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Cryo-EM structure of the gasdermin pore from Trichoplax adhaerens
Cryo-EM structure of RCD-1 pore from Neurospora crassa
Resolution: 3.63 Å
EM Method: Single-particle
Fitted PDBs: 8jyz
Q-score: 0.406
Li Y, Hou Y, Sun Q, Zeng H, Meng F, Tian X, He Q, Shao F, Ding J
Science (2024) 384 pp. adm9190-adm9190 [ DOI: doi:10.1126/science.adm9190 Pubmed: 38662913 ]
- Rcd-1 pore from neurospora crassa (620 kDa, Complex from Neurospora crassa)
- Gasdermin-like protein rcd-1-2 (27 kDa, Protein from Neurospora crassa)
- Gasdermin-like protein rcd-1-1 (29 kDa, Protein from Neurospora crassa)
Resolution: 3.12 Å
EM Method: Single-particle
Fitted PDBs: 8tu6
Q-score: 0.525
Varkaris A, Pazolli E, Gunaydin H, Wang Q, Pierce L, Boezio AA, Bulku A, DiPietro L, Fridrich C, Frost A, Giordanetto F, Hamilton EP, Harris K, Holliday M, Hunter TL, Iskandar A, Ji Y, Larivee A, LaRochelle JR, Lescarbeau A, Llambi F, Lormil B, Mader MM, Mar BG, Martin I, McLean TH, Michelsen K, Pechersky Y, Puente-Poushnejad E, Raynor K, Rogala D, Samadani R, Schram AM, Shortsleeves K, Swaminathan S, Tajmir S, Tan G, Tang Y, Valverde R, Wehrenberg B, Wilbur J, Williams BR, Zeng H, Zhang H, Walters WP, Wolf BB, Shaw DE, Bergstrom DA, Watters J, Fraser JS, Fortin PD, Kipp DR
Cancer Discov (2024) 14 pp. 240-257 [ DOI: doi:10.1158/2159-8290.CD-23-0944 Pubmed: 37916956 ]
- P110 (Complex from Homo sapiens)
- P85 (Complex from Homo sapiens)
- Phosphatidylinositol 3-kinase regulatory subunit alpha (83 kDa, Protein from Homo sapiens)
- Pi3kalpha (850 kDa, Complex from Homo sapiens)
- Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit alpha isoform (126 kDa, Protein from Homo sapiens)
Cryo-EM structure of the gasdermin B pore
Resolution: 3.17 Å
EM Method: Single-particle
Fitted PDBs: 8gtn
Q-score: 0.421
Zhong X, Zeng H, Zhou Z, Su Y, Cheng H, Hou Y, She Y, Feng N, Wang J, Shao F, Ding J
Nature (2023) 616 pp. 598-605 [ Pubmed: 36991125 DOI: doi:10.1038/s41586-023-05872-5 ]
- Pore-forming protein gasdermin b (Complex from Homo sapiens)
- Isoform 4 of gasdermin-b (28 kDa, Protein from Homo sapiens)
Resolution: 3.4 Å
EM Method: Single-particle
Fitted PDBs: 7deg
Q-score: 0.534
Zhu G, Zeng H, Zhang S, Juli J, Tai L, Zhang D, Pang X, Zhang Y, Lam SM, Zhu Y, Peng G, Michel H, Sun F
Angew Chem Int Ed Engl (2021) 60 pp. 13323-13330 [ DOI: doi:10.1002/anie.202016785 Pubmed: 33665933 ]
- Protoporphyrin ix containing fe (616 Da, Ligand)
- Cytochrome c oxidase (respiratory complex iv) (Complex from Aquifex aeolicus VF5)
- Dinuclear copper ion (127 Da, Ligand)
- (1r)-2-{[{[(2s)-2,3-dihydroxypropyl]oxy}(hydroxy)phosphoryl]oxy}-1-[(palmitoyloxy)methyl]ethyl (11e)-octadec-11-enoate (749 Da, Ligand)
- Cytochrome c oxidase subunit i (65 kDa, Protein from Aquifex aeolicus (strain VF5))
- Copper (ii) ion (63 Da, Ligand)
- Cytochrome oxidase subunit iia (3 kDa, Protein from Aquifex aeolicus)
- 1,2-distearoyl-sn-glycerophosphoethanolamine (748 Da, Ligand)
- 2-[(2~{e},6~{e},10~{z},14~{z},18~{z},23~{r})-3,7,11,15,19,23,27-heptamethyloctacosa-2,6,10,14,18-pentaenyl]naphthalene-1,4-dione (639 Da, Ligand)
- Heme-as (920 Da, Ligand)
- Cytochrome oxidase subunit ii (16 kDa, Protein from Aquifex aeolicus)
Hyperthermophilic respiratory Complex III
Resolution: 3.3 Å
EM Method: Single-particle
Fitted PDBs: 6kls
Q-score: 0.515
Zhu G, Zeng H, Zhang S, Juli J, Pang X, Hoffmann J, Zhang Y, Morgner N, Zhu Y, Peng G, Michel H, Sun F
Angew Chem Int Ed Engl (2020) 59 pp. 343-351 [ Pubmed: 31778296 DOI: doi:10.1002/anie.201911554 ]
- Heme c (618 Da, Ligand)
- Protoporphyrin ix containing fe (616 Da, Ligand)
- The cytochrome bc1 complex (respiratory complex iii) (Complex from Aquifex aeolicus)
- (1r)-2-{[{[(2s)-2,3-dihydroxypropyl]oxy}(hydroxy)phosphoryl]oxy}-1-[(palmitoyloxy)methyl]ethyl (11e)-octadec-11-enoate (749 Da, Ligand)
- Cytochrome b subunit (47 kDa, Protein from Aquifex aeolicus)
- Rieske-i iron sulfur protein (19 kDa, Protein from Aquifex aeolicus (strain VF5))
- 2-[(2~{e},6~{e},10~{z},14~{z},18~{z},23~{r})-3,7,11,15,19,23,27-heptamethyloctacosa-2,6,10,14,18-pentaenyl]naphthalene-1,4-dione (639 Da, Ligand)
- Fe2/s2 (inorganic) cluster (175 Da, Ligand)
- Cytochrome c (27 kDa, Protein from Aquifex aeolicus (strain VF5))
Hyperthermophilic respiratory Complex III
Resolution: 3.2 Å
EM Method: Single-particle
Fitted PDBs: 6klv
Q-score: -0.007
Zhu G, Zeng H, Zhang S, Juli J, Pang X, Hoffmann J, Zhang Y, Morgner N, Zhu Y, Peng G, Michel H, Sun F
Angew Chem Int Ed Engl (2020) 59 pp. 343-351 [ Pubmed: 31778296 DOI: doi:10.1002/anie.201911554 ]
- Heme c (618 Da, Ligand)
- Protoporphyrin ix containing fe (616 Da, Ligand)
- The cytochrome bc1 complex (respiratory complex iii) (Complex from Aquifex aeolicus)
- (1r)-2-{[{[(2s)-2,3-dihydroxypropyl]oxy}(hydroxy)phosphoryl]oxy}-1-[(palmitoyloxy)methyl]ethyl (11e)-octadec-11-enoate (749 Da, Ligand)
- Cytochrome b (47 kDa, Protein from Aquifex aeolicus)
- Antimycin (534 Da, Ligand)
- Rieske-i iron sulfur protein (19 kDa, Protein from Aquifex aeolicus (strain VF5))
- 2-[(2~{e},6~{e},10~{z},14~{z},18~{z},23~{r})-3,7,11,15,19,23,27-heptamethyloctacosa-2,6,10,14,18-pentaenyl]naphthalene-1,4-dione (639 Da, Ligand)
- Fe2/s2 (inorganic) cluster (175 Da, Ligand)
- Cytochrome c (27 kDa, Protein from Aquifex aeolicus (strain VF5))