DNA bound type IV-A3 CRISPR effector complex from K. pneumoniae
Resolution: 3.1 Å
EM Method: Single-particle
Fitted PDBs: 8rc2
Q-score: 0.518
Cepaite R, Klein N, Miksys A, Camara-Wilpert S, Ragozius V, Benz F, Skorupskaite A, Becker H, Zvejyte G, Steube N, Hochberg GKA, Randau L, Pinilla-Redondo R, Malinauskaite L, Pausch P
Nat Commun (2024) 15 pp. 9306-9306 [ Pubmed: 39468082 DOI: doi:10.1038/s41467-024-53778-1 ]
- Zinc ion (65 Da, Ligand)
- Crispr type aferr-associated protein csf2 (38 kDa, Protein from Klebsiella pneumoniae)
- Crispr type aferr-associated protein csf3 (25 kDa, Protein from Klebsiella pneumoniae)
- Crrna (19 kDa, RNA from Klebsiella pneumoniae)
- Type iv-a3 crispr-cas effector complex from klebsiella pneumoniae bound to crrna and target dna (332 kDa, Complex from Klebsiella pneumoniae)
- Target strand (ts)-dna (18 kDa, DNA from Klebsiella pneumoniae)
- Non-target strand (nts)-dna (18 kDa, DNA from Klebsiella pneumoniae)
- Crispr type aferr-associated protein csf1 (29 kDa, Protein from Klebsiella pneumoniae)
DNA bound type IV-A1 CRISPR effector complex from P. oleovorans
Resolution: 3.0 Å
EM Method: Single-particle
Fitted PDBs: 8rc3
Q-score: 0.522
Cepaite R, Klein N, Miksys A, Camara-Wilpert S, Ragozius V, Benz F, Skorupskaite A, Becker H, Zvejyte G, Steube N, Hochberg GKA, Randau L, Pinilla-Redondo R, Malinauskaite L, Pausch P
Nat Commun (2024) 15 pp. 9306-9306 [ Pubmed: 39468082 DOI: doi:10.1038/s41467-024-53778-1 ]
- Type iv-a1 crispr-cas effector complex from pseudomonas oleovorans bound to crrna (Complex from Pseudomonas oleovorans)
- Zinc ion (65 Da, Ligand)
- Non-target strand (nts) dna (18 kDa, DNA from Pseudomonas oleovorans)
- Target strand (ts) dna (18 kDa, DNA from Pseudomonas oleovorans)
- Crispr type aferr-associated protein csf1 (27 kDa, Protein from Pseudomonas oleovorans)
- Crrna (19 kDa, RNA from Pseudomonas oleovorans)
- Target dna (Complex from Pseudomonas oleovorans)
- Type iv-a1 crispr-cas effector complex from pseudomonas oleovorans bound to crrna and target dna (332 kDa, Complex)
- Crispr type aferr-associated protein csf3 (24 kDa, Protein from Pseudomonas oleovorans)
- Crispr type aferr-associated protein csf2 (37 kDa, Protein from Pseudomonas oleovorans)
- Crispr type aferr-associated protein csf5 (25 kDa, Protein from Pseudomonas oleovorans)
DNA bound type IV-A1 CRISPR effector complex with the DinG helicase from P. oleovorans
Resolution: 3.18 Å
EM Method: Single-particle
Fitted PDBs: 8rfj
Q-score: 0.402
Cepaite R, Klein N, Miksys A, Camara-Wilpert S, Ragozius V, Benz F, Skorupskaite A, Becker H, Zvejyte G, Steube N, Hochberg GKA, Randau L, Pinilla-Redondo R, Malinauskaite L, Pausch P
Nat Commun (2024) 15 pp. 9306-9306 [ Pubmed: 39468082 DOI: doi:10.1038/s41467-024-53778-1 ]
- Target strand (ts-)dna (18 kDa, DNA from Pseudomonas oleovorans)
- Zinc ion (65 Da, Ligand)
- Type iv-a1 crispr-cas effector complex with the ding helicase from pseudomonas oleovorans bound to crrna (Complex from Pseudomonas oleovorans)
- Crispr type aferr-associated protein csf1 (27 kDa, Protein from Pseudomonas oleovorans)
- Crrna (19 kDa, RNA from Pseudomonas oleovorans)
- Target dna (Complex from Pseudomonas oleovorans)
- Crispr type aferr-associated protein csf3 (24 kDa, Protein from Pseudomonas oleovorans)
- Atp-dependent dna helicase ding (77 kDa, Protein from Pseudomonas oleovorans)
- Crispr type aferr-associated protein csf2 (37 kDa, Protein from Pseudomonas oleovorans)
- Non-target strand (nts-) dna (18 kDa, DNA from Pseudomonas oleovorans)
- Type iv-a1 crispr-cas effector complex with the ding helicase from pseudomonas oleovorans bound to crrna and target dna (332 kDa, Complex)
- Crispr type aferr-associated protein csf5 (25 kDa, Protein from Pseudomonas oleovorans)
DNA-bound Type IV-A3 CRISPR effector in complex with DinG helicase from K. pneumoniae (state I)
Resolution: 2.9 Å
EM Method: Single-particle
Fitted PDBs: 8s35
Q-score: 0.381
Cepaite R, Klein N, Miksys A, Camara-Wilpert S, Ragozius V, Benz F, Skorupskaite A, Becker H, Zvejyte G, Steube N, Hochberg GKA, Randau L, Pinilla-Redondo R, Malinauskaite L, Pausch P
Nat Commun (2024) 15 pp. 9306-9306 [ Pubmed: 39468082 DOI: doi:10.1038/s41467-024-53778-1 ]
- Zinc ion (65 Da, Ligand)
- Crispr type aferr-associated protein csf2 (38 kDa, Protein from Klebsiella pneumoniae)
- Crispr type aferr-associated protein csf3 (25 kDa, Protein from Klebsiella pneumoniae)
- Crrna (19 kDa, RNA from Klebsiella pneumoniae)
- Type iv-a3 crispr-cas effector complex with ding from klebsiella pneumoniae bound to crrna and target dna (428 kDa, Complex)
- Ts-dna (18 kDa, DNA from Klebsiella pneumoniae)
- Dead/deah box helicase (70 kDa, Protein from Klebsiella pneumoniae)
- Crispr effector in complex with a ding helicase and crrna (Complex from Klebsiella pneumoniae)
- Nts-dna (18 kDa, DNA from Klebsiella pneumoniae)
- Crispr type aferr-associated protein csf1 (29 kDa, Protein from Klebsiella pneumoniae)
- Double-stranded dna (Complex from Klebsiella pneumoniae)
DNA-bound Type IV-A3 CRISPR effector in complex with DinG helicase from K. pneumoniae (state II)
Resolution: 2.9 Å
EM Method: Single-particle
Fitted PDBs: 8s36
Q-score: 0.388
Cepaite R, Klein N, Miksys A, Camara-Wilpert S, Ragozius V, Benz F, Skorupskaite A, Becker H, Zvejyte G, Steube N, Hochberg GKA, Randau L, Pinilla-Redondo R, Malinauskaite L, Pausch P
Nat Commun (2024) 15 pp. 9306-9306 [ Pubmed: 39468082 DOI: doi:10.1038/s41467-024-53778-1 ]
- Zinc ion (65 Da, Ligand)
- Crispr type aferr-associated protein csf2 (38 kDa, Protein from Klebsiella pneumoniae)
- Crispr type aferr-associated protein csf3 (25 kDa, Protein from Klebsiella pneumoniae)
- Crrna (19 kDa, RNA from Klebsiella pneumoniae)
- Type iv-a3 crispr-cas effector complex with ding from klebsiella pneumoniae bound to crrna and target dna (Complex)
- Ts-dna (18 kDa, DNA from Klebsiella pneumoniae)
- Nts-nda (18 kDa, DNA from Klebsiella pneumoniae)
- Dead/deah box helicase (70 kDa, Protein from Klebsiella pneumoniae)
- Crispr effector in complex with a ding helicase and crrna (Complex from Klebsiella pneumoniae)
- Crispr type aferr-associated protein csf1 (29 kDa, Protein from Klebsiella pneumoniae)
- Double-stranded dna (Complex from Klebsiella pneumoniae)
DNA-bound Type IV-A3 CRISPR effector in complex with DinG helicase from K. pneumoniae (state III)
Resolution: 2.9 Å
EM Method: Single-particle
Fitted PDBs: 8s37
Q-score: 0.371
Cepaite R, Klein N, Miksys A, Camara-Wilpert S, Ragozius V, Benz F, Skorupskaite A, Becker H, Zvejyte G, Steube N, Hochberg GKA, Randau L, Pinilla-Redondo R, Malinauskaite L, Pausch P
Nat Commun (2024) 15 pp. 9306-9306 [ Pubmed: 39468082 DOI: doi:10.1038/s41467-024-53778-1 ]
- Zinc ion (65 Da, Ligand)
- Crispr type aferr-associated protein csf2 (38 kDa, Protein from Klebsiella pneumoniae)
- Crispr type aferr-associated protein csf3 (25 kDa, Protein from Klebsiella pneumoniae)
- Crrna (19 kDa, RNA from Klebsiella pneumoniae)
- Type iv-a3 crispr-cas effector complex with ding from klebsiella pneumoniae bound to crrna and target dna (Complex)
- Ts-dna (18 kDa, DNA from Klebsiella pneumoniae)
- Dead/deah box helicase (70 kDa, Protein from Klebsiella pneumoniae)
- Crispr effector in complex with a ding helicase and crrna (Complex from Klebsiella pneumoniae)
- Nts-dna (18 kDa, DNA from Klebsiella pneumoniae)
- Crispr type aferr-associated protein csf1 (29 kDa, Protein from Klebsiella pneumoniae)
- Double-stranded dna (Complex from Klebsiella pneumoniae)
Herbine K, Nayak AR, Temiakov D
Nat Commun (2024) 15 pp. 7134-7134 [ DOI: doi:10.1038/s41467-024-50817-9 Pubmed: 39164235 ]
- Diphosphomethylphosphonic acid adenosyl ester (505 Da, Ligand)
- Cognate substrate bound in the entry site (es) of human mitochondrial transcription elongation complex (227 kDa, Complex from Homo sapiens)
- Transcription elongation factor, mitochondrial (27 kDa, Protein from Homo sapiens)
- Rna (rna14mt) (4 kDa, RNA from synthetic construct)
- Template strand dna (ts31mt) (10 kDa, DNA from synthetic construct)
- Non-template strand dna (nt27mt) (10 kDa, DNA from synthetic construct)
- Dna-directed rna polymerase, mitochondrial (127 kDa, Protein from Homo sapiens)
Resolution: 2.74 Å
EM Method: Single-particle
Fitted PDBs: 8u8v
Q-score: 0.405
Herbine K, Nayak AR, Temiakov D
Nat Commun (2024) 15 pp. 7134-7134 [ DOI: doi:10.1038/s41467-024-50817-9 Pubmed: 39164235 ]
- Substrate atp bound to insertion site (is) of human mitochondrial transcription elongation complex (227 kDa, Complex from Homo sapiens)
- Diphosphomethylphosphonic acid adenosyl ester (505 Da, Ligand)
- Transcription elongation factor, mitochondrial (27 kDa, Protein from Homo sapiens)
- Rna (rna14mt) (4 kDa, RNA from synthetic construct)
- Template strand dna (ts31mt) (10 kDa, DNA from synthetic construct)
- Non-template strand dna (nt27mt) (10 kDa, DNA from synthetic construct)
- Magnesium ion (24 Da, Ligand)
- Dna-directed rna polymerase, mitochondrial (127 kDa, Protein from Homo sapiens)
Cryo-EM Structure of the TEFM-bound Human Mitochondrial Transcription Substrate Rejection Complex
Herbine K, Nayak AR, Temiakov D
Nat Commun (2024) 15 pp. 7134-7134 [ DOI: doi:10.1038/s41467-024-50817-9 Pubmed: 39164235 ]
- Non-template strand dna (nt27mt_+1t) (10 kDa, DNA from synthetic construct)
- Transcription elongation factor, mitochondrial (27 kDa, Protein from Homo sapiens)
- Rna (rna14mt) (4 kDa, RNA from synthetic construct)
- Structure of the transcription elongation complex of human mitochondrial polymerase with the closed conformation of the fingers domain (227 kDa, Complex from Homo sapiens)
- Dna-directed rna polymerase, mitochondrial (127 kDa, Protein from Homo sapiens)
- Template strand dna (ts31mt_+1a) (10 kDa, DNA from synthetic construct)
Herbine K, Nayak AR, Temiakov D
Nat Commun (2024) 15 pp. 7134-7134 [ DOI: doi:10.1038/s41467-024-50817-9 Pubmed: 39164235 ]
- Non-cognate substrate bound in the entry site (es) of human mitochondrial transcription elongation complex (227 kDa, Complex from Homo sapiens)
- Non-template strand dna (nt27mt_+1t) (10 kDa, DNA from synthetic construct)
- Diphosphomethylphosphonic acid adenosyl ester (505 Da, Ligand)
- Transcription elongation factor, mitochondrial (27 kDa, Protein from Homo sapiens)
- Rna (rna14mt) (4 kDa, RNA from synthetic construct)
- Dna-directed rna polymerase, mitochondrial (127 kDa, Protein from Homo sapiens)
- Template strand dna (ts31mt_+1a) (10 kDa, DNA from synthetic construct)