Backbone model of de novo-designed chlorophyll-binding nanocage O32-15
Resolution: 6.5 Å
EM Method: Single-particle
Fitted PDBs: 8glt
Q-score: 0.213
Ennist NM, Wang S, Kennedy MA, Curti M, Sutherland GA, Vasilev C, Redler RL, Maffeis V, Shareef S, Sica AV, Hua AS, Deshmukh AP, Moyer AP, Hicks DR, Swartz AZ, Cacho RA, Novy N, Bera AK, Kang A, Sankaran B, Johnson MP, Phadkule A, Reppert M, Ekiert D, Bhabha G, Stewart L, Caram JR, Stoddard BL, Romero E, Hunter CN, Baker D
Nat Chem Biol (2024) 20 pp. 906-915 [ Pubmed: 38831036 DOI: doi:10.1038/s41589-024-01626-0 ]
Chlorophyll-binding region of de novo-designed nanocage O32-15
Ennist NM, Wang S, Kennedy MA, Curti M, Sutherland GA, Vasilev C, Redler RL, Maffeis V, Shareef S, Sica AV, Hua AS, Deshmukh AP, Moyer AP, Hicks DR, Swartz AZ, Cacho RA, Novy N, Bera AK, Kang A, Sankaran B, Johnson MP, Phadkule A, Reppert M, Ekiert D, Bhabha G, Stewart L, Caram JR, Stoddard BL, Romero E, Hunter CN, Baker D
Nat Chem Biol (2024) 20 pp. 906-915 [ Pubmed: 38831036 DOI: doi:10.1038/s41589-024-01626-0 ]
Cryo-EM structure of the human Sec61 complex in a partially-open apo state (Class 1)
Resolution: 3.03 Å
EM Method: Single-particle
Fitted PDBs: 8dnv
Q-score: 0.519
Itskanov S, Wang L, Junne T, Sherriff R, Xiao L, Blanchard N, Shi WQ, Forsyth C, Hoepfner D, Spiess M, Park E
Nat Chem Biol (2023) 19 pp. 1063-1071 [ Pubmed: 37169959 DOI: doi:10.1038/s41589-023-01337-y ]
- Protein transport protein sec61 subunit beta (9 kDa, Protein from Homo sapiens)
- Protein transport protein sec61 subunit gamma (7 kDa, Protein from Homo sapiens)
- Protein transport protein sec61 subunit alpha isoform 1 (52 kDa, Protein from Homo sapiens)
- A human-yeast chimeric sec complex (Complex from Homo sapiens)
Cryo-EM structure of the human Sec61 complex in a partially-open apo state (Class 2)
Resolution: 3.4 Å
EM Method: Single-particle
Fitted PDBs: 8dnw
Q-score: 0.467
Itskanov S, Wang L, Junne T, Sherriff R, Xiao L, Blanchard N, Shi WQ, Forsyth C, Hoepfner D, Spiess M, Park E
Nat Chem Biol (2023) 19 pp. 1063-1071 [ Pubmed: 37169959 DOI: doi:10.1038/s41589-023-01337-y ]
- Protein transport protein sec61 subunit beta (9 kDa, Protein from Homo sapiens)
- Protein transport protein sec61 subunit gamma (7 kDa, Protein from Homo sapiens)
- Protein transport protein sec61 subunit alpha isoform 1 (52 kDa, Protein from Homo sapiens)
- A human-yeast chimeric sec complex (Complex from Homo sapiens)
Cryo-EM structure of the human Sec61 complex inhibited by cotransin
Resolution: 2.98 Å
EM Method: Single-particle
Fitted PDBs: 8dnx
Q-score: 0.465
Itskanov S, Wang L, Junne T, Sherriff R, Xiao L, Blanchard N, Shi WQ, Forsyth C, Hoepfner D, Spiess M, Park E
Nat Chem Biol (2023) 19 pp. 1063-1071 [ Pubmed: 37169959 DOI: doi:10.1038/s41589-023-01337-y ]
- Protein transport protein sec61 subunit beta (9 kDa, Protein from Homo sapiens)
- Protein transport protein sec61 subunit alpha isoform 1 (52 kDa, Protein from Homo sapiens)
- Protein transport protein sec61 subunit gamma (7 kDa, Protein from Homo sapiens)
- Cotransin analogue peptide inhibitor (953 Da, Protein from synthetic construct)
- A human-yeast chimeric sec complex treated with cotransin (Complex from Homo sapiens)
Cryo-EM structure of the human Sec61 complex inhibited by decatransin
Resolution: 2.85 Å
EM Method: Single-particle
Fitted PDBs: 8dny
Q-score: 0.546
Itskanov S, Wang L, Junne T, Sherriff R, Xiao L, Blanchard N, Shi WQ, Forsyth C, Hoepfner D, Spiess M, Park E
Nat Chem Biol (2023) 19 pp. 1063-1071 [ Pubmed: 37169959 DOI: doi:10.1038/s41589-023-01337-y ]
- Protein transport protein sec61 subunit beta (9 kDa, Protein from Homo sapiens)
- A human-yeast chimeric sec complex treated with decatransin (Complex from Homo sapiens)
- Protein transport protein sec61 subunit alpha isoform 1 (52 kDa, Protein from Homo sapiens)
- Protein transport protein sec61 subunit gamma (7 kDa, Protein from Homo sapiens)
- Decatransin peptide inhibitor (1 kDa, Protein from synthetic construct)
Cryo-EM structure of the human Sec61 complex inhibited by apratoxin F
Resolution: 2.57 Å
EM Method: Single-particle
Fitted PDBs: 8dnz
Q-score: 0.602
Itskanov S, Wang L, Junne T, Sherriff R, Xiao L, Blanchard N, Shi WQ, Forsyth C, Hoepfner D, Spiess M, Park E
Nat Chem Biol (2023) 19 pp. 1063-1071 [ Pubmed: 37169959 DOI: doi:10.1038/s41589-023-01337-y ]
- Protein transport protein sec61 subunit beta (9 kDa, Protein from Homo sapiens)
- Apratoxin f peptide inhibitor (848 Da, Protein from Lyngbya bouillonii)
- A human-yeast chimeric sec complex treated with apratoxin f (Complex from Homo sapiens)
- Protein transport protein sec61 subunit alpha isoform 1 (52 kDa, Protein from Homo sapiens)
- Protein transport protein sec61 subunit gamma (7 kDa, Protein from Homo sapiens)
Cryo-EM structure of the human Sec61 complex inhibited by mycolactone
Resolution: 2.86 Å
EM Method: Single-particle
Fitted PDBs: 8do0
Q-score: 0.544
Itskanov S, Wang L, Junne T, Sherriff R, Xiao L, Blanchard N, Shi WQ, Forsyth C, Hoepfner D, Spiess M, Park E
Nat Chem Biol (2023) 19 pp. 1063-1071 [ Pubmed: 37169959 DOI: doi:10.1038/s41589-023-01337-y ]
- Protein transport protein sec61 subunit beta (9 kDa, Protein from Homo sapiens)
- A human-yeast chimeric sec complex treated with mycolactone (Complex from Homo sapiens)
- Water (18 Da, Ligand)
- Protein transport protein sec61 subunit alpha isoform 1 (52 kDa, Protein from Homo sapiens)
- Protein transport protein sec61 subunit gamma (7 kDa, Protein from Homo sapiens)
- [(6~{s},7~{s},9~{z},12~{r})-12-[(~{z},2~{s},6~{r},7~{r},9~{r})-4,6-dimethyl-7,9-bis(oxidanyl)dec-4-en-2-yl]-7,9-dimethyl-2-oxidanylidene-1-oxacyclododec-9-en-6-yl] (2~{e},4~{e},6~{e},8~{e},10~{e},12~{s},13~{s},15~{s})-4,6,10-trimethyl-12,13,15-tris(oxidanyl)hexadeca-2,4,6,8,10-pentaenoate (743 Da, Ligand)
Cryo-EM structure of the human Sec61 complex inhibited by ipomoeassin F
Resolution: 3.01 Å
EM Method: Single-particle
Fitted PDBs: 8do1
Q-score: 0.511
Itskanov S, Wang L, Junne T, Sherriff R, Xiao L, Blanchard N, Shi WQ, Forsyth C, Hoepfner D, Spiess M, Park E
Nat Chem Biol (2023) 19 pp. 1063-1071 [ Pubmed: 37169959 DOI: doi:10.1038/s41589-023-01337-y ]
- Protein transport protein sec61 subunit beta (9 kDa, Protein from Homo sapiens)
- Water (18 Da, Ligand)
- Protein transport protein sec61 subunit alpha isoform 1 (52 kDa, Protein from Homo sapiens)
- Protein transport protein sec61 subunit gamma (7 kDa, Protein from Homo sapiens)
- A human-yeast chimeric sec complex treated with ipomoeassin f (Complex from Homo sapiens)
- [(1~{s},3~{r},4~{s},5~{r},6~{r},8~{r},10~{s},23~{r},24~{r},25~{r},26~{r})-5-acetyloxy-6-methyl-4,26-bis(oxidanyl)-17,20-bis(oxidanylidene)-10-pentyl-24-[(~{e})-3-phenylprop-2-enoyl]oxy-2,7,9,21,27-pentaoxatricyclo[21.3.1.0^{3,8}]heptacosan-25-yl] (~{e})-2-methylbut-2-enoate (830 Da, Ligand)
Cryo-EM structure of the human Sec61 complex inhibited by cyclotriazadisulfonamide (CADA)
Resolution: 2.95 Å
EM Method: Single-particle
Fitted PDBs: 8do2
Q-score: 0.551
Itskanov S, Wang L, Junne T, Sherriff R, Xiao L, Blanchard N, Shi WQ, Forsyth C, Hoepfner D, Spiess M, Park E
Nat Chem Biol (2023) 19 pp. 1063-1071 [ Pubmed: 37169959 DOI: doi:10.1038/s41589-023-01337-y ]
- Protein transport protein sec61 subunit beta (9 kDa, Protein from Homo sapiens)
- 9-benzyl-1,5-bis(4-methylbenzene-1-sulfonyl)-3-methylidene-1,5,9-triazacyclododecane (581 Da, Ligand)
- Protein transport protein sec61 subunit alpha isoform 1 (52 kDa, Protein from Homo sapiens)
- Protein transport protein sec61 subunit gamma (7 kDa, Protein from Homo sapiens)
- A human-yeast chimeric sec complex treated with cyclotriazadisulfonamide (cada) (Complex from Homo sapiens)