CryoEM Structure of Diffocin - precontracted - Baseplate - focused refinement on triplex region
Cai X, He Y, Yu I, Imani A, Scholl D, Miller JF, Zhou ZH
Nat Commun (2024) 15 pp. 7057-7057 [ DOI: doi:10.1038/s41467-024-51038-w Pubmed: 39152109 ]
- Tube (cd1364) (16 kDa, Protein from Clostridioides difficile)
- Sheath initiator (cd1370) (16 kDa, Protein from Clostridioides difficile)
- Hub-hydrolase (cd1368) (65 kDa, Protein from Clostridioides difficile)
- Tri-1 (cd1372) (26 kDa, Protein from Clostridioides difficile)
- Tape measure protein (cd1366) (89 kDa, Protein from Clostridioides difficile)
- Spike (cd1369) (12 kDa, Protein from Clostridioides difficile)
- Tube tail (cd1367) (16 kDa, Protein from Clostridioides difficile)
- Diffocin (Complex from Clostridioides difficile)
- Tri-2 (cd1371) (39 kDa, Protein from Clostridioides difficile)
- Sheath (cd1363) (39 kDa, Protein from Clostridioides difficile)
Tail tip conformation 1 of phage lambda tail
Resolution: 2.95 Å
EM Method: Single-particle
Fitted PDBs: 8iyk
Q-score: 0.483
Wang C, Duan J, Gu Z, Ge X, Zeng J, Wang J
Structure (2024) 32 pp. 35- [ Pubmed: 37918400 DOI: doi:10.1016/j.str.2023.10.006 ]
- Tail tube protein (25 kDa, Protein from Escherichia phage lambda)
- Tail tip assembly protein i (23 kDa, Protein from Escherichia phage lambda)
- Tail tip protein m (12 kDa, Protein from Escherichia phage lambda)
- Tail tip conformation 1 of phage lambda tail (Complex from Escherichia phage Lambda)
- Iron/sulfur cluster (351 Da, Ligand)
- Tape measure protein (92 kDa, Protein from Escherichia phage lambda)
- Tail tip protein l (25 kDa, Protein from Escherichia phage lambda)
- Tip attachment protein j (124 kDa, Protein from Escherichia phage lambda)
Tail tip conformation 2 of phage lambda tail
Resolution: 3.0 Å
EM Method: Single-particle
Fitted PDBs: 8iyl
Q-score: 0.474
Wang C, Duan J, Gu Z, Ge X, Zeng J, Wang J
Structure (2024) 32 pp. 35- [ Pubmed: 37918400 DOI: doi:10.1016/j.str.2023.10.006 ]
- Tail tube protein (25 kDa, Protein from Escherichia phage lambda)
- Tail tip assembly protein i (23 kDa, Protein from Escherichia phage lambda)
- Tail tip protein m (12 kDa, Protein from Escherichia phage lambda)
- Iron/sulfur cluster (351 Da, Ligand)
- Tape measure protein (92 kDa, Protein from Escherichia phage lambda)
- Tail tip protein l (25 kDa, Protein from Escherichia phage lambda)
- Tail tip conformation 2 of phage lambda tail (Complex from Escherichia phage lambda)
- Tip attachment protein j (124 kDa, Protein from Escherichia phage lambda)
Tail tube of native GTA particle computed with C3 symmetry
Bardy P, Fuzik T, Hrebik D, Pantucek R, Thomas Beatty J, Plevka P
Nat Commun (2020) 11 pp. 3034-3034 [ DOI: doi:10.1038/s41467-020-16669-9 Pubmed: 32541663 ]
C3 symmetrical reconstruction of the Staphylococcus aureus phage 80alpha baseplate
Resolution: 3.96 Å
EM Method: Single-particle
Fitted PDBs: 6v8i
Q-score: 0.373
Kizziah JL, Manning KA, Dearborn AD, Dokland T
PLoS Pathog (2020) 16 pp. e1008314-e1008314 [ Pubmed: 32069326 DOI: doi:10.1371/journal.ppat.1008314 ]
- Fiber lower (Protein from Staphylococcus virus 80alpha)
- Major tail protein (Protein from Staphylococcus virus 80alpha)
- Distal tail protein (Protein from Staphylococcus virus 80alpha)
- Staphylococcus phage 80alpha baseplate (3 MDa, Complex from Staphylococcus virus 80alpha)
- Tape measure protein (Protein from Staphylococcus virus 80alpha)
- Fiber upper (Protein from Staphylococcus virus 80alpha)
- Receptor binding protein (Protein from Staphylococcus virus 80alpha)
- Tail-associated lysin (Protein from Staphylococcus virus 80alpha)
C6 symmetrical reconstruction of the Staphylococcus aureus phage 80alpha baseplate
Resolution: 3.45 Å
EM Method: Single-particle
Fitted PDBs: 6v8i
Q-score: 0.414
Kizziah JL, Manning KA, Dearborn AD, Dokland T
PLoS Pathog (2020) 16 pp. e1008314-e1008314 [ Pubmed: 32069326 DOI: doi:10.1371/journal.ppat.1008314 ]
- Fiber lower (Protein from Staphylococcus virus 80alpha)
- Major tail protein (Protein from Staphylococcus virus 80alpha)
- Distal tail protein (Protein from Staphylococcus virus 80alpha)
- Staphylococcus phage 80alpha baseplate (3 MDa, Complex from Staphylococcus virus 80alpha)
- Tape measure protein (Protein from Staphylococcus virus 80alpha)
- Fiber upper (Protein from Staphylococcus virus 80alpha)
- Receptor binding protein (Protein from Staphylococcus virus 80alpha)
- Tail-associated lysin (Protein from Staphylococcus virus 80alpha)
Lower fiber-focused reconstruction of the Staphylococcus aureus phage 80alpha baseplate
Resolution: 3.69 Å
EM Method: Single-particle
Fitted PDBs: 6v8i
Q-score: 0.422
Kizziah JL, Manning KA, Dearborn AD, Dokland T
PLoS Pathog (2020) 16 pp. e1008314-e1008314 [ Pubmed: 32069326 DOI: doi:10.1371/journal.ppat.1008314 ]
- Fiber lower (Protein from Staphylococcus virus 80alpha)
- Major tail protein (Protein from Staphylococcus virus 80alpha)
- Distal tail protein (Protein from Staphylococcus virus 80alpha)
- Staphylococcus phage 80alpha baseplate (3 MDa, Complex from Staphylococcus virus 80alpha)
- Tape measure protein (Protein from Staphylococcus virus 80alpha)
- Fiber upper (Protein from Staphylococcus virus 80alpha)
- Receptor binding protein (Protein from Staphylococcus virus 80alpha)
- Tail-associated lysin (Protein from Staphylococcus virus 80alpha)
Upper fiber-focused reconstruction of the Staphylococcus aureus phage 80alpha baseplate
Resolution: 4.14 Å
EM Method: Single-particle
Fitted PDBs: 6v8i
Q-score: 0.415
Kizziah JL, Manning KA, Dearborn AD, Dokland T
PLoS Pathog (2020) 16 pp. e1008314-e1008314 [ Pubmed: 32069326 DOI: doi:10.1371/journal.ppat.1008314 ]
- Fiber lower (Protein from Staphylococcus virus 80alpha)
- Major tail protein (Protein from Staphylococcus virus 80alpha)
- Distal tail protein (Protein from Staphylococcus virus 80alpha)
- Staphylococcus phage 80alpha baseplate (3 MDa, Complex from Staphylococcus virus 80alpha)
- Tape measure protein (Protein from Staphylococcus virus 80alpha)
- Fiber upper (Protein from Staphylococcus virus 80alpha)
- Receptor binding protein (Protein from Staphylococcus virus 80alpha)
- Tail-associated lysin (Protein from Staphylococcus virus 80alpha)
Receptor binding protein-focused reconstruction of the Staphylococcus aureus phage 80alpha baseplate
Resolution: 3.6 Å
EM Method: Single-particle
Fitted PDBs: 6v8i
Q-score: 0.42
Kizziah JL, Manning KA, Dearborn AD, Dokland T
PLoS Pathog (2020) 16 pp. e1008314-e1008314 [ Pubmed: 32069326 DOI: doi:10.1371/journal.ppat.1008314 ]
- Fiber lower (Protein from Staphylococcus virus 80alpha)
- Major tail protein (Protein from Staphylococcus virus 80alpha)
- Distal tail protein (Protein from Staphylococcus virus 80alpha)
- Staphylococcus phage 80alpha baseplate (3 MDa, Complex from Staphylococcus virus 80alpha)
- Tape measure protein (Protein from Staphylococcus virus 80alpha)
- Fiber upper (Protein from Staphylococcus virus 80alpha)
- Receptor binding protein (Protein from Staphylococcus virus 80alpha)
- Tail-associated lysin (Protein from Staphylococcus virus 80alpha)