Ashraf KU, Bunoro-Batista M, Ansell TB, Punetha A, Rosario-Garrido S, Firlar E, Kaelber JT, Stansfeld PJ, Petrou VI
bioRxiv (2025) [ DOI: doi:10.1101/2025.01.29.634835 ]
- Salmonella enterica arnc in msp1e3d1 nanodisc in the apo state (162 kDa, Complex from Salmonella enterica subsp. enterica serovar Typhimurium str. LT2)
- Undecaprenyl-phosphate 4-deoxy-4-formamido-l-arabinose transferase (40 kDa, Protein from Salmonella enterica subsp. enterica serovar Typhimurium str. LT2)
Ashraf KU, Bunoro-Batista M, Ansell TB, Punetha A, Rosario-Garrido S, Firlar E, Kaelber JT, Stansfeld PJ, Petrou VI
bioRxiv (2025) [ DOI: doi:10.1101/2025.01.29.634835 ]
- Uridine-5'-diphosphate (404 Da, Ligand)
- Manganese (ii) ion (54 Da, Ligand)
- Salmonella enterica arnc in msp1e3d1 nanodisc bound to udp and mn2+ (162 kDa, Complex from Salmonella enterica subsp. enterica serovar Typhimurium str. LT2)
- Undecaprenyl-phosphate 4-deoxy-4-formamido-l-arabinose transferase (40 kDa, Protein from Salmonella enterica subsp. enterica serovar Typhimurium str. LT2)
Resolution: 2.74 Å
EM Method: Single-particle
Fitted PDBs: 9b77
Q-score: 0.599
Ashraf KU, Bunoro-Batista M, Ansell TB, Punetha A, Rosario-Garrido S, Firlar E, Kaelber JT, Stansfeld PJ, Petrou VI
bioRxiv (2025) [ DOI: doi:10.1101/2025.01.29.634835 ]
- Undecaprenyl-phosphate 4-deoxy-4-formamido-l-arabinose transferase (40 kDa, Protein from Salmonella enterica subsp. enterica serovar Typhimurium str. LT2)
- Salmonella enterica arnc in msp1e3d1 nanodisc in the apo state (162 kDa, Complex from Salmonella enterica subsp. enterica serovar Typhimurium str. LT2)
- Water (18 Da, Ligand)
Resolution: 2.5 Å
EM Method: Single-particle
Fitted PDBs: 9bct
Q-score: 0.554
You L, Wang C, Molodtsov V, Kuznedelov K, Miao X, Wenck BR, Ulisse P, Sanders TJ, Marshall CJ, Firlar E, Kaelber JT, Santangelo TJ, Ebright RH
Nature (2024) 635 pp. 229-236 [ Pubmed: 39322680 DOI: doi:10.1038/s41586-024-07979-9 ]
- Dna-directed rna polymerase subunit p (5 kDa, Protein from Thermococcus kodakarensis)
- Ftta-dependent transcription termination complex (556 kDa, Complex from Thermococcus kodakarensis)
- Rna (13 kDa, RNA from synthetic construct)
- Dna-directed rna polymerase subunit h (9 kDa, Protein from Thermococcus kodakarensis)
- Dna-directed rna polymerase subunit n (7 kDa, Protein from Thermococcus kodakarensis)
- Dna-directed rna polymerase subunit e (21 kDa, Protein from Thermococcus kodakarensis)
- Dna-directed rna polymerase subunit d (29 kDa, Protein from Thermococcus kodakarensis)
- Dna-directed rna polymerase subunit a' (103 kDa, Protein from Thermococcus kodakarensis)
- Non-template strand dna (11 kDa, DNA from synthetic construct)
- Dna-directed rna polymerase subunit a" (43 kDa, Protein from Thermococcus kodakarensis)
- Dna-directed rna polymerase subunit l (11 kDa, Protein from Thermococcus kodakarensis)
- Transcription termination factor ftta (73 kDa, Protein from Thermococcus kodakarensis)
- Dna-directed rna polymerase subunit f (14 kDa, Protein from Thermococcus kodakarensis)
- Dna-directed rna polymerase subunit k (6 kDa, Protein from Thermococcus kodakarensis)
- Zinc ion (65 Da, Ligand)
- Dna-directed rna polymerase subunit b (127 kDa, Protein from Thermococcus kodakarensis)
- Transcription elongation factor spt5 (16 kDa, Protein from Thermococcus kodakarensis)
- Magnesium ion (24 Da, Ligand)
- Template strand dna (11 kDa, DNA from synthetic construct)
- Transcription elongation factor spt4 (8 kDa, Protein from Thermococcus kodakarensis)
Resolution: 2.2 Å
EM Method: Single-particle
Fitted PDBs: 9bcu
Q-score: 0.613
You L, Wang C, Molodtsov V, Kuznedelov K, Miao X, Wenck BR, Ulisse P, Sanders TJ, Marshall CJ, Firlar E, Kaelber JT, Santangelo TJ, Ebright RH
Nature (2024) 635 pp. 229-236 [ DOI: doi:10.1038/s41586-024-07979-9 Pubmed: 39322680 ]
- Transcription elongation factor spt5 (16 kDa, Protein from Thermococcus kodakarensis)
- Dna-directed rna polymerase subunit d (29 kDa, Protein from Thermococcus kodakarensis)
- Dna-directed rna polymerase subunit n (7 kDa, Protein from Thermococcus kodakarensis)
- Rna (29-mer) (16 kDa, RNA from synthetic construct)
- Dna-directed rna polymerase subunit a" (43 kDa, Protein from Thermococcus kodakarensis)
- Zinc ion (65 Da, Ligand)
- Non-template strand dna (11 kDa, DNA from synthetic construct)
- Transcription elongation factor spt4 (8 kDa, Protein from Thermococcus kodakarensis)
- Ftta-dependent transcription termination complex containing 52 nt rna (556 kDa, Complex from Thermococcus kodakarensis)
- Dna-directed rna polymerase subunit e (21 kDa, Protein from Thermococcus kodakarensis)
- Template strand dna (11 kDa, DNA from synthetic construct)
- Dna-directed rna polymerase subunit l (11 kDa, Protein from Thermococcus kodakarensis)
- Transcription termination factor ftta (73 kDa, Protein from Thermococcus kodakarensis)
- Dna-directed rna polymerase subunit f (14 kDa, Protein from Thermococcus kodakarensis)
- Dna-directed rna polymerase subunit k (6 kDa, Protein from Thermococcus kodakarensis)
- Magnesium ion (24 Da, Ligand)
- Dna-directed rna polymerase subunit p (5 kDa, Protein from Thermococcus kodakarensis)
- Dna-directed rna polymerase subunit h (9 kDa, Protein from Thermococcus kodakarensis)
- Dna-directed rna polymerase subunit b (127 kDa, Protein from Thermococcus kodakarensis)
- Dna-directed rna polymerase subunit a' (103 kDa, Protein from Thermococcus kodakarensis)
You L, Wang C, Molodtsov V, Kuznedelov K, Miao X, Wenck BR, Ulisse P, Sanders TJ, Marshall CJ, Firlar E, Kaelber JT, Santangelo TJ, Ebright RH
Nature (2024) 635 pp. 229-236 [ Pubmed: 39322680 DOI: doi:10.1038/s41586-024-07979-9 ]
You L, Wang C, Molodtsov V, Kuznedelov K, Miao X, Wenck BR, Ulisse P, Sanders TJ, Marshall CJ, Firlar E, Kaelber JT, Santangelo TJ, Ebright RH
Nature (2024) 635 pp. 229-236 [ DOI: doi:10.1038/s41586-024-07979-9 Pubmed: 39322680 ]
You L, Wang C, Molodtsov V, Kuznedelov K, Miao X, Wenck BR, Ulisse P, Sanders TJ, Marshall CJ, Firlar E, Kaelber JT, Santangelo TJ, Ebright RH
Nature (2024) 635 pp. 229-236 [ DOI: doi:10.1038/s41586-024-07979-9 Pubmed: 39322680 ]
You L, Wang C, Molodtsov V, Kuznedelov K, Miao X, Wenck BR, Ulisse P, Sanders TJ, Marshall CJ, Firlar E, Kaelber JT, Santangelo TJ, Ebright RH
Nature (2024) 635 pp. 229-236 [ DOI: doi:10.1038/s41586-024-07979-9 Pubmed: 39322680 ]
Zophobas morio black wasting virus strain NJ2-molitor virion structure
Resolution: 2.0 Å
EM Method: Single-particle
Fitted PDBs: 8t9x
Q-score: 0.736
Penzes JJ, Holm M, Firlar E, Kaelber JT
To Be Published
- Dna (5'-d(p*cp*ap*gp*gp*cp*cp*ap*ap*a)-3') (2 kDa, DNA from Zophobas morio black wasting virus)
- Zophobas morio densovirus (Virus from Zophobas morio densovirus)
- Water (18 Da, Ligand)
- Dna (5'-d(p*cp*gp*a)-3') (886 Da, DNA from Zophobas morio black wasting virus)
- Dna (5'-d(p*tp*cp*gp*ap*a)-3') (1 kDa, DNA from Zophobas morio black wasting virus)
- Major capsid protein (48 kDa, Protein from Zophobas morio black wasting virus)