Cryo-EM structure of murine Dispatched 'R' conformation
Resolution: 2.5 Å
EM Method: Single-particle
Fitted PDBs: 7rph
Q-score: 0.57
Wang Q, Asarnow DE, Ding K, Mann RK, Hatakeyama J, Zhang Y, Ma Y, Cheng Y, Beachy PA
Nature (2021) 599 pp. 320-324 [ Pubmed: 34707294 DOI: doi:10.1038/s41586-021-03996-0 ]
- Water (18 Da, Ligand)
- Protein dispatched homolog 1 (152 kDa, Protein from Mus musculus)
- Cholesterol hemisuccinate (486 Da, Ligand)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Lauryl maltose neopentyl glycol (1 kDa, Ligand)
- Sodium ion (22 Da, Ligand)
- Dispatched protein 'r' conformation (151 kDa, Complex from Mus musculus)
Cryo-EM structure of murine Dispatched 'T' conformation
Resolution: 2.5 Å
EM Method: Single-particle
Fitted PDBs: 7rpi
Q-score: 0.554
Wang Q, Asarnow DE, Ding K, Mann RK, Hatakeyama J, Zhang Y, Ma Y, Cheng Y, Beachy PA
Nature (2021) 599 pp. 320-324 [ DOI: doi:10.1038/s41586-021-03996-0 Pubmed: 34707294 ]
- Water (18 Da, Ligand)
- Protein dispatched homolog 1 (152 kDa, Protein from Mus musculus)
- Dispatched protein 't' conformation (151 kDa, Complex from Mus musculus)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Cholesterol hemisuccinate (486 Da, Ligand)
- Lauryl maltose neopentyl glycol (1 kDa, Ligand)
- Sodium ion (22 Da, Ligand)
Cryo-EM structure of murine Dispatched NNN mutant
Resolution: 3.2 Å
EM Method: Single-particle
Fitted PDBs: 7rpj
Q-score: 0.427
Wang Q, Asarnow DE, Ding K, Mann RK, Hatakeyama J, Zhang Y, Ma Y, Cheng Y, Beachy PA
Nature (2021) 599 pp. 320-324 [ DOI: doi:10.1038/s41586-021-03996-0 Pubmed: 34707294 ]
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Protein dispatched homolog 1 (152 kDa, Protein from Mus musculus)
- Dispatched protein nnn mutant (151 kDa, Complex from Mus musculus)
- Cholesterol hemisuccinate (486 Da, Ligand)
Cryo-EM structure of murine Dispatched in complex with Sonic hedgehog
Resolution: 2.7 Å
EM Method: Single-particle
Fitted PDBs: 7rpk
Q-score: 0.547
Wang Q, Asarnow DE, Ding K, Mann RK, Hatakeyama J, Zhang Y, Ma Y, Cheng Y, Beachy PA
Nature (2021) 599 pp. 320-324 [ DOI: doi:10.1038/s41586-021-03996-0 Pubmed: 34707294 ]
- Lauryl maltose neopentyl glycol (1 kDa, Ligand)
- Water (18 Da, Ligand)
- Dispatched protein complexed with sonic hedgehog 26-189 (151 kDa, Complex from Mus musculus)
- (2s)-3-{[(s)-(2-aminoethoxy)(hydroxy)phosphoryl]oxy}-2-(hexanoyloxy)propyl hexanoate (411 Da, Ligand)
- Protein dispatched homolog 1 (152 kDa, Protein from Mus musculus)
- Zinc ion (65 Da, Ligand)
- Calcium ion (40 Da, Ligand)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Cholesterol hemisuccinate (486 Da, Ligand)
- Sulfate ion (96 Da, Ligand)
- Sonic hedgehog protein (18 kDa, Protein from Mus musculus)
- Sodium ion (22 Da, Ligand)
CryoEM Structure of Pyocin R2 - precontracted - trunk
Resolution: 2.9 Å
EM Method: Helical reconstruction
Fitted PDBs: 6pyt
Q-score: 0.549
Ge P, Scholl D, Prokhorov NS, Avaylon J, Shneider MM, Browning C, Buth SA, Plattner M, Chakraborty U, Ding K, Leiman PG, Miller JF, Zhou ZH
Nature (2020) 580 pp. 658-662 [ DOI: doi:10.1038/s41586-020-2186-z Pubmed: 32350467 ]
- Pyocin sheath pa0622 (41 kDa, Protein from Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1))
- Pyocin tube pa0623 (17 kDa, Protein from Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1))
- Pyocin r2 (Cellular component from Pseudomonas aeruginosa PAO1)
CryoEM Structure of Pyocin R2 - precontracted - baseplate
Resolution: 3.5 Å
EM Method: Single-particle
Fitted PDBs: 6u5b
Q-score: 0.448
Ge P, Scholl D, Prokhorov NS, Avaylon J, Shneider MM, Browning C, Buth SA, Plattner M, Chakraborty U, Ding K, Leiman PG, Miller JF, Zhou ZH
Nature (2020) 580 pp. 658-662 [ DOI: doi:10.1038/s41586-020-2186-z Pubmed: 32350467 ]
- Sheath initiator pa0617 (11 kDa, Protein from Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1))
- Glue pa0627 (7 kDa, Protein from Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1))
- Tube pa0623 (17 kDa, Protein from Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1))
- Ripcord pa0626 (31 kDa, Protein from Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1))
- Pyocin r2 (Complex from Pseudomonas aeruginosa PAO1)
- Tri2 pa0619 (20 kDa, Protein from Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1))
- Tri1a pa0618 (31 kDa, Protein from Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1))
- Sheath pa0622 (41 kDa, Protein from Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1))
CryoEM Structure of Pyocin R2 - precontracted - collar
Resolution: 3.8 Å
EM Method: Single-particle
Fitted PDBs: 6u5f
Q-score: 0.464
Ge P, Scholl D, Prokhorov NS, Avaylon J, Shneider MM, Browning C, Buth SA, Plattner M, Chakraborty U, Ding K, Leiman PG, Miller JF, Zhou ZH
Nature (2020) 580 pp. 658-662 [ DOI: doi:10.1038/s41586-020-2186-z Pubmed: 32350467 ]
- Pyocin r2 (Complex from Pseudomonas aeruginosa PAO1)
- Collar pa0615 (18 kDa, Protein from Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1))
- Tube pa0623 (17 kDa, Protein from Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1))
- Sheath pa0622 (41 kDa, Protein from Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1))
CryoEM Structure of Pyocin R2 - precontracted - hub
Resolution: 4.0 Å
EM Method: Single-particle
Fitted PDBs: 6u5h
Q-score: 0.356
Ge P, Scholl D, Prokhorov NS, Avaylon J, Shneider MM, Browning C, Buth SA, Plattner M, Chakraborty U, Ding K, Leiman PG, Miller JF, Zhou ZH
Nature (2020) 580 pp. 658-662 [ DOI: doi:10.1038/s41586-020-2186-z Pubmed: 32350467 ]
CryoEM Structure of Pyocin R2 - postcontracted - collar
Resolution: 3.5 Å
EM Method: Single-particle
Fitted PDBs: 6u5j
Q-score: 0.484
Ge P, Scholl D, Prokhorov NS, Avaylon J, Shneider MM, Browning C, Buth SA, Plattner M, Chakraborty U, Ding K, Leiman PG, Miller JF, Zhou ZH
Nature (2020) 580 pp. 658-662 [ DOI: doi:10.1038/s41586-020-2186-z Pubmed: 32350467 ]
- Pyocin r2 - postcontracted (Complex from Pseudomonas aeruginosa PAO1)
- Collar pa0615 (18 kDa, Protein from Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1))
- Sheath pa0622 (41 kDa, Protein from Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1))
CryoEM Structure of Pyocin R2 - postcontracted - baseplate
Resolution: 3.5 Å
EM Method: Single-particle
Fitted PDBs: 6u5k
Q-score: 0.384
Ge P, Scholl D, Prokhorov NS, Avaylon J, Shneider MM, Browning C, Buth SA, Plattner M, Chakraborty U, Ding K, Leiman PG, Miller JF, Zhou ZH
Nature (2020) 580 pp. 658-662 [ DOI: doi:10.1038/s41586-020-2186-z Pubmed: 32350467 ]
- Pyocin r2 - postcontracted (Complex from Pseudomonas aeruginosa PAO1)
- Sheath initiator pa0617 (11 kDa, Protein from Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1))
- Glue pa0627 (7 kDa, Protein from Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1))
- Tri2 pa0619 (20 kDa, Protein from Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1))
- Tri1a pa0618 (31 kDa, Protein from Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1))
- Sheath pa0622 (41 kDa, Protein from Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1))