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Bombyx mori R2 retrotransposon initiating target-primed reverse transcription
Resolution: 3.08 Å
EM Method: Single-particle
Fitted PDBs: 8gh6
Q-score: 0.49
Wilkinson ME, Frangieh CJ, Macrae RK, Zhang F
Science (2023) 380 pp. 301-308 [ DOI: doi:10.1126/science.adg7883 Pubmed: 37023171 ]
- Bombyx mori r2 retrotransposon initiating target-primed reverse transcription (230 kDa, Complex from Bombyx mori)
- 28s dna bottom strand, 5' side (priming strand) (7 kDa, DNA from Bombyx mori)
- R2bm 3'utr rna (81 kDa, RNA from Bombyx mori)
- Thymidine-5'-triphosphate (482 Da, Ligand)
- Reverse transcriptase-like protein (123 kDa, Protein from Bombyx mori)
- Magnesium ion (24 Da, Ligand)
- Zinc ion (65 Da, Ligand)
- 28s dna top strand (21 kDa, DNA from Bombyx mori)
- 28s dna bottom strand, 3' side (21 kDa, DNA from Bombyx mori)
CryoEM Structure of an Group II Intron Retroelement (apo-complex)
Resolution: 3.1 Å
EM Method: Single-particle
Fitted PDBs: 7uim
Q-score: 0.262
Chung K, Xu L, Chai P, Peng J, Devarkar SC, Pyle AM
Science (2022) 378 pp. 627-634 [ Pubmed: 36356138 DOI: doi:10.1126/science.abq2844 ]
- Complex of rna and protein (250 kDa, Complex from [Eubacterium] rectale)
- E.r iic intron (206 kDa, RNA from [Eubacterium] rectale)
- Magnesium ion (24 Da, Ligand)
- Ammonium ion (18 Da, Ligand)
- Group ii intron reverse transcriptase/maturase (49 kDa, Protein from [Eubacterium] rectale)
CryoEM Structure of an Group II Intron Retroelement
Resolution: 2.8 Å
EM Method: Single-particle
Fitted PDBs: 7uin
Q-score: 0.467
Chung K, Xu L, Chai P, Peng J, Devarkar SC, Pyle AM
Science (2022) 378 pp. 627-634 [ Pubmed: 36356138 DOI: doi:10.1126/science.abq2844 ]
- Water (18 Da, Ligand)
- Ternary complex of rna, protein and dna (260 kDa, Complex from [Eubacterium] rectale)
- E.r iic intron (206 kDa, RNA from [Eubacterium] rectale)
- Magnesium ion (24 Da, Ligand)
- Ammonium ion (18 Da, Ligand)
- Dna (37-mer) (11 kDa, DNA from [Eubacterium] rectale)
- Group ii intron reverse transcriptase/maturase (49 kDa, Protein from [Eubacterium] rectale)
Cryo-EM structure of human RNA Polymerase I in elongation state
Resolution: 2.7 Å
EM Method: Single-particle
Fitted PDBs: 7ob9
Q-score: 0.519
Misiaszek AD, Girbig M, Grotsch H, Baudin F, Murciano B, Lafita A, Muller CW
Nat Struct Mol Biol (2021) 28 pp. 997-1008 [ DOI: doi:10.1038/s41594-021-00693-4 Pubmed: 34887565 ]
- Rna and dna (Complex from Homo sapiens)
- Dna-directed rna polymerases i and iii subunit rpac2 (15 kDa, Protein from Human)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc3 (17 kDa, Protein from Human)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc4 (7 kDa, Protein from Human)
- Dna non-template strand (13 kDa, DNA from Homo sapiens)
- Dna-directed rna polymerase i subunit rpa43 (37 kDa, Protein from Human)
- Dna-directed rna polymerase i subunit rpa12 (13 kDa, Protein from Human)
- Rna (9 kDa, RNA from Homo sapiens)
- Dna-directed rna polymerase i subunit rpa1 (195 kDa, Protein from Human)
- Dna-directed rna polymerase i subunit rpa2 (128 kDa, Protein from Human)
- Dna template strand (13 kDa, DNA from Homo sapiens)
- Dna-directed rna polymerases i and iii subunit rpac1 (39 kDa, Protein from Human)
- Zinc ion (65 Da, Ligand)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc2 (14 kDa, Protein from Human)
- Dna-directed rna polymerase i subunit rpa34 (55 kDa, Protein from Human)
- Rna polymerase i (Complex from Homo sapiens)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc1 (24 kDa, Protein from Human)
- Dna-directed rna polymerase i subunit rpa49 (47 kDa, Protein from Human)
- Magnesium ion (24 Da, Ligand)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc5 (7 kDa, Protein from Human)
- Rna polymerase i (Complex)
Dimeric form of SARS-CoV-2 RNA-dependent RNA polymerase
Resolution: 5.5 Å
EM Method: Single-particle
Fitted PDBs: 7oyg
Q-score: 0.151
Jochheim FA, Tegunov D, Hillen HS, Schmitzova J, Kokic G, Dienemann C, Cramer P
Communications Biology (2021) 4 pp. 999- [ DOI: doi:10.1038/s42003-021-02529-9 ]
- Sars-cov-2 nsp7 (9 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Rna (5'-r(p*up*gp*cp*ap*cp*up*gp*cp*gp*up*ap*g)-3') (18 kDa, RNA from Severe acute respiratory syndrome coronavirus 2)
- Sars-cov-2 rna-dependent rna polymerase (nsp12) (107 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Dimeric form of sars-cov-2 rna-dependent rna polymerase complex (nsp12, nsp7, nsp8) (Complex from Severe acute respiratory syndrome coronavirus 2)
- Sars-cov-2 nsp8 (22 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Rna (5'-r(p*cp*up*ap*cp*gp*cp*ap*gp*up*g)-3') (4 kDa, RNA from Severe acute respiratory syndrome coronavirus 2)
- Zinc ion (65 Da, Ligand)
The catalytic core lobe of human telomerase in complex with a telomeric DNA substrate
Resolution: 3.8 Å
EM Method: Single-particle
Fitted PDBs: 7bg9
Q-score: 0.346
Ghanim GE, Fountain AJ, van Roon AM, Rangan R, Das R, Collins K, Nguyen THD
Nature (2021) 593 pp. 449-453 [ DOI: doi:10.1038/s41586-021-03415-4 Pubmed: 33883742 ]
- Telomerase reverse transcriptase,telomerase reverse transcriptase (149 kDa, Protein from Homo sapiens)
- Histone h2b (18 kDa, Protein from Homo sapiens)
- Rna (256-mer) (145 kDa, RNA from Homo sapiens)
- Histone h2a (14 kDa, Protein from Homo sapiens)
- Histone (Complex from Homo sapiens)
- Dna (5'-d(p*tp*tp*ap*gp*gp*g)-3') (5 kDa, DNA from synthetic construct)
- Dna (Complex from synthetic construct)
- Human telomerase catalytic core in complex with a telomeric dna substrate (Complex)
- Telomerase reverse transcriptase (Complex from Homo sapiens)
Resolution: 8.0 Å
EM Method: Single-particle
Fitted PDBs: 7abi
Q-score: 0.152
Townsend C, Leelaram MN, Agafonov DE, Dybkov O, Will CL, Bertram K, Urlaub H, Kastner B, Stark H, Luhrmann R
Science (2020) 370 [ DOI: doi:10.1126/science.abc3753 Pubmed: 33243851 ]
- U2 small nuclear ribonucleoprotein b'' (25 kDa, Protein from Human)
- Small nuclear ribonucleoprotein sm d3 (13 kDa, Protein from Human)
- Small nuclear ribonucleoprotein f (9 kDa, Protein from Human)
- Rna-binding motif protein, x-linked 2 (37 kDa, Protein from Human)
- Small nuclear ribonucleoprotein g (8 kDa, Protein from Human)
- Pre-mrna-splicing factor syf1 (100 kDa, Protein from Human)
- Pre-mrna-splicing factor rbm22 (46 kDa, Protein from Human)
- Splicing factor 3a subunit 2 (49 kDa, Protein from Human)
- Ring-type e3 ubiquitin-protein ligase ppil2 (58 kDa, Protein from Human)
- Inositol hexakisphosphate (660 Da, Ligand)
- 116 kda u5 small nuclear ribonucleoprotein component (109 kDa, Protein from Human)
- Pre-mrna-processing-splicing factor 8 (273 kDa, Protein from Human)
- U5 snrna (36 kDa, RNA from Human)
- Human pre-bact-2 spliceosome (Complex)
- Spliceosome-associated protein cwc15 homolog (26 kDa, Protein from Human)
- Small nuclear ribonucleoprotein sm d2 (13 kDa, Protein from Human)
- U5 small nuclear ribonucleoprotein 40 kda protein (39 kDa, Protein from Human)
- Small nuclear ribonucleoprotein e (10 kDa, Protein from Human)
- Splicing factor 3b subunit 1 (146 kDa, Protein from Human)
- U2 small nuclear ribonucleoprotein a' (28 kDa, Protein from Human)
- Ubiquitin-like protein 5 (8 kDa, Protein from Human)
- Cell division cycle 5-like protein (92 kDa, Protein from Human)
- Dna/rna-binding protein kin17 (45 kDa, Protein from Human)
- Magnesium ion (24 Da, Ligand)
- U5 small nuclear ribonucleoprotein 200 kda helicase (244 kDa, Protein from Human)
- Splicing factor 3b subunit 5 (10 kDa, Protein from Human)
- Pre-mrna-processing factor 17 (65 kDa, Protein from Human)
- Microfibrillar-associated protein 1 (52 kDa, Protein from Human)
- Small nuclear ribonucleoprotein-associated proteins b and b' (24 kDa, Protein from Human)
- Protein bud31 homolog (17 kDa, Protein from Human)
- U2 snrna (60 kDa, RNA from Human)
- Snw domain-containing protein 1 (61 kDa, Protein from Human)
- Peptidyl-prolyl cis-trans isomerase e (33 kDa, Protein from Human)
- U6 snrna (34 kDa, RNA from Human)
- Smad nuclear-interacting protein 1 (45 kDa, Protein from Human)
- Guanosine-5'-triphosphate (523 Da, Ligand)
- Small nuclear ribonucleoprotein sm d1 (13 kDa, Protein from Human)
- Splicing factor 3b subunit 3 (135 kDa, Protein from Human)
- Pre-mrna-splicing factor 38a (37 kDa, Protein from Human)
- Intron-binding protein aquarius (171 kDa, Protein from Human)
- Minx m3 pre-mrna (103 kDa, RNA from synthetic construct)
- Splicing factor 3a subunit 1 (88 kDa, Protein from Human)
- Splicing factor 3b subunit 4 (44 kDa, Protein from Human)
- Crooked neck-like protein 1 (100 kDa, Protein from Human)
- Bud13 homolog (70 kDa, Protein from Human)
- Pleiotropic regulator 1 (57 kDa, Protein from Human)
- Splicing factor 3b subunit 2 (100 kDa, Protein from Human)
- Beta-catenin-like protein 1 (65 kDa, Protein from Human)
- Splicing factor 3a subunit 3 (58 kDa, Protein from Human)
- Minx m3 pre-mrna (Complex from synthetic construct)
- Human pre-bact-2 spliceosome (Complex from Homo sapiens)
- Zinc finger matrin-type protein 2 (23 kDa, Protein from Human)
- Splicing factor 3b subunit 6 (14 kDa, Protein from Human)
- Serine/arginine repetitive matrix protein 1 (102 kDa, Protein from Human)
- Phd finger-like domain-containing protein 5a (12 kDa, Protein from Human)
Cryo-EM structure of human RNA Polymerase III elongation complex 1
Resolution: 2.8 Å
EM Method: Single-particle
Fitted PDBs: 7ae1
Q-score: 0.48
Girbig M, Misiaszek AD, Vorlander MK, Lafita A, Grotsch H, Baudin F, Bateman A, Muller CW
Nat Struct Mol Biol (2021) 28 pp. 210-219 [ DOI: doi:10.1038/s41594-020-00555-5 Pubmed: 33558764 ]
- Template-dna (14 kDa, DNA from synthetic construct)
- Dna-directed rna polymerases i and iii subunit rpac2 (15 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase iii subunit rpc5 (80 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc4 (7 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase iii subunit rpc10 (12 kDa, Protein from Homo sapiens)
- Non-template dna (14 kDa, DNA from synthetic construct)
- Rna, dna (Complex from synthetic construct)
- Dna-directed rna polymerase iii subunit rpc2 (127 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase iii subunit rpc4 (44 kDa, Protein from Homo sapiens)
- Rna (6 kDa, RNA from synthetic construct)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc1 (24 kDa, Protein from Homo sapiens)
- Human rna polymerase (Complex from Homo sapiens)
- Dna-directed rna polymerases i and iii subunit rpac1 (39 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc5 (7 kDa, Protein from Homo sapiens)
- Human rna polymerase iii elongation complex 1 (776 kDa, Complex)
- Iron/sulfur cluster (351 Da, Ligand)
- Dna-directed rna polymerase iii subunit rpc7 (25 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase iii subunit rpc8 (22 kDa, Protein from Homo sapiens)
- Zinc ion (65 Da, Ligand)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc2 (14 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase iii subunit rpc9 (16 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase iii subunit rpc1 (155 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase iii subunit rpc6 (35 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase iii subunit rpc3 (60 kDa, Protein from Homo sapiens)
- Magnesium ion (24 Da, Ligand)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc3 (17 kDa, Protein from Homo sapiens)
Cryo-EM structure of human RNA Polymerase III elongation complex 3
Resolution: 3.1 Å
EM Method: Single-particle
Fitted PDBs: 7ae3
Q-score: 0.373
Girbig M, Misiaszek AD, Vorlander MK, Lafita A, Grotsch H, Baudin F, Bateman A, Muller CW
Nat Struct Mol Biol (2021) 28 pp. 210-219 [ DOI: doi:10.1038/s41594-020-00555-5 Pubmed: 33558764 ]
- Dna-directed rna polymerases i and iii subunit rpac2 (15 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase iii subunit rpc5 (80 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc4 (7 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase iii subunit rpc10 (12 kDa, Protein from Homo sapiens)
- Non-template dna (14 kDa, DNA from synthetic construct)
- Rna, dna (Complex from synthetic construct)
- Dna-directed rna polymerase iii subunit rpc2 (127 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase iii subunit rpc4 (44 kDa, Protein from Homo sapiens)
- Rna (6 kDa, RNA from synthetic construct)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc1 (24 kDa, Protein from Homo sapiens)
- Human rna polymerase iii elongation complex (Complex from Homo sapiens)
- Dna-directed rna polymerases i and iii subunit rpac1 (39 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc5 (7 kDa, Protein from Homo sapiens)
- Iron/sulfur cluster (351 Da, Ligand)
- Dna-directed rna polymerase iii subunit rpc7 (25 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase iii subunit rpc8 (22 kDa, Protein from Homo sapiens)
- Zinc ion (65 Da, Ligand)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc2 (14 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase iii subunit rpc9 (16 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase iii subunit rpc1 (155 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase iii subunit rpc6 (35 kDa, Protein from Homo sapiens)
- Human rna polymerase iii elongation complex 3 (776 kDa, Complex)
- Dna-directed rna polymerase iii subunit rpc3 (60 kDa, Protein from Homo sapiens)
- Template dna (14 kDa, DNA from synthetic construct)
- Magnesium ion (24 Da, Ligand)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc3 (17 kDa, Protein from Homo sapiens)
Cryo-EM structure of human RNA Polymerase III elongation complex 2
Resolution: 3.4 Å
EM Method: Single-particle
Fitted PDBs: 7aea
Q-score: 0.409
Girbig M, Misiaszek AD, Vorlander MK, Lafita A, Grotsch H, Baudin F, Bateman A, Muller CW
Nat Struct Mol Biol (2021) 28 pp. 210-219 [ DOI: doi:10.1038/s41594-020-00555-5 Pubmed: 33558764 ]
- Dna-directed rna polymerases i and iii subunit rpac2 (15 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase iii subunit rpc5 (80 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc4 (7 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase iii subunit rpc10 (12 kDa, Protein from Homo sapiens)
- Non-template dna (14 kDa, DNA from synthetic construct)
- Rna, dna (Complex from synthetic construct)
- Dna-directed rna polymerase iii subunit rpc2 (127 kDa, Protein from Homo sapiens)
- Human rna polymerase iii elongation complex (776 kDa, Complex)
- Dna-directed rna polymerase iii subunit rpc4 (44 kDa, Protein from Homo sapiens)
- Rna (6 kDa, RNA from synthetic construct)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc1 (24 kDa, Protein from Homo sapiens)
- Human rna polymerase iii elongation complex (Complex from Homo sapiens)
- Dna-directed rna polymerases i and iii subunit rpac1 (39 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc5 (7 kDa, Protein from Homo sapiens)
- Iron/sulfur cluster (351 Da, Ligand)
- Dna-directed rna polymerase iii subunit rpc7 (25 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase iii subunit rpc8 (22 kDa, Protein from Homo sapiens)
- Zinc ion (65 Da, Ligand)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc2 (14 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase iii subunit rpc9 (16 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase iii subunit rpc1 (155 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase iii subunit rpc6 (35 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase iii subunit rpc3 (60 kDa, Protein from Homo sapiens)
- Template dna (14 kDa, DNA from synthetic construct)
- Magnesium ion (24 Da, Ligand)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc3 (17 kDa, Protein from Homo sapiens)