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Structural basis of translation inhibition by a valine tRNA-derived fragment
Resolution: 4.62 Å
EM Method: Single-particle
Fitted PDBs: 8wkp
Q-score: 0.242
Wu Y, Ni MT, Wang YH, Wang C, Hou H, Zhang X, Zhou J
Life Sci Alliance (2024) 7 [ Pubmed: 38599770 DOI: doi:10.26508/lsa.202302488 ]
- 30s ribosomal protein s17 (12 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 50s ribosomal protein l7ae (13 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s4e (27 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- Unknown (103 Da, Ligand)
- 30s ribosomal protein s27e (6 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s5 (22 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s10 (11 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s7 (21 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s28e (7 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s3 (22 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s13 (17 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s4 (19 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- Rna (25-mer) (8 kDa, RNA from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s14 type z (6 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s19e (17 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- Rna (1328-mer) (486 kDa, RNA from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s9 (15 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s12 (15 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s24e (10 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s6e (11 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s8e (14 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s17e (7 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s27ae (6 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s19 (13 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s15 (17 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s2 (22 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- Small ribosomal subunit protein us8 (14 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s11 (13 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s3ae (21 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- Sulfolobus acidocaldarius ribosome (Complex from Sulfolobus acidocaldarius DSM 639)
Structural basis of translation inhibition by a valine tRNA-derived fragment
Resolution: 4.1 Å
EM Method: Single-particle
Fitted PDBs: 8wq2
Q-score: 0.219
Wu Y, Ni MT, Wang YH, Wang C, Hou H, Zhang X, Zhou J
Life Sci Alliance (2024) 7 [ Pubmed: 38599770 DOI: doi:10.26508/lsa.202302488 ]
- 30s ribosomal protein s17 (12 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 50s ribosomal protein l7ae (13 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s4e (27 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- Unknown (103 Da, Ligand)
- 30s ribosomal protein s27e (6 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s5 (22 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s10 (11 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- Rna (26-mer) (8 kDa, RNA from Haloferax volcanii)
- 30s ribosomal protein s7 (21 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s28e (7 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s3 (22 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s13 (17 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s4 (19 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s14 type z (6 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s19e (17 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- Rna (1328-mer) (486 kDa, RNA from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s9 (15 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s12 (15 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s24e (10 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s6e (11 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s8e (14 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s17e (7 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s27ae (6 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s19 (13 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s15 (17 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s2 (22 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- Small ribosomal subunit protein us8 (14 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s11 (13 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s3ae (21 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- Sulfolobus acidocaldarius ribosome (Complex from Sulfolobus acidocaldarius DSM 639)
Structural basis of translation inhibition by a valine tRNA-derived fragment
Resolution: 4.53 Å
EM Method: Single-particle
Fitted PDBs: 8wq4
Q-score: 0.189
Wu Y, Ni MT, Wang YH, Wang C, Hou H, Zhang X, Zhou J
Life Sci Alliance (2024) 7 [ Pubmed: 38599770 DOI: doi:10.26508/lsa.202302488 ]
- 30s ribosomal protein s17 (12 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 50s ribosomal protein l7ae (13 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s4e (27 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- Unknown (103 Da, Ligand)
- 30s ribosomal protein s27e (6 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s5 (22 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s10 (11 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- Rna (26-mer) (8 kDa, RNA from Haloferax volcanii)
- 30s ribosomal protein s7 (21 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s28e (7 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s3 (22 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s13 (17 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s4 (19 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s14 type z (6 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s19e (17 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- Rna (1328-mer) (486 kDa, RNA from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s9 (15 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s12 (15 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s24e (10 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s6e (11 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s8e (14 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s17e (7 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s27ae (6 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s19 (13 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s15 (17 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s2 (22 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- Small ribosomal subunit protein us8 (14 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s11 (13 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- 30s ribosomal protein s3ae (21 kDa, Protein from Sulfolobus acidocaldarius DSM 639)
- Sulfolobus acidocaldarius ribosome (Complex from Sulfolobus acidocaldarius DSM 639)
Type IV pilus from Pseudomonas PAO1 strain
Resolution: 3.6 Å
EM Method: Single-particle
Fitted PDBs: 8tum
Q-score: 0.448
Thongchol J, Yu Z, Harb L, Lin Y, Koch M, Theodore M, Narsaria U, Shaevitz J, Gitai Z, Wu Y, Zhang J, Zeng L
Science (2024) 384 pp. eadl0635-eadl0635 [ DOI: doi:10.1126/science.adl0635 Pubmed: 38574145 ]
- Type iv twitching pilus (240 kDa, Cellular component from Pseudomonas aeruginosa)
- Type iv major pilin protein pila (14 kDa, Protein from Pseudomonas aeruginosa PAO1)
Asymmetric reconstruction of mature PP7 virions
Thongchol J, Yu Z, Harb L, Lin Y, Koch M, Theodore M, Narsaria U, Shaevitz J, Gitai Z, Wu Y, Zhang J, Zeng L
Science (2024) 384 pp. eadl0635-eadl0635 [ DOI: doi:10.1126/science.adl0635 Pubmed: 38574145 ]
- Type iv twitching pilus (240 kDa, Cellular component from Pseudomonas aeruginosa)
Type IV pilus from Pseudomonas PAO1 strain with PP7 Maturation protein
Resolution: 7.9 Å
EM Method: Single-particle
Fitted PDBs: 8tuw
Q-score: 0.087
Thongchol J, Yu Z, Harb L, Lin Y, Koch M, Theodore M, Narsaria U, Shaevitz J, Gitai Z, Wu Y, Zhang J, Zeng L
Science (2024) 384 pp. eadl0635-eadl0635 [ DOI: doi:10.1126/science.adl0635 Pubmed: 38574145 ]
- Type iv twitching pilus (240 kDa, Cellular component from Pseudomonas aeruginosa)
- Type iv major pilin protein pila (14 kDa, Protein from Pseudomonas aeruginosa PAO1)
- Maturation protein a (50 kDa, Protein from Pseudomonas phage PP7)
The original consensus map of PP7 binding to T4P from PAO1
Thongchol J, Yu Z, Harb L, Lin Y, Koch M, Theodore M, Narsaria U, Shaevitz J, Gitai Z, Wu Y, Zhang J, Zeng L
Science (2024) 384 pp. eadl0635-eadl0635 [ DOI: doi:10.1126/science.adl0635 Pubmed: 38574145 ]
- Type iv twitching pilus (240 kDa, Cellular component from Pseudomonas aeruginosa)
Composite map of PP7 binding to type IV pilus from PAO1
Thongchol J, Yu Z, Harb L, Lin Y, Koch M, Theodore M, Narsaria U, Shaevitz J, Gitai Z, Wu Y, Zhang J, Zeng L
Science (2024) 384 pp. eadl0635-eadl0635 [ DOI: doi:10.1126/science.adl0635 Pubmed: 38574145 ]
- Type iv twitching pilus (240 kDa, Cellular component from Pseudomonas aeruginosa)
Gi bound CCR8 complex with nonpeptide agonist LMD-009
Resolution: 2.96 Å
EM Method: Single-particle
Fitted PDBs: 8kfx
Q-score: 0.496
Jiang S, Lin X, Wu L, Wang L, Wu Y, Xu Z, Xu F
Sci Adv (2024) 10 pp. eadj7500-eadj7500 [ Pubmed: 38306437 DOI: doi:10.1126/sciadv.adj7500 ]
- 8-[[3-(2-methoxyphenoxy)phenyl]methyl]-1-(2-phenylethyl)-1,3,8-triazaspiro[4.5]decan-4-one (471 Da, Ligand)
- Scfv16 (31 kDa, Protein from Homo sapiens)
- Gpcr gi complex with agonist (Complex from Homo sapiens)
- Guanine nucleotide-binding protein g(i) subunit alpha-1 (40 kDa, Protein from Homo sapiens)
- C-c chemokine receptor type 8,fusion protein (65 kDa, Protein from synthetic construct)
- Guanine nucleotide-binding protein g(i)/g(s)/g(t) subunit beta-1 (39 kDa, Protein from Homo sapiens)
- Guanine nucleotide-binding protein g(i)/g(s)/g(o) subunit gamma-2 (7 kDa, Protein from Homo sapiens)
Gi bound CCR8 complex with nonpeptide agonist ZK 756326
Resolution: 3.06 Å
EM Method: Single-particle
Fitted PDBs: 8kfy
Q-score: 0.466
Jiang S, Lin X, Wu L, Wang L, Wu Y, Xu Z, Xu F
Sci Adv (2024) 10 pp. eadj7500-eadj7500 [ Pubmed: 38306437 DOI: doi:10.1126/sciadv.adj7500 ]
- Hetero complex (Complex from Homo sapiens)
- 2-[2-[4-[(3-phenoxyphenyl)methyl]piperazin-1-yl]ethoxy]ethanol (356 Da, Ligand)
- Scfv16 (31 kDa, Protein from Homo sapiens)
- Guanine nucleotide-binding protein g(i) subunit alpha-1 (40 kDa, Protein from Homo sapiens)
- C-c chemokine receptor type 8,fusion protein (65 kDa, Protein from synthetic construct)
- Guanine nucleotide-binding protein g(i)/g(s)/g(t) subunit beta-1 (39 kDa, Protein from Homo sapiens)
- Guanine nucleotide-binding protein g(i)/g(s)/g(o) subunit gamma-2 (7 kDa, Protein from Homo sapiens)