SFTSV Gn in complex with JK-8/12 Fab
Resolution: 2.37 Å
EM Method: Single-particle
Fitted PDBs: 8zhq
Q-score: 0.505
Zhang S, Shang H, Han S, Li J, Peng X, Wu Y, Yang X, Leng Y, Wang F, Cui N, Xu L, Zhang H, Guo Y, Xu X, Zhang N, Liu W, Li H
Ebiomedicine (2024) 111 pp. 105481-105481 [ Pubmed: 39644769 DOI: doi:10.1016/j.ebiom.2024.105481 ]
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Jk-8 fab light chain (23 kDa, Protein from Homo sapiens)
- Jk-8 fab heavy chain (23 kDa, Protein from Homo sapiens)
- Jk-12 fab heavy chain (22 kDa, Protein from Homo sapiens)
- Jk-12 fab light chain (22 kDa, Protein from Homo sapiens)
- Ternary complex of sftsv gn with neutralizing antibodies fab jk-8 and jk-12 (150 kDa, Complex from Homo sapiens)
- Envelopment polyprotein (38 kDa, Protein from Severe fever with thrombocytopenia syndrome virus)
Structure of the Argonaute protein from Kurthia massiliensis in complex with guide DNA
Resolution: 2.81 Å
EM Method: Single-particle
Fitted PDBs: 8xhv
Q-score: 0.515
Tao X, Ding H, Wu S, Wang F, Xu H, Li J, Zhai C, Li S, Chen K, Wu S, Liu Y, Ma L
Nucleic Acids Res (2024) 52 pp. 11895-11910 [ DOI: doi:10.1093/nar/gkae820 Pubmed: 39315697 ]
- Kmago (85 kDa, Protein from Kurthia massiliensis)
- Structure of the argonaute protein from kurthia massiliensis in complex with guide dna (Complex from Kurthia massiliensis)
- Manganese (ii) ion (54 Da, Ligand)
- Guide dna (5 kDa, DNA from Kurthia massiliensis)
- Water (18 Da, Ligand)
Resolution: 2.78 Å
EM Method: Single-particle
Fitted PDBs: 8xjx
Q-score: 0.529
Tao X, Ding H, Wu S, Wang F, Xu H, Li J, Zhai C, Li S, Chen K, Wu S, Liu Y, Ma L
Nucleic Acids Res (2024) 52 pp. 11895-11910 [ DOI: doi:10.1093/nar/gkae820 Pubmed: 39315697 ]
- Water (18 Da, Ligand)
- Kmago (85 kDa, Protein from Kurthia massiliensis)
- Manganese (ii) ion (54 Da, Ligand)
- Kmago (Complex from Kurthia massiliensis)
- Target dna (5 kDa, DNA from Kurthia massiliensis)
- Guide dna (5 kDa, DNA from Kurthia massiliensis)
Resolution: 2.76 Å
EM Method: Single-particle
Fitted PDBs: 8xk3
Q-score: 0.567
Tao X, Ding H, Wu S, Wang F, Xu H, Li J, Zhai C, Li S, Chen K, Wu S, Liu Y, Ma L
Nucleic Acids Res (2024) 52 pp. 11895-11910 [ DOI: doi:10.1093/nar/gkae820 Pubmed: 39315697 ]
- Water (18 Da, Ligand)
- Kmago (85 kDa, Protein from Kurthia massiliensis)
- Target dna-1 (2 kDa, DNA from Kurthia massiliensis)
- Manganese (ii) ion (54 Da, Ligand)
- Kmago (Complex from Kurthia massiliensis)
- Guide dna (5 kDa, DNA from Kurthia massiliensis)
- Target dna-2 (2 kDa, DNA from Kurthia massiliensis)
Resolution: 2.94 Å
EM Method: Single-particle
Fitted PDBs: 8xk4
Q-score: 0.513
Tao X, Ding H, Wu S, Wang F, Xu H, Li J, Zhai C, Li S, Chen K, Wu S, Liu Y, Ma L
Nucleic Acids Res (2024) 52 pp. 11895-11910 [ DOI: doi:10.1093/nar/gkae820 Pubmed: 39315697 ]
- Water (18 Da, Ligand)
- Kmago (85 kDa, Protein from Kurthia massiliensis)
- Target dna (2 kDa, DNA from Kurthia massiliensis)
- 2'-deoxycytidine-5'-monophosphate (307 Da, Ligand)
- Manganese (ii) ion (54 Da, Ligand)
- Kmago (Complex from Kurthia massiliensis)
- Guide dna (5 kDa, DNA from Kurthia massiliensis)
Resolution: 2.84 Å
EM Method: Single-particle
Fitted PDBs: 8xjw
Q-score: 0.503
Tao X, Ding H, Wu S, Wang F, Xu H, Li J, Zhai C, Li S, Chen K, Wu S, Liu Y, Ma L
Nucleic Acids Res (2024) 52 pp. 11895-11910 [ DOI: doi:10.1093/nar/gkae820 Pubmed: 39315697 ]
- Water (18 Da, Ligand)
- Target rna (5 kDa, RNA from Kurthia massiliensis)
- Kmago (85 kDa, Protein from Kurthia massiliensis)
- Manganese (ii) ion (54 Da, Ligand)
- Kmago (Complex from Kurthia massiliensis)
- Guide dna (5 kDa, DNA from Kurthia massiliensis)
Resolution: 2.96 Å
EM Method: Single-particle
Fitted PDBs: 8xk0
Q-score: 0.55
Tao X, Ding H, Wu S, Wang F, Xu H, Li J, Zhai C, Li S, Chen K, Wu S, Liu Y, Ma L
Nucleic Acids Res (2024) 52 pp. 11895-11910 [ DOI: doi:10.1093/nar/gkae820 Pubmed: 39315697 ]
- Water (18 Da, Ligand)
- Kmago (85 kDa, Protein from Kurthia massiliensis)
- Manganese (ii) ion (54 Da, Ligand)
- Kmago (Complex from Kurthia massiliensis)
- Target dna (5 kDa, DNA from Kurthia massiliensis)
- Guide dna (5 kDa, DNA from Kurthia massiliensis)
Cryo-EM structure of SoxS-dependent transcription activation complex with micF promoter DNA
Resolution: 4.55 Å
EM Method: Single-particle
Fitted PDBs: 7w5w
Q-score: 0.332
Shi J, Wang L, Wen A, Wang F, Zhang Y, Yu L, Li F, Jin Y, Feng Z, Li J, Yang Y, Gao F, Zhang Y, Feng Y, Wang S, Zhao W, Lin W
Nucleic Acids Res (2022) 50 pp. 11359-11373 [ Pubmed: 36243985 DOI: doi:10.1093/nar/gkac898 ]
- Dna-directed rna polymerase subunit omega (10 kDa, Protein from Escherichia coli K-12)
- Dna-directed rna polymerase subunit alpha (36 kDa, Protein from Escherichia coli K-12)
- Dna (Complex)
- Rna polymerase sigma factor rpod (70 kDa, Protein from Escherichia coli K-12)
- Micf promoter dna reverse strand (21 kDa, DNA from Escherichia coli)
- Zinc ion (65 Da, Ligand)
- Soxs-dependent transcription activation complex with micf promoter dna (Complex from Escherichia coli K-12)
- Dna-directed rna polymerase subunit beta' (155 kDa, Protein from Escherichia coli K-12)
- Dna-directed rna polymerase subunits (Complex from Escherichia coli)
- Magnesium ion (24 Da, Ligand)
- Dna-directed rna polymerase subunit beta (150 kDa, Protein from Escherichia coli K-12)
- Regulatory protein soxs (12 kDa, Protein from Escherichia coli K-12)
- Micf promoter dna forward strand (21 kDa, DNA from Escherichia coli)
Cryo-EM structure of SoxS-dependent transcription activation complex with zwf promoter DNA
Resolution: 3.4 Å
EM Method: Single-particle
Fitted PDBs: 7w5x
Q-score: 0.47
Shi J, Wang L, Wen A, Wang F, Zhang Y, Yu L, Li F, Jin Y, Feng Z, Li J, Yang Y, Gao F, Zhang Y, Feng Y, Wang S, Zhao W, Lin W
Nucleic Acids Res (2022) 50 pp. 11359-11373 [ Pubmed: 36243985 DOI: doi:10.1093/nar/gkac898 ]
- Dna-directed rna polymerase subunit omega (10 kDa, Protein from Escherichia coli K-12)
- Dna (Complex)
- Rna polymerase sigma factor rpod (70 kDa, Protein from Escherichia coli K-12)
- Dna-directed rna polymerase subunit alpha (36 kDa, Protein from Escherichia coli K-12)
- Regulatory protein soxs (12 kDa, Protein from Escherichia coli K-12)
- Dna-directed rna polymerase subunit beta' (155 kDa, Protein from Escherichia coli K-12)
- Zwf promoter dna reverse strand (23 kDa, DNA from Escherichia coli)
- Soxs-dependent transcription activation complex with zwf promoter dna (Complex from Escherichia coli K-12)
- Dna-directed rna polymerase subunits (Complex from Escherichia coli)
- Dna-directed rna polymerase subunit beta (150 kDa, Protein from Escherichia coli K-12)
- Zwf promoter dna forward strand (23 kDa, DNA from Escherichia coli)