 50s ribosomal protein l24 (31 kDa, Protein from Neurospora crassa OR74A)
- 60s ribosomal protein l16 (27 kDa, Protein from Neurospora crassa OR74A)
- Mitoc_ml59 domain-containing protein (18 kDa, Protein from Neurospora crassa OR74A)
- Uncharacterized protein (23 kDa, Protein from Neurospora crassa OR74A)
- Mitochondrial ribosomal protein subunit l23 (26 kDa, Protein from Neurospora crassa OR74A)
- 60s ribosomal protein l3 (48 kDa, Protein from Neurospora crassa OR74A)
- Kow domain-containing protein (45 kDa, Protein from Neurospora crassa OR74A)
- Uncharacterized protein (7 kDa, Protein from Neurospora crassa OR74A)
- Uncharacterized protein (18 kDa, Protein from Neurospora crassa OR74A)
- Uncharacterized protein (23 kDa, Protein from Neurospora crassa OR74A)
- 60s ribosomal protein l1 (33 kDa, Protein from Neurospora crassa OR74A)
- L51_s25_ci-b8 domain-containing protein (22 kDa, Protein from Neurospora crassa OR74A)
- Spermine (202 Da, Ligand)
- Zinc ion (65 Da, Ligand)
- Mitochondrial ribosomal protein (28 kDa, Protein from Neurospora crassa OR74A)
- Uncharacterized protein (11 kDa, Protein from Neurospora crassa OR74A)
- Mitochondrial large ribosomal subunit (41 kDa, Protein from Neurospora crassa OR74A)
- Ribosomal protein l15 (33 kDa, Protein from Neurospora crassa OR74A)
- 60s ribosomal protein l19 (16 kDa, Protein from Neurospora crassa OR74A)
- Rnase iii domain-containing protein (29 kDa, Protein from Neurospora crassa OR74A)
- Mitoribosome of neurospora crassa (Complex from Neurospora crassa OR74A)
- 50s ribosomal protein l17 (22 kDa, Protein from Neurospora crassa OR74A)
- Mitochondrial large ribosomal subunit yml35 (50 kDa, Protein from Neurospora crassa OR74A)
- Rna (2820-mer) (1 MDa, RNA from Neurospora crassa OR74A)
- 54s ribosomal protein l31, mitochondrial (13 kDa, Protein from Neurospora crassa OR74A)
- Related to ribosomal protein l34, mitochondrial (14 kDa, Protein from Neurospora crassa OR74A)
- 60s ribosomal protein l3 (41 kDa, Protein from Neurospora crassa OR74A)
The structure of the Atp25 bound assembly intermediate of the mitoribosome from Neurospora crassa
Resolution: 3.03 Å
EM Method: Single-particle
Fitted PDBs: 6ywv
Q-score: 0.544
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 ]
- Mitochondrial ribosomal protein l43 (15 kDa, Protein from Neurospora crassa OR74A)
- Mitochondrial ribosomal protein subunit l32 (14 kDa, Protein from Neurospora crassa OR74A)
- Uncharacterized protein (49 kDa, Protein from Neurospora crassa OR74A)
- Mitochondrial ribosomal protein subunit l23 (26 kDa, Protein from Neurospora crassa OR74A)
- Assembly intermediate of the mitoribosome of neurospora crassa (Complex from Neurospora crassa OR74A)
- 60s ribosomal protein l6 (28 kDa, Protein from Neurospora crassa OR74A)
- Uncharacterized protein (14 kDa, Protein from Neurospora crassa OR74A)
- Uncharacterized protein (11 kDa, Protein from Neurospora crassa OR74A)
- 50s ribosomal protein l17 (22 kDa, Protein from Neurospora crassa OR74A)
- Uncharacterized protein (23 kDa, Protein from Neurospora crassa OR74A)
- 60s ribosomal protein l20 (25 kDa, Protein from Neurospora crassa OR74A)
- Rnase iii domain-containing protein (29 kDa, Protein from Neurospora crassa OR74A)
- 54s ribosomal protein l4, mitochondrial (29 kDa, Protein from Neurospora crassa OR74A)
- 23 s rrna (1 MDa, RNA from Neurospora crassa OR74A)
- Ribosomal protein (13 kDa, Protein from Neurospora crassa OR74A)
- Nicotinamide-adenine-dinucleotide (663 Da, Ligand)
- 50s ribosomal subunit protein l15 (33 kDa, Protein from Neurospora crassa OR74A)
- 50s ribosomal protein l30 (18 kDa, Protein from Neurospora crassa OR74A)
- Uncharacterized protein (37 kDa, Protein from Neurospora crassa OR74A)
- Mitochondrial large ribosomal subunit yml35 (50 kDa, Protein from Neurospora crassa OR74A)
- Spermine (202 Da, Ligand)
- Uncharacterized protein (18 kDa, Protein from Neurospora crassa OR74A)
- Kow domain-containing protein (45 kDa, Protein from Neurospora crassa OR74A)
- Potassium ion (39 Da, Ligand)
- Uncharacterized protein (7 kDa, Protein from Neurospora crassa OR74A)
- 50s ribosomal protein l24 (31 kDa, Protein from Neurospora crassa OR74A)
- Zinc ion (65 Da, Ligand)
- 60s ribosomal protein l16 (27 kDa, Protein from Neurospora crassa OR74A)
- 60s ribosomal protein l3 (41 kDa, Protein from Neurospora crassa OR74A)
- Mitochondrial ribosomal protein (28 kDa, Protein from Neurospora crassa OR74A)
- Atpase synthesis protein 25, mitochondrial (77 kDa, Protein from Neurospora crassa OR74A)
- Aconitate hydratase (23 kDa, Protein from Neurospora crassa OR74A)
- Uncharacterized protein (41 kDa, Protein from Neurospora crassa OR74A)
- Mitochondrial large ribosomal subunit (41 kDa, Protein from Neurospora crassa OR74A)
- 54s ribosomal protein l31, mitochondrial (13 kDa, Protein from Neurospora crassa OR74A)
- Uncharacterized protein (23 kDa, Protein from Neurospora crassa OR74A)
- Magnesium ion (24 Da, Ligand)
- 50s ribosomal protein l5 (39 kDa, Protein from Neurospora crassa OR74A)
- 60s ribosomal protein l2 (42 kDa, Protein from Neurospora crassa OR74A)
- 50s ribosomal subunit l30 (41 kDa, Protein from Neurospora crassa OR74A)
- 50s ribosomal protein l14 (14 kDa, Protein from Neurospora crassa OR74A)
- Ribosomal protein l13 (20 kDa, Protein from Neurospora crassa OR74A)
- 60s ribosomal protein l4, variant (36 kDa, Protein from Neurospora crassa OR74A)
- 60s ribosomal protein l19 (16 kDa, Protein from Neurospora crassa OR74A)
- Mitochondrial ribosomal protein l44 (11 kDa, Protein from Neurospora crassa OR74A)
- Uncharacterized protein (32 kDa, Protein from Neurospora crassa OR74A)
- Uncharacterized protein (49 kDa, Protein from Neurospora crassa OR74A)
- 60s ribosomal protein l3 (48 kDa, Protein from Neurospora crassa OR74A)
- Mitochondrial 60s ribosomal protein l25 (18 kDa, Protein from Neurospora crassa OR74A)
Resolution: 10.47 Å
EM Method: Single-particle
Fitted PDBs: 6tui
Q-score: 0.08
Bardy P, Fuzik T, Hrebik D, Pantucek R, Beatty JT, Plevka P
Nat Commun (2020) 11 pp. 3034- [ Pubmed: 32541663 DOI: doi:10.1038/s41467-020-16669-9 ]
- Phage major capsid protein, hk97 family (40 kDa, Protein from Rhodobacter capsulatus SB 1003)
- Stopper protein rcc01689 (12 kDa, Protein from Rhodobacter capsulatus SB 1003)
- Connector (760 kDa, Complex from Rhodobacter capsulatus SB 1003)
- Head spike (80 kDa, Complex from Rhodobacter capsulatus SB 1003)
- Tail (730 kDa, Complex from Rhodobacter capsulatus SB 1003)
- Rhodobacter capsulatus de442 (8 MDa, Virus)
- Uncharacterized protein (32 kDa, Protein from Rhodobacter capsulatus SB 1003)
- Portal protein rcc01684 (42 kDa, Protein from Rhodobacter capsulatus SB 1003)
- Adaptor protein rcc01688 (20 kDa, Protein from Rhodobacter capsulatus SB 1003)
- Tail terminator protein rcc01690 (13 kDa, Protein from Rhodobacter capsulatus SB 1003)
- Capsid (5 MDa, Complex from Rhodobacter capsulatus SB 1003)
- Tail tube protein rcc01691 (14 kDa, Protein from Rhodobacter capsulatus SB 1003)
- Uncharacterized protein (9 kDa, Protein from Rhodobacter capsulatus SB 1003)
Virion of native gene transfer agent (GTA) particle
Resolution: 4.54 Å
EM Method: Single-particle
Fitted PDBs: 6tba
Q-score: 0.472
Bardy P, Fuzik T, Hrebik D, Pantucek R, Thomas Beatty J, Plevka P
Nat Commun (2020) 11 pp. 3034-3034 [ Pubmed: 32541663 DOI: doi:10.1038/s41467-020-16669-9 ]
- Iron/sulfur cluster (351 Da, Ligand)
- Baseplate (Complex from Rhodobacter capsulatus SB 1003)
- Phage major capsid protein, hk97 family (40 kDa, Protein from Rhodobacter capsulatus SB 1003)
- Uncharacterized protein (20 kDa, Protein from Rhodobacter capsulatus SB 1003)
- Phage major tail protein, tp901-1 family (14 kDa, Protein from Rhodobacter capsulatus SB 1003)
- Portal protein rcc01684 (42 kDa, Protein from Rhodobacter capsulatus SB 1003)
- Uncharacterized protein (32 kDa, Protein from Rhodobacter capsulatus SB 1003)
- Connector (Complex from Rhodobacter capsulatus SB 1003)
- Uncharacterized protein (13 kDa, Protein from Rhodobacter capsulatus SB 1003)
- Uncharacterized protein (12 kDa, Protein from Rhodobacter capsulatus SB 1003)
- Uncharacterized protein (22 kDa, Protein from Rhodobacter capsulatus SB 1003)
- Head spike (Complex from Rhodobacter capsulatus SB 1003)
- Uncharacterized protein (138 kDa, Protein from Rhodobacter capsulatus SB 1003)
- Uncharacterized protein (31 kDa, Protein from Rhodobacter capsulatus SB 1003)
- Uncharacterized protein (9 kDa, Protein from Rhodobacter capsulatus SB 1003)
- Capsid (Complex from Rhodobacter capsulatus SB 1003)
- Rhodobacter capsulatus sb 1003 (880 kDa, Virus from Rhodobacter capsulatus SB 1003)
- Tail (Complex from Rhodobacter capsulatus SB 1003)
CryoEM structure of the narrow type IV pilus (PilA5) from Thermus thermophilus
Resolution: 3.49 Å
EM Method: Helical reconstruction
Fitted PDBs: 6xxe
Q-score: 0.252
Neuhaus A, Selvaraj M, Salzer R, Langer JD, Kruse K, Kirchner L, Sanders K, Daum B, Averhoff B, Gold VAM
Nat Commun (2020) 11 pp. 2231-2231 [ Pubmed: 32376942 DOI: doi:10.1038/s41467-020-15650-w ]