Shi J, Feng Z, Song Q, Wen A, Liu T, Xu L, Ye Z, Xu S, Gao F, Xiao L, Zhu J, Das K, Zhao G, Li J, Feng Y, Lin W
Nat Commun (2025) 16 pp. 1573- [ DOI: doi:10.1038/s41467-025-56697-x ]
- Mycobacterium tuberculosis transcription activation complex with unphosphated phop (Complex from Mycobacterium tuberculosis)
- Magnesium ion (24 Da, Ligand)
- Zinc ion (65 Da, Ligand)
- Dna-directed rna polymerase subunit beta (130 kDa, Protein from Mycobacterium tuberculosis)
- Dna-directed rna polymerase subunit beta' (146 kDa, Protein from Mycobacterium tuberculosis)
- Dna-directed rna polymerase subunit alpha (37 kDa, Protein from Mycobacterium tuberculosis)
- Template strand dna (33 kDa, DNA from Mycobacterium tuberculosis)
- Dna-directed rna polymerase subunit omega (11 kDa, Protein from Mycobacterium tuberculosis)
- Non-template strand dna (33 kDa, DNA from Mycobacterium tuberculosis)
- Rna polymerase sigma factor siga (57 kDa, Protein from Mycobacterium tuberculosis)
Shi J, Feng Z, Song Q, Wen A, Liu T, Xu L, Ye Z, Xu S, Gao F, Xiao L, Zhu J, Das K, Zhao G, Li J, Feng Y, Lin W
Nat Commun (2025) 16 pp. 1573- [ DOI: doi:10.1038/s41467-025-56697-x ]
- Dna-directed rna polymerase subunit beta' (146 kDa, Protein from Mycobacterium tuberculosis H37Rv)
- Possible two component system response transcriptional positive regulator phop (30 kDa, Protein from Mycobacterium tuberculosis H37Rv)
- Magnesium ion (24 Da, Ligand)
- Rna polymerase sigma factor siga (57 kDa, Protein from Mycobacterium tuberculosis H37Rv)
- Zinc ion (65 Da, Ligand)
- Dna-directed rna polymerase subunit beta (130 kDa, Protein from Mycobacterium tuberculosis H37Rv)
- Dna-directed rna polymerase subunit alpha (37 kDa, Protein from Mycobacterium tuberculosis H37Rv)
- Mycobacterium tuberculosis transcription activation complex with two phop molecules (Complex from Mycobacterium tuberculosis)
- Template strand dna (23 kDa, DNA from Mycobacterium tuberculosis H37Rv)
- Dna-directed rna polymerase subunit omega (11 kDa, Protein from Mycobacterium tuberculosis H37Rv)
- Non-template strand dna (23 kDa, DNA from Mycobacterium tuberculosis H37Rv)
Shi J, Feng Z, Song Q, Wen A, Liu T, Xu L, Ye Z, Xu S, Gao F, Xiao L, Zhu J, Das K, Zhao G, Li J, Feng Y, Lin W
Nat Commun (2025) 16 pp. 1573- [ DOI: doi:10.1038/s41467-025-56697-x ]
- Dna-directed rna polymerase subunit beta' (146 kDa, Protein from Mycobacterium tuberculosis H37Rv)
- Magnesium ion (24 Da, Ligand)
- Rna polymerase sigma factor siga (57 kDa, Protein from Mycobacterium tuberculosis H37Rv)
- Zinc ion (65 Da, Ligand)
- Dna-directed rna polymerase subunit beta (130 kDa, Protein from Mycobacterium tuberculosis H37Rv)
- Dna-directed rna polymerase subunit alpha (37 kDa, Protein from Mycobacterium tuberculosis H37Rv)
- Mycobacterium tuberculosis transcription activation complex with four phop molecules (composite map) (Complex from Mycobacterium tuberculosis)
- Template strand dna of the promoter (30 kDa, DNA from Mycobacterium tuberculosis H37Rv)
- Possible two component system response transcriptional positive regulator phop (27 kDa, Protein from Mycobacterium tuberculosis H37Rv)
- Non-template strand dna of the promoter (30 kDa, DNA from Mycobacterium tuberculosis H37Rv)
- Dna-directed rna polymerase subunit omega (11 kDa, Protein from Mycobacterium tuberculosis H37Rv)
Shi J, Feng Z, Song Q, Wen A, Liu T, Xu L, Ye Z, Xu S, Gao F, Xiao L, Zhu J, Das K, Zhao G, Li J, Feng Y, Lin W
Nat Commun (2025) 16 pp. 1573- [ DOI: doi:10.1038/s41467-025-56697-x ]
- Dna-directed rna polymerase subunit beta' (146 kDa, Protein from Mycobacterium tuberculosis H37Rv)
- Template strand dna of the promoter (33 kDa, DNA from Mycobacterium tuberculosis H37Rv)
- Magnesium ion (24 Da, Ligand)
- Rna polymerase sigma factor siga (57 kDa, Protein from Mycobacterium tuberculosis H37Rv)
- Mycobacterium tuberculosis transcription activation complex with six phop molecules (composite map) (Complex from Mycobacterium tuberculosis)
- Zinc ion (65 Da, Ligand)
- Dna-directed rna polymerase subunit beta (130 kDa, Protein from Mycobacterium tuberculosis H37Rv)
- Dna-directed rna polymerase subunit alpha (37 kDa, Protein from Mycobacterium tuberculosis H37Rv)
- Possible two component system response transcriptional positive regulator phop (27 kDa, Protein from Mycobacterium tuberculosis H37Rv)
- Non-template strand dna of the promoter (33 kDa, DNA from Mycobacterium tuberculosis H37Rv)
- Dna-directed rna polymerase subunit omega (11 kDa, Protein from Mycobacterium tuberculosis H37Rv)
Cryo-EM Structure of the 3HO-HCAR3-Gi complex
Resolution: 2.96 Å
EM Method: Single-particle
Fitted PDBs: 8jef
Q-score: 0.517
Ye F, Pan X, Zhang Z, Xiang X, Li X, Zhang B, Ning P, Liu A, Wang Q, Gong K, Li J, Zhu L, Qian C, Chen G, Du Y
Cell Rep (2024) 43 pp. 114895-114895 [ DOI: doi:10.1016/j.celrep.2024.114895 Pubmed: 39427321 ]
- Guanine nucleotide-binding protein g(i) subunit alpha-1 (40 kDa, Protein from Homo sapiens)
- Guanine nucleotide-binding protein g(i)/g(s)/g(t) subunit beta-1 (37 kDa, Protein from Homo sapiens)
- (3s)-3-hydroxyoctanoic acid (160 Da, Ligand)
- Cryo-em structure of the apo hcar3-gi complex (Complex from Homo sapiens)
- Hydroxycarboxylic acid receptor 3 (44 kDa, Protein from Homo sapiens)
- Guanine nucleotide-binding protein g(i)/g(s)/g(o) subunit gamma-2 (6 kDa, Protein from Homo sapiens)
- Scfv16 (26 kDa, Protein from Homo sapiens)
Cryo-EM Structure of the compuond 5c-HCAR3-Gi complex
Resolution: 2.73 Å
EM Method: Single-particle
Fitted PDBs: 8jei
Q-score: 0.535
Ye F, Pan X, Zhang Z, Xiang X, Li X, Zhang B, Ning P, Liu A, Wang Q, Gong K, Li J, Zhu L, Qian C, Chen G, Du Y
Cell Rep (2024) 43 pp. 114895-114895 [ DOI: doi:10.1016/j.celrep.2024.114895 Pubmed: 39427321 ]
- Scfv16 (26 kDa, Protein from Homo sapiens)
- Guanine nucleotide-binding protein g(i) subunit alpha-1 (40 kDa, Protein from Homo sapiens)
- Guanine nucleotide-binding protein g(i)/g(s)/g(t) subunit beta-1 (37 kDa, Protein from Homo sapiens)
- 3-nitro-4-(propylamino)benzoic acid (224 Da, Ligand)
- Hydroxycarboxylic acid receptor 3 (44 kDa, Protein from Homo sapiens)
- Guanine nucleotide-binding protein g(i)/g(s)/g(o) subunit gamma-2 (6 kDa, Protein from Homo sapiens)
- Cryo-em structure of the compound 5c-hcar3-gi complex (Complex from Homo sapiens)
DH270.6 Fab bound to the HIV-1 CH848 DE3 SOSIP
Resolution: 3.6 Å
EM Method: Single-particle
Fitted PDBs: 8vgv
Q-score: 0.453
Henderson R, Anasti K, Manne K, Stalls V, Saunders C, Bililign Y, Williams A, Bubphamala P, Montani M, Kachhap S, Li J, Jaing C, Newman A, Cain DW, Lu X, Venkatayogi S, Berry M, Wagh K, Korber B, Saunders KO, Tian M, Alt F, Wiehe K, Acharya P, Alam SM, Haynes BF
Nat Commun (2024) 15 pp. 9503-9503 [ Pubmed: 39489734 DOI: doi:10.1038/s41467-024-53120-9 ]
- Ch848 de3 sosip gp120 (51 kDa, Protein from Human immunodeficiency virus 1)
- Ch848 de3 sosip gp41 (17 kDa, Protein from Human immunodeficiency virus 1)
- Dh270.6 antibody fab light chain (11 kDa, Protein from Homo sapiens)
- Antibody fab bound hiv-1 ectodomain (Complex from Human immunodeficiency virus 1)
- Dh270.6 antibody fab heavy chain (14 kDa, Protein from Homo sapiens)
VRC01 Fab bound to the HIV-1 CH848 DE3 SOSIP
Resolution: 3.9 Å
EM Method: Single-particle
Fitted PDBs: 8vgw
Q-score: 0.426
Henderson R, Anasti K, Manne K, Stalls V, Saunders C, Bililign Y, Williams A, Bubphamala P, Montani M, Kachhap S, Li J, Jaing C, Newman A, Cain DW, Lu X, Venkatayogi S, Berry M, Wagh K, Korber B, Saunders KO, Tian M, Alt F, Wiehe K, Acharya P, Alam SM, Haynes BF
Nat Commun (2024) 15 pp. 9503-9503 [ Pubmed: 39489734 DOI: doi:10.1038/s41467-024-53120-9 ]
- Ch848 de3 sosip gp120 (52 kDa, Protein from Human immunodeficiency virus 1)
- Vrc01 fab heavy chain (13 kDa, Protein from Homo sapiens)
- Ch848 de3 sosip gp41 (17 kDa, Protein from Human immunodeficiency virus 1)
- Vrc01 fab light chain (11 kDa, Protein from Homo sapiens)
- Antibody fab bound hiv-1 ectodomain (Complex from Human immunodeficiency virus 1)
CH235.12 Fab bound to the HIV-1 CH505.M5 SOSIP
Resolution: 4.08 Å
EM Method: Single-particle
Fitted PDBs: 8vh1
Q-score: 0.404
Henderson R, Anasti K, Manne K, Stalls V, Saunders C, Bililign Y, Williams A, Bubphamala P, Montani M, Kachhap S, Li J, Jaing C, Newman A, Cain DW, Lu X, Venkatayogi S, Berry M, Wagh K, Korber B, Saunders KO, Tian M, Alt F, Wiehe K, Acharya P, Alam SM, Haynes BF
Nat Commun (2024) 15 pp. 9503-9503 [ Pubmed: 39489734 DOI: doi:10.1038/s41467-024-53120-9 ]
- Antibody fab bound hiv-1 ectodomain (Complex from Human immunodeficiency virus 1)
- Ch235.i60 fab light chain (23 kDa, Protein from Homo sapiens)
- Ch505.m5 sosip gp120 (52 kDa, Protein from Human immunodeficiency virus 1)
- Ch505.m5 sosip gp41 (17 kDa, Protein from Human immunodeficiency virus 1)
- Ch235.i60 fab heavy chain (23 kDa, Protein from Homo sapiens)
CH235.12 Fab bound to the HIV-1 CH505.M5 SOSIP
Resolution: 4.31 Å
EM Method: Single-particle
Fitted PDBs: 8vh2
Q-score: 0.32
Henderson R, Anasti K, Manne K, Stalls V, Saunders C, Bililign Y, Williams A, Bubphamala P, Montani M, Kachhap S, Li J, Jaing C, Newman A, Cain DW, Lu X, Venkatayogi S, Berry M, Wagh K, Korber B, Saunders KO, Tian M, Alt F, Wiehe K, Acharya P, Alam SM, Haynes BF
Nat Commun (2024) 15 pp. 9503-9503 [ Pubmed: 39489734 DOI: doi:10.1038/s41467-024-53120-9 ]
- Ch235.12 fab heavy chain (24 kDa, Protein from Homo sapiens)
- Ch235.12 fab light chain (23 kDa, Protein from Homo sapiens)
- Envelope glycoprotein gp160 (18 kDa, Protein from Human immunodeficiency virus 1)
- Antibody fab bound hiv-1 ectodomain (Complex from Human immunodeficiency virus 1)
- Ch505.m5.g458y sosip gp120 (52 kDa, Protein from Human immunodeficiency virus 1)