CryoEM structure of a C7-symmetrical GroEL7-GroES7 cage in presence of ADP-BeFx
Resolution: 2.5 Å
EM Method: Single-particle
Fitted PDBs: 8p4m
Q-score: 0.59
Wagner J, Caravajal AI, Beck F, Bracher A, Wan W, Bohn S, Koerner R, Baumeister W, Fernandez-Busnadiego R, Hartl FU
Nature (2024) [ ]
- Chaperonin groel (57 kDa, Protein from Escherichia coli)
- Beryllium trifluoride ion (66 Da, Ligand)
- Co-chaperonin groes (10 kDa, Protein from Escherichia coli)
- Potassium ion (39 Da, Ligand)
- Groel14-groes14 (950 kDa, Complex from Escherichia coli)
- Water (18 Da, Ligand)
- Magnesium ion (24 Da, Ligand)
- Adenosine-5'-diphosphate (427 Da, Ligand)
Resolution: 2.9 Å
EM Method: Single-particle
Fitted PDBs: 8p4n
Q-score: 0.547
Wagner J, Caravajal AI, Beck F, Bracher A, Wan W, Bohn S, Koerner R, Baumeister W, Fernandez-Busnadiego R, Hartl FU
Nature (2024) [ ]
- Beryllium trifluoride ion (66 Da, Ligand)
- Adenosine-5'-diphosphate (427 Da, Ligand from Escherichia coli)
- Chaperonin groel (57 kDa, Protein from Escherichia coli)
- Co-chaperonin groes (10 kDa, Protein from Escherichia coli)
- Potassium ion (39 Da, Ligand)
- Water (18 Da, Ligand)
- Magnesium ion (24 Da, Ligand)
- Groel14-groes14-metk (1 MDa, Complex from Escherichia coli)
Resolution: 3.04 Å
EM Method: Single-particle
Fitted PDBs: 8p4o
Q-score: 0.503
Wagner J, Caravajal AI, Beck F, Bracher A, Wan W, Bohn S, Koerner R, Baumeister W, Fernandez-Busnadiego R, Hartl FU
Nature (2024) [ ]
- S-adenosylmethionine synthase (41 kDa, Protein from Escherichia coli)
- Groel14-groes14-metk2 (1 MDa, Complex from Escherichia coli)
- Beryllium trifluoride ion (66 Da, Ligand)
- Chaperonin groel (57 kDa, Protein from Escherichia coli)
- Co-chaperonin groes (10 kDa, Protein from Escherichia coli)
- Potassium ion (39 Da, Ligand)
- Water (18 Da, Ligand)
- Magnesium ion (24 Da, Ligand)
- Adenosine-5'-diphosphate (427 Da, Ligand)
Resolution: 3.12 Å
EM Method: Single-particle
Fitted PDBs: 8qxs
Q-score: 0.453
Wagner J, Caravajal AI, Beck F, Bracher A, Wan W, Bohn S, Koerner R, Baumeister W, Fernandez-Busnadiego R, Hartl FU
Nature (2024) [ ]
- Beryllium trifluoride ion (66 Da, Ligand)
- Potassium ion (39 Da, Ligand)
- Water (18 Da, Ligand)
- Chaperonin groel (57 kDa, Protein from Escherichia coli BL21(DE3))
- Magnesium ion (24 Da, Ligand)
- Groel14-groes7-metk (1 MDa, Complex from Escherichia coli)
- Co-chaperonin groes (10 kDa, Protein from Escherichia coli BL21(DE3))
- Adenosine-5'-diphosphate (427 Da, Ligand)
Resolution: 2.9 Å
EM Method: Single-particle
Fitted PDBs: 8qxt
Q-score: 0.515
Wagner J, Caravajal AI, Beck F, Bracher A, Wan W, Bohn S, Koerner R, Baumeister W, Fernandez-Busnadiego R, Hartl FU
Nature (2024) [ ]
- Beryllium trifluoride ion (66 Da, Ligand)
- Potassium ion (39 Da, Ligand)
- Water (18 Da, Ligand)
- Chaperonin groel (57 kDa, Protein from Escherichia coli BL21(DE3))
- Magnesium ion (24 Da, Ligand)
- Groel14-groes7-metk (1 MDa, Complex from Escherichia coli)
- Co-chaperonin groes (10 kDa, Protein from Escherichia coli BL21(DE3))
- Adenosine-5'-diphosphate (427 Da, Ligand)
Escherichia coli RNA polymerase unwinding intermediate (I1a) at the lambda PR promoter
Resolution: 2.8 Å
EM Method: Single-particle
Fitted PDBs: 8to1
Q-score: 0.477
Darst SA, Saecker RM, Mueller AU, Malone B, Chen J, Budell WC, Dandey VP, Maruthi K, Mendez JH, Molina N, Eng ET, Yen LY, Potter CS, Carragher B
Nat Struct Mol Biol (2024) [ DOI: doi:0.1038/s41594-024-01349-9 ]
- (3r,5s,7r,8r,9s,10s,12s,13r,14s,17r)-10,13-dimethyl-17-[(2r)-pentan-2-yl]-2,3,4,5,6,7,8,9,11,12,14,15,16,17-tetradecahydro-1h-cyclopenta[a]phenanthrene-3,7,12-triol (378 Da, Ligand)
- Dna-directed rna polymerase subunit omega (10 kDa, Protein from Escherichia coli (strain K12))
- Escherichia coli rna polymerase unwinding intermediate (i1a) at the lambda pr promoter (Complex from Escherichia coli)
- Dna-directed rna polymerase subunit alpha (36 kDa, Protein from Escherichia coli (strain K12))
- Dna-directed rna polymerase subunit beta' (155 kDa, Protein from Escherichia coli (strain K12))
- Rna polymerase sigma factor rpod (70 kDa, Protein from Escherichia coli (strain K12))
- Zinc ion (65 Da, Ligand)
- Template strand of lamdba pr promoter dna (32 kDa, DNA from Escherichia phage Lambda)
- Magnesium ion (24 Da, Ligand)
- Nontemplate strand of lamdba pr promoter dna (32 kDa, DNA from Escherichia phage Lambda)
- Dna-directed rna polymerase subunit beta (150 kDa, Protein from Escherichia coli (strain K12))
Escherichia coli RNA polymerase unwinding intermediate (I1d) at the lambda PR promoter
Resolution: 2.9 Å
EM Method: Single-particle
Fitted PDBs: 8to6
Q-score: 0.465
Darst SA, Saecker RM, Mueller AU, Malone B, Chen J, Budell WC, Dandey VP, Maruthi K, Mendez JH, Molina N, Eng ET, Yen LY, Potter CS, Carragher B
Nat Struct Mol Biol (2024) [ DOI: doi:0.1038/s41594-024-01349-9 ]
- (3r,5s,7r,8r,9s,10s,12s,13r,14s,17r)-10,13-dimethyl-17-[(2r)-pentan-2-yl]-2,3,4,5,6,7,8,9,11,12,14,15,16,17-tetradecahydro-1h-cyclopenta[a]phenanthrene-3,7,12-triol (378 Da, Ligand)
- Dna-directed rna polymerase subunit omega (10 kDa, Protein from Escherichia coli (strain K12))
- Dna-directed rna polymerase subunit alpha (36 kDa, Protein from Escherichia coli (strain K12))
- Dna-directed rna polymerase subunit beta' (155 kDa, Protein from Escherichia coli (strain K12))
- Rna polymerase sigma factor rpod (70 kDa, Protein from Escherichia coli (strain K12))
- Zinc ion (65 Da, Ligand)
- Escherichia coli rna polymerase unwinding intermediate (i1d) at the lambda pr promoter (Complex from Escherichia coli)
- Template strand of lamdba pr promoter dna (32 kDa, DNA from Escherichia phage Lambda)
- Magnesium ion (24 Da, Ligand)
- Nontemplate strand of lamdba pr promoter dna (32 kDa, DNA from Escherichia phage Lambda)
- Dna-directed rna polymerase subunit beta (150 kDa, Protein from Escherichia coli (strain K12))
Escherichia coli RNA polymerase unwinding intermediate (I1b) at the lambda PR promoter
Resolution: 2.9 Å
EM Method: Single-particle
Fitted PDBs: 8to8
Q-score: 0.461
Darst SA, Saecker RM, Mueller AU, Malone B, Chen J, Budell WC, Dandey VP, Maruthi K, Mendez JH, Molina N, Eng ET, Yen LY, Potter CS, Carragher B
Nat Struct Mol Biol (2024) [ DOI: doi:0.1038/s41594-024-01349-9 ]
- (3r,5s,7r,8r,9s,10s,12s,13r,14s,17r)-10,13-dimethyl-17-[(2r)-pentan-2-yl]-2,3,4,5,6,7,8,9,11,12,14,15,16,17-tetradecahydro-1h-cyclopenta[a]phenanthrene-3,7,12-triol (378 Da, Ligand)
- Dna-directed rna polymerase subunit omega (10 kDa, Protein from Escherichia coli (strain K12))
- Dna-directed rna polymerase subunit alpha (36 kDa, Protein from Escherichia coli (strain K12))
- Dna-directed rna polymerase subunit beta' (155 kDa, Protein from Escherichia coli (strain K12))
- Rna polymerase sigma factor rpod (70 kDa, Protein from Escherichia coli K-12)
- Zinc ion (65 Da, Ligand)
- Template strand of lamdba pr promoter dna (32 kDa, DNA from Escherichia phage Lambda)
- Magnesium ion (24 Da, Ligand)
- Escherichia coli rna polymerase unwinding intermediate (i1b) at the lambda pr promoter (Complex from Escherichia coli)
- Nontemplate strand of lamdba pr promoter dna (32 kDa, DNA from Escherichia phage Lambda)
- Dna-directed rna polymerase subunit beta (150 kDa, Protein from Escherichia coli (strain K12))
Escherichia coli RNA polymerase unwinding intermediate (I1c) at the lambda PR promoter
Resolution: 2.9 Å
EM Method: Single-particle
Fitted PDBs: 8toe
Q-score: 0.462
Darst SA, Saecker RM, Mueller AU, Malone B, Chen J, Budell WC, Dandey VP, Maruthi K, Mendez JH, Molina N, Eng ET, Yen LY, Potter CS, Carragher B
Nat Struct Mol Biol (2024) [ DOI: doi:0.1038/s41594-024-01349-9 ]
- Escherichia coli rna polymerase unwinding intermediate (i1c) at the lambda pr promoter (Complex from Escherichia coli)
- Dna-directed rna polymerase subunit omega (10 kDa, Protein from Escherichia coli (strain K12))
- Dna-directed rna polymerase subunit alpha (36 kDa, Protein from Escherichia coli (strain K12))
- Dna-directed rna polymerase subunit beta' (155 kDa, Protein from Escherichia coli (strain K12))
- Rna polymerase sigma factor rpod (70 kDa, Protein from Escherichia coli (strain K12))
- Zinc ion (65 Da, Ligand)
- Template strand of lamdba pr promoter dna (32 kDa, DNA from Escherichia phage Lambda)
- Magnesium ion (24 Da, Ligand)
- Chapso (631 Da, Ligand)
- Nontemplate strand of lamdba pr promoter dna (32 kDa, DNA from Escherichia phage Lambda)
- Dna-directed rna polymerase subunit beta (150 kDa, Protein from Escherichia coli (strain K12))
Escherichia coli RNA polymerase closed complex intermediate at the lambda PR promoter
Resolution: 3.1 Å
EM Method: Single-particle
Fitted PDBs: 8tom
Q-score: 0.253
Darst SA, Saecker RM, Mueller AU, Malone B, Chen J, Budell WC, Dandey VP, Maruthi K, Mendez JH, Molina N, Eng ET, Yen LY, Potter CS, Carragher B
Nat Struct Mol Biol (2024) [ DOI: doi:0.1038/s41594-024-01349-9 ]
- Dna-directed rna polymerase subunit omega (10 kDa, Protein from Escherichia coli (strain K12))
- Dna-directed rna polymerase subunit alpha (36 kDa, Protein from Escherichia coli (strain K12))
- Dna-directed rna polymerase subunit beta' (155 kDa, Protein from Escherichia coli (strain K12))
- Rna polymerase sigma factor rpod (70 kDa, Protein from Escherichia coli (strain K12))
- Escherichia coli rna polymerase closed complex intermediate at the lambda pr promoter (Complex from Escherichia coli)
- Zinc ion (65 Da, Ligand)
- Template strand of lamdba pr promoter dna (27 kDa, DNA from Escherichia phage Lambda)
- Magnesium ion (24 Da, Ligand)
- Chapso (631 Da, Ligand)
- Nontemplate strand of lamdba pr promoter dna (27 kDa, DNA from Escherichia phage Lambda)
- Dna-directed rna polymerase subunit beta (150 kDa, Protein from Escherichia coli (strain K12))